genome.fa.s10.2.7.7.80.10.50.1000.8.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: Scaffold10
Parameters: 2 7 7 80 10 50 1000
Length:  3842500

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   

This is table  8  of  25  ( 2970 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)
1088764--1088812	10	4.5	11	82	15	57	30	0	0	69	0.89
1089569--1089615	23	2.1	23	88	4	69	29	2	0	68	1.02
1092431--1092459	14	2.0	15	93	6	51	37	0	0	62	0.96
1092465--1092521	26	2.2	25	81	9	62	61	1	1	35	1.17
1094355--1094420	21	3.2	21	73	16	66	42	0	0	57	0.98
1094365--1094426	5	12.2	5	75	14	56	38	0	0	61	0.96
1094365--1094428	11	5.7	11	77	17	69	39	0	0	60	0.97
1094365--1094450	16	5.6	16	73	13	63	43	0	0	56	0.99
1094364--1094416	12	4.4	12	79	20	58	37	0	0	62	0.96
1094608--1094678	21	3.4	21	69	16	58	46	0	2	50	1.16
1095340--1095378	20	2.0	20	85	10	53	61	2	0	35	1.10
1096181--1096258	30	2.6	31	77	18	85	51	1	0	47	1.09
1096214--1096267	23	2.3	24	81	12	60	51	3	0	44	1.19
1096873--1096910	20	2.0	20	85	10	53	10	7	0	81	0.87
1097950--1098132	34	5.2	36	73	19	129	42	1	2	54	1.22
1097982--1098135	70	2.2	68	84	11	190	43	0	1	53	1.16
1098000--1098131	35	4.0	31	76	16	115	42	0	2	54	1.18
1100459--1100490	11	2.8	12	86	13	50	68	0	0	31	0.90
1100802--1100844	21	2.1	19	83	12	50	58	0	0	41	0.98
1101002--1101041	16	2.6	16	88	4	55	62	2	0	35	1.09
1101007--1101053	21	2.3	20	82	10	60	63	2	0	34	1.06
1101974--1102019	22	2.1	22	100	0	92	26	21	8	43	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1102426--1102451	2	13.0	2	100	0	52	50	0	0	50	1.00
1107767--1107833	33	2.0	33	88	0	98	34	11	13	40	1.81
1107787--1107811	13	1.9	13	100	0	50	36	16	16	32	1.90
1107872--1107898	13	2.1	13	100	0	54	40	14	14	29	1.86
1107907--1107987	37	2.4	32	77	18	99	30	20	20	27	1.98
1107917--1107987	37	1.9	37	94	0	124	30	22	21	25	1.98
1113560--1113819	129	2.0	129	90	1	414	38	12	19	29	1.88
1117362--1117408	20	2.3	20	92	0	76	29	6	25	38	1.81
1125794--1125887	50	1.9	47	81	10	109	44	5	3	46	1.42
1125934--1125987	25	2.2	24	83	6	72	37	9	3	50	1.52
1126775--1126844	16	4.4	15	68	10	50	35	2	2	58	1.28
1127530--1127643	47	2.4	47	97	0	210	45	14	15	23	1.84
1129475--1129657	81	2.3	81	98	1	350	36	22	13	26	1.92
1139244--1139284	18	2.3	18	95	0	73	68	4	2	24	1.22
1139942--1139994	18	3.1	18	78	5	56	30	0	0	69	0.88
1141245--1141283	18	2.1	19	95	4	71	51	0	0	48	1.00
1141248--1141283	19	1.9	18	94	5	54	50	0	0	50	1.00
1142077--1142111	17	2.1	16	89	5	52	54	0	0	45	0.99
1142128--1142173	24	1.9	24	82	8	58	41	2	4	52	1.33
1142444--1142485	3	14.0	3	100	0	84	66	0	0	33	0.92
1142844--1142942	49	2.0	48	84	1	126	52	4	4	39	1.39
1146233--1146272	21	1.9	21	89	0	62	30	2	2	65	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1148888--1148939	25	2.1	25	88	0	77	32	9	3	53	1.51
1149125--1149165	13	3.2	13	85	0	55	31	0	0	68	0.90
1149706--1149742	17	2.1	18	90	5	58	32	0	5	62	1.18
1157599--1157634	17	2.1	17	100	0	72	47	0	0	52	1.00
1160286--1160338	12	4.4	12	76	9	54	56	1	0	41	1.10
1160286--1160338	24	2.2	24	86	0	70	56	1	0	41	1.10
1165883--1165939	17	3.2	17	85	7	69	47	8	0	43	1.34
1177390--1177428	16	2.3	18	91	8	64	79	0	0	20	0.73
1180023--1180076	22	2.5	21	82	11	56	0	20	1	77	0.86
1180814--1180854	11	3.6	12	80	9	50	34	0	2	63	1.08
1182300--1182474	58	3.0	57	72	8	158	43	14	12	29	1.83
1182252--1182518	116	2.3	117	77	8	278	46	13	12	27	1.79
1184714--1184767	27	1.9	27	88	7	81	37	20	20	22	1.95
1184801--1184877	28	2.8	28	84	4	93	24	18	32	24	1.97
1184860--1185082	52	4.3	51	76	6	205	33	11	25	30	1.91
1185129--1185249	51	2.3	50	83	6	152	31	13	23	31	1.93
1187590--1187656	33	2.0	33	88	0	98	43	16	14	25	1.86
1187611--1187636	13	2.0	13	100	0	52	38	15	15	30	1.88
1187676--1187730	19	2.9	19	97	0	101	40	14	10	34	1.81
1188363--1188427	21	3.1	21	80	4	69	38	12	13	35	1.83
1194024--1194065	14	3.2	13	83	12	50	23	19	21	35	1.96
1193968--1194043	27	2.8	27	74	7	73	27	21	21	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1193955--1194053	27	3.6	27	68	18	71	26	18	22	33	1.96
1193992--1194130	27	5.0	28	69	18	85	30	20	17	30	1.96
1194096--1194197	15	7.1	15	71	7	77	31	21	19	27	1.97
1194096--1194186	29	3.2	29	80	3	103	34	23	17	25	1.96
1194218--1194259	14	2.9	15	75	7	50	35	14	9	40	1.78
1194227--1194300	15	5.1	15	73	4	62	32	20	13	33	1.91
1197455--1197510	19	2.9	19	89	2	76	32	19	12	35	1.89
1207335--1207428	39	2.4	39	92	0	152	24	14	20	40	1.90
1207436--1207486	20	2.5	21	90	3	77	35	17	5	41	1.74
1210124--1210183	3	20.0	3	100	0	120	33	0	0	66	0.92
1212101--1212184	16	5.3	15	76	8	78	40	22	17	19	1.91
1212102--1212184	32	2.6	32	82	0	112	40	22	16	19	1.91
1212208--1212242	15	2.3	15	90	0	52	60	8	0	31	1.27
1212272--1212299	14	2.0	14	100	0	56	35	0	28	35	1.58
1215295--1215511	34	6.4	34	89	0	310	25	7	26	41	1.81
1215295--1215511	102	2.1	101	94	1	380	25	7	26	41	1.81
1223618--1223723	45	2.2	48	81	6	128	29	21	30	18	1.97
1223756--1224739	32	31.8	32	88	3	1318	18	18	32	30	1.95
1223845--1224730	399	2.2	398	99	0	1729	17	18	32	30	1.95
1224722--1225897	27	43.0	27	91	2	1884	28	14	34	22	1.94
1224722--1225897	55	21.5	54	93	1	1893	28	14	34	22	1.94
1224722--1225897	82	14.3	81	91	2	1884	28	14	34	22	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1226949--1226974	13	2.0	13	100	0	52	0	0	15	84	0.62
1234695--1234912	34	6.4	34	83	1	233	27	6	24	41	1.80
1234694--1234913	102	2.2	102	88	2	318	27	6	25	40	1.80
1235529--1235579	15	3.3	15	75	8	50	50	0	0	49	1.00
1236104--1236190	37	2.4	36	77	9	95	47	3	3	45	1.36
1236223--1236259	19	1.9	19	88	0	56	45	5	5	43	1.49
1236356--1236403	20	2.3	20	85	3	60	52	0	0	47	1.00
1240886--1240951	15	4.3	15	71	14	55	57	0	1	40	1.08
1241186--1241254	25	3.0	22	74	15	61	31	0	2	65	1.08
1241313--1241372	22	3.0	20	75	17	63	56	0	0	43	0.99
1241318--1241379	23	2.7	23	82	7	65	56	0	0	43	0.99
1241905--1241985	41	1.9	43	80	14	98	56	2	1	39	1.20
1242863--1242911	14	3.7	14	81	15	68	59	0	0	40	0.98
1242856--1242930	25	3.0	25	88	7	100	58	0	0	41	0.98
1242866--1242981	33	3.5	33	74	15	107	55	0	0	43	1.05
1242866--1243035	8	20.0	8	67	21	55	56	1	0	41	1.11
1243081--1243105	6	4.2	6	100	0	50	16	0	0	84	0.63
1243183--1243214	14	2.3	14	94	0	55	59	0	0	40	0.97
1244314--1244353	21	2.0	21	85	5	55	37	7	5	50	1.53
1259042--1259098	1	57.0	1	75	0	51	0	12	0	87	0.54
1259044--1259090	16	2.8	16	84	12	58	0	14	0	85	0.61
1259668--1259737	13	5.2	14	72	17	51	48	2	5	42	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1259663--1259738	14	5.6	14	72	17	52	48	2	6	42	1.43
1259654--1259738	27	3.2	27	81	1	100	51	2	5	40	1.39
1259661--1259832	54	3.2	52	75	8	155	47	4	9	38	1.57
1260196--1260273	38	2.1	38	90	0	120	55	3	11	29	1.53
1260240--1260300	27	2.2	29	80	11	74	55	4	6	32	1.47
1261780--1261816	2	19.0	2	88	5	58	51	0	0	48	1.00
1261865--1261917	20	2.8	20	81	18	60	60	0	3	35	1.15
1263981--1264019	3	13.0	3	100	0	78	66	0	0	33	0.92
1265427--1265473	16	2.9	17	78	18	55	46	0	0	53	1.00
1269781--1269835	23	2.3	23	84	9	67	7	14	0	78	0.96

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