genome.fa.s114.2.7.7.80.10.50.1000.6.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: Scaffold114
Parameters: 2 7 7 80 10 50 1000
Length:  3219552

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

This is table  6  of  13  ( 1458 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)
1318620--1318723	47	2.2	47	92	0	181	51	2	0	45	1.16
1320717--1320753	7	5.6	7	87	12	60	40	0	0	59	0.97
1320717--1320765	14	3.9	13	86	10	59	38	0	2	59	1.09
1320719--1320778	6	10.3	6	77	15	56	40	0	1	58	1.08
1320733--1320774	11	4.0	10	84	12	50	38	0	2	59	1.10
1320739--1320796	26	2.3	26	85	8	75	39	0	1	58	1.08
1320725--1320806	38	2.1	39	82	14	100	40	0	1	58	1.06
1320798--1320839	21	2.0	21	86	13	61	40	0	0	59	0.97
1321515--1321596	26	3.2	26	82	6	69	37	6	0	56	1.24
1321938--1321967	3	10.0	3	100	0	60	33	0	0	66	0.92
1322289--1322344	21	2.7	21	83	2	60	35	0	1	62	1.06
1324280--1324329	6	8.3	6	86	8	75	32	18	32	18	1.94
1324280--1324334	18	3.1	18	84	10	85	32	18	29	20	1.96
1324496--1324571	21	3.8	21	76	16	72	60	0	0	39	0.97
1324516--1324556	17	2.3	18	91	4	66	60	0	0	39	0.96
1324549--1324583	15	2.2	16	90	5	54	62	0	0	37	0.95
1331431--1331468	2	19.0	2	94	0	67	50	0	2	47	1.15
1331881--1331917	18	2.1	18	90	10	58	51	0	0	48	1.00
1332096--1332188	19	4.7	21	65	13	54	55	1	0	43	1.06
1332115--1332172	28	2.0	28	83	9	73	51	0	0	48	1.00
1332401--1332442	17	2.5	18	77	14	54	50	0	0	50	1.00
1335506--1335539	17	2.0	17	88	11	52	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1335501--1335542	18	2.3	18	80	19	52	35	0	0	64	0.94
1337262--1337327	23	2.9	23	79	4	80	45	0	6	48	1.27
1337264--1337340	23	3.4	22	69	23	61	44	0	5	50	1.24
1337624--1337649	2	13.0	2	100	0	52	50	0	0	50	1.00
1338085--1338119	2	18.0	2	94	5	63	51	0	0	48	1.00
1341838--1341886	24	2.0	24	84	0	62	32	4	0	63	1.13
1341989--1342047	27	2.2	26	84	6	73	54	0	0	45	0.99
1349436--1349460	12	2.1	12	100	0	50	40	8	16	36	1.77
1358905--1358964	24	2.5	24	100	0	120	26	10	16	46	1.78
1367249--1367280	11	2.9	11	95	0	55	25	0	0	75	0.81
1368585--1368618	17	2.0	17	94	0	59	64	8	5	20	1.43
1369857--1369899	21	2.0	21	82	8	52	11	9	9	69	1.36
1370459--1370496	17	2.2	17	90	9	60	34	2	0	63	1.09
1370695--1370734	18	2.4	17	84	12	55	57	0	0	42	0.98
1371331--1371356	2	13.0	2	100	0	52	0	50	0	50	1.00
1371813--1371846	3	11.3	3	100	0	68	32	0	0	67	0.91
1377891--1377957	29	2.3	29	92	0	116	38	14	7	38	1.75
1389343--1390013	334	2.0	334	96	0	1227	25	16	16	42	1.88
1390919--1390983	2	33.5	2	84	6	62	43	0	9	47	1.35
1391666--1391724	27	2.2	27	93	0	109	35	10	10	44	1.72
1397019--1397052	3	11.3	3	100	0	68	32	0	0	67	0.91
1397653--1397835	90	2.0	90	91	0	294	36	8	10	44	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1401009--1401097	39	2.3	38	81	11	101	55	8	5	30	1.54
1401341--1401395	19	3.1	19	75	15	55	40	0	0	60	0.97
1401384--1401436	18	3.0	18	78	15	65	54	0	0	45	0.99
1401373--1401418	23	2.0	23	86	0	65	50	0	0	50	1.00
1401386--1401446	17	3.5	18	80	14	74	55	0	0	44	0.99
1401464--1401493	15	1.9	16	93	6	53	60	0	0	40	0.97
1401456--1401497	16	2.6	16	82	14	59	61	0	0	38	0.96
1401510--1401540	2	15.5	2	100	0	62	51	0	0	48	1.00
1402392--1402419	3	9.3	3	100	0	56	32	0	0	67	0.91
1402599--1402623	12	2.1	12	100	0	50	40	8	16	36	1.77
1412090--1412149	24	2.5	24	100	0	120	26	10	16	46	1.78
1413553--1413601	19	2.6	18	78	9	53	32	2	0	65	1.04
1414819--1414860	18	2.3	18	95	4	75	38	0	0	61	0.96
1414934--1414969	16	2.2	17	95	5	65	13	5	16	63	1.47
1424394--1424426	13	2.5	13	90	9	50	72	0	0	27	0.85
1424928--1424973	20	2.2	21	88	7	76	36	0	21	41	1.54
1425090--1425144	21	2.3	25	82	14	64	43	0	5	50	1.25
1425419--1425463	22	2.1	21	83	4	54	57	0	0	42	0.98
1425401--1425463	21	3.0	21	73	11	58	57	0	0	42	0.99
1426711--1426735	12	2.1	12	100	0	50	40	8	16	36	1.77
1444209--1444250	2	21.0	2	95	0	75	47	0	2	50	1.14
1445511--1445973	229	2.0	229	89	5	711	25	13	21	38	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1446736--1446777	18	2.3	19	87	4	59	14	11	11	61	1.56
1456044--1456136	31	3.0	31	100	0	186	19	29	9	41	1.83
1459808--1459942	67	2.0	67	97	0	252	25	11	17	45	1.83
1460473--1460674	103	2.0	103	88	0	305	25	11	19	44	1.84
1461321--1461399	40	2.1	39	90	7	126	8	21	13	55	1.65
1462162--1462208	24	2.0	24	87	4	69	29	2	12	55	1.49
1462323--1462354	16	2.0	16	100	0	64	31	12	6	50	1.65
1462434--1462460	2	13.5	2	100	0	54	48	0	0	51	1.00
1467399--1467428	15	2.0	15	100	0	60	13	6	26	53	1.64
1468647--1468719	31	2.3	32	78	2	76	38	5	1	54	1.32
1468766--1468801	18	2.0	18	88	0	54	44	2	0	52	1.15
1468802--1468846	23	2.0	23	86	8	65	46	2	0	51	1.13
1468780--1468846	23	3.0	22	80	10	64	46	2	0	50	1.16
1469233--1469264	2	16.0	2	100	0	64	0	50	0	50	1.00
1475011--1475035	4	6.2	4	100	0	50	0	24	0	76	0.80
1480280--1480410	67	2.0	67	98	0	253	24	13	19	42	1.87
1489544--1489593	26	1.9	26	91	0	82	38	2	0	60	1.09
1491560--1491599	19	2.3	18	87	12	57	47	0	10	42	1.37
1491616--1491646	14	2.3	14	94	5	55	70	0	0	29	0.87
1491645--1491686	15	2.9	15	79	17	52	57	0	4	38	1.20
1491674--1491723	22	2.6	18	77	20	55	62	2	0	36	1.07
1492192--1492246	26	2.1	27	82	3	67	1	16	7	74	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1492573--1492600	3	9.3	3	100	0	56	32	0	0	67	0.91
1492780--1492804	12	2.1	12	100	0	50	40	8	16	36	1.77
1510622--1510666	2	22.5	2	100	0	90	48	0	0	51	1.00
1511703--1512169	233	2.0	233	91	0	756	25	13	22	38	1.90
1513439--1513474	18	1.9	19	88	5	56	22	19	2	55	1.56
1513634--1513705	12	5.8	12	83	6	81	48	12	0	38	1.41
1513637--1513707	16	4.6	16	85	3	83	49	12	0	38	1.41
1513634--1513707	4	18.5	4	85	0	67	48	12	0	39	1.41
1520258--1520315	22	2.7	22	81	7	66	31	1	3	63	1.21
1530080--1530141	32	1.9	33	86	3	90	35	14	9	40	1.79
1532743--1532849	54	2.0	54	100	0	214	37	11	28	23	1.89
1540110--1540166	19	3.1	19	73	12	57	38	0	0	61	0.96
1540653--1540713	27	2.4	25	79	15	70	55	0	9	34	1.33
1540666--1540721	27	2.0	30	86	10	82	53	0	8	37	1.32
1544558--1544585	2	14.0	2	100	0	56	50	0	0	50	1.00
1552323--1552360	2	19.0	2	100	0	76	50	0	50	0	1.00
1553045--1553095	21	2.4	21	93	0	84	33	27	9	29	1.89
1556627--1556669	2	21.5	2	90	0	68	46	0	2	51	1.13
1557098--1557155	12	4.5	13	74	8	57	27	6	0	65	1.18
1557709--1557752	23	1.9	23	86	9	63	36	0	2	61	1.09
1557726--1557856	21	5.9	20	69	20	66	42	0	0	55	1.10
1557736--1557788	26	2.0	26	85	7	72	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1557781--1557844	33	1.9	35	84	9	89	48	1	1	48	1.20
1565831--1565860	2	15.0	2	100	0	60	0	50	0	50	1.00
1572218--1572292	36	2.1	36	94	0	132	33	18	25	22	1.97
1576376--1576421	21	2.3	21	85	7	60	45	2	0	52	1.13
1576376--1576426	19	2.6	19	82	11	59	43	1	0	54	1.11
1576444--1576468	13	1.9	13	100	0	50	56	4	0	40	1.18
1577143--1577201	16	3.4	17	84	11	59	45	0	1	52	1.10
1577156--1577205	9	5.6	9	74	25	52	44	0	0	56	0.99
1577156--1577204	17	2.7	18	90	6	73	44	0	0	55	0.99
1577374--1577437	15	4.5	15	75	16	64	40	0	1	57	1.08

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