Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold1188
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 1075576
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.29
Warning! 121203 characters in sequence are not A, C, G, or T
File 4 of 3
Found at i:737485 original size:62 final size:62
Alignment explanation
Indices: 737388--737695 Score: 351
Period size: 54 Copynumber: 5.4 Consensus size: 62
737378 CGTGTTGTGT
* *
737388 GTTAGCGCGGA-GGCGTGTTGTGCAAAGTTGCGTTAGCGCGACGGCGTGTTGTGCAAAATTGC
1 GTTAGCGC-GACGGCGTGTTGTGCAAAGTTGTGTTAGCGCGACGGCGTGTTGTGCAAAGTTGC
*
737450 GTTAGCGCGACGGCGTGTTGTGCAAAGTTGTGTTAGCGCGACGGCGTGTTATGCAAAGTTGC
1 GTTAGCGCGACGGCGTGTTGTGCAAAGTTGTGTTAGCGCGACGGCGTGTTGTGCAAAGTTGC
*
737512 GTTAGTGCGACGGCGTG-T-T-----G-TGTGTTAGCGCGACGGCGTGTTGT-----G-T--
1 GTTAGCGCGACGGCGTGTTGTGCAAAGTTGTGTTAGCGCGACGGCGTGTTGTGCAAAGTTGC
* *
737558 GTTAGCGCGACGGCGTGTTGTGCAAAGTTGCGTTAGCGCGACGGCGTATTGTGCAAAGTTGC
1 GTTAGCGCGACGGCGTGTTGTGCAAAGTTGTGTTAGCGCGACGGCGTGTTGTGCAAAGTTGC
* *
737620 GTTAGCGCGACGGCGTG-T-T-----G-TGTGTTAGCACGACGGCGTGTTATGCAAAGTTGC
1 GTTAGCGCGACGGCGTGTTGTGCAAAGTTGTGTTAGCGCGACGGCGTGTTGTGCAAAGTTGC
*
737674 GTTAGAGCGACGGCGTGTTGTG
1 GTTAGCGCGACGGCGTGTTGTG
737696 TGTTAGCGCG
Statistics
Matches: 213, Mismatches: 13, Indels: 45
0.79 0.05 0.17
Matches are distributed among these distances:
46 16 0.08
47 1 0.00
48 2 0.01
49 1 0.00
53 1 0.00
54 91 0.43
55 3 0.01
56 1 0.00
59 1 0.00
60 3 0.01
61 4 0.02
62 89 0.42
ACGTcount: A:0.16, C:0.18, G:0.39, T:0.28
Consensus pattern (62 bp):
GTTAGCGCGACGGCGTGTTGTGCAAAGTTGTGTTAGCGCGACGGCGTGTTGTGCAAAGTTGC
Found at i:737500 original size:16 final size:16
Alignment explanation
Indices: 737450--737500 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
737440 GCAAAATTGC
737450 GTTAGCGCGACGGCGT
1 GTTAGCGCGACGGCGT
* * * **
737466 GTT-GTGCAAAGTTGT
1 GTTAGCGCGACGGCGT
737481 GTTAGCGCGACGGCGT
1 GTTAGCGCGACGGCGT
737497 GTTA
1 GTTA
737501 TGCAAAGTTG
Statistics
Matches: 24, Mismatches: 10, Indels: 2
0.67 0.28 0.06
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.16, C:0.18, G:0.39, T:0.27
Consensus pattern (16 bp):
GTTAGCGCGACGGCGT
Found at i:737538 original size:23 final size:23
Alignment explanation
Indices: 737512--737579 Score: 127
Period size: 23 Copynumber: 3.0 Consensus size: 23
737502 GCAAAGTTGC
*
737512 GTTAGTGCGACGGCGTGTTGTGT
1 GTTAGCGCGACGGCGTGTTGTGT
737535 GTTAGCGCGACGGCGTGTTGTGT
1 GTTAGCGCGACGGCGTGTTGTGT
737558 GTTAGCGCGACGGCGTGTTGTG
1 GTTAGCGCGACGGCGTGTTGTG
737580 CAAAGTTGCG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.09, C:0.16, G:0.44, T:0.31
Consensus pattern (23 bp):
GTTAGCGCGACGGCGTGTTGTGT
Found at i:737646 original size:255 final size:255
Alignment explanation
Indices: 737195--737695 Score: 905
Period size: 255 Copynumber: 2.0 Consensus size: 255
737185 NNNNNNNTGT
* **
737195 GTTAGCGCGACGGCGTGTTGTGCAAAGTTGCGTTAGCGCGACGGCGTGTTGTGCAAAGTTTTGTT
1 GTTAGCGCGACGGCGTGTTGTGCAAAGTTGCGTTAGCGCGACGGCGTGTTATGCAAAGTTGCGTT
737260 AGCGCGACGGCGTGTTGTGTGTTAGCGCGACGGCGTGTTGTGTGTTAGCGCGACGGCGTGTTGTG
66 AGCGCGACGGCGTGTTGTGTGTTAGCGCGACGGCGTGTTGTGTGTTAGCGCGACGGCGTGTTGTG
*
737325 CAAAGTTGCGTTAGCGCGACGGCGTGTTGTGCAAAGTTGCGTTAGCGCGACGGCGTGTTGTGTGT
131 CAAAGTTGCGTTAGCGCGACGGCGTATTGTGCAAAGTTGCGTTAGCGCGACGGCGTGTTGTGTGT
* * *
737390 TAGCGCGGA-GGCGTGTTGTGCAAAGTTGCGTTAGCGCGACGGCGTGTTGTGCAAAATTGC
196 TAGCAC-GACGGCGTGTTATGCAAAGTTGCGTTAGAGCGACGGCGTGTTGTGCAAAATTGC
*
737450 GTTAGCGCGACGGCGTGTTGTGCAAAGTTGTGTTAGCGCGACGGCGTGTTATGCAAAGTTGCGTT
1 GTTAGCGCGACGGCGTGTTGTGCAAAGTTGCGTTAGCGCGACGGCGTGTTATGCAAAGTTGCGTT
*
737515 AGTGCGACGGCGTGTTGTGTGTTAGCGCGACGGCGTGTTGTGTGTTAGCGCGACGGCGTGTTGTG
66 AGCGCGACGGCGTGTTGTGTGTTAGCGCGACGGCGTGTTGTGTGTTAGCGCGACGGCGTGTTGTG
737580 CAAAGTTGCGTTAGCGCGACGGCGTATTGTGCAAAGTTGCGTTAGCGCGACGGCGTGTTGTGTGT
131 CAAAGTTGCGTTAGCGCGACGGCGTATTGTGCAAAGTTGCGTTAGCGCGACGGCGTGTTGTGTGT
737645 TAGCACGACGGCGTGTTATGCAAAGTTGCGTTAGAGCGACGGCGTGTTGTG
196 TAGCACGACGGCGTGTTATGCAAAGTTGCGTTAGAGCGACGGCGTGTTGTG
737696 TGTTAGCGCG
Statistics
Matches: 236, Mismatches: 9, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
254 2 0.01
255 234 0.99
ACGTcount: A:0.15, C:0.18, G:0.39, T:0.28
Consensus pattern (255 bp):
GTTAGCGCGACGGCGTGTTGTGCAAAGTTGCGTTAGCGCGACGGCGTGTTATGCAAAGTTGCGTT
AGCGCGACGGCGTGTTGTGTGTTAGCGCGACGGCGTGTTGTGTGTTAGCGCGACGGCGTGTTGTG
CAAAGTTGCGTTAGCGCGACGGCGTATTGTGCAAAGTTGCGTTAGCGCGACGGCGTGTTGTGTGT
TAGCACGACGGCGTGTTATGCAAAGTTGCGTTAGAGCGACGGCGTGTTGTGCAAAATTGC
Found at i:740538 original size:434 final size:434
Alignment explanation
Indices: 739662--740658 Score: 1357
Period size: 434 Copynumber: 2.3 Consensus size: 434
739652 TCCAACTAAT
* * * * * * *
739662 TCAAGAAAAAGGGGCTGGGCCGTTTATTTAGGGGCCAAGAGAGTCTTAAACTCTATTACGAATAA
1 TCAAGAAAAAGGGGCTGGCCCCTTTAATTAGGGGCCAAGACACTCGTAAACTCTATTACAAATAA
* * *
739727 CTTAAAAACGATAAAGATATTGTAAT-CTATTATAGAAGCAAAGTTGTTGATAATACCAATATCT
66 CTTAAAAACGATAAAGATTTTGTAATGC-ATTATAGAAGCAAAGTTGTTGATCATAACAATATCT
** * * *
739791 ATTTTAAAAAATCATTGCCACGCCCCTTTATTACGTAATAGGGATTTTTAGGGGCCAAAGTACTT
130 ATTCAAAAAAATCAATGCCACGCCCATTTATTACGTAATAGGGATTTATAGGGGCCAAAGTACTT
* *
739856 AAACTTTGACGCAATATATCTAAAGAAGTAGACATATTTTGTTAGACATCACAGAAGAGAAAATG
195 AAACTTTGACGCAATATATCTAAAGAAGGAGACATATTTCGTTAGACAT--CAGAAGAGAAAATG
739921 ATTGCAGTAATGATTTAAATCGATTCAACTTATCAAAACACCAATATATGTCCCCATAAGGGATC
258 ATTGCAGTAATGATTTAAATCGATTCAACTTATCAAAACACCAATATATGTCCCCATAAGGGATC
739986 TACAGGGCTGGCCCCTAAAATATTCAAACATTTGTATCTCAAAAATGAACAACAATTTTAGATGG
323 TACAGGGCTGGCCCCTAAAATATTCAAACATTTGTATCTCAAAAATGAACAACAATTTTAGATGG
* * * *
740051 GTTTAAGAACAAAAAATATTTGTATTCTTAAGACCTTTTCAAAGAAA
388 CTGTAAGAACAAAAAATATTAGTATTCGTAAGACCTTTTCAAAGAAA
*
740098 TCAAGAAAAAGGGGCTGGCCCTTTTAATTAGGGGCCAAGACACTCGTAAACTCTATTACAAATAA
1 TCAAGAAAAAGGGGCTGGCCCCTTTAATTAGGGGCCAAGACACTCGTAAACTCTATTACAAATAA
* *
740163 CTTAAAAATGATAAAGATTTTGTAATGCATTATAGAAGAAAAGTTGTTGATCATAACAATATCTA
66 CTTAAAAACGATAAAGATTTTGTAATGCATTATAGAAGCAAAGTTGTTGATCATAACAATATCTA
* *
740228 -TCAAAGAAAATCAATGCCACGCCCATTTATTGCGTAATTAGGGATTTATAGGGGCTAAAGTACT
131 TTCAAA-AAAATCAATGCCACGCCCATTTATTACGTAA-TAGGGATTTATAGGGGCCAAAGTACT
* * *
740292 TAAACTTTGGCGCAATATATCTAGAA-AAGGAGACATATTTCGTTA-AGCAT-TGTAGAGAAAAT
194 TAAACTTTGACGCAATATATCTA-AAGAAGGAGACATATTTCGTTAGA-CATCAGAAGAGAAAAT
* * * * * *
740354 GTTTGCATTGATGATTTTAATCGATTCCA-TTAAT-AAAAGCACC-ATAGTCTGTCCCCATTAA-
257 GATTGCAGTAATGATTTAAATCGATTCAACTT-ATCAAAA-CACCAATA-TATGTCCCCA-TAAG
* *
740415 GGATCTAGAGGGCTGGCCCCTAAAATATTCAATCATTTGTATCTCAAAAATGAACAACAATTTTA
318 GGATCTACAGGGCTGGCCCCTAAAATATTCAAACATTTGTATCTCAAAAATGAACAACAATTTTA
** * * * *
740480 GATGGCTGTAAGAACAAAAAA-AGTTAGTATTCGTGGGATCTTTTGAATGAAC
383 GATGGCTGTAAGAACAAAAAATA-TTAGTATTCGTAAGACCTTTTCAAAGAAA
* * * * *
740532 TCAAGAAAAAGGGGCAGGCCCCTTTAATTAGGGGCCAAGACACTCGTAAAGTCTCTTACACATAC
1 TCAAGAAAAAGGGGCTGGCCCCTTTAATTAGGGGCCAAGACACTCGTAAACTCTATTACAAATAA
* * *
740597 CTTAAAAACGATGAAGATTTTGTAATGCATTATAGAAGCAAATTTGTTGATCGTAACAATAT
66 CTTAAAAACGATAAAGATTTTGTAATGCATTATAGAAGCAAAGTTGTTGATCATAACAATAT
740659 TAGTTTGTAA
Statistics
Matches: 498, Mismatches: 53, Indels: 22
0.87 0.09 0.04
Matches are distributed among these distances:
433 10 0.02
434 268 0.54
435 6 0.01
436 145 0.29
437 67 0.13
438 2 0.00
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.29
Consensus pattern (434 bp):
TCAAGAAAAAGGGGCTGGCCCCTTTAATTAGGGGCCAAGACACTCGTAAACTCTATTACAAATAA
CTTAAAAACGATAAAGATTTTGTAATGCATTATAGAAGCAAAGTTGTTGATCATAACAATATCTA
TTCAAAAAAATCAATGCCACGCCCATTTATTACGTAATAGGGATTTATAGGGGCCAAAGTACTTA
AACTTTGACGCAATATATCTAAAGAAGGAGACATATTTCGTTAGACATCAGAAGAGAAAATGATT
GCAGTAATGATTTAAATCGATTCAACTTATCAAAACACCAATATATGTCCCCATAAGGGATCTAC
AGGGCTGGCCCCTAAAATATTCAAACATTTGTATCTCAAAAATGAACAACAATTTTAGATGGCTG
TAAGAACAAAAAATATTAGTATTCGTAAGACCTTTTCAAAGAAA
Found at i:746912 original size:12 final size:12
Alignment explanation
Indices: 746882--746915 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
746872 GTTGCCCTGT
* *
746882 TCCGTCCGTTCG
1 TCCGTCTGTCCG
746894 TCCGTCTGTCCG
1 TCCGTCTGTCCG
746906 TCCGTCTGTC
1 TCCGTCTGTC
746916 ACGTTTCACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.00, C:0.41, G:0.24, T:0.35
Consensus pattern (12 bp):
TCCGTCTGTCCG
Found at i:747698 original size:169 final size:164
Alignment explanation
Indices: 747451--747849 Score: 518
Period size: 169 Copynumber: 2.4 Consensus size: 164
747441 AGTAGCTATG
* * * * *
747451 TCATCTCTTGGGATATAATTAGGG-CTGTCCTATAGATGTGCAATAAGGTTTTAAAAATTAAAAT
1 TCATATCTTGGGATATGA-TAGGGACTGTTCTATAGATGTGCATTAAGGTTTTAAAAATTTAAAT
* ******* *
747515 TTCATCCAGGGAGTCAAATAGTGGCAGAAAATTGACGTTTATCACTCAAACACCCCCCCCCCCCC
65 TTCATCCAGGGAGTCAAATAGTAGCAGAAAATTGACGTTTATCACT-AAA-A----AAAAAAACA
747580 GAGA-CCCAGAACTCCTCTTATGATTTAAT-GGATAGACACA
124 GAGATCCCAGAACTCCTCTTATGATTTAATAGG-TAGACACA
*
747620 TCATATCTTGGGATATGATAGGGACTGTTCTATAGATGTGCATTAAGGATTTAAAAATTTAAATT
1 TCATATCTTGGGATATGATAGGGACTGTTCTATAGATGTGCATTAAGGTTTTAAAAATTTAAATT
747685 TCATCCAGGGAGTCAAATAGTAGCAGAAAATTGACGTTTATCACTAAAAAAAAAAACAGAGATCC
66 TCATCCAGGGAGTCAAATAGTAGCAGAAAATTGACGTTTATCACTAAAAAAAAAAACAGAGATCC
*
747750 CAGAACTCCTCTTCTGATTTAATAGGTAGACACA
131 CAGAACTCCTCTTATGATTTAATAGGTAGACACA
* * *
747784 TCATATCCTGGGTTATGATAGGGACTGTTCTATAGATGTGCATTACGGTTTTGAAAAA-TTAAAT
1 TCATATCTTGGGATATGATAGGGACTGTTCTATAGATGTGCATTAAGGTTTT-AAAAATTTAAAT
747848 TT
65 TT
747850 AACCCTGGGG
Statistics
Matches: 206, Mismatches: 20, Indels: 13
0.86 0.08 0.05
Matches are distributed among these distances:
163 5 0.02
164 88 0.43
165 7 0.03
167 1 0.00
168 8 0.04
169 97 0.47
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (164 bp):
TCATATCTTGGGATATGATAGGGACTGTTCTATAGATGTGCATTAAGGTTTTAAAAATTTAAATT
TCATCCAGGGAGTCAAATAGTAGCAGAAAATTGACGTTTATCACTAAAAAAAAAAACAGAGATCC
CAGAACTCCTCTTATGATTTAATAGGTAGACACA
Found at i:747848 original size:164 final size:165
Alignment explanation
Indices: 747459--747849 Score: 513
Period size: 164 Copynumber: 2.3 Consensus size: 165
747449 TGTCATCTCT
* * *
747459 TGGGATATAATTAGGG-CTGTCCTATAGATGTGCAATAAGGTTTTAAAAATTAAAATTTCATCCA
1 TGGGATATGA-TAGGGACTGTTCTATAGATGTGCATTAAGGTTTTAAAAATT-AAATTTCATCCA
* ******* *
747523 GGGAGTCAAATAGTGGCAGAAAATTGACGTTTATCACTCAAACACCCCCCCCCCCCCGAGACCCA
64 GGGAGTCAAATAGTAGCAGAAAATTGACGTTTATCACTCAAACA---CAAAAAAACAGAGACCCA
*
747588 GAACTCCTCTTATGATTTAATGGATAGACACATCATATCT
126 GAACTCCTCTTATGATTTAATGGATAGACACATCATATCC
*
747628 TGGGATATGATAGGGACTGTTCTATAGATGTGCATTAAGGATTTAAAAATTTAAATTTCATCCAG
1 TGGGATATGATAGGGACTGTTCTATAGATGTGCATTAAGGTTTTAAAAA-TTAAATTTCATCCAG
747693 GGAGTCAAATAGTAGCAGAAAATTGACGTTTATCACT-AAA-A-AAAAAAACAGAGATCCCAGAA
65 GGAGTCAAATAGTAGCAGAAAATTGACGTTTATCACTCAAACACAAAAAAACAGAGA-CCCAGAA
*
747755 CTCCTCTTCTGATTTAATAGG-TAGACACATCATATCC
129 CTCCTCTTATGATTTAAT-GGATAGACACATCATATCC
* *
747792 TGGGTTATGATAGGGACTGTTCTATAGATGTGCATTACGGTTTTGAAAAATTAAATTT
1 TGGGATATGATAGGGACTGTTCTATAGATGTGCATTAAGGTTTT-AAAAATTAAATTT
747850 AACCCTGGGG
Statistics
Matches: 199, Mismatches: 18, Indels: 15
0.86 0.08 0.06
Matches are distributed among these distances:
163 5 0.03
164 88 0.44
165 7 0.04
167 1 0.01
168 8 0.04
169 88 0.44
170 2 0.01
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (165 bp):
TGGGATATGATAGGGACTGTTCTATAGATGTGCATTAAGGTTTTAAAAATTAAATTTCATCCAGG
GAGTCAAATAGTAGCAGAAAATTGACGTTTATCACTCAAACACAAAAAAACAGAGACCCAGAACT
CCTCTTATGATTTAATGGATAGACACATCATATCC
Found at i:754071 original size:161 final size:161
Alignment explanation
Indices: 753797--754124 Score: 426
Period size: 161 Copynumber: 2.0 Consensus size: 161
753787 GGTCCACCAA
* * * * *
753797 CAGTTTCCGTTCATTTTCTTCATATAGGATAAACATATTGAAATGAAATTTGGTATACAGGTTCA
1 CAGTTTCCGCTCATTTTCTTCACAGAGGATAAACATATTGAAATGAAATTTAGCATACAGGTTCA
* *
753862 TCCGGATAATATCTAGGTCAAATTCGATACTGGGTACGATCGAGCAATTTTCGACACAGTT-TTG
66 TCAGGATAATATCTAGGTCAAATTCGATACTGGGTACGATCAAGCAATTTTCGACACAGTTATT-
* **
753926 GCCCTTGGACGTAGAAAAATTCCAGTTATTTG
130 GCCCTTGGACGTAGAAAAAATCCAAATATTTG
** * *
753958 CAGTTTCCGCTCATTTTCTTTGCAGAGGATGAACATATTGAAATGAAATTTAGCATACAGGTTTA
1 CAGTTTCCGCTCATTTTCTTCACAGAGGATAAACATATTGAAATGAAATTTAGCATACAGGTTCA
* * * * *
754023 TCAGGATAATATTTAGGTCAAGTTCGATATTGGGTAC-AGTCAAGCAATTTTTGACAGAGTTATT
66 TCAGGATAATATCTAGGTCAAATTCGATACTGGGTACGA-TCAAGCAATTTTCGACACAGTTATT
* * *
754087 GCCCTTGGACTTCGAAAAAATCCAAATATTTT
130 GCCCTTGGACGTAGAAAAAATCCAAATATTTG
754119 CAGTTT
1 CAGTTT
754125 ACTTACATTT
Statistics
Matches: 143, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
160 1 0.01
161 140 0.98
162 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (161 bp):
CAGTTTCCGCTCATTTTCTTCACAGAGGATAAACATATTGAAATGAAATTTAGCATACAGGTTCA
TCAGGATAATATCTAGGTCAAATTCGATACTGGGTACGATCAAGCAATTTTCGACACAGTTATTG
CCCTTGGACGTAGAAAAAATCCAAATATTTG
Found at i:776777 original size:31 final size:32
Alignment explanation
Indices: 776741--776811 Score: 108
Period size: 31 Copynumber: 2.2 Consensus size: 32
776731 AAACACCCAT
776741 GGGTCATTTTTGTACGCAGAATAATGACC-GG
1 GGGTCATTTTTGTACGCAGAATAATGACCGGG
* * *
776772 GGGTCATTTTTTTGCGTAGAATAATGACCGGG
1 GGGTCATTTTTGTACGCAGAATAATGACCGGG
776804 GGGTCATT
1 GGGTCATT
776812 ATTCTACGTC
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
31 26 0.72
32 10 0.28
ACGTcount: A:0.23, C:0.14, G:0.31, T:0.32
Consensus pattern (32 bp):
GGGTCATTTTTGTACGCAGAATAATGACCGGG
Found at i:776829 original size:31 final size:31
Alignment explanation
Indices: 776741--776829 Score: 101
Period size: 31 Copynumber: 2.9 Consensus size: 31
776731 AAACACCCAT
*
776741 GGGTCATTTTTGTACG-CAGAATAATGACCGG
1 GGGTCATTTTTCTACGTC-GAATAATGACCGG
* * *
776772 GGGTCATTTTTTTGCGTAGAATAATGACCGGG
1 GGGTCATTTTTCTACGTCGAATAATGACC-GG
*
776804 GGGTCATTATTCTACGTCGAA-AATGA
1 GGGTCATTTTTCTACGTCGAATAATGA
776830 TCCCCGGTCA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
31 30 0.61
32 19 0.39
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (31 bp):
GGGTCATTTTTCTACGTCGAATAATGACCGG
Found at i:778225 original size:207 final size:206
Alignment explanation
Indices: 777870--778282 Score: 817
Period size: 207 Copynumber: 2.0 Consensus size: 206
777860 ATGAGGGTAA
777870 GCAAAATCATTGCCATATTTGATGCTTTTGGTGGGCAAAACCGTGCTTTTTAAAATAAAAATTAA
1 GCAAAATCATTGCCATATTTGATGCTTTTGGTGGGCAAAACCGTGCTTTTTAAAATAAAAATTAA
777935 CAAGTGTCTGTCTTGTATTAAGACCTAGTAAATCGAACCGTTTTCAAGGAACGTTCTGCATAGAA
66 CAAGTGTCTGTCTTGTATTAAGACCTAGTAAATCGAACCGTTTTCAAGGAACGTTCTGCATAGAA
778000 TAGTGTAGTCTGTTTCACTATTGATGCTTTTACTAGGTCAGGCGCGGATCGAAAATTAATCCTTA
131 TAGTGTAGTCTGTTTCACTATTGATGCTTTTACTAGGTCAGGCGCGGATCGAAAATTAATCCTTA
778065 GGAGGTTCGCT
196 GGAGGTTCGCT
778076 NGCAAAATCATTGCCATATTTGATGCTTTTGGTGGGCAAAACCGTGCTTTTTAAAATAAAAATTA
1 -GCAAAATCATTGCCATATTTGATGCTTTTGGTGGGCAAAACCGTGCTTTTTAAAATAAAAATTA
778141 ACAAGTGTCTGTCTTGTATTAAGACCTAGTAAATCGAACCGTTTTCAAGGAACGTTCTGCATAGA
65 ACAAGTGTCTGTCTTGTATTAAGACCTAGTAAATCGAACCGTTTTCAAGGAACGTTCTGCATAGA
778206 ATAGTGTAGTCTGTTTCACTATTGATGCTTTTACTAGGTCAGGCGCGGATCGAAAATTAATCCTT
130 ATAGTGTAGTCTGTTTCACTATTGATGCTTTTACTAGGTCAGGCGCGGATCGAAAATTAATCCTT
778271 AGGAGGTTCGCT
195 AGGAGGTTCGCT
778283 ACTAAGCATG
Statistics
Matches: 206, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
207 206 1.00
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.33
Consensus pattern (206 bp):
GCAAAATCATTGCCATATTTGATGCTTTTGGTGGGCAAAACCGTGCTTTTTAAAATAAAAATTAA
CAAGTGTCTGTCTTGTATTAAGACCTAGTAAATCGAACCGTTTTCAAGGAACGTTCTGCATAGAA
TAGTGTAGTCTGTTTCACTATTGATGCTTTTACTAGGTCAGGCGCGGATCGAAAATTAATCCTTA
GGAGGTTCGCT
Found at i:787395 original size:16 final size:16
Alignment explanation
Indices: 787374--787421 Score: 87
Period size: 16 Copynumber: 3.0 Consensus size: 16
787364 AACTGAAGTG
787374 GGACAGACAGACGGAC
1 GGACAGACAGACGGAC
787390 GGACAGACAGACGGAC
1 GGACAGACAGACGGAC
*
787406 GGACGGACAGACGGAC
1 GGACAGACAGACGGAC
787422 TGACGGACGC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.35, C:0.25, G:0.40, T:0.00
Consensus pattern (16 bp):
GGACAGACAGACGGAC
Found at i:787400 original size:20 final size:20
Alignment explanation
Indices: 787375--787430 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
787365 ACTGAAGTGG
787375 GACAGACAGACGGACGGACA
1 GACAGACAGACGGACGGACA
*
787395 GACAGACGGACGGACGGACA
1 GACAGACAGACGGACGGACA
* *
787415 GACGGACTGACGGACG
1 GACAGACAGACGGACG
787431 CAGAGGAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.34, C:0.25, G:0.39, T:0.02
Consensus pattern (20 bp):
GACAGACAGACGGACGGACA
Found at i:787426 original size:16 final size:16
Alignment explanation
Indices: 787374--787429 Score: 85
Period size: 16 Copynumber: 3.5 Consensus size: 16
787364 AACTGAAGTG
*
787374 GGACAGACAGACGGAC
1 GGACGGACAGACGGAC
*
787390 GGACAGACAGACGGAC
1 GGACGGACAGACGGAC
787406 GGACGGACAGACGGAC
1 GGACGGACAGACGGAC
*
787422 TGACGGAC
1 GGACGGAC
787430 GCAGAGGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.34, C:0.25, G:0.39, T:0.02
Consensus pattern (16 bp):
GGACGGACAGACGGAC
Found at i:787430 original size:4 final size:4
Alignment explanation
Indices: 787383--787430 Score: 60
Period size: 4 Copynumber: 12.0 Consensus size: 4
787373 GGGACAGACA
* * * *
787383 GACG GACG GACA GACA GACG GACG GACG GACA GACG GACT GACG GACG
1 GACG GACG GACG GACG GACG GACG GACG GACG GACG GACG GACG GACG
787431 CAGAGGAAAG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.31, C:0.25, G:0.42, T:0.02
Consensus pattern (4 bp):
GACG
Found at i:793932 original size:16 final size:16
Alignment explanation
Indices: 793911--793958 Score: 87
Period size: 16 Copynumber: 3.0 Consensus size: 16
793901 AACTGAAGTG
793911 GGACAGACAGACGGAC
1 GGACAGACAGACGGAC
793927 GGACAGACAGACGGAC
1 GGACAGACAGACGGAC
*
793943 GGACGGACAGACGGAC
1 GGACAGACAGACGGAC
793959 TGACGGACGC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.35, C:0.25, G:0.40, T:0.00
Consensus pattern (16 bp):
GGACAGACAGACGGAC
Found at i:793937 original size:20 final size:20
Alignment explanation
Indices: 793912--793967 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
793902 ACTGAAGTGG
793912 GACAGACAGACGGACGGACA
1 GACAGACAGACGGACGGACA
*
793932 GACAGACGGACGGACGGACA
1 GACAGACAGACGGACGGACA
* *
793952 GACGGACTGACGGACG
1 GACAGACAGACGGACG
793968 CAGAGGAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.34, C:0.25, G:0.39, T:0.02
Consensus pattern (20 bp):
GACAGACAGACGGACGGACA
Found at i:793963 original size:16 final size:16
Alignment explanation
Indices: 793911--793966 Score: 85
Period size: 16 Copynumber: 3.5 Consensus size: 16
793901 AACTGAAGTG
*
793911 GGACAGACAGACGGAC
1 GGACGGACAGACGGAC
*
793927 GGACAGACAGACGGAC
1 GGACGGACAGACGGAC
793943 GGACGGACAGACGGAC
1 GGACGGACAGACGGAC
*
793959 TGACGGAC
1 GGACGGAC
793967 GCAGAGGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.34, C:0.25, G:0.39, T:0.02
Consensus pattern (16 bp):
GGACGGACAGACGGAC
Found at i:793967 original size:4 final size:4
Alignment explanation
Indices: 793920--793967 Score: 60
Period size: 4 Copynumber: 12.0 Consensus size: 4
793910 GGGACAGACA
* * * *
793920 GACG GACG GACA GACA GACG GACG GACG GACA GACG GACT GACG GACG
1 GACG GACG GACG GACG GACG GACG GACG GACG GACG GACG GACG GACG
793968 CAGAGGAAAG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.31, C:0.25, G:0.42, T:0.02
Consensus pattern (4 bp):
GACG
Found at i:802111 original size:123 final size:124
Alignment explanation
Indices: 801973--802236 Score: 469
Period size: 124 Copynumber: 2.1 Consensus size: 124
801963 AAATTATGCA
* *
801973 TAATTAATCTTAGGCAACATGTTCTAGTCACAAAAATGGA-C-GGTATTAACGTAGGCTAACACA
1 TAATTAATCTTAGGCAACATGTTCTAGTCACAAAAAT-AACCAGATATTAACGTAGGCTAACACA
*
802036 TGTTAGAGGTTTTTCAATACCAATTATATGACACTGAGATACACTATCTCATGTCGTAAT
65 TGTTAGAGGTTTTTCAATACCAATTATATGACACTGAGATACACTATCACATGTCGTAAT
*
802096 TAATTAATCTTAGGCAACATGTTCTAGTCACAAAAATAACCAGATATTTACGTAGGCTAACACAT
1 TAATTAATCTTAGGCAACATGTTCTAGTCACAAAAATAACCAGATATTAACGTAGGCTAACACAT
802161 GTTAGAGGTTTTTCAATACCAATTATATGACACTGAGATACACTATCACATGTCGTAAT
66 GTTAGAGGTTTTTCAATACCAATTATATGACACTGAGATACACTATCACATGTCGTAAT
802220 TAATTAATCTTAGGCAA
1 TAATTAATCTTAGGCAA
802237 AAGTAAAAAA
Statistics
Matches: 135, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
122 1 0.01
123 38 0.28
124 96 0.71
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (124 bp):
TAATTAATCTTAGGCAACATGTTCTAGTCACAAAAATAACCAGATATTAACGTAGGCTAACACAT
GTTAGAGGTTTTTCAATACCAATTATATGACACTGAGATACACTATCACATGTCGTAAT
Found at i:805332 original size:10 final size:10
Alignment explanation
Indices: 805317--805342 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
805307 GATTTATTTA
805317 AAAAAAAAAG
1 AAAAAAAAAG
805327 AAAAAAAAAG
1 AAAAAAAAAG
805337 AAAAAA
1 AAAAAA
805343 GATTATCAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:811164 original size:21 final size:21
Alignment explanation
Indices: 811138--811225 Score: 88
Period size: 21 Copynumber: 4.2 Consensus size: 21
811128 TTTTTCTGTC
811138 AAATATGTCGACATGCAAGAT
1 AAATATGTCGACATGCAAGAT
* *
811159 AAATATGTTGTCATGCAAGAT
1 AAATATGTCGACATGCAAGAT
** * *
811180 AGTTATGTCAACATGCAACAT
1 AAATATGTCGACATGCAAGAT
* * *
811201 AACTATGTTGACATGCACGA-
1 AAATATGTCGACATGCAAGAT
811221 AAATA
1 AAATA
811226 GCAATCAAAT
Statistics
Matches: 52, Mismatches: 15, Indels: 1
0.76 0.22 0.01
Matches are distributed among these distances:
20 4 0.08
21 48 0.92
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (21 bp):
AAATATGTCGACATGCAAGAT
Found at i:811319 original size:21 final size:21
Alignment explanation
Indices: 811295--811388 Score: 82
Period size: 21 Copynumber: 4.5 Consensus size: 21
811285 GCTAAATGCT
*
811295 ACTTATTTATGTCGACATTCA
1 ACTTATTTATGTCAACATTCA
811316 ACTTATTTATGTCAACATT-A
1 ACTTATTTATGTCAACATTCA
** ** ** *
811336 GAGATAAATATGTTGACATACA
1 -ACTTATTTATGTCAACATTCA
*
811358 ACTTATTTATGTCAACATGCA
1 ACTTATTTATGTCAACATTCA
*
811379 ACTTAGTTAT
1 ACTTATTTAT
811389 TTGATAGAAA
Statistics
Matches: 55, Mismatches: 16, Indels: 4
0.73 0.21 0.05
Matches are distributed among these distances:
20 1 0.02
21 53 0.96
22 1 0.02
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (21 bp):
ACTTATTTATGTCAACATTCA
Found at i:823323 original size:21 final size:21
Alignment explanation
Indices: 823257--823313 Score: 89
Period size: 21 Copynumber: 2.7 Consensus size: 21
823247 GAGGGAATTT
823257 TACAGATTAAAT-TGTAAACTA
1 TACAGATT-AATGTGTAAACTA
*
823278 TACAGTTTAATGTGTAAACTA
1 TACAGATTAATGTGTAAACTA
823299 TACAGATTAATGTGT
1 TACAGATTAATGTGT
823314 TAATAATACA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 3 0.09
21 30 0.91
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.37
Consensus pattern (21 bp):
TACAGATTAATGTGTAAACTA
Found at i:834976 original size:2 final size:2
Alignment explanation
Indices: 834971--835004 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
834961 AAAAATAATA
834971 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
835005 AGTAGGACGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:836899 original size:29 final size:29
Alignment explanation
Indices: 836857--836917 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
836847 TGATCTTAAA
*
836857 CAATGTGAAGGTTCTTACATTTGCCTCAT
1 CAATGTGAAGGTTCTTACATTCGCCTCAT
836886 CAATGTGAAGGTTCTTACATTCGCCTCAT
1 CAATGTGAAGGTTCTTACATTCGCCTCAT
836915 CAA
1 CAA
836918 AGATCTCAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.34
Consensus pattern (29 bp):
CAATGTGAAGGTTCTTACATTCGCCTCAT
Found at i:837269 original size:15 final size:15
Alignment explanation
Indices: 837249--837278 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
837239 ACCTTTCTCG
837249 TTGTAGTCCTCGTCT
1 TTGTAGTCCTCGTCT
837264 TTGTAGTCCTCGTCT
1 TTGTAGTCCTCGTCT
837279 AAATAGTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.07, C:0.27, G:0.20, T:0.47
Consensus pattern (15 bp):
TTGTAGTCCTCGTCT
Found at i:840121 original size:70 final size:70
Alignment explanation
Indices: 840037--840213 Score: 318
Period size: 70 Copynumber: 2.5 Consensus size: 70
840027 AGACACTAAA
840037 GACCACAGGATTTGGTGCCTGATTCCGTAGCCCGTCATCATCTGTGTCACCTACCTGTTCAGACA
1 GACCACAGGATTTGGTGCCTGATTCCGTAGCCCGTCATCATCTGTGTCACCTACCTGTTCAGACA
840102 ACATG
66 ACATG
*
840107 GACCACAGGATTTGGTGCCTGATTCTGTAGCCCGTCATCATCTGTGTCACCTACCTGTTCAGACA
1 GACCACAGGATTTGGTGCCTGATTCCGTAGCCCGTCATCATCTGTGTCACCTACCTGTTCAGACA
840172 ACATG
66 ACATG
* **
840177 GACCACAGGATCTGGTGTGTGATTCCGTAGCCCGTCA
1 GACCACAGGATTTGGTGCCTGATTCCGTAGCCCGTCA
840214 ATCCTTGGCT
Statistics
Matches: 102, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
70 102 1.00
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (70 bp):
GACCACAGGATTTGGTGCCTGATTCCGTAGCCCGTCATCATCTGTGTCACCTACCTGTTCAGACA
ACATG
Found at i:845769 original size:16 final size:16
Alignment explanation
Indices: 845748--845780 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
845738 TAACAGATCA
845748 ATACGGAAGCCCTGGG
1 ATACGGAAGCCCTGGG
845764 ATACGGAAGCCCTGGG
1 ATACGGAAGCCCTGGG
845780 A
1 A
845781 GGACATTGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.27, C:0.24, G:0.36, T:0.12
Consensus pattern (16 bp):
ATACGGAAGCCCTGGG
Found at i:856230 original size:1 final size:1
Alignment explanation
Indices: 856226--856324 Score: 72
Period size: 1 Copynumber: 99.0 Consensus size: 1
856216 ATTGTTGTTG
* * * * * * * * *
856226 TTTTTGTTTTTTGTTTTTTTTTTGTTTTTTTTTTTTTTGTTTTGTTTGTTTTGTTTTGTTTTGTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * **
856291 TTTTGTTTTTTTGTTTTGTTTTGGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
856325 GGGGGGGGGT
Statistics
Matches: 72, Mismatches: 26, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 72 1.00
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (1 bp):
T
Found at i:856242 original size:5 final size:5
Alignment explanation
Indices: 856217--856322 Score: 98
Period size: 5 Copynumber: 21.4 Consensus size: 5
856207 GAGGGGGTTA
* *
856217 TTGTT GTTGTTT TTGTT TT-TT GTT-TT TT-TT TTGTT TTTTT TTTTT
1 TTGTT -TTG-TT TTGTT TTGTT -TTGTT TTGTT TTGTT TTGTT TTGTT
*
856262 TTGTT TTG-T TTGTT TTGTT TTGTT TTGTT TT-TT GTTTTT TTGTT TTGTT
1 TTGTT TTGTT TTGTT TTGTT TTGTT TTGTT TTGTT -TTGTT TTGTT TTGTT
856311 TTGGTT TT-TT TT
1 TT-GTT TTGTT TT
856323 TTGGGGGGGG
Statistics
Matches: 90, Mismatches: 3, Indels: 16
0.83 0.03 0.15
Matches are distributed among these distances:
4 18 0.20
5 57 0.63
6 13 0.14
7 2 0.02
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (5 bp):
TTGTT
Found at i:856257 original size:20 final size:20
Alignment explanation
Indices: 856232--856325 Score: 99
Period size: 19 Copynumber: 4.9 Consensus size: 20
856222 GTTGTTTTTG
856232 TTTTTTGTTTTTTTTTTGTT
1 TTTTTTGTTTTTTTTTTGTT
856252 TTTTTT-TTTTTTGTTTTGTT
1 TTTTTTGTTTTTT-TTTTGTT
* *
856272 TGTTTTG-TTTTGTTTTG--
1 TTTTTTGTTTTTTTTTTGTT
*
856289 TTTTTTGTTTTTTTGTT-TT
1 TTTTTTGTTTTTTTTTTGTT
* *
856308 GTTTTGGTTTTTTTTTTG
1 TTTTTTGTTTTTTTTTTG
856326 GGGGGGGGTG
Statistics
Matches: 60, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
17 6 0.10
18 7 0.12
19 25 0.42
20 22 0.37
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (20 bp):
TTTTTTGTTTTTTTTTTGTT
Found at i:856266 original size:39 final size:38
Alignment explanation
Indices: 856227--856325 Score: 139
Period size: 39 Copynumber: 2.6 Consensus size: 38
856217 TTGTTGTTGT
*
856227 TTTTGTTTTTTGTTTTTTTTTTGTTTTTTTTTTTTTTG
1 TTTTGTTTTTTGTTTTTTTTTTGTTTTTTGTTTTTTTG
*
856265 TTTTGTTTGTTT-TGTTTTGTTTTGTTTTTTGTTTTTTTG
1 TTTTGTTT-TTTGT-TTTTTTTTTGTTTTTTGTTTTTTTG
*
856304 TTTTG-TTTTGGTTTTTTTTTTG
1 TTTTGTTTTTTGTTTTTTTTTTG
856326 GGGGGGGGTG
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
37 11 0.20
38 12 0.22
39 31 0.57
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (38 bp):
TTTTGTTTTTTGTTTTTTTTTTGTTTTTTGTTTTTTTG
Found at i:856325 original size:30 final size:30
Alignment explanation
Indices: 856217--856325 Score: 147
Period size: 30 Copynumber: 3.7 Consensus size: 30
856207 GAGGGGGTTA
856217 TTGTTGTTGTTTTTGTTTTTTG-TTTTTT-TT
1 TTGTT-TTG-TTTTGTTTTTTGTTTTTTTGTT
856247 TTGTTTT-TTTT-TTTTTTGTTTTGTTTGTT
1 TTGTTTTGTTTTGTTTTTTGTTTT-TTTGTT
856276 TTGTTTTGTTTTGTTTTTTGTTTTTTTGTT
1 TTGTTTTGTTTTGTTTTTTGTTTTTTTGTT
856306 TTGTTTTGGTTTT-TTTTTTG
1 TTGTTTT-GTTTTGTTTTTTG
856326 GGGGGGGGTG
Statistics
Matches: 73, Mismatches: 0, Indels: 12
0.86 0.00 0.14
Matches are distributed among these distances:
26 7 0.10
27 7 0.10
28 3 0.04
29 11 0.15
30 29 0.40
31 16 0.22
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (30 bp):
TTGTTTTGTTTTGTTTTTTGTTTTTTTGTT
Found at i:859435 original size:14 final size:14
Alignment explanation
Indices: 859416--859446 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
859406 AGTGTTAATA
859416 AGATAATTAACAGT
1 AGATAATTAACAGT
859430 AGATAATTAACAGT
1 AGATAATTAACAGT
859444 AGA
1 AGA
859447 AAACACGCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.52, C:0.06, G:0.16, T:0.26
Consensus pattern (14 bp):
AGATAATTAACAGT
Found at i:866627 original size:39 final size:39
Alignment explanation
Indices: 866573--866653 Score: 153
Period size: 39 Copynumber: 2.1 Consensus size: 39
866563 ATAAATTAAG
*
866573 AATTCCTTGCCCGTGATAGAGGTACAATGGGACTCGGTT
1 AATTCCTTGCCCGTGATAAAGGTACAATGGGACTCGGTT
866612 AATTCCTTGCCCGTGATAAAGGTACAATGGGACTCGGTT
1 AATTCCTTGCCCGTGATAAAGGTACAATGGGACTCGGTT
866651 AAT
1 AAT
866654 CTTTTAAGAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (39 bp):
AATTCCTTGCCCGTGATAAAGGTACAATGGGACTCGGTT
Found at i:883450 original size:2 final size:2
Alignment explanation
Indices: 883443--883502 Score: 93
Period size: 2 Copynumber: 30.0 Consensus size: 2
883433 CTCTGGAAGA
* * *
883443 TC TC TC TC TC TT TC TC TT TC TC TT TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
883485 TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC
883503 ATATACACAT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (2 bp):
TC
Found at i:890855 original size:2 final size:2
Alignment explanation
Indices: 890850--890904 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
890840 AGGGGGGGGG
*
890850 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA NA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
890892 GA GA GA GA GA GA G
1 GA GA GA GA GA GA G
890905 GTGGGGGATT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
GA
Found at i:892535 original size:2 final size:2
Alignment explanation
Indices: 892528--892580 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
892518 NNNNNNGAGG
892528 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
892570 GA GA GA GA GA G
1 GA GA GA GA GA G
892581 GTGGGGGATT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:904082 original size:2 final size:2
Alignment explanation
Indices: 904075--904120 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
904065 TTCAATTTAT
904075 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
904117 TC TC
1 TC TC
904121 ATTAAAACCC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:911219 original size:19 final size:19
Alignment explanation
Indices: 911195--911233 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
911185 ATTAGAACTA
911195 TTTCCAGTTTTCCAAGTTG
1 TTTCCAGTTTTCCAAGTTG
911214 TTTCCAGTTTTCCAAGTTG
1 TTTCCAGTTTTCCAAGTTG
911233 T
1 T
911234 AAGACAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.21, G:0.15, T:0.49
Consensus pattern (19 bp):
TTTCCAGTTTTCCAAGTTG
Found at i:925389 original size:19 final size:21
Alignment explanation
Indices: 925353--925391 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
925343 TTTTGTTATT
925353 CTGTGTTTTTAACAACAATAG
1 CTGTGTTTTTAACAACAATAG
*
925374 CTGT-TTTTTGAC-ACAATA
1 CTGTGTTTTTAACAACAATA
925392 CCTGAGGGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 7 0.41
21 4 0.24
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (21 bp):
CTGTGTTTTTAACAACAATAG
Found at i:928443 original size:2 final size:2
Alignment explanation
Indices: 928436--928474 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
928426 ATTTATAATA
*
928436 CT CT CT CT CT CT CT CT CT C- CT CT CT CT -T TT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
928475 ATTTTGAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
CT
Found at i:948410 original size:2 final size:2
Alignment explanation
Indices: 948403--948429 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
948393 NNNNNNNNNN
948403 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
948430 CGTTTATCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:948742 original size:21 final size:21
Alignment explanation
Indices: 948717--948808 Score: 87
Period size: 21 Copynumber: 4.4 Consensus size: 21
948707 ATATGCCATC
*
948717 ACTTGTCAGATAATTTTGTCG
1 ACTTGTCAGATAATTATGTCG
* *
948738 ACTTGTCTGAT-CTTGATGTCG
1 ACTTGTCAGATAATT-ATGTCG
* *
948759 ACTTTTCAGATAATTATGTTG
1 ACTTGTCAGATAATTATGTCG
* ** *
948780 ACTTGTCAGTTCTTTAAGTCG
1 ACTTGTCAGATAATTATGTCG
948801 ACTTGTCA
1 ACTTGTCA
948809 CTTATTCACG
Statistics
Matches: 56, Mismatches: 13, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
20 2 0.04
21 52 0.93
22 2 0.04
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.43
Consensus pattern (21 bp):
ACTTGTCAGATAATTATGTCG
Found at i:948783 original size:42 final size:42
Alignment explanation
Indices: 948717--948808 Score: 121
Period size: 42 Copynumber: 2.2 Consensus size: 42
948707 ATATGCCATC
* * *
948717 ACTTGTCAGATAATTTTGTCGACTTGTCTGATCTTGATGTCG
1 ACTTGTCAGATAATTATGTCGACTTGTCAGATCTTGAAGTCG
* * * *
948759 ACTTTTCAGATAATTATGTTGACTTGTCAGTTCTTTAAGTCG
1 ACTTGTCAGATAATTATGTCGACTTGTCAGATCTTGAAGTCG
948801 ACTTGTCA
1 ACTTGTCA
948809 CTTATTCACG
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.43
Consensus pattern (42 bp):
ACTTGTCAGATAATTATGTCGACTTGTCAGATCTTGAAGTCG
Found at i:948920 original size:21 final size:21
Alignment explanation
Indices: 948895--949022 Score: 91
Period size: 21 Copynumber: 6.1 Consensus size: 21
948885 CTGACTAGTG
**
948895 GACATAATCATCTTTTAAGTC
1 GACATAATCATCTTACAAGTC
*
948916 GACATAATTAT-TTGACAAGTC
1 GACATAATCATCTT-ACAAGTC
* *
948937 GACTTAATCATCTGACAAGTC
1 GACATAATCATCTTACAAGTC
* *
948958 GACATAATTAT-TTGACAAGAC
1 GACATAATCATCTT-ACAAGTC
* * *
948979 GATATAA-CATCTGAAAAGTC
1 GACATAATCATCTTACAAGTC
* * * *
948999 AACATCATTATCTGACAAGTC
1 GACATAATCATCTTACAAGTC
949020 GAC
1 GAC
949023 TTATAATATG
Statistics
Matches: 81, Mismatches: 21, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
20 14 0.17
21 66 0.81
22 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (21 bp):
GACATAATCATCTTACAAGTC
Found at i:948945 original size:42 final size:42
Alignment explanation
Indices: 948911--949025 Score: 162
Period size: 41 Copynumber: 2.8 Consensus size: 42
948901 ATCATCTTTT
*
948911 AAGTCGACATAATTATTTGACAAGTCGACTTAATCATCTGAC
1 AAGTCGACATAATTATTTGACAAGTCGACTTAATCATCTGAA
*
948953 AAGTCGACATAATTATTTGACAAGACGA-TATAA-CATCTGAA
1 AAGTCGACATAATTATTTGACAAGTCGACT-TAATCATCTGAA
* * *
948994 AAGTCAACATCATTATCTGACAAGTCGACTTA
1 AAGTCGACATAATTATTTGACAAGTCGACTTA
949026 TAATATGAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
41 34 0.52
42 31 0.48
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (42 bp):
AAGTCGACATAATTATTTGACAAGTCGACTTAATCATCTGAA
Found at i:949098 original size:21 final size:21
Alignment explanation
Indices: 949073--949139 Score: 89
Period size: 21 Copynumber: 3.2 Consensus size: 21
949063 TTATTTTTTC
949073 TGTCAGATAATTATGTTAACT
1 TGTCAGATAATTATGTTAACT
** **
949094 TGTCAGATCTTTATGTCGACT
1 TGTCAGATAATTATGTTAACT
*
949115 TGTCAAATAATTATGTTAACT
1 TGTCAGATAATTATGTTAACT
949136 TGTC
1 TGTC
949140 TGATCCTTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.43
Consensus pattern (21 bp):
TGTCAGATAATTATGTTAACT
Found at i:949119 original size:42 final size:43
Alignment explanation
Indices: 949073--949167 Score: 140
Period size: 42 Copynumber: 2.3 Consensus size: 43
949063 TTATTTTTTC
* *
949073 TGTCAGATAATTATGTTAACTTGTCAGATCTTTATGTCGA-CT
1 TGTCAGATAATTATGTTAACTTGTCAGATCCTTATGACGACCT
* *
949115 TGTCAAATAATTATGTTAACTTGTCTGATCCTTATGACGACCT
1 TGTCAGATAATTATGTTAACTTGTCAGATCCTTATGACGACCT
949158 T-TCAGATAAT
1 TGTCAGATAAT
949168 ATGAAGCCAA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 44 0.94
43 3 0.06
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.41
Consensus pattern (43 bp):
TGTCAGATAATTATGTTAACTTGTCAGATCCTTATGACGACCT
Found at i:949149 original size:21 final size:21
Alignment explanation
Indices: 949073--949150 Score: 84
Period size: 21 Copynumber: 3.7 Consensus size: 21
949063 TTATTTTTTC
*
949073 TGTCAGATAATTATGTTAACT
1 TGTCAGATCATTATGTTAACT
* **
949094 TGTCAGATCTTTATGTCGACT
1 TGTCAGATCATTATGTTAACT
* *
949115 TGTCAAATAATTATGTTAACT
1 TGTCAGATCATTATGTTAACT
* *
949136 TGTCTGATCCTTATG
1 TGTCAGATCATTATG
949151 ACGACCTTTC
Statistics
Matches: 44, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (21 bp):
TGTCAGATCATTATGTTAACT
Found at i:949274 original size:21 final size:21
Alignment explanation
Indices: 949249--949342 Score: 127
Period size: 21 Copynumber: 4.5 Consensus size: 21
949239 ATGGTTATTT
* * *
949249 TCTGACATGTCAACATAAAGA
1 TCTGACAAGTCGACATAAATA
*
949270 TCTGACAAGTTGACATAAATA
1 TCTGACAAGTCGACATAAATA
949291 TCTGACAAGTCGACAT-AATCA
1 TCTGACAAGTCGACATAAAT-A
*
949312 TCTGACAAGTCGACATAATTA
1 TCTGACAAGTCGACATAAATA
949333 TCTGACAAGT
1 TCTGACAAGT
949343 GGTGGCAGAT
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
20 3 0.05
21 60 0.92
22 2 0.03
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.27
Consensus pattern (21 bp):
TCTGACAAGTCGACATAAATA
Found at i:949553 original size:22 final size:23
Alignment explanation
Indices: 949506--949554 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
949496 CAGAATTATT
* *
949506 TTTTCCTTGACTGCATTTTTACA
1 TTTTCCTTGACTGCAGTTTTAAA
*
949529 TTTTCCTTTACT-CAGTTTTAAA
1 TTTTCCTTGACTGCAGTTTTAAA
949551 TTTT
1 TTTT
949555 TTTGTACCAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.18, C:0.18, G:0.06, T:0.57
Consensus pattern (23 bp):
TTTTCCTTGACTGCAGTTTTAAA
Found at i:949555 original size:23 final size:24
Alignment explanation
Indices: 949505--949555 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
949495 TCAGAATTAT
* *
949505 TTTTTCCTTGACTGCATTTTTACA
1 TTTTTCCTTGACTGCAGTTTTAAA
*
949529 -TTTTCCTTTACT-CAGTTTTAAA
1 TTTTTCCTTGACTGCAGTTTTAAA
949551 TTTTT
1 TTTTT
949556 TTGTACCACT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.18, C:0.18, G:0.06, T:0.59
Consensus pattern (24 bp):
TTTTTCCTTGACTGCAGTTTTAAA
Found at i:953654 original size:2 final size:2
Alignment explanation
Indices: 953647--953686 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
953637 GCTCTCGTTT
953647 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
953687 CTATGGATAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:957259 original size:21 final size:21
Alignment explanation
Indices: 957235--957293 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
957225 ATCTCGTTAT
*
957235 TTCTTGTTATTACGAGATGTC
1 TTCTTGTAATTACGAGATGTC
* * * *
957256 TTCTCGTAATAACGAGATTTT
1 TTCTTGTAATTACGAGATGTC
*
957277 TTCTTGTCATTACGAGA
1 TTCTTGTAATTACGAGA
957294 AAAAATATTT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.24, C:0.15, G:0.17, T:0.44
Consensus pattern (21 bp):
TTCTTGTAATTACGAGATGTC
Found at i:958139 original size:2 final size:2
Alignment explanation
Indices: 958132--958175 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
958122 ACTCCCCATT
958132 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
958174 TC
1 TC
958176 AAAATTACAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:958960 original size:12 final size:12
Alignment explanation
Indices: 958943--958967 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
958933 AGTACCGCTG
958943 TATTTAATTCTT
1 TATTTAATTCTT
958955 TATTTAATTCTT
1 TATTTAATTCTT
958967 T
1 T
958968 TAAAAAAGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (12 bp):
TATTTAATTCTT
Found at i:961244 original size:13 final size:13
Alignment explanation
Indices: 961226--961250 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
961216 GGCTGAAGCT
961226 AGCAGCCACTAAC
1 AGCAGCCACTAAC
961239 AGCAGCCACTAA
1 AGCAGCCACTAA
961251 GCCCGTAGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.36, G:0.16, T:0.08
Consensus pattern (13 bp):
AGCAGCCACTAAC
Found at i:962544 original size:326 final size:326
Alignment explanation
Indices: 961947--962612 Score: 1269
Period size: 326 Copynumber: 2.0 Consensus size: 326
961937 AAGGGTCGGT
961947 TTAGCTCACCCGAACTTTGTCATATTTTAGCATTTCACAATGATATAGGGGTTAAAAGTGGTCCA
1 TTAGCTCACCCGAACTTTGTCATATTTTAGCATTTCACAATGATATAGGGGTTAAAAGTGGTCCA
962012 TTATCTTCCTTATCTTTGAAGTGTGCATCAAACGAATAACAGGGTAGTGTAGGGGGCATATGGGG
66 TTATCTTCCTTATCTTTGAAGTGTGCATCAAACGAATAACAGGGTAGTGTAGGGGGCATATGGGG
962077 CTATTATTTCCCGGTCTCAGATTTGGGCTGTAGGGGTACCACCAAGTGGCTCCCAAGGGTTCTGG
131 CTATTATTTCCCGGTCTCAGATTTGGGCTGTAGGGGTACCACCAAGTGGCTCCCAAGGGTTCTGG
962142 CTCATTTCAGGGATTTATATCTCACTTGAGATTGGCCACAAGAACTTACAAACACTTGGATTAGG
196 CTCATTTCAGGGATTTATATCTCACTTGAGATTGGCCACAAGAACTTACAAACACTTGGATTAGG
*
962207 TAGAAGACCTCAAGAGGTATTCATAATAAGCATTAGAGGGCACATATGAGCCCTACAAGGGTTAG
261 TAGAAGACCTCAAGAGGTATTCATAATAAGCATTAGAGGGCACATATGACCCCTACAAGGGTTAG
962272 G
326 G
*
962273 TTAGCTCACCCGAACTTTGTCATATTTTAGCATTTCACATTGATATAGGGGTTAAAAGTGGTCCA
1 TTAGCTCACCCGAACTTTGTCATATTTTAGCATTTCACAATGATATAGGGGTTAAAAGTGGTCCA
962338 TTATCTTCCTTATCTTTGAAGTGTGCATCAAACGAATAACAGGGTAGTGTAGGGGGCATATGGGG
66 TTATCTTCCTTATCTTTGAAGTGTGCATCAAACGAATAACAGGGTAGTGTAGGGGGCATATGGGG
*
962403 CTATTATTTCCCGGTCTCAGATTTGGGCTGTAGGGGTACCACCAAGTGGCTCCCAGGGGTTCTGG
131 CTATTATTTCCCGGTCTCAGATTTGGGCTGTAGGGGTACCACCAAGTGGCTCCCAAGGGTTCTGG
962468 CTCATTTCAGGGATTTATATCTCACTTGAGATTGGCCACAAGAACTTACAAACACTTGGATTAGG
196 CTCATTTCAGGGATTTATATCTCACTTGAGATTGGCCACAAGAACTTACAAACACTTGGATTAGG
* * *
962533 TAGAGGACCTCAAGAGGTATTCATAATAAGCGTTAGAGGGCACATATGACCCCTACAATGGTTAG
261 TAGAAGACCTCAAGAGGTATTCATAATAAGCATTAGAGGGCACATATGACCCCTACAAGGGTTAG
962598 G
326 G
*
962599 TTAGCACACCCGAA
1 TTAGCTCACCCGAA
962613 GTGTAGGGGG
Statistics
Matches: 333, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
326 333 1.00
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.29
Consensus pattern (326 bp):
TTAGCTCACCCGAACTTTGTCATATTTTAGCATTTCACAATGATATAGGGGTTAAAAGTGGTCCA
TTATCTTCCTTATCTTTGAAGTGTGCATCAAACGAATAACAGGGTAGTGTAGGGGGCATATGGGG
CTATTATTTCCCGGTCTCAGATTTGGGCTGTAGGGGTACCACCAAGTGGCTCCCAAGGGTTCTGG
CTCATTTCAGGGATTTATATCTCACTTGAGATTGGCCACAAGAACTTACAAACACTTGGATTAGG
TAGAAGACCTCAAGAGGTATTCATAATAAGCATTAGAGGGCACATATGACCCCTACAAGGGTTAG
G
Found at i:969873 original size:2 final size:2
Alignment explanation
Indices: 969868--969902 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
969858 GTGTGTGTGT
969868 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
969903 GGATTTGTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:972481 original size:22 final size:22
Alignment explanation
Indices: 972453--972495 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
972443 CCCGAAACAA
**
972453 CTTGTTTCTTCGCTACGATAGC
1 CTTGTTTCTTCAATACGATAGC
972475 CTTGTTTCTTCAATACGATAG
1 CTTGTTTCTTCAATACGATAG
972496 AACATGCACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.42
Consensus pattern (22 bp):
CTTGTTTCTTCAATACGATAGC
Found at i:982596 original size:12 final size:12
Alignment explanation
Indices: 982579--982605 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
982569 ATTAATTTAT
982579 GTTATATTTTCA
1 GTTATATTTTCA
982591 GTTATATTTTCA
1 GTTATATTTTCA
982603 GTT
1 GTT
982606 GTTCTTTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.07, G:0.11, T:0.59
Consensus pattern (12 bp):
GTTATATTTTCA
Found at i:987432 original size:2 final size:2
Alignment explanation
Indices: 987425--987476 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
987415 CAAATAAAAC
987425 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
987467 GA GA GA GA GA
1 GA GA GA GA GA
987477 TATTTCTCGT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:988446 original size:1 final size:1
Alignment explanation
Indices: 988435--988471 Score: 65
Period size: 1 Copynumber: 37.0 Consensus size: 1
988425 AATATTTTCA
*
988435 CCCCTCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
988472 GGTAGGTTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.00, C:0.97, G:0.00, T:0.03
Consensus pattern (1 bp):
C
Found at i:989559 original size:170 final size:169
Alignment explanation
Indices: 988872--989611 Score: 1001
Period size: 168 Copynumber: 4.4 Consensus size: 169
988862 CCCACCATGT
* * *
988872 CCTGAACCCCAGACCCAGGGGCCATGAATTTCACAA-TTTAGGTAAAGGAG-TT-AGTGGACATC
1 CCTGAACCCCTGACCCAGGGGTCATGAATTTCACAATTTTA-GTAGAGG-GCTTCA-TGGACATC
* * * ** ** * * * * *
988934 ATAACCATGTATTCA-GTTTTTTGCCCACATGTGTGAGAGTAGAGAAGAAGATTTTTTAAGATTT
63 ATAATCATGCATTTAGGTTTTTAACAAATATATATGGGAGTAGAGAAGAAGATTTTCTAAGATTT
* *
988998 AAAACATTTTTACTAAATGGCCATATTGAG-CCCACCCTAGAG
128 AATACATTTTTACTATATGGCCATATTG-GCCCCACCCTAGAG
***
989040 CCTGAACCCCT-AAAAAGGGGTCATGAATTTCACAATTTTAGTAGA-GGCTTTCATGGACATCAT
1 CCTGAACCCCTGACCCAGGGGTCATGAATTTCACAATTTTAGTAGAGGGC-TTCATGGACATCAT
*
989103 AATCATGCATTTAGTTTTTTAACAAATATATATGGGAGTAGAGAAGAAGATTTTCTAAGATTTAA
65 AATCATGCATTTAGGTTTTTAACAAATATATATGGGAGTAGAGAAGAAGATTTTCTAAGATTTAA
*
989168 TACAGTTTTACTATATGGCCATATTGGCCCCACCCTAGAG
130 TACATTTTTACTATATGGCCATATTGGCCCCACCCTAGAG
* *
989208 CCTGAACCCCTGACCCAGGGGTCATGAATTTCACAATTTTGGTAGAGGGCCTCATGGACATCATA
1 CCTGAACCCCTGACCCAGGGGTCATGAATTTCACAATTTTAGTAGAGGGCTTCATGGACATCATA
* * * *
989273 ACCAAGCATTTA-GTTATTAACAAATATATATGGGAGTAGAGAAGAAGATTTTCTAAGATTAAAT
66 ATCATGCATTTAGGTTTTTAACAAATATATATGGGAGTAGAGAAGAAGATTTTCTAAGATTTAAT
*
989337 ACATTTTTACTATATGGCCATATTGGCCCCATCCTAGAG
131 ACATTTTTACTATATGGCCATATTGGCCCCACCCTAGAG
* * *
989376 CCTGAAACCCTGACCCAGGGGTCATGAATTTCACAATTTAAATAGAGGGCTTCATGGACATCATA
1 CCTGAACCCCTGACCCAGGGGTCATGAATTTCACAATTTTAGTAGAGGGCTTCATGGACATCATA
* *
989441 ATCATGCATTTAGGTTTTTAAAAATATATATATGGTAGTAGAGAAGAAGATTTTCTAAGATTTAA
66 ATCATGCATTTAGGTTTTTAACAA-ATATATATGGGAGTAGAGAAGAAGATTTTCTAAGATTTAA
989506 TACATTTTTACTATATGGCCATATTGGCCCCACCCTAGAG
130 TACATTTTTACTATATGGCCATATTGGCCCCACCCTAGAG
* * ** * * *
989546 CCAGAACCCCTGACCCAGCGACCATGAATTTCACAATTTTGGTAGAAGGCTTCATTGACATCATA
1 CCTGAACCCCTGACCCAGGGGTCATGAATTTCACAATTTTAGTAGAGGGCTTCATGGACATCATA
989611 A
66 A
989612 CTATGCAACC
Statistics
Matches: 506, Mismatches: 56, Indels: 18
0.87 0.10 0.03
Matches are distributed among these distances:
165 1 0.00
166 1 0.00
167 47 0.09
168 258 0.51
169 63 0.12
170 136 0.27
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (169 bp):
CCTGAACCCCTGACCCAGGGGTCATGAATTTCACAATTTTAGTAGAGGGCTTCATGGACATCATA
ATCATGCATTTAGGTTTTTAACAAATATATATGGGAGTAGAGAAGAAGATTTTCTAAGATTTAAT
ACATTTTTACTATATGGCCATATTGGCCCCACCCTAGAG
Found at i:989577 original size:338 final size:336
Alignment explanation
Indices: 988875--989612 Score: 1043
Period size: 338 Copynumber: 2.2 Consensus size: 336
988865 ACCATGTCCT
* * * * ** *
988875 GAACCCCAGACCCAGGGGCCATGAATTTCACAATTTAGGTA-AAGGAGTTAGTGGACATCATAAC
1 GAACCCCTGACCCAGCGACCATGAATTTCACAATTTTGGTAGAAGGCCTCA-TGGACATCATAAC
* * * * ** ** * * * * *
988939 CATGTATTCAGTTTTTTGCCCACATGTGTGAGAGTAGAGAAGAAGATTTTTTAAGATTTAAAACA
65 CAAGCATTTAGTTATTAACAAATATATATGGGAGTAGAGAAGAAGATTTTCTAAGATTTAAAACA
*
989004 TTTTTACTAAATGGCCATATTGAGCCCACCCTAGAGCCTGAACCCCTAAAAAGGGGTCATGAATT
130 TTTTTACTAAATGGCCATATTGAGCCCACCCTAGAGCCTGAAACCCTAAAAAGGGGTCATGAATT
* * * *
989069 TCACAATTTTAGTAGAGGCTTTCATGGACATCATAATCATGCATTTAGTTTTTTAACAAATATAT
195 TCACAATTTAAATAGAGGCTTTCATGGACATCATAATCATGCATTTAGGTTTTTAAAAAATATAT
989134 ATGGGAGTAGAGAAGAAGATTTTCTAAGATTTAATACAGTTTTACTATATGGCCATATTGGCCCC
260 ATGGGAGTAGAGAAGAAGATTTTCTAAGATTTAATACAGTTTTACTATATGGCCATATTGGCCCC
*
989199 ACCCTAGAGCCT
325 ACCCTAGAGCCA
* ** *
989211 GAACCCCTGACCCAGGGGTCATGAATTTCACAATTTTGGTAGAGGGCCTCATGGACATCATAACC
1 GAACCCCTGACCCAGCGACCATGAATTTCACAATTTTGGTAGAAGGCCTCATGGACATCATAACC
989276 AAGCATTTAGTTATTAACAAATATATATGGGAGTAGAGAAGAAGATTTTCTAAGA-TTAAATACA
66 AAGCATTTAGTTATTAACAAATATATATGGGAGTAGAGAAGAAGATTTTCTAAGATTTAAA-ACA
* * ***
989340 TTTTTACTATATGGCCATATTG-GCCCCATCCTAGAGCCTGAAACCCTGACCCAGGGGTCATGAA
130 TTTTTACTAAATGGCCATATTGAG-CCCACCCTAGAGCCTGAAACCCT-AAAAAGGGGTCATGAA
989404 TTTCACAATTTAAATAGAGGGC-TTCATGGACATCATAATCATGCATTTAGGTTTTTAAAAATAT
193 TTTCACAATTTAAATAGA-GGCTTTCATGGACATCATAATCATGCATTTAGGTTTTTAAAAA-AT
* *
989468 ATATATGGTAGTAGAGAAGAAGATTTTCTAAGATTTAATACATTTTTACTATATGGCCATATTGG
256 ATATATGGGAGTAGAGAAGAAGATTTTCTAAGATTTAATACAGTTTTACTATATGGCCATATTGG
989533 CCCCACCCTAGAGCCA
321 CCCCACCCTAGAGCCA
* *
989549 GAACCCCTGACCCAGCGACCATGAATTTCACAATTTTGGTAGAAGGCTTCATTGACATCATAAC
1 GAACCCCTGACCCAGCGACCATGAATTTCACAATTTTGGTAGAAGGCCTCATGGACATCATAAC
989613 TATGCAACCA
Statistics
Matches: 357, Mismatches: 39, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
335 6 0.02
336 139 0.39
337 71 0.20
338 141 0.39
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (336 bp):
GAACCCCTGACCCAGCGACCATGAATTTCACAATTTTGGTAGAAGGCCTCATGGACATCATAACC
AAGCATTTAGTTATTAACAAATATATATGGGAGTAGAGAAGAAGATTTTCTAAGATTTAAAACAT
TTTTACTAAATGGCCATATTGAGCCCACCCTAGAGCCTGAAACCCTAAAAAGGGGTCATGAATTT
CACAATTTAAATAGAGGCTTTCATGGACATCATAATCATGCATTTAGGTTTTTAAAAAATATATA
TGGGAGTAGAGAAGAAGATTTTCTAAGATTTAATACAGTTTTACTATATGGCCATATTGGCCCCA
CCCTAGAGCCA
Found at i:1024974 original size:20 final size:20
Alignment explanation
Indices: 1024901--1025013 Score: 65
Period size: 20 Copynumber: 5.6 Consensus size: 20
1024891 CTGAGAAACC
*
1024901 ATACAAATTAAACATTAT-ACA
1 ATACAAATGAAA-ATT-TGACA
* *
1024922 ATACAAATGGAAA-TTGTATA
1 ATACAAATGAAAATTTG-ACA
** *
1024942 ATACAAACAAAAATTTGACC
1 ATACAAATGAAAATTTGACA
1024962 ATACAAATGAAAATATT--CA
1 ATACAAATGAAAAT-TTGACA
*
1024981 ATATAAATGTAAAATTAT-ACA
1 ATACAAATG-AAAATT-TGACA
*
1025002 ATAAAAATGAAA
1 ATACAAATGAAA
1025014 TGTATACAAT
Statistics
Matches: 72, Mismatches: 13, Indels: 15
0.72 0.13 0.15
Matches are distributed among these distances:
18 1 0.01
19 11 0.15
20 35 0.49
21 25 0.35
ACGTcount: A:0.58, C:0.10, G:0.06, T:0.27
Consensus pattern (20 bp):
ATACAAATGAAAATTTGACA
Found at i:1025014 original size:19 final size:19
Alignment explanation
Indices: 1024966--1025024 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 19
1024956 TTGACCATAC
* * *
1024966 AAATGAAAATATTCAATAT
1 AAATGAAATTATACAATAA
1024985 AAATGTAAAATTATACAATAA
1 AAATG--AAATTATACAATAA
1025006 AAATGAAATGTATACAATA
1 AAATGAAAT-TATACAATA
1025025 CTAAAGAGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 9 0.26
20 9 0.26
21 16 0.47
ACGTcount: A:0.59, C:0.05, G:0.07, T:0.29
Consensus pattern (19 bp):
AAATGAAATTATACAATAA
Found at i:1028177 original size:36 final size:36
Alignment explanation
Indices: 1028124--1029827 Score: 2053
Period size: 36 Copynumber: 47.1 Consensus size: 36
1028114 AGGCCTGTGC
* * *
1028124 TGCATGTTATTGCTCGCTTCTTCTGTACGGACAGAA
1 TGCATGTTATTGGTCGCTTCTACTGTACGTACAGAA
* * *
1028160 TGCTTGTTATTGGTCGCTTCTTCTGTACGTACATAA
1 TGCATGTTATTGGTCGCTTCTACTGTACGTACAGAA
* * *
1028196 TGCATGTTAATGGTCGCTTCTTCTGTACGTACATAA
1 TGCATGTTATTGGTCGCTTCTACTGTACGTACAGAA
* *
1028232 TGCATGTTATTGGTCGCTTCTCCTGTACGTACATAA
1 TGCATGTTATTGGTCGCTTCTACTGTACGTACAGAA
*
1028268 TGCATGTTATTGGTCGCTTCTCCTGTACGTACAGAA
1 TGCATGTTATTGGTCGCTTCTACTGTACGTACAGAA
* * ** * *
1028304 TGCATGTTAATGGTCGCTTCTTCTGTATATACTGAT
1 TGCATGTTATTGGTCGCTTCTACTGTACGTACAGAA
* ** * *
1028340 TGCACGTTAACGGTCGTTTCTCCTGTACGTACAGAA
1 TGCATGTTATTGGTCGCTTCTACTGTACGTACAGAA
* * * *
1028376 TGCATGTTTCATATGAATTG-TTCGCTTCT-TCCGTACAGAA
1 TGCATG-TT-AT-TG-GTCGCTT--CTACTGTACGTACAGAA
* * *
1028416 TACTTGGTATTGGTCGCTTCTACTGTACGTACAGAA
1 TGCATGTTATTGGTCGCTTCTACTGTACGTACAGAA
* * * *
1028452 TGCACGTTAATGGTCGCTTCTTCTGTATGTACAGAA
1 TGCATGTTATTGGTCGCTTCTACTGTACGTACAGAA
** ** * *
1028488 TGCACATTAACGGTAGCTTCTCCTGTACGTACAGAA
1 TGCATGTTATTGGTCGCTTCTACTGTACGTACAGAA
* * * *
1028524 TGCATGTTTCATATGTATTG-TTCGCTTCT-TCCGTACAGAA
1 TGCATG-TT-AT-TG-GTCGCTT--CTACTGTACGTACAGAA
* * *
1028564 TACTTGTTATTGGTCGCTTCTACTGTTCGTACAGAA
1 TGCATGTTATTGGTCGCTTCTACTGTACGTACAGAA
* * *
1028600 TGCACGTTAACT-GTCGCTTCTTCTGTACGTACAGAA
1 TGCATGTT-ATTGGTCGCTTCTACTGTACGTACAGAA
* *
1028636 TGCATGGTATTGGTCGCTTCTCCTGTACGTACAGAA
1 TGCATGTTATTGGTCGCTTCTACTGTACGTACAGAA
* * *
1028672 TGCACGTTAACT-GTCGCATCTACTGTACGTACAGAA
1 TGCATGTT-ATTGGTCGCTTCTACTGTACGTACAGAA
*
1028708 TGCATGGTATTGGTCGCTTCTACTGTACGTACAGAA
1 TGCATGTTATTGGTCGCTTCTACTGTACGTACAGAA
*
1028744 TGCTTGTTATTGGTCGCTTCTACTGTACGTACAGAA
1 TGCATGTTATTGGTCGCTTCTACTGTACGTACAGAA
* *
1028780 TGCATGTTAACT-GTTGCTTCTACTGTACGTACAGAA
1 TGCATGTT-ATTGGTCGCTTCTACTGTACGTACAGAA
*
1028816 TGCATGGTATTGGTCGCTTCTACTGTACGTACAGAA
1 TGCATGTTATTGGTCGCTTCTACTGTACGTACAGAA
* * * *
1028852 TGCTTGTTATT-TTCG-TCTCAATATCATCTATG-A-A-AA
1 TGCATGTTATTGGTCGCT-TC--TA-C-TGTACGTACAGAA
*
1028888 -GCATCGTTAACT-GTCGCTTCTACTGTACGTACAGAA
1 TGCAT-GTT-ATTGGTCGCTTCTACTGTACGTACAGAA
*
1028924 TGCATGGTATTGGTCGCTTCTACTGTACGTACAGAA
1 TGCATGTTATTGGTCGCTTCTACTGTACGTACAGAA
* *
1028960 TGCTTGTTATTGGTCGCTTCTACTGTACTTACAGAA
1 TGCATGTTATTGGTCGCTTCTACTGTACGTACAGAA
* *
1028996 TGCATGTTAATGGTCGCTTCTACTGTACGTACAGAT
1 TGCATGTTATTGGTCGCTTCTACTGTACGTACAGAA
* *
1029032 TGCTTGTTATTGGTCGCTTCTACTGTACGTACAGAT
1 TGCATGTTATTGGTCGCTTCTACTGTACGTACAGAA
*
1029068 TGCATGTT-TACGGTCGCTTCTACTGTACGTACAGAA
1 TGCATGTTAT-TGGTCGCTTCTACTGTACGTACAGAA
*
1029104 TGCATGTT-TACGGTCGCTTCTACTGTACGTACAGAA
1 TGCATGTTAT-TGGTCGCTTCTACTGTACGTACAGAA
*
1029140 TGCTTGTTATTGGTCGCTTCTACTGTACGTACAGAA
1 TGCATGTTATTGGTCGCTTCTACTGTACGTACAGAA
*
1029176 TGCTTGTTATTGGTCGCTTCTACTGTACGTACAGAA
1 TGCATGTTATTGGTCGCTTCTACTGTACGTACAGAA
*
1029212 TGCATGTT-TACGGTCGCTTCTACTGTACGTACAGAA
1 TGCATGTTAT-TGGTCGCTTCTACTGTACGTACAGAA
* *
1029248 TGCATGTT-TACGGTCGCTTCTACTGTACGTACAGAT
1 TGCATGTTAT-TGGTCGCTTCTACTGTACGTACAGAA
*
1029284 TGCTTGTTATTGGTCGCTTCTACTGTACGTACAGAA
1 TGCATGTTATTGGTCGCTTCTACTGTACGTACAGAA
* ** *
1029320 TGCACGTTAACGGTCGCTTCTACTGTACGTACAGAT
1 TGCATGTTATTGGTCGCTTCTACTGTACGTACAGAA
*
1029356 TGCTTGTTATTGGTCGCTTCTACTGTACGTACAGAA
1 TGCATGTTATTGGTCGCTTCTACTGTACGTACAGAA
**
1029392 TGCATGTTAACGGTCGCTTCTACTGTACGTACAGAA
1 TGCATGTTATTGGTCGCTTCTACTGTACGTACAGAA
*
1029428 TGCTTGTTATTGGTCGCTTCTACTGTACGTACAGAA
1 TGCATGTTATTGGTCGCTTCTACTGTACGTACAGAA
*
1029464 TGCATGTTAATGGTCGCTTCTACTGTACGTACAGAA
1 TGCATGTTATTGGTCGCTTCTACTGTACGTACAGAA
* *
1029500 TGCTTGTTAATGGTCGCTTCTACTGTACGTACAGAA
1 TGCATGTTATTGGTCGCTTCTACTGTACGTACAGAA
*
1029536 TGCATGTTAATGGTCGCTTCTACTGTACGTACAGAA
1 TGCATGTTATTGGTCGCTTCTACTGTACGTACAGAA
*
1029572 TGCTTGTTATTGGTCGCTTCTACTGTACGTACAGAA
1 TGCATGTTATTGGTCGCTTCTACTGTACGTACAGAA
** *
1029608 TGCATGTTAACGGTCGCTTCTACTGTTCGTACAGAA
1 TGCATGTTATTGGTCGCTTCTACTGTACGTACAGAA
* *
1029644 TGCACGTTAACT-GTCGCTTCTACTGTACGTACAGAA
1 TGCATGTT-ATTGGTCGCTTCTACTGTACGTACAGAA
* *
1029680 TGCATGTTAATGGTCGCTTCTACTGTACGCACAGAA
1 TGCATGTTATTGGTCGCTTCTACTGTACGTACAGAA
* *
1029716 TGCTTGTTATTCGTCGCTTCTACTGTACGTACAGAA
1 TGCATGTTATTGGTCGCTTCTACTGTACGTACAGAA
* * * * *
1029752 TGCACGTTAACT-GTTGCTTCTTCTGTATGTACAGAA
1 TGCATGTT-ATTGGTCGCTTCTACTGTACGTACAGAA
1029788 TGCATGTTATTGGTCGCTTCTACTGTACGTACAGAA
1 TGCATGTTATTGGTCGCTTCTACTGTACGTACAGAA
1029824 TGCA
1 TGCA
1029828 ACATCAGTCA
Statistics
Matches: 1455, Mismatches: 170, Indels: 86
0.85 0.10 0.05
Matches are distributed among these distances:
33 4 0.00
34 3 0.00
35 33 0.02
36 1316 0.90
37 37 0.03
38 9 0.01
39 13 0.01
40 32 0.02
41 8 0.01
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (36 bp):
TGCATGTTATTGGTCGCTTCTACTGTACGTACAGAA
Found at i:1030729 original size:1 final size:1
Alignment explanation
Indices: 1030723--1030747 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
1030713 TATTTTGCCA
1030723 CCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCC
1030748 TCCTGTCCGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:1049030 original size:2 final size:2
Alignment explanation
Indices: 1049023--1049050 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1049013 TGTGTTAATC
1049023 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1049051 GATTTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1067518 original size:2 final size:2
Alignment explanation
Indices: 1067511--1067563 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
1067501 NNNNNNNNNN
1067511 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1067553 CT CT CT CT CT C
1 CT CT CT CT CT C
1067564 CACACACACA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:1067569 original size:2 final size:2
Alignment explanation
Indices: 1067564--1067594 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1067554 TCTCTCTCTC
1067564 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
1067595 TAAAACTCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:1070641 original size:2 final size:2
Alignment explanation
Indices: 1070636--1070681 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
1070626 AAAAACACAC
1070636 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1070678 GT GT
1 GT GT
1070682 TTTAAAACCA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:1074530 original size:2 final size:2
Alignment explanation
Indices: 1074523--1074551 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1074513 AGAGACTCGC
1074523 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1074552 TGTCTCAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Done.