genome.fa.s71.2.7.7.80.10.50.1000.10.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: Scaffold71
Parameters: 2 7 7 80 10 50 1000
Length:  5741892

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   

This is table  10  of  33  ( 3929 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)
1534394--1534424	14	2.1	15	94	5	55	38	0	0	61	0.96
1535734--1535778	2	22.5	2	100	0	90	51	0	0	48	1.00
1536199--1536249	22	2.5	20	77	20	59	35	0	1	62	1.06
1536202--1536246	22	2.0	23	91	4	74	33	0	2	64	1.06
1536200--1536245	12	4.2	11	78	18	51	30	0	2	67	1.03
1536685--1536735	20	2.6	19	79	11	59	43	0	0	56	0.99
1536706--1536806	22	4.9	19	70	21	71	43	0	0	55	1.06
1537764--1537793	7	4.4	7	95	4	53	23	0	0	76	0.78
1537760--1537807	13	3.7	13	81	8	53	29	0	0	70	0.87
1537836--1537884	22	2.2	22	77	0	53	44	0	0	55	0.99
1537870--1537896	10	2.7	10	100	0	54	33	0	0	66	0.92
1537981--1538031	22	2.4	21	76	20	61	29	0	0	70	0.87
1537929--1538143	118	1.8	118	85	4	306	40	3	2	53	1.31
1538369--1538401	17	1.9	17	100	0	66	18	0	0	81	0.68
1538375--1538400	12	2.2	12	100	0	52	15	0	0	84	0.62
1538470--1538504	14	2.4	15	85	9	54	62	2	0	34	1.10
1538509--1538564	16	3.6	14	82	17	67	80	0	0	19	0.71
1538509--1538564	7	7.3	7	84	15	67	80	0	0	19	0.71
1538509--1538564	25	2.4	23	83	13	78	80	0	0	19	0.71
1539814--1539851	16	2.2	16	90	9	58	21	0	0	78	0.74
1540074--1540098	9	2.8	9	100	0	50	48	0	0	52	1.00
1540115--1540192	20	4.1	19	74	11	61	46	7	1	44	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1540650--1540699	16	3.0	17	77	11	50	60	0	2	38	1.09
1541106--1541176	30	2.4	29	81	9	81	35	2	4	57	1.33
1542451--1542497	17	2.7	18	83	12	62	63	4	0	31	1.13
1543559--1543595	4	9.2	4	100	0	74	75	0	0	24	0.80
1548345--1548378	16	2.1	17	88	5	52	32	8	26	32	1.87
1548460--1548484	5	5.0	5	100	0	50	80	0	0	20	0.72
1551484--1551525	14	2.9	15	80	20	54	42	0	0	57	0.99
1553554--1553599	20	2.4	20	92	7	78	73	0	15	10	1.08
1559592--1559616	2	12.5	2	100	0	50	48	0	0	52	1.00
1559830--1559893	25	2.4	26	80	15	78	51	0	1	46	1.10
1563946--1564037	32	2.7	33	81	8	105	55	2	0	42	1.12
1563978--1564079	6	15.0	7	66	24	58	56	1	0	40	1.17
1563981--1564081	27	3.7	27	75	15	91	57	1	0	39	1.17
1570716--1570757	19	2.2	19	83	8	50	33	2	0	64	1.07
1576227--1576289	30	2.1	30	100	0	126	52	6	15	25	1.66
1578993--1579176	97	1.9	97	85	4	255	29	17	9	42	1.81
1578990--1579194	97	2.1	97	80	3	243	29	18	11	40	1.85
1581355--1581410	20	2.7	21	75	5	60	48	8	16	26	1.75
1581437--1581510	20	3.6	20	79	13	78	32	16	12	39	1.85
1583815--1583858	22	2.0	22	100	0	88	54	4	4	36	1.41
1584008--1584032	13	1.9	13	100	0	50	52	0	8	40	1.31
1584539--1584575	18	2.1	18	94	0	65	56	18	10	13	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1587393--1587612	79	2.8	78	79	3	244	35	13	23	28	1.92
1587547--1587643	51	1.9	51	91	0	158	39	9	20	30	1.84
1587542--1587661	51	2.4	51	82	1	152	35	11	24	28	1.90
1587603--1587822	77	2.8	77	84	5	264	32	13	26	27	1.94
1590131--1590160	13	2.3	13	100	0	60	40	13	16	30	1.87
1590761--1591113	41	8.5	42	71	12	221	40	12	24	21	1.88
1590764--1591118	84	4.2	84	72	13	268	41	12	24	21	1.87
1591084--1591548	62	7.6	61	81	6	525	28	18	27	25	1.98
1591567--1591757	61	3.1	61	85	8	271	25	17	28	27	1.98
1591815--1592279	61	7.6	61	80	6	498	28	18	27	25	1.98
1591815--1592276	124	3.8	122	83	6	539	28	18	27	25	1.98
1592298--1592493	61	3.2	61	84	8	281	25	17	29	27	1.98
1591014--1592488	731	2.0	731	99	0	2905	28	17	28	25	1.97
1593465--1593514	15	3.4	14	84	13	57	0	8	6	86	0.72
1593479--1593517	15	2.6	15	87	0	60	0	2	7	89	0.56
1605928--1606146	79	2.8	78	76	4	226	32	12	25	29	1.93
1606003--1606275	130	2.1	132	84	6	360	32	10	26	30	1.90
1606081--1606196	51	2.3	51	87	0	160	31	8	28	31	1.87
1606131--1606355	77	2.9	77	79	5	229	32	11	26	28	1.91
1608611--1608666	18	3.0	18	76	19	69	37	14	30	17	1.90
1608614--1608666	20	2.8	19	82	5	63	37	15	28	18	1.91
1609245--1609298	21	2.7	20	72	8	56	37	14	11	37	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1611447--1611471	13	1.9	13	100	0	50	36	16	16	32	1.90
1611427--1611527	32	3.1	32	94	1	166	35	10	17	35	1.85
1611565--1611589	13	1.9	13	100	0	50	32	16	16	36	1.90
1611598--1611778	52	3.5	52	97	0	335	34	18	18	28	1.95
1623531--1623597	33	2.0	33	88	0	98	34	11	13	40	1.81
1623551--1623575	13	1.9	13	100	0	50	36	16	16	32	1.90
1623641--1623665	13	1.9	13	100	0	50	32	16	16	36	1.90
1623674--1623801	52	2.5	52	94	3	224	33	17	17	30	1.94
1630740--1630766	14	1.9	14	100	0	54	88	11	0	0	0.50
1631013--1631056	15	3.0	15	83	3	54	84	9	6	0	0.79
1632069--1632150	30	2.7	31	88	1	112	25	28	18	28	1.98
1632097--1632262	68	2.4	69	88	6	243	20	32	13	33	1.91
1632065--1632262	35	6.0	33	82	9	192	20	30	14	34	1.92
1632099--1632263	35	4.9	35	82	11	193	20	32	13	33	1.91
1632267--1632332	33	2.0	34	96	3	125	27	37	18	16	1.92
1632332--1633076	49	15.7	49	83	9	915	25	26	18	30	1.98
1632430--1633032	43	13.1	43	81	12	657	25	26	18	29	1.98
1632381--1633032	92	7.0	92	89	5	922	25	26	18	29	1.98
1632986--1633366	170	2.2	170	81	6	412	23	25	14	36	1.93
1633936--1634002	33	2.0	33	88	0	98	34	11	13	40	1.81
1633956--1633980	13	1.9	13	100	0	50	36	16	16	32	1.90
1634046--1634070	13	1.9	13	100	0	50	32	16	16	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1634079--1634206	52	2.5	52	94	3	224	33	17	17	30	1.94
1641139--1641173	13	2.9	12	91	8	54	91	8	0	0	0.42
1641420--1641464	15	3.0	15	83	6	56	84	8	6	0	0.78
1642475--1642556	30	2.7	31	88	1	112	25	28	18	28	1.98
1642503--1642668	68	2.4	69	88	6	243	20	32	13	33	1.91
1642471--1642668	35	6.0	33	82	9	192	20	30	14	34	1.92
1642505--1642669	35	4.9	35	82	11	193	20	32	13	33	1.91
1642705--1643449	49	15.7	49	83	9	908	25	26	18	30	1.98
1642803--1643405	43	13.1	43	81	12	657	25	26	18	29	1.98
1642754--1643405	92	7.0	92	89	5	915	25	26	18	29	1.98
1643359--1643739	170	2.2	170	82	6	430	22	25	15	36	1.93
1644309--1644375	33	2.0	33	88	0	98	34	11	13	40	1.81
1644329--1644353	13	1.9	13	100	0	50	36	16	16	32	1.90
1644419--1644443	13	1.9	13	100	0	50	32	16	16	36	1.90
1644452--1644579	52	2.5	52	96	3	233	33	17	17	31	1.93
1649231--1649652	29	14.5	29	84	6	509	31	29	16	22	1.96
1649231--1649652	88	4.8	88	89	3	606	31	29	16	22	1.96
1649227--1649652	117	3.7	116	90	2	597	30	29	15	23	1.96
1649724--1650186	43	10.1	43	80	13	521	24	24	18	31	1.97
1649724--1650239	95	5.5	94	95	1	851	24	24	18	32	1.97
1649818--1649885	22	3.1	22	62	19	52	26	25	17	30	1.97
1650940--1650994	13	3.8	13	75	25	56	34	12	18	34	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1650920--1651020	32	3.1	32	95	1	175	34	10	18	35	1.86
1650918--1651015	19	5.8	18	69	28	81	33	11	18	36	1.86
1651058--1651082	13	1.9	13	100	0	50	32	16	16	36	1.90
1651091--1651271	52	3.5	52	97	0	335	35	18	18	27	1.94
1657956--1657987	16	1.9	17	93	6	57	40	0	0	59	0.97
1658648--1658673	2	13.0	2	100	0	52	50	0	0	50	1.00
1661663--1661709	22	2.2	22	92	3	78	34	10	8	46	1.69
1663539--1663635	27	3.6	25	82	9	104	36	2	4	57	1.29
1663625--1663666	21	2.0	21	95	0	75	42	2	0	54	1.13
1671673--1672071	52	7.7	52	70	4	205	24	23	15	36	1.94

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