genome.fa.s13.2.7.7.80.10.50.1000.8.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: Scaffold13
Parameters: 2 7 7 80 10 50 1000
Length:  2744999

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  8  of  15  ( 1714 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)
1510748--1510867	52	2.3	52	86	2	170	31	17	18	32	1.94
1510975--1511127	70	2.2	70	100	0	306	33	16	15	33	1.91
1512326--1512407	28	2.9	28	80	7	96	26	17	31	24	1.97
1512390--1512560	51	3.3	51	79	4	198	32	11	26	29	1.92
1512543--1512618	27	2.8	28	88	6	102	21	21	34	23	1.97
1515067--1515121	20	2.8	20	82	0	74	45	16	14	23	1.84
1515141--1515208	19	3.9	18	76	23	83	38	14	11	35	1.83
1515163--1515187	13	1.9	13	100	0	50	32	16	16	36	1.90
1515144--1515206	32	2.0	32	96	0	117	36	15	12	34	1.86
1515244--1515299	21	2.7	21	97	0	103	35	19	10	33	1.87
1515302--1515334	17	1.9	17	100	0	66	12	3	0	84	0.72
1515926--1516658	55	13.3	53	92	3	1070	21	20	29	28	1.98
1516192--1516281	26	3.3	26	68	14	74	20	17	33	28	1.95
1516222--1516310	29	3.2	29	67	20	89	19	19	33	28	1.96
1516467--1516611	26	5.3	26	61	18	71	21	18	31	28	1.97
1517642--1517701	12	4.8	12	81	6	57	1	8	6	83	0.88
1517665--1517700	14	2.7	14	91	8	58	2	11	0	86	0.68
1529905--1529986	28	2.9	28	80	7	96	26	17	31	24	1.97
1529969--1530139	51	3.3	51	79	4	198	32	11	26	29	1.92
1530122--1530197	27	2.8	28	88	6	102	21	21	34	23	1.97
1532668--1532693	13	2.0	13	100	0	52	38	15	15	30	1.88
1532647--1532713	33	2.0	33	88	0	98	43	16	14	25	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1532755--1532779	13	1.9	13	100	0	50	32	16	16	36	1.90
1534130--1534174	19	2.3	19	88	3	63	53	6	4	35	1.47
1535089--1535157	3	23.0	3	100	0	138	33	0	0	66	0.92
1535244--1535278	18	1.9	18	100	0	70	54	0	22	22	1.45
1536058--1536111	20	2.7	20	97	0	99	33	14	11	40	1.82
1536165--1536215	20	2.5	20	96	0	93	35	15	19	29	1.93
1545054--1545106	20	2.7	20	91	2	81	37	15	15	32	1.88
1546020--1546049	15	2.1	15	93	6	53	43	0	0	56	0.99
1546293--1546320	3	9.3	3	100	0	56	67	0	0	32	0.91
1549682--1549741	12	4.8	12	73	13	50	40	0	1	58	1.08
1549718--1549801	19	4.2	20	70	20	61	32	0	3	64	1.11
1550343--1550374	16	1.9	16	93	6	55	46	0	0	53	1.00
1550342--1550377	16	2.2	16	85	5	54	50	0	0	50	1.00
1551508--1551568	2	30.5	2	93	0	104	47	0	3	49	1.18
1551779--1551817	4	9.8	4	82	0	51	51	17	2	28	1.59
1551779--1551837	16	3.7	16	86	0	73	50	11	1	35	1.49
1551815--1551848	2	17.0	2	100	0	68	50	0	0	50	1.00
1555016--1555040	13	1.9	13	100	0	50	36	16	16	32	1.90
1554996--1555093	33	3.0	32	88	5	126	35	14	17	32	1.90
1554995--1555060	20	3.7	19	71	26	63	31	15	18	34	1.92
1566702--1566745	22	2.0	21	95	4	79	34	4	27	34	1.77
1567332--1567383	19	2.7	20	81	3	61	32	11	13	42	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1567430--1567495	20	3.7	20	73	26	83	37	12	15	34	1.84
1567416--1567494	33	2.4	33	100	0	158	37	12	15	34	1.85
1567417--1567474	13	4.9	13	72	23	65	37	13	15	32	1.87
1567416--1567497	13	7.2	13	67	29	62	36	12	15	35	1.85
1572026--1572156	52	2.5	52	97	0	244	29	17	19	34	1.94
1572196--1572261	32	2.0	33	88	2	98	36	13	12	37	1.82
1573150--1573565	43	8.8	52	77	14	276	32	17	24	25	1.97
1573221--1573565	43	7.6	43	83	9	420	31	18	24	25	1.98
1573221--1573565	92	3.8	86	88	5	420	31	18	24	25	1.98
1573310--1573377	21	3.2	21	64	25	52	30	16	26	26	1.96
1573221--1573565	135	2.5	135	93	2	573	31	18	24	25	1.98
1573572--1574026	32	14.2	32	88	5	622	16	18	36	28	1.92
1574046--1574119	35	2.1	35	85	2	96	36	9	31	22	1.86
1574098--1574185	30	3.0	29	83	3	95	23	17	34	25	1.96
1574004--1574247	128	1.9	129	84	2	330	27	13	33	24	1.94
1574046--1574251	34	6.3	34	77	8	144	28	12	34	24	1.91
1574225--1574284	27	2.2	26	83	13	77	30	11	33	25	1.91
1574004--1574315	128	2.4	127	81	6	308	28	13	33	25	1.94
1574197--1574311	60	1.9	61	85	5	162	26	12	36	25	1.91
1574284--1574343	31	2.0	29	83	6	75	26	15	35	23	1.94
1575563--1575592	15	2.0	15	93	0	51	0	0	16	83	0.65
1582565--1582589	13	1.9	13	100	0	50	36	16	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1582649--1582673	13	1.9	13	100	0	50	32	16	16	36	1.90
1582628--1582693	32	2.0	33	94	2	116	36	16	12	34	1.86
1590511--1590601	40	2.2	41	88	3	130	31	2	20	45	1.64
1591332--1591356	13	1.9	13	100	0	50	32	8	16	44	1.76
1591423--1591480	13	5.0	12	78	18	61	34	12	18	34	1.88
1596526--1596654	52	2.5	52	96	0	240	28	18	17	34	1.94
1596663--1596687	13	1.9	13	100	0	50	36	16	16	32	1.90
1596732--1596815	13	5.5	13	71	28	60	35	17	13	33	1.89
1596740--1596836	19	5.8	18	72	27	97	37	17	12	32	1.87
1596732--1596834	32	3.2	32	98	0	197	35	18	12	33	1.89
1600904--1600966	20	3.2	20	83	0	90	33	14	12	39	1.84
1601291--1601342	10	5.1	10	88	2	77	82	17	0	0	0.66
1601293--1601352	9	6.4	9	81	12	59	83	16	0	0	0.65
1601304--1601348	23	2.0	23	86	8	65	86	13	0	0	0.57
1601294--1601352	12	5.1	12	84	10	70	84	15	0	0	0.62
1602600--1602927	28	11.7	28	86	4	358	28	31	16	24	1.96
1602606--1602927	56	5.7	56	88	4	434	28	30	16	24	1.96
1602606--1602927	84	3.8	84	86	4	443	28	30	16	24	1.96
1602917--1603006	32	2.8	32	91	0	153	28	26	21	23	1.99
1603731--1603893	20	7.6	20	74	14	146	31	14	12	42	1.82
1603731--1603889	40	3.7	40	75	16	165	31	13	12	42	1.82
1603768--1603943	51	3.7	50	77	16	210	30	16	11	41	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1603717--1603943	91	2.5	91	94	0	400	30	15	11	41	1.83
1605576--1605604	10	2.7	11	94	5	51	34	13	0	51	1.42
1617821--1617874	25	2.2	24	87	12	76	85	9	0	5	0.75
1619120--1619615	28	17.5	28	87	4	635	30	31	16	22	1.95
1620398--1620448	20	2.5	20	83	0	66	35	11	13	39	1.82
1620362--1620498	71	1.9	71	92	0	229	31	16	11	40	1.85
1624358--1624391	16	2.1	17	94	5	61	35	11	17	35	1.87
1628421--1628451	15	2.1	15	93	0	53	48	16	22	12	1.80
1630663--1630708	21	2.2	20	81	11	58	32	19	4	43	1.71
1632350--1632390	20	2.0	20	100	0	82	34	4	34	26	1.78
1633119--1633144	13	2.0	13	100	0	52	38	15	15	30	1.88
1637573--1637624	16	3.4	16	71	10	54	50	0	0	50	1.00
1637605--1637648	18	2.3	20	80	7	56	50	0	0	50	1.00
1638161--1638487	169	2.0	164	85	3	447	31	15	13	39	1.86
1638787--1638820	2	17.0	2	100	0	68	50	0	0	50	1.00
1639723--1639751	3	10.0	3	92	7	51	0	65	0	34	0.93
1642858--1642888	13	2.5	13	94	5	55	58	0	0	41	0.98
1647894--1647959	33	2.0	33	93	0	114	39	18	21	21	1.93
1652908--1652969	33	1.9	33	93	3	108	38	17	22	20	1.93
1653392--1653457	33	2.0	33	91	5	107	21	25	18	34	1.96
1663500--1663556	28	2.1	28	83	3	71	47	5	28	19	1.71
1663414--1663656	132	1.8	132	94	0	432	43	17	20	18	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1672429--1672481	23	2.3	23	78	12	63	47	0	0	52	1.00
1672561--1672626	11	6.2	11	79	12	75	77	1	21	0	0.85
1672561--1672626	21	3.1	21	80	4	78	77	1	21	0	0.85
1672561--1672615	17	3.4	17	79	20	64	76	0	23	0	0.79
1672561--1672619	6	9.8	6	74	18	52	77	0	22	0	0.76
1672741--1672798	11	5.2	11	81	4	71	24	1	1	72	1.03
1672745--1672798	17	3.2	17	74	10	56	24	1	1	72	1.05
1672750--1672803	23	2.3	24	84	9	67	25	1	3	68	1.16
1673606--1673648	22	2.0	22	81	9	52	39	0	2	58	1.11
1675804--1675870	24	2.6	25	84	13	75	41	2	4	50	1.37

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15