genome.fa.s145.2.7.7.80.10.50.1000.7.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: Scaffold145
Parameters: 2 7 7 80 10 50 1000
Length:  2608604

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

This is table  7  of  15  ( 1729 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)
1289935--1289980	23	2.1	22	84	15	60	43	4	4	47	1.42
1290118--1290162	24	1.9	23	82	13	56	44	4	0	51	1.21
1296721--1296764	23	1.9	23	100	0	88	20	9	4	65	1.38
1300243--1300293	24	2.1	25	85	7	70	50	1	1	45	1.24
1300389--1300436	17	2.6	18	83	12	62	47	0	0	52	1.00
1300431--1300461	15	2.1	15	93	0	53	61	3	0	35	1.12
1301310--1301400	44	2.1	44	93	0	155	14	15	21	48	1.80
1302976--1303152	88	2.0	88	100	0	354	20	22	22	34	1.97
1303671--1303908	78	3.0	78	85	0	323	25	27	17	29	1.97
1305894--1305935	22	1.9	22	90	9	68	38	0	0	61	0.96
1306201--1306230	11	2.6	11	94	5	51	86	0	0	13	0.57
1306224--1306260	19	1.9	19	88	0	56	48	2	0	48	1.15
1306706--1306759	21	2.6	21	80	8	56	42	0	0	57	0.98
1307500--1307541	2	21.0	2	100	0	84	50	0	0	50	1.00
1311258--1311286	13	2.2	13	100	0	58	79	0	20	0	0.74
1311766--1311801	12	2.8	13	87	8	56	52	0	0	47	1.00
1312242--1312308	30	2.2	31	81	7	75	41	1	2	53	1.25
1312522--1312588	28	2.3	28	85	10	82	61	1	1	35	1.15
1321452--1321490	2	19.0	2	94	5	69	48	2	0	48	1.15
1323207--1323266	21	2.8	21	87	7	86	60	0	0	40	0.97
1323205--1323276	37	2.0	35	81	10	83	56	0	0	43	0.99
1323244--1323314	29	2.6	27	80	8	81	54	0	1	43	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1323244--1323327	14	6.1	14	78	10	75	53	0	1	45	1.08
1323452--1323502	22	2.3	22	80	12	61	37	1	1	58	1.20
1323452--1323502	21	2.3	21	78	21	52	37	1	1	58	1.20
1323729--1323800	10	7.1	10	71	24	53	55	1	5	37	1.32
1323745--1323818	11	7.0	11	68	18	50	55	1	5	37	1.31
1323727--1323837	21	5.4	21	76	10	88	56	3	4	35	1.37
1323876--1324013	33	4.3	32	71	17	83	55	7	2	34	1.42
1323876--1324022	21	6.9	21	73	5	107	55	7	2	34	1.42
1323792--1324012	86	2.5	86	76	10	207	56	6	3	33	1.43
1325451--1325519	20	3.5	19	75	11	57	56	5	5	31	1.47
1325481--1325521	21	2.0	21	90	0	64	51	7	7	34	1.58
1325584--1325632	21	2.3	21	89	0	71	57	4	0	38	1.18
1325850--1325915	21	3.2	20	80	8	78	59	7	3	30	1.41
1326410--1326453	3	14.7	3	100	0	88	34	0	0	65	0.93
1330558--1330628	34	2.1	34	84	10	92	33	0	2	63	1.09
1330712--1330773	19	3.3	18	75	16	54	38	1	6	53	1.37
1330777--1330833	22	2.4	25	77	14	66	22	1	5	70	1.17
1330923--1330953	10	3.1	10	100	0	62	19	0	0	80	0.71
1330918--1330964	21	2.2	20	81	7	58	27	0	0	72	0.85
1331151--1331203	29	1.9	26	85	11	70	33	1	0	64	1.05
1331673--1331712	15	2.5	16	88	8	55	57	0	0	42	0.98
1331673--1331715	16	2.6	17	85	10	63	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1332715--1332785	28	2.6	27	75	2	70	49	0	2	47	1.16
1332859--1332901	21	2.2	21	84	12	56	55	0	0	44	0.99
1336513--1336544	8	3.8	9	88	12	50	40	0	0	59	0.97
1336491--1336554	29	2.2	30	81	10	71	37	1	3	57	1.24
1336547--1336593	24	2.0	24	87	8	69	48	0	0	51	1.00
1336571--1336611	18	2.4	17	87	4	55	46	0	0	53	1.00
1339775--1339809	12	2.9	12	86	0	52	62	0	0	37	0.95
1340141--1340180	21	2.0	21	85	5	55	37	2	2	57	1.26
1340915--1340956	14	3.0	14	86	6	50	64	0	0	35	0.94
1341208--1341239	6	5.3	6	96	0	55	46	31	21	0	1.52
1344139--1344201	23	2.9	22	79	6	65	49	9	0	41	1.35
1344849--1344911	22	3.0	21	82	13	69	42	0	0	57	0.99
1344875--1344919	22	2.1	22	91	4	74	48	0	0	51	1.00
1344889--1344940	27	2.0	25	88	7	77	57	0	0	42	0.98
1352191--1352225	17	2.1	17	100	0	70	17	42	11	28	1.83
1352208--1352493	42	6.8	42	68	10	165	28	25	20	25	1.99
1352208--1352492	84	3.4	84	87	2	385	28	25	20	25	1.99
1357365--1357460	47	2.1	44	88	3	120	29	10	11	48	1.72
1357958--1358081	62	2.0	62	96	0	230	47	16	12	23	1.80
1361819--1361850	14	2.4	14	90	10	50	46	0	0	53	1.00
1362070--1362126	7	7.8	8	75	18	61	45	1	0	52	1.11
1362067--1362125	21	2.7	22	89	7	86	44	3	0	52	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1362074--1362123	15	3.5	15	76	15	52	44	2	0	54	1.11
1362310--1362361	20	2.6	20	73	8	52	50	1	5	42	1.37
1365762--1365800	20	2.0	20	85	10	53	48	0	0	51	1.00
1365834--1365868	11	3.2	11	87	0	52	34	0	0	65	0.93
1372022--1372106	30	3.0	30	67	19	83	37	3	1	57	1.23
1372016--1372083	24	2.8	23	80	8	64	36	2	2	57	1.29
1373445--1373484	2	20.0	2	100	0	80	0	50	0	50	1.00
1373484--1373511	2	14.0	2	100	0	56	50	0	0	50	1.00
1376681--1376716	17	2.1	18	89	5	56	47	0	0	52	1.00
1376677--1376717	19	2.2	19	86	8	57	51	0	0	48	1.00
1377312--1377388	29	2.5	31	72	12	79	42	1	0	55	1.07
1377325--1377370	18	2.5	18	86	10	58	39	2	0	58	1.10
1377601--1377652	16	2.9	19	71	23	51	44	0	0	55	0.99
1378070--1378105	16	2.2	16	90	0	54	47	19	11	22	1.80
1383622--1383672	7	7.0	7	79	14	50	49	0	0	50	1.00
1383626--1383673	16	3.1	16	88	8	73	52	0	0	47	1.00
1383622--1383666	23	1.9	24	86	4	65	48	0	0	51	1.00
1383629--1383675	15	3.1	16	87	9	71	46	0	0	53	1.00
1383608--1383673	30	2.2	29	84	12	82	48	0	0	51	1.00
1384364--1384398	14	2.3	15	90	9	54	17	0	5	77	0.96
1384646--1384694	19	2.6	19	87	3	73	44	0	0	55	0.99
1384646--1384696	18	2.8	18	74	11	50	43	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1384687--1384740	21	2.6	21	80	11	58	51	1	0	46	1.11
1385351--1385384	16	2.1	16	88	0	50	52	2	0	44	1.16
1385959--1385986	2	14.0	2	100	0	56	50	0	0	50	1.00
1387476--1387542	32	2.1	32	88	5	100	55	0	0	44	0.99
1387563--1387616	28	1.9	28	81	7	65	64	0	0	35	0.94
1387858--1387896	20	1.9	21	89	5	62	51	0	2	46	1.14
1388455--1388515	32	1.9	32	93	0	104	29	0	9	60	1.29
1388455--1388516	12	5.6	12	74	12	53	30	0	9	59	1.29
1388461--1388516	21	2.6	21	78	16	53	30	0	10	58	1.32
1390310--1390359	13	3.8	12	82	12	55	50	8	4	38	1.51
1393718--1393760	20	2.2	20	87	8	61	37	4	0	58	1.19
1395156--1395184	2	14.5	2	100	0	58	51	0	0	48	1.00
1397452--1397480	2	15.0	2	92	7	51	51	0	0	48	1.00
1398168--1398210	11	4.0	11	84	6	61	51	0	0	48	1.00
1398167--1398210	17	2.8	16	80	10	54	52	0	0	47	1.00
1398167--1398256	32	3.1	31	65	26	79	54	0	2	43	1.12
1398170--1398245	14	5.5	14	67	17	52	55	0	1	43	1.08
1399032--1399082	2	26.0	2	84	4	68	49	3	0	47	1.20
1399149--1399179	2	15.5	2	100	0	62	51	0	0	48	1.00
1399163--1399513	166	2.1	167	95	1	623	42	7	18	31	1.78
1399497--1399524	2	14.0	2	100	0	56	50	0	0	50	1.00
1401131--1401169	18	2.2	18	90	0	60	53	2	0	43	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1401363--1401393	13	2.4	13	94	0	53	41	25	16	16	1.88
1405321--1405390	20	3.5	20	78	3	68	47	1	5	45	1.35
1405320--1405391	21	3.5	21	76	3	65	47	1	5	45	1.34
1405361--1405421	20	3.0	20	81	15	72	45	0	0	54	1.00
1407203--1407249	23	2.0	23	91	0	76	44	0	0	55	0.99
1407205--1407259	23	2.4	22	76	11	56	43	0	0	56	0.99
1407259--1407340	32	2.6	33	78	16	102	48	0	1	50	1.08
1407308--1407371	25	2.5	26	82	7	85	51	0	0	48	1.00
1409897--1409929	15	2.1	16	88	5	50	54	0	0	45	0.99
1410417--1410459	18	2.2	21	84	12	56	53	4	0	41	1.21

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