genome.fa.s3032.2.7.7.80.10.50.1000.5.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: scaffold198
Parameters: 2 7 7 80 10 50 1000
Length:  3915534

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  5  of  13  ( 1467 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)
1094183--1094220	16	2.4	16	100	0	76	36	0	34	28	1.58
1097107--1097132	12	2.2	12	100	0	52	42	26	7	23	1.81
1097518--1097658	38	4.0	38	76	17	158	59	9	26	4	1.47
1097519--1097673	66	2.3	66	91	2	213	61	9	25	3	1.43
1097566--1097620	28	2.0	28	92	0	92	63	5	29	1	1.27
1097637--1097680	22	2.0	23	86	4	63	59	6	31	2	1.36
1113742--1113850	30	3.6	30	100	0	218	31	38	15	14	1.88
1123446--1123509	27	2.4	25	73	16	58	59	7	9	23	1.54
1125480--1125514	1	35.0	1	100	0	70	100	0	0	0	0.00
1129768--1129805	15	2.7	14	88	8	51	34	0	7	57	1.28
1132145--1132600	151	3.0	150	94	0	797	30	22	12	33	1.92
1137109--1137152	22	2.0	21	86	4	61	65	9	6	18	1.42
1137797--1137848	25	2.0	26	82	10	63	51	1	1	44	1.23
1137957--1137996	11	3.6	11	82	0	53	72	20	2	5	1.15
1143564--1143661	15	6.4	15	77	4	79	29	21	22	26	1.99
1143564--1143661	30	3.2	30	82	2	106	29	21	22	26	1.99
1143611--1143674	15	4.4	15	80	3	60	31	23	17	28	1.97
1143590--1143672	30	2.8	30	81	0	76	27	22	21	27	1.99
1143671--1143720	23	2.2	23	82	7	57	32	16	20	32	1.94
1143780--1143848	34	2.0	34	97	0	129	33	15	18	31	1.93
1143840--1143908	24	2.9	24	73	4	68	43	11	10	34	1.75
1144293--1144338	24	2.0	23	86	4	65	10	10	0	78	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1144858--1144998	62	2.3	62	81	4	160	22	24	27	25	2.00
1148619--1148665	19	2.5	19	89	3	69	68	4	0	27	1.08
1148619--1148714	9	10.3	9	68	14	52	60	4	1	34	1.23
1148652--1148712	9	6.6	9	78	17	54	55	3	1	39	1.26
1150023--1150066	13	3.5	12	85	11	54	65	0	4	29	1.12
1152463--1152501	20	2.0	20	90	5	62	53	7	0	38	1.30
1153307--1153344	19	2.1	17	90	9	58	63	5	0	31	1.17
1174259--1174299	21	2.0	21	90	0	64	31	4	9	53	1.55
1176131--1176221	44	2.1	44	93	0	155	28	13	12	46	1.79
1180213--1180244	14	2.1	16	88	11	50	12	0	12	75	1.06
1180201--1180258	25	2.3	26	87	3	82	12	0	13	74	1.08
1180632--1180683	16	3.2	16	86	5	70	40	3	26	28	1.74
1181203--1181266	32	2.0	32	81	0	74	50	1	0	48	1.10
1182627--1182729	49	2.1	49	87	1	145	49	11	7	31	1.67
1184753--1185027	138	2.0	138	96	1	507	38	7	6	48	1.57
1185001--1185053	26	2.0	26	100	0	106	45	0	0	54	0.99
1185040--1185074	18	1.9	18	100	0	70	34	0	2	62	1.10
1185001--1185059	26	2.3	26	93	0	91	45	0	1	52	1.10
1185294--1185321	13	2.2	13	100	0	56	50	21	7	21	1.72
1188787--1188862	11	7.2	11	76	16	63	59	0	0	40	0.98
1188786--1188853	21	3.3	20	72	22	61	60	0	0	39	0.97
1188784--1188856	31	2.4	30	83	2	92	58	0	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1188794--1188881	41	2.1	42	82	4	106	55	0	0	44	0.99
1193006--1193031	12	2.2	12	100	0	52	46	30	15	7	1.74
1199560--1199663	48	2.1	50	78	7	115	41	1	3	52	1.30
1203749--1203787	8	4.9	8	93	0	60	35	2	23	38	1.68
1203834--1203912	36	2.2	35	81	2	86	29	8	25	36	1.86
1206620--1206670	26	2.0	26	88	0	75	37	25	23	13	1.92
1206865--1207120	27	9.5	26	79	5	251	16	20	19	43	1.88
1206883--1207120	81	2.9	81	88	1	325	16	20	18	44	1.87
1208047--1208071	7	3.6	7	100	0	50	40	32	0	28	1.57
1212297--1212346	24	2.1	24	100	0	100	30	18	8	44	1.78
1214066--1214108	15	2.8	16	78	7	52	39	0	2	58	1.11
1216521--1216594	36	2.1	36	100	0	148	32	13	35	18	1.90
1217363--1217475	17	6.6	16	79	6	91	36	12	12	38	1.81
1217363--1217443	35	2.4	33	80	10	90	38	12	9	39	1.76
1217350--1217475	34	3.7	33	78	6	117	37	13	12	36	1.83
1217658--1218029	138	2.7	138	85	1	467	26	19	24	29	1.98
1235648--1235701	16	3.4	16	84	0	81	40	1	25	31	1.66
1241011--1241139	63	2.0	63	91	2	206	37	13	13	34	1.85
1244514--1244575	26	2.4	26	83	5	81	33	11	12	41	1.79
1253823--1253883	20	3.2	20	64	17	58	31	6	4	57	1.46
1253808--1253884	36	2.1	37	97	2	147	31	5	5	58	1.42
1256204--1256243	21	1.9	21	94	0	71	2	55	0	42	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1256206--1256243	12	3.2	12	88	0	58	2	55	0	42	1.14
1260261--1260324	33	1.9	33	90	0	101	50	21	7	20	1.73
1260683--1260727	22	2.0	23	82	4	56	68	6	4	20	1.29
1261647--1261706	31	1.9	31	89	0	93	31	6	21	40	1.79
1261782--1261844	25	2.5	25	86	0	81	31	20	31	15	1.94
1275408--1275455	20	2.3	20	82	3	60	29	6	4	60	1.40
1277004--1277043	20	2.0	20	95	0	71	42	10	15	32	1.79
1280217--1280283	31	2.2	31	100	0	134	50	8	17	22	1.74
1283125--1283182	7	8.3	7	81	7	55	50	31	0	18	1.48
1283111--1283182	28	2.6	28	84	0	90	50	30	2	16	1.60
1283361--1283446	7	12.6	7	74	9	70	22	2	31	44	1.65
1283349--1283416	21	3.3	21	80	10	61	22	1	32	44	1.62
1283314--1283380	28	2.4	27	71	11	64	22	1	28	47	1.60
1283370--1283433	33	1.9	33	87	0	92	20	3	29	46	1.66
1284684--1284759	38	2.0	38	82	5	91	38	15	7	38	1.77
1285229--1285393	87	1.9	87	87	3	244	36	20	14	27	1.92
1289572--1289625	28	1.9	28	100	0	108	42	14	9	33	1.78
1291260--1291622	185	2.0	184	83	2	469	26	17	14	41	1.89
1294353--1294390	19	2.0	20	89	5	60	28	5	5	60	1.40
1294867--1295205	171	2.0	171	94	0	597	23	12	17	46	1.82
1298224--1298280	27	2.1	27	83	0	69	19	17	26	36	1.94
1300117--1300159	21	2.0	22	86	4	61	44	2	4	48	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1308519--1308599	1	81.0	1	92	0	135	96	0	2	1	0.26
1309805--1309951	72	2.0	72	98	0	285	41	17	12	27	1.86
1310572--1310636	1	65.0	1	96	0	121	1	0	0	98	0.11
1312609--1312642	6	5.5	6	93	6	59	85	0	14	0	0.60
1331295--1331583	84	3.4	84	100	0	578	37	24	16	21	1.94
1331251--1331580	42	7.8	42	79	12	354	36	25	16	21	1.94
1331633--1331775	51	2.8	51	78	1	153	27	28	18	24	1.98
1336874--1336910	17	2.2	17	100	0	74	51	10	5	32	1.60
1338203--1338240	18	2.1	18	85	9	51	34	15	5	44	1.69
1344583--1344651	25	2.8	24	72	14	68	30	14	11	43	1.81
1347498--1347571	24	3.2	24	64	11	64	40	9	21	28	1.84
1347462--1347586	45	2.8	45	87	6	164	39	14	20	25	1.91
1347695--1347774	33	2.4	34	85	2	108	38	12	16	32	1.86
1348045--1348309	28	9.5	28	76	11	197	54	3	13	27	1.56
1348064--1348306	55	4.4	55	79	11	228	55	3	13	26	1.55
1348064--1348310	84	3.0	81	82	9	277	55	3	14	26	1.55
1349242--1349571	85	3.9	85	85	3	375	45	11	10	31	1.76
1349242--1349571	170	2.0	168	84	3	439	45	11	10	31	1.76
1352714--1352757	17	2.5	18	78	14	56	31	0	0	68	0.90
1358254--1358287	15	2.3	15	94	0	59	23	20	23	32	1.98
1358353--1358425	14	5.1	14	73	3	65	27	31	19	21	1.97
1358353--1358425	29	2.6	29	86	2	103	27	31	19	21	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1361816--1361840	13	1.9	13	100	0	50	32	4	24	40	1.73
1363498--1363606	41	2.7	41	84	8	141	26	17	22	33	1.96
1368469--1368763	101	3.0	102	87	11	488	32	3	20	44	1.67
1368573--1368752	92	2.0	91	96	3	335	28	3	22	45	1.68
1379538--1379778	42	5.7	42	95	1	428	22	21	22	33	1.97
1385285--1385429	51	2.8	51	91	2	229	31	15	13	40	1.86
1395160--1395242	25	3.3	25	83	3	78	31	20	26	21	1.98
1395176--1395267	25	3.7	25	89	2	132	32	16	30	20	1.95
1399580--1399703	25	5.0	25	77	6	108	34	20	26	18	1.95
1399596--1399703	50	2.2	51	81	8	132	35	17	28	18	1.94

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13