genome.fa.s168.2.7.7.80.10.50.1000.12.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: Scaffold168
Parameters: 2 7 7 80 10 50 1000
Length:  2098754

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  12  of  16  ( 1854 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)
1303518--1303556	17	2.2	18	86	4	53	46	2	7	43	1.46
1304244--1304279	17	2.1	17	100	0	72	47	11	13	27	1.77
1309519--1309576	28	2.2	27	85	14	77	50	0	0	50	1.00
1309747--1309771	8	3.1	8	100	0	50	76	0	0	24	0.80
1310216--1310256	3	13.7	3	100	0	82	34	0	0	65	0.93
1317979--1318145	79	2.1	78	86	3	228	34	13	23	28	1.93
1318106--1318175	28	2.6	27	88	4	113	27	18	30	24	1.98
1318130--1318347	80	2.7	79	87	2	312	30	14	27	27	1.95
1318328--1318451	51	2.4	51	82	0	149	34	13	22	29	1.93
1320810--1320860	20	2.5	20	100	0	102	39	11	17	31	1.86
1320877--1320934	13	4.0	13	74	23	53	32	17	15	34	1.91
1321704--1321729	3	8.7	3	100	0	52	34	0	0	65	0.93
1324008--1324037	15	2.0	15	100	0	60	26	20	13	40	1.89
1324654--1324678	2	12.5	2	100	0	50	48	0	52	0	1.00
1326325--1326353	2	14.5	2	100	0	58	51	0	0	48	1.00
1328434--1328485	26	2.1	26	82	10	65	48	0	3	48	1.20
1328523--1328590	27	2.6	26	80	11	68	38	1	1	58	1.16
1328551--1328582	15	2.1	16	94	5	57	34	0	0	65	0.93
1328714--1328759	21	2.2	21	77	11	51	36	8	0	54	1.32
1328995--1329055	27	2.3	27	88	8	90	47	0	1	50	1.10
1329113--1329150	15	2.6	14	88	12	51	31	2	0	65	1.06
1329686--1329711	3	8.7	3	100	0	52	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1334902--1334975	26	2.5	29	77	18	82	41	1	2	54	1.23
1335050--1335102	24	2.1	24	89	6	79	32	7	0	60	1.25
1335057--1335111	24	2.3	24	87	0	83	38	3	0	58	1.16
1335062--1335099	12	3.2	12	78	14	51	28	2	0	68	1.03
1335138--1335171	17	1.9	18	88	5	52	29	0	0	70	0.87
1335318--1335367	13	3.4	15	86	8	68	48	0	0	52	1.00
1335896--1335959	27	2.3	27	84	7	76	26	7	18	46	1.76
1340467--1340556	28	3.4	27	77	8	78	26	6	21	45	1.76
1341309--1341333	10	2.5	10	100	0	50	24	0	32	44	1.54
1342595--1342632	19	2.0	19	94	0	67	50	10	5	34	1.59
1345841--1345865	9	2.8	9	100	0	50	76	0	0	24	0.80
1347272--1347319	21	2.2	21	82	10	53	33	6	8	52	1.57
1352275--1352322	27	1.9	25	84	16	64	37	0	2	60	1.09
1352894--1352932	15	2.5	16	83	4	53	43	0	0	56	0.99
1354381--1354405	2	12.5	2	100	0	50	48	0	0	52	1.00
1354676--1354729	27	2.1	25	89	6	81	61	0	0	38	0.96
1355587--1355654	17	4.1	17	69	19	54	44	0	4	51	1.21
1358757--1358818	3	20.7	3	96	0	115	66	0	1	32	1.02
1361924--1361951	14	2.0	14	100	0	56	50	7	21	21	1.72
1365456--1365501	15	3.1	15	78	12	51	41	0	0	58	0.98
1365496--1365539	21	2.1	22	83	8	56	25	4	0	70	1.06
1365785--1365835	17	2.7	21	71	25	58	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1365793--1365826	17	2.0	17	94	0	59	55	0	0	44	0.99
1365966--1365995	2	15.0	2	100	0	60	0	50	0	50	1.00
1366248--1366290	21	2.0	21	82	8	52	51	0	41	6	1.29
1373074--1373119	14	3.2	14	78	3	56	54	2	0	43	1.12
1374874--1374921	19	2.6	19	78	15	55	47	0	0	52	1.00
1375983--1376010	13	2.2	13	100	0	56	32	7	7	53	1.55
1379480--1379511	2	16.0	2	100	0	64	50	0	50	0	1.00
1385555--1385603	25	1.9	26	87	4	73	20	22	6	51	1.69
1386234--1386262	10	2.7	11	89	10	51	55	0	0	44	0.99
1386168--1386273	26	4.2	25	70	23	71	53	0	0	44	1.13
1386206--1386261	10	5.9	10	73	25	50	58	0	1	39	1.08
1386388--1386431	18	2.4	18	84	3	52	54	0	0	45	0.99
1386413--1386445	16	1.9	17	88	11	50	51	0	0	48	1.00
1386668--1386710	21	2.0	21	100	0	86	62	18	0	18	1.32
1386842--1386890	21	2.3	21	100	0	98	65	0	4	30	1.11
1387252--1387280	3	9.7	3	100	0	58	34	0	0	65	0.93
1387361--1387482	38	3.2	38	100	0	244	36	0	12	50	1.40
1387970--1388027	15	3.9	16	70	22	54	46	0	0	53	1.00
1388050--1388127	14	5.2	16	77	10	60	37	0	2	60	1.11
1388092--1388148	14	4.0	14	82	8	53	42	0	1	56	1.10
1388490--1388525	5	7.4	5	87	6	56	55	0	0	44	0.99
1388726--1388815	26	3.4	26	67	19	69	35	1	0	63	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1390609--1390651	19	2.3	19	80	8	52	41	13	6	37	1.72
1391161--1391240	42	1.9	42	86	0	115	35	3	2	58	1.29
1391229--1391265	19	1.9	19	94	0	65	43	5	0	51	1.24
1392947--1392983	2	18.5	2	94	0	65	2	45	0	51	1.15
1393457--1393497	21	2.0	21	90	0	64	43	0	0	56	0.99
1393690--1393714	2	12.5	2	100	0	50	52	0	0	48	1.00
1406336--1406385	16	3.2	16	72	5	50	48	0	12	40	1.40
1407476--1407532	24	2.2	25	84	9	71	66	0	1	31	1.02
1409176--1409217	3	13.7	3	95	5	75	66	0	0	33	0.92
1410162--1410197	2	18.0	2	94	0	63	47	2	0	50	1.15
1411750--1411785	3	12.0	3	100	0	72	33	0	0	66	0.92
1415082--1415119	15	2.6	15	87	4	51	44	0	2	52	1.14
1415520--1415583	13	4.6	14	78	16	55	64	0	0	35	0.94
1415521--1415602	23	3.3	25	70	13	71	60	0	0	39	0.96
1415733--1415767	17	2.0	18	94	5	63	48	0	0	51	1.00
1415729--1415840	16	7.0	16	72	14	79	40	0	0	58	1.04
1415729--1415840	32	3.5	34	79	11	121	40	0	0	58	1.04
1415729--1415837	21	5.1	22	72	19	72	39	0	0	59	1.04
1415729--1415837	11	10.2	11	68	23	72	39	0	0	59	1.04
1415758--1415846	21	4.2	21	75	14	76	38	2	0	59	1.10
1416076--1416143	29	2.3	31	82	14	90	30	1	1	66	1.10
1416076--1416145	30	2.4	31	79	13	85	31	1	1	65	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1416492--1416545	15	3.7	15	78	14	58	62	1	0	35	1.06
1416852--1416892	19	2.2	19	91	4	66	34	2	0	63	1.08
1416936--1416965	13	2.3	13	94	0	51	26	0	6	66	1.16
1418666--1418697	2	16.0	2	100	0	64	50	0	0	50	1.00
1419622--1419657	3	12.0	3	93	0	63	30	0	0	69	0.89
1420670--1420703	2	17.5	2	93	6	61	50	0	0	50	1.00
1421569--1421607	12	3.3	12	82	3	53	71	2	2	23	1.10
1421736--1421780	3	15.0	3	90	0	72	66	4	0	28	1.11
1422949--1422988	2	20.0	2	100	0	80	50	0	0	50	1.00
1424659--1424688	2	15.0	2	100	0	60	50	0	0	50	1.00
1424812--1424858	2	23.5	2	100	0	94	51	0	0	48	1.00
1425071--1425104	17	1.9	18	94	5	61	41	0	0	58	0.98
1425672--1425727	17	3.2	17	78	19	53	53	0	0	46	1.00
1430313--1430351	20	2.0	20	89	0	60	66	0	0	33	0.92
1431526--1431557	10	3.4	10	83	16	50	81	0	0	18	0.70
1431526--1431560	18	1.9	18	100	0	70	82	0	0	17	0.66
1432061--1432102	2	21.0	2	100	0	84	50	0	0	50	1.00
1434745--1434791	22	2.0	24	80	12	62	44	0	0	55	0.99
1434746--1434791	23	2.0	23	87	4	67	45	0	0	54	0.99
1435044--1435081	2	19.0	2	84	10	51	5	47	0	47	1.24
1435658--1435695	6	6.7	6	96	3	62	15	0	84	0	0.63
1436209--1436307	49	2.0	50	94	2	173	39	18	17	25	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1439818--1439864	22	2.1	22	100	0	94	55	17	10	17	1.69
1441245--1441292	25	2.0	25	91	4	80	54	0	0	45	0.99
1442921--1442991	28	2.5	27	82	11	72	40	1	4	53	1.29
1443396--1443469	5	15.2	5	75	10	73	36	1	0	62	1.04
1443396--1443475	29	2.8	29	77	9	83	35	1	0	63	1.02
1443415--1443478	23	2.8	25	84	13	84	34	0	0	65	0.93
1443402--1443479	12	6.4	12	72	19	56	34	0	0	65	0.93
1443415--1443475	24	2.6	23	85	15	72	34	0	0	65	0.93
1443393--1443476	44	1.9	43	85	4	114	36	1	0	61	1.04
1443595--1443648	21	2.6	21	80	11	58	59	0	1	38	1.08

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16