genome.fa.s72.2.7.7.80.10.50.1000.11.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: Scaffold72
Parameters: 2 7 7 80 10 50 1000
Length:  5928628

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   27   28   29   30   31   32   
          33   34   35   36   37   38   39   

This is table  11  of  39  ( 4596 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)
1402003--1402028	13	2.0	13	100	0	52	30	15	15	38	1.88
1401983--1402046	32	2.0	33	90	3	103	28	14	15	42	1.86
1407737--1408356	89	7.0	89	85	0	774	30	15	15	39	1.88
1408481--1408545	19	3.4	19	67	16	53	60	0	7	32	1.25
1409145--1409196	13	4.5	13	68	26	53	32	13	15	38	1.86
1409131--1409195	33	2.0	32	88	11	96	32	15	15	36	1.89
1417864--1417890	13	2.1	13	100	0	54	29	14	14	40	1.86
1417874--1417928	19	2.9	19	75	8	58	34	18	14	32	1.91
1417975--1418004	13	2.3	13	94	0	51	33	16	10	40	1.82
1419605--1419648	20	2.3	19	88	4	61	18	6	2	72	1.17
1420954--1420993	21	2.0	20	85	14	55	40	2	5	52	1.37
1422421--1422475	18	3.1	17	74	7	56	52	0	3	43	1.18
1428146--1428194	20	2.5	20	81	18	66	36	0	0	63	0.95
1432277--1432321	21	2.1	22	83	4	56	60	2	0	37	1.09
1433998--1434134	69	2.0	68	92	1	229	33	11	13	41	1.80
1439261--1439361	32	3.2	32	83	5	107	37	13	24	23	1.92
1439618--1439742	31	3.9	31	72	9	92	45	16	16	20	1.85
1439715--1439828	33	3.6	31	76	10	115	48	12	15	23	1.79
1441230--1441281	26	2.0	26	96	0	95	28	15	13	42	1.85
1443108--1443560	234	2.0	228	82	6	554	28	15	21	34	1.94
1445381--1445427	8	5.9	8	87	0	67	59	0	12	27	1.34
1445490--1445547	30	1.9	30	85	0	80	34	1	8	55	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1445715--1445788	27	2.8	26	80	13	80	52	1	0	45	1.09
1445856--1445923	23	3.1	21	69	10	55	52	0	0	47	1.00
1445740--1445974	114	2.1	109	87	10	343	50	1	1	46	1.19
1445962--1446001	3	13.7	3	94	5	73	32	0	0	67	0.91
1446139--1446216	23	3.3	23	75	12	79	60	6	2	30	1.35
1446506--1446857	123	2.9	122	81	13	413	42	2	1	52	1.26
1446535--1446857	124	2.7	120	84	11	401	42	2	2	52	1.26
1447152--1447274	38	3.2	39	74	15	94	45	4	5	43	1.49
1449782--1449984	107	1.9	107	84	0	271	11	17	32	38	1.86
1451083--1451184	52	2.0	50	92	3	168	51	13	13	20	1.75
1451230--1451953	42	17.4	42	74	7	501	36	17	28	17	1.92
1451220--1451961	84	8.9	84	75	7	553	36	17	28	17	1.93
1451241--1452228	126	8.0	126	71	11	533	37	17	28	16	1.92
1451609--1451674	34	1.9	35	84	3	89	43	16	28	10	1.81
1451567--1451775	77	2.6	76	79	7	193	36	17	29	16	1.92
1451958--1452235	42	6.6	41	80	4	196	39	17	27	15	1.90
1451837--1452111	150	1.8	150	87	0	406	34	18	31	16	1.92
1451956--1452235	84	3.3	84	75	3	222	39	17	27	15	1.90
1452117--1452229	43	2.6	43	84	2	129	44	17	23	14	1.86
1465677--1465979	106	2.8	106	91	0	462	12	15	32	39	1.85
1466663--1466699	4	9.8	4	88	11	60	21	0	0	78	0.75
1467008--1467999	87	10.9	91	81	6	1045	41	8	16	33	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1467008--1467999	276	3.6	270	84	4	1215	41	8	16	33	1.78
1467938--1468066	69	1.9	67	82	4	161	42	5	19	32	1.74
1471099--1471137	11	3.5	11	85	0	60	61	0	0	38	0.96
1470899--1471832	294	3.2	298	87	4	1260	46	7	8	38	1.62
1472117--1472261	68	2.1	67	81	12	179	41	0	2	56	1.11
1473916--1474001	43	2.0	43	97	0	163	26	4	10	58	1.51
1480240--1480271	2	16.0	2	93	0	55	50	3	0	46	1.17
1486352--1486386	8	4.2	8	89	7	52	48	0	0	51	1.00
1487442--1487506	34	1.9	34	83	0	85	32	13	20	33	1.91
1487627--1487664	19	2.0	19	100	0	76	21	21	15	42	1.89
1488035--1488098	25	2.4	28	82	14	82	12	15	4	67	1.39
1496739--1497087	27	12.7	27	87	4	443	24	32	13	28	1.94
1496738--1497087	55	6.4	55	86	5	453	25	32	13	28	1.94
1497122--1497604	28	16.2	32	83	7	236	30	30	17	22	1.96
1497122--1497488	58	6.2	60	85	7	277	29	31	17	20	1.96
1497092--1497559	87	5.3	86	80	9	473	29	30	17	22	1.97
1496720--1497546	115	7.2	112	80	10	502	27	31	15	25	1.96
1496720--1497546	28	28.9	28	83	7	514	27	31	15	25	1.96
1499236--1499952	28	25.5	28	83	5	865	30	29	17	22	1.97
1499230--1499952	85	8.6	83	84	6	818	30	30	17	22	1.96
1499230--1500030	57	14.1	56	83	6	843	29	29	17	23	1.97
1505981--1506037	10	5.4	10	79	8	60	84	8	3	3	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1505979--1506018	19	2.0	20	90	4	64	85	12	2	0	0.71
1507251--1508544	28	45.8	28	83	3	1491	29	29	17	22	1.97
1507251--1508544	113	11.4	112	83	3	1474	29	29	17	22	1.97
1507251--1508612	141	9.6	139	82	5	1491	29	29	17	23	1.97
1509490--1509614	20	5.7	20	71	18	97	29	16	12	40	1.86
1513591--1513739	20	6.9	20	71	18	111	30	14	12	42	1.82
1513591--1513739	40	3.5	40	72	21	147	30	14	12	42	1.82
1513612--1513783	71	2.5	69	83	9	215	29	15	13	41	1.85
1513754--1513784	16	1.9	16	100	0	62	35	19	12	32	1.90
1517228--1517253	13	2.0	13	100	0	52	30	15	15	38	1.88
1523547--1523587	22	2.0	20	86	13	57	31	21	4	41	1.74
1524646--1524671	13	2.0	13	100	0	52	38	15	15	30	1.88
1526885--1526929	21	2.1	21	84	8	56	53	4	20	22	1.63
1528733--1528763	15	2.1	15	93	0	53	48	16	22	12	1.80
1530843--1530868	13	2.0	13	100	0	52	30	15	15	38	1.88
1530989--1531034	21	2.2	20	81	11	58	32	19	4	43	1.71
1534387--1534412	10	2.6	10	100	0	52	7	0	38	53	1.30
1534822--1534949	52	2.5	52	94	3	224	30	17	17	33	1.94
1534958--1534982	13	1.9	13	100	0	50	36	16	16	32	1.90
1535045--1535069	13	1.9	13	100	0	50	32	16	16	36	1.90
1535884--1536010	67	1.9	68	85	1	175	37	13	25	23	1.91
1536023--1536687	98	7.0	94	89	5	907	30	17	26	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1536023--1536669	49	13.5	49	82	8	821	30	17	25	25	1.97
1536703--1537294	34	17.8	33	75	18	486	33	12	32	20	1.90
1536728--1537569	62	12.9	63	84	9	724	34	12	32	21	1.90
1537303--1537598	34	8.7	33	85	7	380	34	11	32	21	1.90
1537578--1537660	31	2.7	31	92	0	139	22	19	28	28	1.98
1538610--1538634	12	2.1	12	100	0	50	0	0	8	92	0.40
1545647--1545774	52	2.5	52	94	3	224	30	17	17	33	1.94
1545783--1545807	13	1.9	13	100	0	50	36	16	16	32	1.90
1547886--1547911	13	2.0	13	100	0	52	38	15	15	30	1.88
1561508--1561541	17	1.9	18	94	5	61	11	2	0	85	0.71
1561510--1561550	6	6.8	6	79	20	50	12	2	0	85	0.70
1561507--1561551	13	3.6	12	85	8	63	13	2	0	84	0.72
1562355--1562383	2	14.5	2	100	0	58	51	0	0	48	1.00
1562596--1562668	19	3.7	20	80	14	71	49	10	2	36	1.53
1562639--1562690	20	2.6	19	78	9	50	42	15	0	42	1.47
1563027--1563060	3	11.3	3	93	0	59	67	2	0	29	1.05
1564583--1564639	16	3.7	15	72	6	51	19	5	14	61	1.51
1564679--1565046	127	2.9	127	83	2	468	29	16	14	39	1.87
1565826--1565870	19	2.5	18	80	19	58	42	0	2	55	1.12
1565822--1565865	20	2.2	20	88	4	63	45	0	2	52	1.13
1565830--1565869	20	2.0	20	90	4	64	37	0	2	60	1.11
1565893--1565934	22	1.9	22	90	0	66	38	0	4	57	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1565974--1566066	25	3.8	24	76	19	77	44	0	1	54	1.07
1565996--1566072	28	3.0	25	80	12	84	45	0	0	54	0.99
1566040--1566105	13	5.2	13	77	15	50	33	1	1	63	1.13
1567200--1567237	20	2.1	19	85	14	53	28	10	13	47	1.76
1569690--1569715	10	2.6	10	100	0	52	30	0	26	42	1.56
1569937--1569976	20	2.0	20	95	0	71	35	12	12	40	1.81
1570085--1570127	21	2.0	21	86	0	59	55	25	2	16	1.53
1571465--1571559	19	5.6	19	70	27	88	33	11	17	36	1.86
1571465--1571567	32	3.2	32	94	0	179	33	11	18	36	1.87
1571483--1571541	13	4.1	13	73	23	55	32	13	16	37	1.88

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   27   28   29   30   31   32   
          33   34   35   36   37   38   39