genome.fa.s1.2.7.7.80.10.50.1000.7.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

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: Scaffold1
Parameters: 2 7 7 80 10 50 1000
Length:  8764944

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   

This is table  7  of  52  ( 6211 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)
1085706--1085772	12	5.9	11	75	18	57	10	49	1	38	1.46
1085701--1085782	33	2.5	33	89	0	119	9	45	1	43	1.44
1087146--1087653	251	2.0	252	93	1	867	23	29	14	32	1.94
1091926--1092006	18	4.3	19	75	14	62	8	46	2	41	1.48
1091947--1092006	9	6.3	9	79	11	66	10	45	1	43	1.47
1091950--1092038	21	4.2	21	76	12	83	10	41	1	47	1.44
1091946--1092006	30	2.0	30	93	0	104	9	45	1	42	1.47
1097629--1097689	9	7.1	9	74	10	65	13	44	0	42	1.43
1097634--1097695	12	5.7	12	78	18	57	12	46	0	40	1.42
1097601--1097719	42	2.8	42	92	0	193	11	45	0	42	1.40
1098442--1100146	859	2.0	853	93	1	2952	35	22	14	27	1.93
1104327--1104389	28	2.2	29	86	8	94	63	7	15	12	1.51
1104446--1104475	11	2.6	11	94	5	51	0	10	0	90	0.47
1105154--1105264	58	1.9	58	88	0	168	27	20	21	29	1.98
1109484--1109559	12	6.9	11	75	15	52	39	2	48	9	1.49
1109483--1109568	24	3.8	24	72	17	85	41	2	45	10	1.51
1109474--1109592	42	2.8	42	92	0	193	42	2	46	8	1.47
1117502--1117577	12	6.9	11	75	15	52	39	2	48	9	1.49
1117501--1117586	24	3.8	24	72	17	85	41	2	45	10	1.51
1117492--1117610	42	2.8	42	92	0	193	42	2	46	8	1.47
1123283--1123364	9	9.8	9	69	15	68	13	43	0	42	1.43
1123288--1123364	24	3.5	24	76	20	94	12	45	0	41	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1123255--1123373	42	2.8	42	90	0	175	10	44	1	42	1.49
1130204--1130310	42	2.5	42	93	0	187	9	47	2	40	1.50
1130237--1130307	12	6.5	11	76	15	51	9	47	2	39	1.51
1130219--1130289	18	3.6	18	69	20	52	9	43	2	43	1.52
1130204--1130322	42	2.8	40	82	9	148	10	45	2	42	1.51
1133628--1133919	151	1.9	155	81	6	353	35	12	19	32	1.89
1135107--1135199	47	2.0	47	97	0	177	35	17	22	24	1.95
1138373--1138448	12	6.9	11	75	15	52	39	2	48	9	1.49
1138372--1138457	24	3.8	24	72	17	85	41	2	45	10	1.51
1138363--1138481	42	2.8	42	90	0	184	43	2	45	8	1.47
1145183--1145258	12	6.9	11	75	15	52	39	2	48	9	1.49
1145182--1145267	24	3.8	24	72	17	85	41	2	45	10	1.51
1145173--1145291	42	2.8	42	92	0	193	42	2	46	8	1.47
1151661--1152284	79	7.9	79	82	3	684	27	23	13	36	1.92
1151678--1152284	157	3.9	155	83	4	664	27	22	13	36	1.92
1156423--1156621	34	5.7	37	77	9	107	32	24	17	25	1.97
1156492--1156608	34	3.4	33	82	3	135	30	25	16	27	1.96
1156592--1156666	28	2.6	30	81	14	86	29	28	13	29	1.94
1157632--1157705	20	3.7	20	75	10	60	37	14	13	33	1.86
1161037--1161257	103	2.1	102	82	2	280	36	12	23	28	1.91
1162877--1163377	161	3.1	161	82	6	553	52	8	11	26	1.66
1166506--1166572	31	2.2	31	88	0	62	23	19	11	44	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1166596--1167345	62	12.3	62	75	9	461	22	18	16	42	1.89
1166600--1166841	64	3.9	63	83	5	276	20	18	17	43	1.88
1166591--1167393	31	26.1	31	76	9	371	23	19	16	41	1.90
1166824--1166887	23	2.8	23	90	0	92	29	21	10	37	1.88
1166635--1167074	233	1.9	233	81	6	532	22	20	16	41	1.91
1167915--1167959	20	2.2	20	84	4	54	26	15	24	33	1.95
1168017--1168076	20	2.9	21	82	5	86	30	13	16	40	1.87
1167998--1168194	93	2.1	93	94	0	340	33	14	15	36	1.88
1168110--1168166	20	2.8	20	89	7	80	35	14	14	36	1.86
1172465--1173059	167	3.6	167	87	3	592	29	11	8	50	1.67
1172614--1173059	168	2.7	167	92	1	698	28	10	8	52	1.66
1173374--1173468	50	1.9	50	86	0	136	27	10	14	47	1.77
1173399--1173511	52	2.2	50	85	3	145	27	15	14	43	1.85
1176546--1176597	26	2.0	27	88	3	79	34	26	19	19	1.95
1177470--1177506	19	1.9	19	89	10	58	78	0	21	0	0.75
1192625--1192663	9	4.3	9	83	0	51	79	10	2	7	1.02
1193819--1193881	26	2.4	26	79	10	67	34	12	17	34	1.88
1193901--1194272	28	13.0	28	84	4	444	29	28	18	23	1.98
1193901--1194272	57	6.5	55	83	6	406	29	28	18	23	1.98
1193901--1194272	114	3.3	111	83	4	449	29	28	18	23	1.98
1195664--1195714	20	2.5	20	100	0	102	19	19	9	50	1.75
1200406--1208491	42	191.7	42	69	11	1628	36	16	27	19	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1200328--1208592	127	65.3	127	69	10	1970	36	16	27	19	1.93
1200806--1200905	41	2.4	42	77	3	112	39	14	26	21	1.91
1201166--1201266	41	2.4	42	83	1	132	29	15	29	24	1.96
1201281--1201362	43	1.9	43	82	5	103	45	17	24	13	1.84
1201639--1201733	41	2.3	41	82	12	122	36	20	24	18	1.95
1201458--1202319	211	4.1	211	74	7	517	35	15	27	20	1.94
1201787--1208592	253	26.9	252	70	10	1073	36	16	27	19	1.93
1200392--1207614	169	42.9	170	70	10	1098	36	16	27	19	1.93
1202159--1203224	547	1.9	548	87	2	1559	36	15	27	20	1.93
1202619--1203076	211	2.2	211	79	3	467	37	15	28	18	1.92
1206428--1207092	211	3.1	208	74	9	524	36	17	27	19	1.94
1208086--1208580	42	11.8	42	74	5	311	34	17	29	18	1.94
1208166--1208592	211	2.0	211	78	2	446	35	17	28	18	1.94
1209353--1209378	13	2.0	13	100	0	52	30	15	15	38	1.88
1209333--1209396	32	2.0	33	90	3	103	28	14	15	42	1.86
1209772--1214421	42	110.3	42	71	7	1560	36	16	27	19	1.93
1209796--1214216	127	35.0	127	69	10	445	35	16	27	19	1.93
1209776--1210943	169	6.9	167	73	8	661	36	15	28	20	1.92
1210159--1213966	169	22.6	167	71	7	1146	35	16	27	19	1.94
1210556--1211100	253	2.2	253	80	4	589	36	16	27	19	1.93
1210643--1212277	673	2.4	671	81	3	1864	35	16	27	20	1.94
1213649--1214181	253	2.1	255	80	3	592	35	16	29	18	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1214990--1215045	20	2.8	20	80	0	67	35	10	12	41	1.78
1214959--1215095	71	1.9	72	83	4	179	30	15	12	41	1.84
1228617--1228681	27	2.3	29	82	10	82	1	21	0	76	0.86
1228617--1228701	28	3.0	29	81	6	102	2	24	0	72	0.96
1233128--1233278	51	3.2	49	72	18	158	41	10	18	29	1.84
1233176--1233249	20	3.7	19	82	8	94	41	10	14	32	1.81
1235602--1235626	13	1.9	13	100	0	50	32	16	16	36	1.90
1235582--1235649	33	2.1	33	89	8	104	36	16	14	32	1.89
1237390--1237471	44	1.9	42	82	5	101	40	15	24	19	1.91
1237870--1237924	21	2.7	20	86	5	74	40	14	14	30	1.86
1237914--1238050	53	2.6	53	95	1	238	36	20	16	26	1.94
1238075--1238105	10	3.1	10	90	0	53	22	29	6	41	1.78
1238083--1238156	32	2.4	29	86	6	94	25	27	8	39	1.84
1238125--1238213	20	4.1	22	79	11	96	28	23	8	39	1.85
1238092--1238213	51	2.5	50	85	11	157	27	23	9	39	1.86
1238179--1238206	14	2.0	14	100	0	56	28	21	7	42	1.79
1238201--1238239	13	3.0	13	92	0	69	30	15	17	35	1.91
1239144--1239277	28	4.8	28	79	3	153	19	18	35	26	1.95
1239114--1239277	56	2.9	56	87	5	231	21	19	34	25	1.96
1239133--1239380	56	4.4	56	83	3	169	22	20	29	26	1.99
1239156--1239314	84	1.9	84	80	7	189	20	20	32	26	1.97
1239245--1239386	28	5.1	28	78	1	151	25	20	26	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1254655--1254788	70	1.9	70	86	3	189	41	11	16	31	1.83
1255507--1255604	33	3.0	33	88	5	146	30	16	15	37	1.89
1255635--1255725	20	4.6	19	73	13	69	36	13	17	32	1.88
1255634--1255725	39	2.3	40	81	9	100	35	14	17	32	1.90
1264385--1264411	13	2.1	13	100	0	54	40	14	14	29	1.86
1266380--1266518	51	2.7	52	82	3	174	30	15	12	41	1.84
1271181--1271215	13	2.8	12	91	4	52	34	0	8	57	1.29
1279335--1279387	20	2.6	21	88	11	83	39	13	18	28	1.88
1279409--1279487	40	2.0	40	87	5	115	35	12	11	40	1.79
1283870--1283921	20	2.6	20	90	0	77	42	9	13	34	1.77

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52