genome.fa.s10.2.7.7.80.10.50.1000.9.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: 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  9  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)
1270479--1270528	18	2.8	18	81	0	64	4	6	6	84	0.88
1270920--1271016	45	2.1	48	86	7	137	30	20	29	18	1.97
1271134--1272540	28	49.8	28	84	2	1645	24	17	29	28	1.97
1271134--1272796	56	29.6	56	85	4	1585	24	17	29	28	1.97
1271134--1272796	113	14.8	111	83	5	1517	24	17	29	28	1.97
1272477--1272863	27	14.1	27	82	3	389	29	14	31	24	1.95
1271141--1272860	28	61.2	28	82	6	611	25	16	29	28	1.97
1272473--1272860	82	4.7	82	83	5	471	29	14	31	24	1.95
1280675--1280733	24	2.5	24	91	5	93	6	16	0	76	1.00
1281373--1281414	18	2.5	16	81	11	57	4	4	7	83	0.91
1283373--1283421	17	2.8	17	84	9	55	61	0	0	38	0.96
1283475--1283518	18	2.6	17	86	10	63	25	6	0	68	1.14
1283892--1283941	13	3.4	15	76	18	52	32	0	6	62	1.20
1284000--1284029	15	2.0	15	93	0	51	50	6	0	43	1.28
1285514--1285555	20	2.1	20	82	8	50	69	0	0	30	0.89
1285616--1285667	19	2.7	19	81	0	59	28	5	0	65	1.16
1285698--1285744	24	2.0	24	82	0	58	21	10	8	59	1.57
1285789--1285831	17	2.3	20	77	22	58	27	2	4	65	1.25
1288136--1288179	13	3.3	13	81	15	54	68	2	0	29	1.02
1289668--1289709	2	21.0	2	100	0	84	50	0	0	50	1.00
1289962--1290010	16	3.1	16	84	0	62	42	2	2	53	1.24
1290542--1290571	13	2.3	13	94	0	51	60	13	0	26	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1292366--1292428	29	2.2	28	81	10	67	26	0	4	68	1.10
1292377--1292438	19	3.2	19	80	13	72	29	0	3	67	1.06
1292377--1292540	40	3.8	40	70	22	102	35	0	1	63	1.02
1292433--1292478	14	3.0	14	77	22	56	43	0	0	56	0.99
1292421--1292470	18	2.6	19	78	18	59	38	0	0	62	0.96
1292413--1292499	33	2.6	33	78	8	106	37	0	0	62	0.96
1292421--1292506	17	4.8	18	72	24	58	38	0	0	61	0.96
1292426--1292501	32	2.3	33	88	4	109	39	0	0	60	0.97
1292459--1292544	28	3.1	28	80	12	106	34	0	0	65	0.93
1292473--1292553	28	2.9	28	75	15	78	34	1	0	64	1.02
1292950--1292981	10	3.1	10	95	4	55	37	0	0	62	0.95
1293030--1293064	15	2.3	15	90	0	52	34	0	2	62	1.10
1293038--1293128	36	2.6	34	77	8	101	39	1	2	57	1.18
1294123--1294159	19	1.9	19	89	10	58	37	2	0	59	1.12
1294614--1294648	2	17.5	2	93	0	61	48	0	2	48	1.16
1295742--1295775	12	2.7	13	86	9	52	26	0	0	73	0.83
1296565--1296616	16	3.2	16	68	10	52	34	3	9	51	1.53
1303524--1303558	17	2.1	17	89	10	54	45	0	14	40	1.45
1303583--1303627	19	2.4	20	78	14	51	51	4	4	40	1.42
1304302--1304360	26	2.3	26	83	11	70	47	0	0	52	1.00
1304315--1304360	12	3.7	12	85	5	56	50	0	0	50	1.00
1305215--1305263	20	2.6	19	81	9	57	36	18	14	30	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1305226--1305278	13	4.5	13	71	26	55	35	16	13	33	1.88
1305226--1305294	33	2.1	33	89	5	104	36	18	13	31	1.89
1305323--1305378	19	2.9	19	91	2	85	35	17	16	30	1.92
1305363--1305389	13	2.1	13	100	0	54	40	14	14	29	1.86
1305984--1306025	22	1.9	22	95	0	75	21	35	4	38	1.75
1307731--1307770	20	2.0	19	85	9	53	42	0	20	37	1.52
1317005--1317035	2	16.0	2	93	6	55	51	0	0	48	1.00
1320603--1320728	63	2.0	63	100	0	252	39	19	20	20	1.92
1326101--1326153	26	2.1	26	86	10	74	54	0	1	43	1.11
1326317--1326363	22	2.1	22	88	0	67	53	0	6	40	1.27
1327520--1327548	2	15.0	2	92	7	51	51	0	0	48	1.00
1329990--1330029	21	1.9	21	90	10	64	50	0	2	47	1.14
1330036--1330061	9	2.9	9	100	0	52	34	0	0	65	0.93
1334996--1335040	15	3.0	15	76	0	54	42	42	0	15	1.47
1335587--1335673	43	2.0	43	88	4	131	31	14	11	42	1.82
1335649--1335773	20	5.7	20	71	18	97	30	17	11	40	1.84
1337896--1337927	16	2.0	16	100	0	64	75	6	0	18	1.01
1344611--1344662	21	2.5	20	84	9	70	86	5	5	1	0.76
1344604--1344635	15	2.2	15	94	5	57	84	9	6	0	0.78
1344604--1344672	27	2.6	26	81	4	84	82	10	5	1	0.89
1345966--1346331	28	13.0	28	84	5	427	28	29	18	23	1.97
1346322--1346382	31	1.9	32	86	3	88	27	34	14	22	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1351296--1351346	14	3.7	14	73	5	50	58	1	5	33	1.33
1353625--1353746	8	14.1	9	69	21	50	41	0	0	57	1.04
1353621--1353718	37	2.6	37	82	6	117	41	0	0	58	0.98
1353622--1353739	20	6.5	18	67	25	54	42	0	0	56	1.05
1353874--1353919	3	15.0	3	95	4	83	65	0	0	34	0.93
1354282--1354315	15	2.3	15	100	0	68	47	5	0	47	1.26
1355162--1355201	21	1.9	21	84	0	53	37	7	10	45	1.66
1355221--1355268	24	2.0	23	92	4	78	56	0	0	43	0.99
1355359--1355411	21	2.6	21	75	19	58	43	5	0	50	1.25
1355514--1355546	15	2.1	16	88	5	50	54	6	0	39	1.25
1359135--1359178	17	2.5	17	85	14	63	50	0	4	45	1.22
1360252--1360313	22	2.9	20	79	11	61	51	1	0	46	1.10
1363292--1363408	48	2.4	48	81	2	128	44	11	4	40	1.60
1363290--1363408	16	7.4	16	74	3	87	43	10	4	41	1.59
1364080--1364120	2	21.0	2	90	5	66	53	0	0	46	1.00
1366082--1366117	15	2.2	17	90	9	58	44	0	0	55	0.99
1366082--1366148	14	4.6	15	76	16	52	49	0	0	50	1.00
1366079--1366145	27	2.3	29	72	7	66	50	0	0	49	1.00
1366652--1366722	35	2.0	35	83	5	90	43	1	5	49	1.35
1366650--1366734	19	4.6	19	65	19	63	44	1	4	49	1.30
1366812--1366855	19	2.2	20	80	11	56	50	2	0	47	1.13
1367812--1367836	8	3.1	8	100	0	50	76	0	0	24	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1367863--1367911	20	2.5	19	80	6	62	38	4	0	57	1.18
1368424--1368492	32	2.1	33	84	7	88	39	0	0	60	0.97
1368468--1368510	9	4.8	9	80	11	52	27	0	0	72	0.85
1368408--1368518	18	6.7	18	73	22	68	40	0	0	59	0.97
1368457--1368518	27	2.5	25	75	17	67	35	0	0	64	0.94
1368469--1368511	14	2.7	15	82	17	52	25	0	0	74	0.82
1369028--1369095	25	2.9	24	71	8	68	39	2	0	57	1.14
1369514--1369555	20	2.2	20	91	4	68	50	0	0	50	1.00
1369870--1369947	36	2.1	36	81	9	86	46	2	1	50	1.23
1370570--1370609	20	2.0	21	90	5	64	65	0	0	35	0.93
1370646--1370710	30	2.2	29	84	15	89	58	0	0	41	0.98
1371540--1371582	17	2.7	15	76	13	50	53	2	0	44	1.13
1371659--1371719	26	2.4	26	86	2	79	42	1	0	55	1.09
1371670--1371720	26	1.9	27	92	4	86	39	1	0	58	1.09
1372606--1372650	21	2.1	21	83	0	54	33	0	2	64	1.06
1373303--1373349	7	6.4	7	80	9	58	53	2	0	44	1.12
1373276--1373348	37	2.0	37	84	10	96	53	4	0	42	1.20
1373313--1373381	13	5.2	13	73	18	61	53	0	1	44	1.09
1373933--1373975	15	2.9	15	82	3	52	37	0	2	60	1.10
1375234--1375279	2	23.0	2	86	0	65	45	4	2	47	1.34
1375907--1375976	19	4.1	18	75	22	78	35	11	12	40	1.80
1375928--1375952	13	1.9	13	100	0	50	36	16	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1375909--1375971	32	2.0	32	93	0	108	36	12	14	36	1.84
1376015--1376041	13	2.1	13	100	0	54	29	14	25	29	1.95
1375995--1376059	33	2.0	33	87	0	94	26	15	18	40	1.90
1378402--1378518	51	2.3	52	83	12	140	30	23	11	33	1.91
1378500--1378575	27	2.8	27	88	6	100	23	32	18	25	1.97
1378529--1378713	80	2.3	80	83	1	210	27	27	14	31	1.95
1378457--1378857	186	2.2	184	85	3	522	26	28	14	29	1.95
1378723--1378916	78	2.5	78	95	0	352	26	30	15	27	1.96
1385355--1385406	8	6.6	8	78	8	54	55	0	0	44	0.99
1385847--1385876	15	2.0	15	93	0	51	23	0	0	76	0.78

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