oyster.v9_M.fa.s21.2.7.7.80.10.50.500.3.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.04

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: scaffold1599
Parameters: 2 7 7 80 10 50 500
Length:  1324113

Tables:   1   2   3   4   

This is table  3  of  4  ( 404 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
900919--900964	2	23.0	2	95	0	83	0	47	2	50	1.13
903558--903599	15	2.8	16	89	7	61	80	0	16	2	0.81
903559--903599	17	2.5	16	84	15	57	80	0	17	2	0.82
913095--913182	4	22.0	4	100	0	176	50	0	25	25	1.50
917598--917638	2	20.5	2	100	0	82	48	0	51	0	1.00
918019--918052	2	17.0	2	100	0	68	50	0	50	0	1.00
919171--919207	16	2.3	16	90	9	58	27	0	8	64	1.21
923746--923787	21	2.0	21	100	0	84	19	28	9	42	1.82
928135--928405	36	7.5	36	81	2	260	23	18	36	21	1.95
928422--928450	15	1.9	15	100	0	58	27	6	37	27	1.82
928775--928976	60	3.4	60	94	0	341	28	33	19	18	1.96
928769--929005	60	4.0	60	88	2	242	28	32	18	20	1.96
928775--929007	120	1.9	120	86	0	331	28	31	18	21	1.97
937879--937927	2	24.5	2	100	0	98	48	0	51	0	1.00
940208--940302	47	2.0	49	87	4	140	43	10	12	33	1.77
946998--947239	41	5.7	42	80	9	226	33	20	19	26	1.96
947002--947243	62	3.8	62	78	10	233	33	21	19	26	1.96
946998--947239	21	11.5	21	79	8	233	33	20	19	26	1.96
947002--947243	128	1.9	128	84	3	326	33	21	19	26	1.96
947794--947823	15	1.9	16	93	6	53	43	0	13	43	1.43
948049--948204	21	7.6	21	73	15	112	25	21	23	30	1.99
948450--948478	11	2.6	11	100	0	58	86	6	6	0	0.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
951680--951735	2	28.0	2	100	0	112	50	0	50	0	1.00
965344--965566	21	10.6	21	71	7	175	26	20	21	32	1.97
965802--965839	17	2.2	17	86	9	51	84	7	5	2	0.86
973022--973065	9	5.1	9	78	10	56	54	18	2	25	1.55
973013--973063	8	6.4	8	74	17	52	56	15	1	25	1.50
973022--973065	17	2.6	17	85	0	70	54	18	2	25	1.55
988223--988332	24	4.7	24	70	15	68	39	18	15	27	1.90
988468--988530	24	2.6	24	92	0	108	47	17	11	23	1.79
1001946--1002000	23	2.4	23	93	0	92	20	27	16	36	1.93
1002323--1002474	13	11.2	13	79	13	164	17	7	35	40	1.77
1002335--1002395	32	1.9	32	86	6	88	14	8	37	39	1.76
1002323--1002474	39	3.7	39	86	10	191	17	7	35	40	1.77
1043360--1043481	61	2.0	61	88	3	183	44	13	9	31	1.77
1043762--1043792	15	2.1	15	93	0	53	38	3	6	51	1.44
1047281--1047315	18	1.9	18	94	0	61	45	5	5	42	1.51
1053658--1053695	16	2.5	15	91	4	58	2	28	23	44	1.67
1053869--1054715	166	5.1	166	90	2	1299	32	16	24	26	1.96
1053869--1054715	333	2.5	332	91	2	1335	32	16	24	26	1.96
1056854--1056908	27	2.0	27	100	0	110	29	7	16	47	1.73
1057650--1057682	1	33.0	1	100	0	66	0	100	0	0	0.00
1060872--1060936	2	32.5	2	100	0	130	49	0	50	0	1.00
1062645--1062682	16	2.4	16	83	16	53	31	13	21	34	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1063626--1063686	2	30.5	2	100	0	122	50	0	49	0	1.00
1064032--1064091	29	2.1	29	96	0	111	40	13	6	40	1.71
1065718--1065777	29	2.1	29	96	0	111	40	13	6	40	1.71
1067370--1067539	21	8.1	21	77	5	164	35	14	17	32	1.90
1067368--1067539	62	2.7	64	86	4	233	34	13	17	33	1.89
1067370--1067539	43	4.0	42	75	4	164	35	14	17	32	1.90
1068508--1068722	21	10.2	21	75	5	191	31	16	14	37	1.89
1072514--1072768	131	1.9	131	81	4	307	34	14	14	36	1.87
1080119--1080265	8	19.4	7	69	21	68	31	15	42	10	1.80
1080125--1080205	30	2.7	30	83	11	87	30	16	43	9	1.80
1080141--1080259	22	5.3	22	76	13	61	31	15	42	9	1.79
1080178--1080303	21	5.7	22	75	9	94	31	17	39	10	1.83
1080170--1080314	68	2.2	67	87	4	213	32	17	40	8	1.80
1080329--1080384	14	3.9	14	78	21	55	10	44	14	30	1.79
1080331--1080384	22	2.5	22	96	0	99	11	44	14	29	1.80
1080329--1080384	8	7.9	7	78	21	55	10	44	14	30	1.79
1086369--1086430	22	2.8	22	87	0	88	29	14	45	11	1.80
1086445--1086561	8	16.1	7	72	21	73	9	43	17	29	1.80
1086445--1086561	14	8.1	13	72	20	65	9	43	17	29	1.80
1086446--1086559	22	5.2	22	80	10	126	8	42	17	30	1.80
1088280--1088310	16	1.9	16	93	0	53	35	25	38	0	1.56
1092233--1094306	166	12.6	166	85	4	2416	28	22	14	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1096786--1096870	12	7.1	12	93	0	134	40	11	9	38	1.74
1105630--1105683	24	2.3	23	84	9	72	27	29	24	18	1.98
1106812--1106862	14	3.6	14	84	10	77	35	15	0	49	1.45
1113991--1114044	19	2.8	19	71	0	63	25	20	16	37	1.93
1115130--1115171	2	21.0	2	100	0	84	50	0	0	50	1.00
1119341--1119372	2	16.0	2	100	0	64	0	50	0	50	1.00
1120741--1120765	1	25.0	1	100	0	50	0	100	0	0	0.00
1127030--1127067	20	1.9	20	89	10	60	34	7	13	44	1.72
1137636--1137681	2	23.0	2	100	0	92	50	0	0	50	1.00
1137810--1137947	49	2.8	49	88	2	197	47	16	12	23	1.81
1138164--1138193	2	15.0	2	100	0	60	50	0	50	0	1.00
1139033--1139642	204	3.0	204	94	2	1095	34	16	23	25	1.95
1142112--1142166	2	27.5	2	100	0	110	50	0	49	0	1.00
1145107--1145152	2	23.0	2	100	0	92	0	50	0	50	1.00
1145330--1145360	2	15.5	2	93	0	53	0	51	0	48	1.00
1145120--1145538	210	2.0	209	98	0	793	29	21	8	40	1.83
1146639--1146690	21	2.5	21	90	9	88	26	17	17	38	1.92
1146810--1146929	21	5.7	21	74	3	98	39	18	14	28	1.89
1146838--1146882	22	2.0	22	91	8	74	46	8	13	31	1.74
1146967--1147060	21	4.5	21	76	0	80	27	14	14	42	1.86
1146967--1147060	42	2.2	42	84	0	116	27	14	14	42	1.86
1147160--1147278	21	5.7	21	75	4	105	42	15	13	28	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1147152--1147278	42	3.0	42	89	0	182	42	15	14	27	1.86
1147327--1147468	21	6.8	21	76	1	142	27	13	18	40	1.88
1147568--1147616	21	2.4	20	86	10	71	42	16	14	26	1.86
1147682--1147753	21	3.4	21	82	0	90	29	11	18	41	1.84
1147818--1147869	21	2.5	21	93	0	86	44	17	13	25	1.85
1151220--1151329	55	2.0	55	96	0	202	20	20	33	24	1.97
1154573--1154630	11	5.5	11	78	17	61	82	15	0	1	0.74
1154572--1154630	22	2.7	22	84	5	75	83	15	0	1	0.74
1156136--1156171	2	18.5	2	94	5	65	52	47	0	0	1.00
1159351--1159375	12	2.1	12	100	0	50	84	16	0	0	0.63
1161297--1161357	30	2.0	30	93	0	104	36	16	21	26	1.94
1161332--1161374	18	2.4	18	88	7	61	41	13	16	27	1.86
1161348--1161496	18	8.1	18	72	10	104	41	10	18	29	1.84
1164423--1164454	17	1.9	17	93	6	57	62	0	15	21	1.32
1164491--1164526	2	18.0	2	100	0	72	50	0	50	0	1.00
1165102--1165135	2	17.0	2	100	0	68	0	50	0	50	1.00
1175378--1175845	156	3.0	156	99	0	918	26	25	15	32	1.95
1182291--1182378	25	3.6	25	64	23	62	38	20	7	32	1.82
1182289--1182394	46	2.2	47	80	9	117	34	21	9	33	1.86
1182357--1182411	24	2.2	24	77	6	65	36	23	10	29	1.89
1182441--1182510	26	2.8	26	80	4	72	37	20	8	34	1.83
1182594--1182725	26	5.2	26	86	5	171	25	21	18	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1182862--1182933	2	36.5	2	77	2	65	50	6	41	1	1.38
1183947--1184065	34	3.3	36	80	9	136	14	52	4	29	1.60
1184032--1184127	36	2.5	36	81	11	104	14	52	6	27	1.66
1184169--1184848	28	24.8	28	62	15	134	13	51	5	29	1.63
1184333--1184377	13	3.3	13	79	11	54	6	57	6	28	1.50
1184340--1184596	137	1.9	134	91	2	415	14	52	5	28	1.62
1184586--1184631	19	2.6	18	83	10	58	13	50	4	32	1.61
1184639--1184919	134	2.1	132	84	5	359	12	51	6	29	1.63
1185034--1185128	13	7.5	13	73	4	68	13	56	3	26	1.52
1185028--1185128	39	2.6	38	78	9	116	12	56	3	26	1.54

Tables:   1   2   3   4