genome.fa.s64.2.7.7.80.10.50.1000.8.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: Scaffold64
Parameters: 2 7 7 80 10 50 1000
Length:  7997333

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   40   41   42   43   44   45   

This is table  8  of  45  ( 5312 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)
1520015--1520096	16	5.2	16	70	20	57	58	3	0	37	1.16
1520011--1520091	31	2.6	31	78	14	80	59	3	0	37	1.15
1521413--1521470	13	4.6	13	76	8	57	62	1	3	32	1.22
1522233--1522265	14	2.4	14	94	0	57	54	0	0	45	0.99
1523868--1523897	2	15.5	2	93	6	53	50	0	0	50	1.00
1530041--1530066	2	13.0	2	100	0	52	50	50	0	0	1.00
1530066--1530092	2	13.5	2	100	0	54	51	0	0	48	1.00
1532011--1532042	2	16.0	2	93	0	55	50	46	3	0	1.17
1532671--1532722	19	2.5	20	79	11	52	61	1	0	36	1.07
1534508--1534570	2	31.0	2	75	15	58	46	3	3	47	1.34
1536427--1536461	3	11.7	3	93	0	61	34	0	2	62	1.10
1538486--1538540	28	2.0	27	83	16	69	54	0	1	43	1.10
1539315--1539427	59	1.9	60	83	7	149	33	13	5	47	1.65
1539286--1539445	59	2.7	59	72	11	139	31	11	6	50	1.64
1539610--1539665	26	2.2	26	83	0	67	53	0	3	42	1.18
1539726--1539774	12	3.5	14	81	16	57	42	2	4	51	1.32
1539796--1539836	21	2.1	20	82	13	50	53	4	4	36	1.44
1540343--1540381	18	2.2	18	85	0	51	58	0	0	41	0.98
1540428--1540471	19	2.2	21	84	8	56	52	2	0	45	1.13
1541934--1542099	11	15.2	11	69	18	80	39	1	1	57	1.17
1541962--1542001	18	2.1	20	86	9	57	50	0	5	45	1.23
1544296--1544381	25	3.3	25	75	14	68	60	0	0	39	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1545936--1545973	2	19.0	2	94	0	67	50	2	0	47	1.15
1547071--1547150	9	8.7	9	73	13	56	33	0	2	63	1.08
1547095--1547138	20	2.3	19	85	11	63	34	0	4	61	1.16
1547198--1547265	29	2.3	29	79	13	77	29	2	0	67	1.05
1554025--1554062	18	2.1	18	90	0	58	55	0	0	44	0.99
1559081--1559137	20	2.9	20	80	14	66	52	0	0	47	1.00
1560141--1560184	18	2.5	18	89	10	65	68	0	0	31	0.90
1560147--1560191	19	2.4	18	85	7	54	68	2	0	28	1.01
1562448--1562485	19	2.0	20	89	5	60	44	0	0	55	0.99
1562407--1562500	48	1.9	49	83	12	122	48	0	0	51	1.00
1562813--1562867	24	2.2	26	87	9	80	47	0	0	52	1.00
1566408--1566510	49	2.0	51	85	10	140	51	0	0	48	1.00
1570632--1570663	2	16.0	2	93	0	55	46	3	50	0	1.17
1574406--1574451	24	1.9	24	90	0	74	71	0	2	26	0.97
1574701--1574764	25	2.7	25	81	15	66	35	0	0	64	0.94
1574695--1574764	28	2.7	26	82	6	70	35	0	0	64	0.94
1574920--1574957	11	3.5	11	85	10	51	31	5	0	63	1.17
1574922--1574971	22	2.4	22	76	6	59	32	6	0	62	1.20
1575091--1575126	7	5.1	7	100	0	72	27	0	0	72	0.85
1575684--1575728	23	1.9	23	82	13	56	22	6	4	66	1.33
1576139--1576177	19	2.0	20	85	5	53	61	0	0	38	0.96
1576135--1576192	15	3.8	16	70	23	52	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1576160--1576230	26	2.7	28	81	14	73	49	1	0	49	1.09
1576171--1576217	22	2.2	20	81	7	58	51	2	0	46	1.13
1576143--1576220	34	2.3	33	79	14	88	52	1	0	46	1.08
1576175--1576230	26	2.1	27	90	3	87	48	1	0	50	1.11
1577083--1577130	22	2.0	23	84	11	62	50	2	0	47	1.12
1576889--1577121	112	2.1	115	79	6	260	42	3	6	48	1.43
1577080--1577149	36	2.0	35	83	8	88	50	1	0	48	1.09
1577080--1577144	17	3.7	17	76	17	53	49	1	0	49	1.10
1584688--1584714	2	13.5	2	100	0	54	51	0	0	48	1.00
1584714--1584766	2	26.5	2	88	0	79	50	5	43	0	1.25
1584840--1584878	3	13.0	3	100	0	78	33	0	0	66	0.92
1585308--1585379	25	2.9	24	70	15	58	54	0	0	45	0.99
1585797--1585866	18	3.9	18	72	20	58	55	0	0	44	0.99
1585785--1585866	24	3.2	26	83	11	82	56	0	0	43	0.99
1586521--1586568	8	5.9	8	78	11	53	83	2	12	2	0.83
1587657--1587697	20	2.0	20	90	0	64	58	2	0	39	1.11
1595904--1596647	254	2.9	254	99	0	1479	40	20	15	23	1.91
1600281--1600339	22	2.8	21	84	5	73	35	3	5	55	1.38
1600281--1600339	21	2.8	22	82	5	68	35	3	5	55	1.38
1601733--1601768	3	12.0	3	100	0	72	66	0	0	33	0.92
1605326--1605408	23	3.7	22	71	11	71	60	1	1	37	1.12
1605337--1605443	42	2.6	41	76	15	105	61	0	0	37	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1605331--1605436	21	4.8	21	70	16	65	61	0	0	36	1.09
1605602--1605662	29	2.2	27	82	11	70	55	0	0	44	0.99
1608948--1608994	23	2.0	23	100	0	94	12	25	12	48	1.77
1619639--1619678	2	20.0	2	100	0	80	0	50	0	50	1.00
1622046--1622081	2	18.0	2	94	0	63	47	52	0	0	1.00
1622394--1622443	13	3.9	13	75	19	52	52	0	2	46	1.12
1623985--1624034	2	25.0	2	93	0	82	52	2	0	46	1.12
1624668--1624732	33	2.0	33	88	8	98	30	12	15	41	1.84
1632435--1632497	33	1.9	33	86	0	90	25	30	17	26	1.97
1633263--1633305	22	2.0	22	81	4	52	41	6	9	41	1.64
1633521--1633568	20	2.4	20	82	6	53	37	8	18	35	1.81
1634492--1634527	2	18.0	2	100	0	72	50	0	0	50	1.00
1636388--1636426	2	19.5	2	94	0	69	48	0	2	48	1.15
1636628--1636653	13	2.0	13	100	0	52	92	0	7	0	0.39
1639188--1639239	19	2.8	19	80	11	54	44	1	0	53	1.11
1639243--1639277	15	2.4	15	90	4	54	71	0	0	28	0.86
1640042--1640122	32	2.4	34	80	14	105	46	0	1	51	1.08
1640139--1640173	17	2.1	17	94	5	63	45	0	0	54	0.99
1640841--1640879	18	2.2	18	86	9	53	35	0	0	64	0.94
1641749--1641781	2	16.5	2	100	0	66	51	0	0	48	1.00
1647720--1647900	98	1.9	93	87	5	263	28	17	24	29	1.97
1648884--1648954	32	2.2	32	97	2	133	42	12	8	36	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1652970--1653283	156	2.0	154	94	1	547	27	25	13	33	1.93
1657459--1657513	22	2.6	22	78	16	71	36	0	1	61	1.06
1657454--1657535	27	2.9	28	80	12	96	36	0	1	62	1.03
1657663--1657695	17	2.0	17	94	5	59	60	3	0	36	1.12
1668654--1668683	2	15.0	2	100	0	60	50	0	0	50	1.00
1672152--1672225	30	2.5	30	80	2	87	52	4	1	41	1.28
1682552--1682584	2	16.5	2	100	0	66	48	0	0	51	1.00
1683638--1683722	19	4.8	18	68	22	63	50	1	0	48	1.08
1683635--1683764	53	2.5	53	89	5	192	49	4	0	45	1.28
1683688--1683951	91	2.9	91	90	1	413	43	13	5	37	1.68
1683823--1683898	38	2.0	38	92	0	125	44	17	7	30	1.77
1683861--1684875	53	18.7	53	80	9	751	40	17	7	35	1.78
1683861--1687022	159	20.3	159	81	11	3473	39	17	7	35	1.78
1684182--1684254	38	1.9	38	97	0	137	45	19	6	28	1.76
1684126--1684307	91	2.0	91	94	0	319	41	18	7	32	1.78
1684841--1684913	38	1.9	38	82	0	92	46	15	6	31	1.71
1684876--1685284	53	7.7	53	93	0	658	39	17	7	34	1.79
1685285--1685959	53	12.7	53	92	0	1064	39	17	8	35	1.79
1685963--1686368	53	7.7	53	94	0	677	38	17	8	35	1.80
1685872--1686050	91	2.0	91	90	0	286	42	16	7	34	1.75
1686333--1686405	37	1.9	38	94	2	130	46	19	6	27	1.75
1686348--1686406	17	3.3	17	68	13	55	42	18	6	32	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1686280--1686852	91	6.0	91	78	12	531	41	17	7	33	1.77
1686369--1686670	53	5.7	53	93	1	500	41	17	6	34	1.76
1686372--1687022	106	6.4	106	83	9	740	41	16	7	35	1.76
1686636--1686696	19	3.2	18	69	17	52	49	19	6	24	1.72
1686741--1686800	17	3.3	17	70	17	57	41	16	6	35	1.75
1686763--1687022	53	4.8	53	88	2	367	40	15	7	36	1.76
1686993--1687060	19	3.6	19	67	15	59	39	14	7	38	1.74
1686977--1687060	38	2.2	38	89	0	123	41	15	8	34	1.77
1687016--1687207	53	3.6	53	92	1	305	41	15	7	35	1.74
1686924--1687113	91	2.1	92	87	1	274	41	14	7	36	1.75

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   40   41   42   43   44   45