genome.fa.s127.2.7.7.80.10.50.1000.7.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: Scaffold127
Parameters: 2 7 7 80 10 50 1000
Length:  4281254

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   

This is table  7  of  26  ( 3103 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)
1259361--1259390	14	2.1	14	93	6	51	13	3	0	83	0.77
1261267--1261299	14	2.3	15	89	5	50	51	0	0	48	1.00
1262022--1262054	10	2.9	12	82	17	52	60	0	0	39	0.97
1262608--1262664	22	2.6	23	75	13	66	43	0	3	52	1.18
1272104--1272223	33	3.8	32	73	25	105	46	0	0	52	1.06
1275114--1275138	11	2.3	11	100	0	50	16	0	0	84	0.63
1275112--1275141	5	5.8	5	92	7	51	20	0	0	80	0.72
1277050--1277097	24	2.1	22	88	7	69	45	0	0	54	0.99
1277049--1277085	17	2.1	18	90	5	58	40	0	0	59	0.97
1277059--1277116	19	3.7	16	75	25	61	50	0	0	50	1.00
1279455--1279599	36	3.9	37	68	17	102	48	2	2	46	1.28
1280648--1280680	15	2.3	15	89	5	50	21	3	3	72	1.11
1282713--1282767	24	2.3	23	82	14	67	40	10	7	41	1.68
1282770--1283139	185	2.0	185	90	1	580	34	22	11	31	1.90
1287460--1287545	27	3.2	27	80	1	84	53	10	2	33	1.48
1287449--1287531	26	3.2	24	77	11	76	46	13	2	37	1.56
1288715--1288780	32	2.1	32	97	0	123	25	9	27	37	1.86
1289558--1289607	27	1.9	25	88	8	73	44	0	2	54	1.11
1289559--1289614	25	2.1	27	83	6	71	46	0	1	51	1.11
1289793--1289839	23	2.0	23	91	0	76	42	10	2	44	1.51
1290766--1290833	19	3.9	19	78	21	85	35	11	14	38	1.83
1290768--1290830	32	2.0	32	96	0	117	34	12	15	36	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1290787--1290811	13	1.9	13	100	0	50	36	16	16	32	1.90
1290873--1290898	13	2.0	13	100	0	52	30	15	15	38	1.88
1290853--1290919	33	2.0	33	88	0	98	25	14	16	43	1.86
1293374--1293446	27	2.7	27	87	6	94	23	34	21	20	1.97
1293429--1293599	51	3.3	51	79	4	198	29	26	11	32	1.92
1293582--1293663	28	2.9	28	82	7	96	24	31	17	26	1.97
1295494--1295538	22	2.1	21	87	4	63	62	2	0	35	1.08
1295494--1295556	21	2.9	21	80	7	63	57	3	1	38	1.24
1295625--1295660	13	2.8	13	91	8	56	33	0	0	66	0.92
1298138--1298170	2	16.5	2	100	0	66	48	0	0	51	1.00
1298762--1298806	2	22.0	2	95	4	81	48	0	2	48	1.13
1298806--1298834	3	9.7	3	100	0	58	68	0	31	0	0.89
1302133--1302179	24	1.9	25	82	4	60	42	0	8	48	1.33
1303458--1303509	24	2.1	25	82	7	61	42	1	11	44	1.51
1304181--1304224	22	1.9	24	81	9	56	56	6	0	36	1.26
1306942--1306978	18	2.1	18	89	0	56	32	0	13	54	1.40
1309043--1309120	31	2.6	31	84	6	108	52	5	6	35	1.49
1309549--1309608	17	3.4	17	77	15	50	53	1	5	40	1.33
1314382--1314445	32	2.0	32	100	0	128	18	34	9	37	1.83
1317804--1317833	3	10.0	3	100	0	60	66	0	0	33	0.92
1319132--1319215	33	2.5	34	73	5	82	63	1	0	35	1.03
1319141--1319200	15	3.8	15	73	16	50	58	1	0	40	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1320477--1320534	15	4.1	14	78	13	57	34	12	0	53	1.38
1320501--1320538	16	2.5	16	87	8	53	34	15	0	50	1.45
1324021--1324057	19	2.1	19	85	10	51	29	5	0	64	1.15
1325920--1325969	21	2.6	19	76	14	57	50	2	0	48	1.12
1325928--1325970	21	2.0	22	86	8	63	55	2	0	41	1.12
1325920--1325994	18	3.8	18	73	18	53	46	1	0	52	1.09
1325997--1326033	13	3.2	12	85	14	51	21	0	0	78	0.75
1325997--1326031	18	2.1	16	89	10	52	20	0	0	80	0.72
1326545--1326609	28	2.3	29	84	5	89	55	7	1	35	1.38
1327097--1327162	13	5.5	13	71	20	54	37	0	1	60	1.06
1327095--1327164	23	3.0	23	77	10	88	37	0	1	61	1.05
1327362--1327393	3	10.7	3	100	0	64	0	31	0	68	0.90
1331235--1331285	24	2.1	25	85	3	68	39	5	1	52	1.37
1331330--1331375	22	2.1	22	88	8	67	28	6	8	56	1.54
1333815--1333859	22	2.0	22	86	0	63	51	2	0	46	1.13
1335302--1335338	3	12.3	3	100	0	74	32	0	0	67	0.91
1335557--1335626	16	4.3	16	75	14	63	38	0	0	61	0.96
1335557--1335626	32	2.2	33	84	7	90	38	0	0	61	0.96
1338789--1338912	60	2.0	62	87	4	180	34	19	13	32	1.91
1342455--1342496	2	21.0	2	100	0	84	50	0	0	50	1.00
1342871--1342913	21	2.0	21	91	8	70	39	0	2	58	1.11
1342776--1342918	27	5.6	27	71	13	106	45	0	2	52	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1344119--1344183	34	1.9	34	81	6	78	43	0	0	56	0.99
1350087--1350135	15	2.9	16	80	17	55	57	0	2	40	1.10
1350084--1350140	15	3.7	15	75	13	53	54	0	1	43	1.10
1351703--1351735	15	2.2	15	89	10	50	66	0	0	33	0.92
1352075--1352133	28	2.1	28	96	0	109	57	0	6	35	1.25
1352343--1352389	15	3.4	14	78	18	53	44	0	2	53	1.12
1352421--1352464	11	3.9	11	88	8	54	36	0	0	63	0.95
1352852--1352932	29	2.9	27	74	13	67	39	0	3	56	1.17
1352908--1352955	16	2.9	16	74	20	53	50	0	0	50	1.00
1352895--1352995	32	3.2	30	82	14	116	43	0	0	56	0.99
1352895--1352995	29	3.2	34	82	14	112	43	0	0	56	0.99
1352953--1353004	5	10.2	5	82	17	63	40	0	0	59	0.97
1352897--1353012	27	4.3	27	73	16	80	43	0	0	56	0.99
1352929--1353011	21	4.1	21	75	14	68	43	0	0	56	0.99
1353412--1353452	5	8.2	5	84	15	50	36	0	0	63	0.95
1353393--1353461	35	2.0	35	82	0	84	39	0	1	59	1.06
1353729--1353765	4	9.2	4	100	0	74	24	0	0	75	0.80
1353958--1353987	6	5.0	6	95	0	51	46	0	0	53	1.00
1354029--1354086	23	2.5	24	75	5	66	48	0	0	51	1.00
1354180--1354210	2	15.5	2	100	0	62	51	0	48	0	1.00
1354526--1354562	19	2.0	19	89	5	58	45	0	0	54	1.00
1355056--1355098	21	2.1	21	86	4	61	55	2	0	41	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1355539--1355573	2	17.5	2	87	0	52	42	0	0	57	0.99
1355539--1355577	12	3.2	12	92	0	60	41	0	0	58	0.98
1362720--1362762	13	3.2	13	90	9	61	34	0	2	62	1.08
1364301--1364339	21	1.9	20	89	5	60	51	0	2	46	1.14
1364964--1365022	15	3.7	15	77	20	50	61	1	1	35	1.16
1365668--1365693	4	6.5	4	100	0	52	23	0	0	76	0.78
1368237--1368283	14	3.4	14	77	11	60	29	0	0	70	0.88
1368259--1368317	18	2.9	21	82	12	70	45	0	0	54	0.99
1368274--1368319	21	2.1	21	84	4	56	52	0	0	47	1.00
1369654--1369695	12	3.6	12	83	3	50	33	2	0	64	1.07
1369654--1369712	23	2.5	24	81	5	68	33	3	0	62	1.12
1371172--1371421	125	2.0	125	100	0	500	28	17	27	26	1.98
1382751--1382779	14	2.0	15	93	6	51	62	0	0	37	0.96
1382720--1382816	37	2.7	37	81	13	98	55	0	1	43	1.06
1383665--1383728	27	2.4	27	97	0	119	39	29	9	21	1.85
1384499--1384533	14	2.7	13	87	12	54	60	0	0	40	0.97
1385077--1385129	3	17.0	3	81	14	63	33	0	0	66	0.92
1385946--1385984	2	19.5	2	83	0	51	53	2	0	43	1.14
1385946--1385984	12	3.2	12	88	0	60	53	2	0	43	1.14
1386545--1386580	2	18.0	2	88	0	54	50	0	2	47	1.15
1387041--1387068	2	14.0	2	100	0	56	50	0	0	50	1.00
1391236--1391277	20	2.2	20	87	8	61	40	0	0	59	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1391422--1391536	52	2.3	50	80	10	119	55	0	0	44	0.99
1391656--1391688	3	11.0	3	93	0	57	30	0	3	66	1.06
1391657--1391707	9	5.7	9	78	17	52	25	0	9	64	1.24
1392545--1392585	20	2.0	20	95	0	73	51	4	17	26	1.65
1398742--1398771	14	2.2	14	94	5	53	66	0	0	33	0.92
1398877--1398910	4	8.2	4	87	6	50	73	2	2	20	1.09
1399627--1399722	7	13.1	7	71	25	58	62	0	1	36	1.02
1402917--1402974	18	3.2	18	85	4	82	43	0	0	56	0.99
1402934--1402987	23	2.3	24	78	6	67	48	1	0	50	1.11
1403459--1403504	5	9.2	5	79	15	51	39	2	0	58	1.10

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