genome.fa.s164.2.7.7.80.10.50.1000.9.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: Scaffold164
Parameters: 2 7 7 80 10 50 1000
Length:  2248410

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  9  of  15  ( 1726 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)
1253807--1253929	51	2.3	53	86	6	162	31	11	25	31	1.91
1256296--1256321	13	2.0	13	100	0	52	38	15	15	30	1.88
1256275--1256341	33	2.0	33	88	0	98	43	16	14	25	1.86
1256361--1256428	19	3.9	18	76	23	83	38	14	11	35	1.83
1256383--1256407	13	1.9	13	100	0	50	32	16	16	36	1.90
1256364--1256426	32	2.0	32	96	0	117	36	15	12	34	1.86
1257225--1257979	55	13.4	54	85	7	952	25	20	27	27	1.99
1257224--1257979	171	4.5	171	92	3	1180	25	20	26	27	1.99
1257839--1257924	27	3.1	27	62	15	68	23	18	30	27	1.98
1258972--1259005	16	2.3	15	90	10	52	0	0	8	91	0.43
1258963--1259006	12	3.8	12	93	6	72	0	0	13	86	0.57
1258967--1259004	11	3.4	11	96	3	67	0	0	10	89	0.49
1271376--1271561	79	2.4	79	87	1	266	34	16	25	23	1.95
1271425--1271479	28	1.9	29	88	3	85	36	20	23	20	1.95
1271513--1271588	27	2.8	26	88	9	100	22	22	32	22	1.98
1271572--1271694	51	2.3	53	84	6	153	32	11	24	31	1.91
1274061--1274086	13	2.0	13	100	0	52	38	15	15	30	1.88
1274040--1274106	33	2.0	33	88	0	98	43	16	14	25	1.86
1274148--1274172	13	1.9	13	100	0	50	32	16	16	36	1.90
1274129--1274191	32	2.0	32	90	0	99	38	12	12	36	1.82
1281805--1282095	79	3.7	77	79	8	293	32	13	26	28	1.93
1282031--1282151	52	2.4	51	84	4	163	30	10	27	31	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1282097--1282366	108	2.5	108	81	4	312	33	17	23	25	1.96
1282245--1282315	28	2.5	28	83	0	79	28	19	28	23	1.99
1282300--1282416	51	2.3	50	86	4	162	31	11	27	29	1.92
1284712--1284767	20	2.7	21	83	10	71	42	14	14	28	1.84
1284782--1284811	13	2.3	13	94	0	51	40	10	16	33	1.82
1285194--1285243	22	2.3	21	86	3	64	64	2	0	34	1.05
1285604--1285643	13	3.0	13	88	3	53	67	2	0	30	1.04
1292093--1292133	22	1.9	21	85	14	57	58	0	0	41	0.98
1292554--1292592	14	2.9	13	77	7	51	25	2	0	71	0.98
1292573--1292627	23	2.3	23	75	9	58	43	0	3	52	1.18
1293479--1293526	20	2.4	20	86	6	62	33	0	4	62	1.14
1293601--1293631	12	2.7	12	95	5	55	54	6	0	38	1.26
1302909--1302947	22	1.9	20	85	15	53	43	5	10	41	1.61
1305648--1305678	3	10.3	3	92	0	53	35	0	35	29	1.58
1311148--1311214	37	1.9	35	88	11	102	32	11	25	29	1.92
1312726--1312891	84	2.0	84	81	9	196	55	3	16	24	1.57
1314406--1314430	13	1.9	13	100	0	50	36	16	16	32	1.90
1316331--1316356	13	2.0	13	100	0	52	38	15	15	30	1.88
1316313--1316376	32	2.0	33	90	3	103	42	15	14	28	1.86
1316814--1316880	37	1.9	35	88	11	102	32	11	25	29	1.92
1319713--1319737	13	1.9	13	100	0	50	36	16	16	32	1.90
1328409--1328528	63	1.9	63	92	0	204	32	24	10	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1328925--1329043	33	3.6	33	79	12	127	30	13	26	29	1.94
1330002--1330043	20	2.1	20	95	0	75	19	16	14	50	1.79
1331009--1331057	22	2.2	22	96	0	89	26	20	12	40	1.87
1330993--1331185	95	2.0	95	88	0	287	29	20	11	38	1.87
1331097--1331144	22	2.2	22	88	0	69	31	20	14	33	1.93
1331107--1331152	22	2.1	22	95	0	83	28	17	15	39	1.90
1331187--1331224	20	1.9	19	89	5	58	31	13	15	39	1.86
1331595--1331683	33	2.8	30	76	15	97	30	15	25	28	1.96
1337684--1338260	58	10.1	59	71	11	222	46	15	12	25	1.82
1342405--1342626	101	2.2	102	90	2	365	38	14	14	31	1.87
1342556--1342641	19	4.8	18	70	25	56	37	15	13	33	1.87
1342578--1342648	32	2.2	32	92	0	115	33	14	15	36	1.87
1347743--1347785	23	2.0	23	86	9	63	41	6	11	39	1.68
1348164--1348645	58	8.4	58	76	9	355	48	14	9	27	1.75
1348196--1348447	29	8.8	29	66	23	88	50	13	9	26	1.71
1348271--1348359	28	3.1	28	67	13	65	50	12	7	29	1.68
1348299--1348386	28	3.1	27	73	13	70	48	11	9	30	1.70
1348203--1348685	114	4.2	116	71	11	303	49	13	9	26	1.73
1352185--1352217	11	3.1	11	86	4	50	45	0	3	51	1.16
1352931--1352987	20	2.8	20	94	0	96	31	15	10	42	1.81
1354648--1354674	9	3.0	9	100	0	54	33	22	0	44	1.53
1358800--1358855	19	2.8	19	83	5	67	41	10	17	30	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1363000--1363024	13	1.9	13	100	0	50	32	16	20	32	1.94
1362980--1363043	33	2.0	32	90	3	101	28	12	21	37	1.90
1363150--1363190	20	2.0	20	90	0	64	29	12	19	39	1.88
1363695--1363739	22	2.0	22	91	8	74	35	28	0	35	1.58
1365147--1365191	20	2.1	21	84	8	56	6	28	46	17	1.73
1365460--1365500	22	2.0	21	86	13	59	41	4	21	31	1.74
1365632--1365728	47	2.0	50	84	9	130	28	17	17	36	1.93
1369801--1369884	32	2.6	32	88	0	123	38	16	11	33	1.86
1369826--1369850	13	1.9	13	100	0	50	32	16	16	36	1.90
1370699--1371665	49	19.8	49	77	9	874	32	18	25	23	1.97
1370699--1371664	101	9.9	97	81	8	979	32	18	25	23	1.97
1370699--1371285	52	11.8	52	77	8	515	32	18	26	23	1.97
1370646--1371665	144	7.0	144	76	11	799	32	18	25	23	1.97
1371758--1372062	68	4.5	67	80	9	320	36	12	31	19	1.90
1371758--1372062	34	9.0	34	79	7	275	36	12	31	19	1.90
1371758--1372062	101	3.0	100	80	7	323	36	12	31	19	1.90
1372031--1372088	28	2.1	27	87	3	80	25	15	36	22	1.94
1372111--1372251	30	4.6	30	82	7	160	26	18	29	25	1.98
1373827--1373875	24	2.0	26	84	8	66	26	12	2	59	1.44
1375269--1375354	42	2.0	42	95	0	154	26	8	17	47	1.75
1375284--1375353	21	3.3	21	63	21	56	22	10	17	50	1.76
1376776--1376964	52	3.7	52	81	2	195	29	13	14	42	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1379176--1379334	69	2.3	70	86	3	223	29	22	8	40	1.82
1381239--1381277	19	2.0	20	85	5	53	28	0	7	64	1.21
1382795--1382953	78	2.0	78	95	0	282	50	2	27	20	1.61
1383700--1383765	4	17.0	4	75	17	59	43	22	1	31	1.62
1383701--1383754	13	3.8	13	78	21	63	44	20	1	33	1.62
1383691--1383765	31	2.5	31	95	2	134	42	24	2	30	1.68
1389159--1389245	42	2.1	42	97	0	165	60	18	11	9	1.56
1390005--1390255	125	2.0	125	92	0	412	41	17	23	17	1.89
1395793--1395838	14	3.5	14	77	17	62	41	32	2	23	1.67
1395787--1395838	25	2.1	25	100	0	104	38	32	3	25	1.74
1396412--1396466	20	2.7	21	85	2	76	41	14	16	27	1.87
1396499--1396523	13	1.9	13	100	0	50	32	20	16	32	1.94
1405156--1405215	14	4.5	13	76	17	61	81	16	1	0	0.77
1405155--1405202	13	3.4	14	91	8	80	85	14	0	0	0.60
1405155--1405192	9	4.2	9	80	12	51	86	13	0	0	0.56
1405155--1405216	27	2.3	27	88	5	90	82	16	1	0	0.75
1405155--1405216	13	4.7	12	88	11	70	82	16	1	0	0.75
1406497--1406670	30	5.7	30	83	5	199	25	27	18	28	1.98
1406497--1406692	60	3.2	61	84	4	218	26	28	16	28	1.97
1406650--1407008	34	10.8	33	76	9	286	21	31	12	34	1.90
1406649--1407007	68	5.4	66	78	11	333	22	31	12	33	1.91
1406642--1407007	166	2.2	165	81	6	400	21	31	12	34	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1406643--1407008	33	11.0	35	77	11	301	21	31	12	34	1.90
1406978--1407033	27	2.1	27	82	0	67	21	26	12	39	1.89
1407101--1407866	49	15.9	48	76	10	629	24	25	18	31	1.97
1407101--1407863	193	4.0	191	81	6	916	23	25	18	32	1.97
1407442--1407516	39	1.9	39	88	0	114	29	22	21	26	1.99
1407539--1407803	144	1.8	144	86	1	379	23	24	19	32	1.97
1407492--1407865	101	3.8	99	79	9	408	22	25	20	32	1.98
1407671--1407866	52	3.8	51	83	4	252	22	26	19	32	1.97
1408138--1408187	20	2.5	20	86	0	64	30	16	16	38	1.90
1408268--1408305	20	1.9	20	94	0	67	50	15	7	26	1.72

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15