genome.fa.s247.2.7.7.80.10.50.1000.11.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: Scaffold247
Parameters: 2 7 7 80 10 50 1000
Length:  4737410

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   

This is table  11  of  29  ( 3470 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)
1471888--1471946	26	2.2	26	81	3	73	72	3	5	18	1.17
1471878--1471919	18	2.3	19	88	8	61	78	2	9	9	1.05
1472075--1472104	15	2.1	15	93	6	53	40	0	13	46	1.43
1472492--1472565	37	2.0	36	89	7	114	16	6	0	77	0.98
1472490--1472563	18	4.1	18	83	11	89	14	8	0	77	0.99
1472609--1472728	9	13.1	9	72	11	57	28	1	3	66	1.17
1472609--1472663	20	2.7	20	80	2	56	25	1	3	69	1.15
1472675--1472737	25	2.6	23	71	11	63	31	0	3	65	1.09
1475184--1475240	20	2.8	21	79	17	66	40	0	0	59	0.97
1476118--1476174	17	3.3	17	75	18	55	33	0	3	63	1.12
1476106--1476175	36	2.0	34	83	10	88	37	0	2	60	1.12
1476136--1476203	30	2.2	31	78	7	75	41	0	1	57	1.08
1476178--1476223	18	2.6	17	86	10	65	50	0	0	50	1.00
1476878--1476923	17	2.7	18	76	10	51	65	0	0	34	0.93
1476840--1476923	32	2.6	34	80	14	88	61	0	0	38	0.96
1476846--1476913	27	2.5	28	78	4	77	60	0	0	39	0.97
1476840--1476923	34	2.5	34	79	14	95	61	0	0	38	0.96
1477954--1478010	14	4.1	14	73	13	55	57	1	0	40	1.09
1477974--1478009	18	1.9	19	88	5	56	55	2	0	41	1.14
1478114--1478186	23	2.9	27	77	18	77	49	1	0	49	1.09
1478732--1478830	27	3.4	29	77	14	98	55	0	1	43	1.06
1481935--1481970	19	1.9	18	88	5	54	58	0	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1487632--1487815	21	8.8	21	78	3	138	35	3	5	54	1.43
1487663--1487741	9	7.8	9	70	22	50	37	3	1	56	1.25
1487632--1487882	42	6.0	42	72	9	158	36	3	7	52	1.46
1487663--1487729	10	6.4	10	74	20	50	38	2	1	56	1.24
1488942--1489000	15	3.8	16	76	17	61	44	0	1	54	1.10
1489296--1489335	6	6.7	6	97	0	62	17	42	17	22	1.89
1490346--1490375	3	10.0	3	100	0	60	66	0	0	33	0.92
1491059--1491083	2	12.5	2	100	0	50	48	0	0	52	1.00
1492697--1492723	14	1.9	14	100	0	54	92	0	7	0	0.38
1495615--1495831	113	1.9	113	93	0	371	41	15	19	23	1.89
1498267--1498342	18	4.1	17	72	22	55	43	0	0	56	0.99
1498261--1498321	27	2.3	26	75	13	61	45	0	0	54	1.00
1498263--1498346	30	2.9	29	75	13	77	44	0	0	55	0.99
1498292--1498346	23	2.5	22	85	5	67	43	0	0	56	0.99
1498310--1498385	7	9.7	7	73	18	53	34	2	0	63	1.09
1498351--1498383	8	4.1	8	88	11	50	27	0	0	72	0.85
1498612--1498651	10	4.3	10	78	18	50	25	0	0	75	0.81
1498738--1498780	19	2.1	21	79	12	54	53	2	2	41	1.26
1498750--1498793	20	2.2	20	91	0	70	43	2	0	54	1.12
1499523--1499582	31	1.9	31	86	6	86	23	11	0	65	1.26
1499645--1499676	2	16.0	2	100	0	64	50	0	0	50	1.00
1500501--1500552	23	2.3	23	83	6	61	59	7	3	28	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1500541--1500579	4	9.2	4	83	10	51	71	2	0	25	0.98
1500553--1500630	38	2.1	36	80	15	88	57	1	2	38	1.20
1500562--1500676	38	2.9	41	80	13	116	58	1	1	38	1.19
1501425--1501560	56	2.4	56	98	0	263	38	9	5	46	1.59
1503375--1503463	27	3.3	27	76	14	92	52	2	0	44	1.13
1503426--1503505	42	1.9	42	94	0	142	50	1	1	47	1.17
1511335--1511372	19	2.1	19	95	5	69	26	13	10	50	1.73
1512957--1512987	13	2.4	13	94	0	53	83	3	6	6	0.88
1512967--1513017	18	3.1	16	81	13	59	84	0	11	3	0.75
1512963--1513022	6	10.0	6	75	12	52	81	0	15	3	0.81
1514460--1514531	20	3.6	20	80	0	90	34	13	9	41	1.78
1514829--1514884	28	2.0	28	96	0	103	50	23	7	19	1.72
1517451--1517599	57	2.6	56	80	9	167	31	10	10	47	1.71
1517491--1517568	29	2.8	28	80	18	106	30	8	8	51	1.64
1521357--1521417	27	2.4	26	84	10	65	45	8	3	42	1.50
1521372--1521426	27	2.2	24	84	12	67	45	9	1	43	1.46
1522006--1522063	5	11.8	5	77	15	50	1	18	0	79	0.82
1522001--1522076	35	2.2	34	79	9	82	3	22	0	73	0.99
1522081--1522214	66	2.0	66	84	5	173	42	18	5	32	1.75
1522509--1522558	26	1.9	26	83	0	64	36	2	2	60	1.20
1526175--1526222	24	2.0	24	100	0	96	54	8	12	25	1.65
1526603--1526644	21	2.0	21	85	4	57	30	21	19	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1527995--1528023	14	2.1	14	100	0	58	0	41	0	58	0.98
1543437--1543482	21	2.2	20	81	11	58	60	0	0	39	0.97
1545060--1545142	35	2.4	34	84	4	105	32	12	14	40	1.83
1545131--1545186	23	2.6	20	74	23	51	25	14	16	44	1.84
1545950--1546002	26	2.0	26	88	0	79	39	13	11	35	1.80
1547625--1547696	21	3.5	21	72	11	76	31	13	15	38	1.87
1547646--1547753	20	5.7	20	70	20	79	32	12	17	37	1.88
1547625--1547717	41	2.3	41	92	0	159	31	13	17	37	1.89
1547685--1547751	33	2.0	33	91	0	107	35	13	17	32	1.89
1547707--1547731	13	1.9	13	100	0	50	36	16	16	32	1.90
1547625--1547753	20	6.7	20	68	19	78	32	13	16	37	1.88
1550425--1550468	23	2.0	21	86	8	61	50	20	4	25	1.67
1556175--1556311	72	1.9	72	92	0	229	31	17	13	37	1.89
1556343--1556404	21	2.9	22	77	15	76	33	12	12	40	1.82
1556446--1556496	20	2.5	20	90	0	84	33	13	19	33	1.91
1561099--1561127	13	2.2	13	100	0	58	86	0	0	13	0.58
1562546--1562573	5	5.6	5	100	0	56	60	0	39	0	0.97
1562785--1562815	2	15.5	2	100	0	62	48	0	0	51	1.00
1563493--1563531	19	2.1	19	85	9	53	46	0	23	30	1.53
1564203--1564249	22	2.1	23	84	7	62	27	2	2	68	1.13
1565773--1565854	36	2.3	36	95	0	146	48	8	12	30	1.70
1567936--1568005	33	2.1	33	86	5	97	31	11	7	50	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1570244--1570789	154	3.5	154	81	5	602	38	17	16	27	1.91
1570244--1570908	308	2.2	310	81	4	738	37	17	17	27	1.92
1570244--1570891	155	4.2	154	80	7	652	37	17	17	27	1.92
1571295--1571565	133	2.0	135	92	2	449	42	13	9	35	1.76
1579591--1579664	20	3.7	20	83	0	103	31	16	12	40	1.85
1581169--1581220	27	2.0	26	82	10	63	23	32	13	30	1.93
1586059--1586129	22	3.2	23	75	16	78	73	8	9	8	1.26
1587400--1588517	28	37.7	29	77	11	769	30	29	17	22	1.96
1587414--1588517	538	2.1	529	83	5	1379	30	29	17	22	1.96
1588582--1588795	48	4.5	48	93	0	356	19	29	15	35	1.93
1589507--1589603	20	4.8	20	78	5	106	31	14	12	41	1.83
1594944--1595011	33	2.1	33	88	0	100	26	10	11	51	1.70
1596340--1596397	16	3.4	16	71	19	55	25	5	1	67	1.21
1596786--1596819	14	2.4	14	90	5	50	70	8	0	20	1.13
1597365--1597399	2	17.5	2	100	0	70	51	0	0	48	1.00
1599179--1599216	14	2.7	14	88	8	51	63	0	2	34	1.09
1607138--1607399	131	2.0	131	98	0	506	25	24	14	35	1.93
1636044--1636097	20	2.7	20	75	11	56	25	14	11	48	1.77
1638392--1640310	27	70.3	27	90	2	2895	22	33	14	28	1.94
1638392--1640310	82	23.4	81	90	1	2895	22	33	14	28	1.94
1640286--1640567	32	8.8	32	93	0	440	31	33	18	16	1.93
1641803--1641852	14	3.4	15	78	18	52	76	0	22	2	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1641800--1641856	10	5.4	10	80	17	62	78	0	19	1	0.83
1645772--1645831	29	2.1	29	87	6	86	45	11	8	35	1.71
1652311--1652353	14	2.9	15	79	10	52	27	9	9	53	1.63
1661124--1661184	16	3.8	16	78	4	59	36	0	6	57	1.25
1661127--1661179	17	3.1	17	81	5	54	33	0	7	58	1.26
1661110--1661196	33	2.6	33	79	0	93	32	2	6	58	1.37
1671212--1671557	59	5.9	59	74	8	249	40	13	15	30	1.85
1671212--1671557	118	2.9	118	78	8	303	40	13	15	30	1.85
1676399--1676890	237	2.1	238	83	3	616	36	13	23	27	1.92
1676419--1676888	79	5.9	79	78	7	382	35	13	23	27	1.92

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