genome.fa.s153.2.7.7.80.10.50.1000.7.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: Scaffold153
Parameters: 2 7 7 80 10 50 1000
Length:  3137677

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   

This is table  7  of  24  ( 2803 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)
872410--872475	29	2.3	29	97	0	123	39	4	33	22	1.75
873383--873500	20	5.8	20	77	11	125	38	11	16	32	1.86
873449--873508	20	2.9	21	77	5	77	36	13	18	31	1.89
873389--873508	41	3.0	41	87	6	156	37	12	17	32	1.87
874278--874318	10	4.2	10	82	14	50	36	0	0	63	0.95
875584--875820	127	1.9	126	97	0	447	38	13	13	35	1.83
875802--875834	2	16.5	2	100	0	66	51	0	48	0	1.00
876182--876285	30	3.5	31	77	10	108	35	10	2	50	1.52
877027--877065	2	19.5	2	100	0	78	51	0	0	48	1.00
877825--877860	15	2.4	14	86	13	54	61	2	0	36	1.11
877824--877870	19	2.5	19	83	10	60	59	2	0	38	1.09
878748--878810	32	2.0	32	100	0	126	15	12	14	57	1.66
879907--879978	22	3.2	22	66	11	56	54	18	0	27	1.44
879893--880035	45	3.2	44	85	3	178	57	16	0	25	1.40
879966--879990	11	2.3	11	100	0	50	60	24	0	16	1.36
881874--881934	30	2.0	30	100	0	122	26	22	3	47	1.67
888416--888498	34	2.4	34	93	0	148	21	0	36	42	1.53
888397--888512	34	3.4	34	84	1	133	25	0	34	39	1.62
894204--894250	21	2.2	21	85	7	60	46	23	23	6	1.75
899456--899499	1	44.0	1	83	0	52	90	6	2	0	0.51
899456--899499	6	6.6	7	85	14	58	90	6	2	0	0.51
899456--899499	14	3.3	13	90	9	63	90	6	2	0	0.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
899456--899499	20	2.2	20	92	4	72	90	6	2	0	0.51
902817--902843	3	9.0	3	100	0	54	33	0	0	66	0.92
904904--904952	26	1.9	26	84	12	66	26	6	6	61	1.43
906007--906052	23	2.0	24	86	4	67	67	0	8	23	1.18
906694--906737	20	2.0	23	87	12	67	50	0	0	50	1.00
914907--914931	4	6.2	4	100	0	50	48	28	0	24	1.52
915641--915670	10	3.0	10	95	0	51	56	0	43	0	0.99
920118--920143	6	4.3	6	100	0	52	65	0	34	0	0.93
921572--921614	14	3.1	14	89	0	59	34	2	0	62	1.08
924829--924856	7	4.0	7	100	0	56	42	0	0	57	0.99
925307--925354	15	3.3	14	80	11	60	50	0	0	50	1.00
925838--925904	21	3.2	19	73	24	55	62	0	2	34	1.10
925928--925981	17	3.4	16	77	22	60	50	0	0	50	1.00
925928--925979	15	3.4	14	75	25	52	48	0	0	51	1.00
925948--926050	45	2.2	46	81	13	122	52	2	0	44	1.16
926452--926486	10	3.4	10	88	7	52	51	0	2	45	1.16
926825--926903	5	16.8	5	67	17	53	43	0	1	55	1.07
926826--926901	27	2.7	28	84	13	86	43	0	1	55	1.08
926917--926980	11	6.3	11	70	27	52	39	0	1	59	1.07
926886--926970	24	3.6	24	71	13	61	47	0	0	52	1.00
926825--926989	49	3.3	46	74	12	132	44	0	1	54	1.07
926820--926988	14	12.4	14	69	16	81	43	0	1	55	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
928364--928414	19	2.6	20	87	3	68	35	9	13	41	1.78
928466--928490	13	1.9	13	100	0	50	32	8	16	44	1.76
934868--934923	20	2.8	19	89	5	76	39	14	16	30	1.88
934993--935018	13	2.0	13	100	0	52	38	15	15	30	1.88
934975--935039	32	2.0	34	90	6	107	44	15	12	27	1.82
936874--936905	15	2.1	15	100	0	64	15	12	18	53	1.73
938229--938268	13	3.1	13	88	0	62	35	15	12	37	1.85
940773--940833	20	3.1	19	79	6	68	32	13	14	39	1.85
942262--942331	37	1.9	36	82	5	88	44	1	0	54	1.09
942387--942427	11	3.5	11	87	12	55	26	0	0	73	0.84
942380--942427	12	3.8	12	84	15	53	29	0	0	70	0.87
942933--942970	14	2.6	15	87	8	60	52	2	5	39	1.38
944723--944770	21	2.3	20	83	13	62	68	0	2	29	1.01
954071--954125	22	2.5	22	94	5	94	43	1	1	52	1.22
954200--954241	3	14.0	3	100	0	84	66	0	0	33	0.92
954848--954885	19	2.0	19	100	0	76	21	36	5	36	1.76
956075--956144	24	2.8	25	89	6	99	44	25	8	21	1.80
956129--956199	27	2.6	27	88	6	99	46	23	7	22	1.76
956077--956202	24	4.9	24	77	12	92	46	25	7	21	1.77
958079--958124	21	2.1	22	84	4	58	19	30	19	30	1.97
960667--960736	24	2.8	25	89	6	99	44	25	8	21	1.80
960721--960791	27	2.6	27	84	6	90	46	22	7	23	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
961532--961569	3	13.0	3	88	5	60	65	2	0	31	1.06
961531--961565	17	2.1	17	94	0	61	68	2	0	28	1.04
962657--962685	14	2.1	14	100	0	58	27	13	44	13	1.82
963764--963808	2	22.5	2	100	0	90	51	0	0	48	1.00
965069--965111	17	2.6	18	82	14	56	55	2	0	41	1.12
966568--966606	21	1.9	20	89	5	60	43	2	0	53	1.14
967107--967157	14	3.6	14	78	5	57	62	1	1	33	1.17
967115--967180	31	2.2	28	82	15	71	54	0	3	42	1.15
967115--967180	29	2.2	30	84	10	82	54	0	3	42	1.15
973056--973095	20	2.0	20	86	13	57	62	5	7	25	1.42
973586--973616	16	1.9	16	100	0	62	51	3	0	45	1.17
974834--975066	50	4.6	51	88	4	332	31	20	18	29	1.96
974834--975066	100	2.3	101	90	0	369	31	20	18	29	1.96
978751--978956	103	2.0	103	100	0	412	24	16	26	33	1.96
979585--979817	50	4.6	50	92	0	367	30	20	20	29	1.97
980768--980798	16	1.9	16	93	0	53	38	0	0	61	0.96
986576--986617	13	3.1	14	83	16	61	38	0	0	61	0.96
987145--987341	73	2.7	71	80	8	200	33	2	8	55	1.42
987436--987477	18	2.5	17	76	7	50	42	2	4	50	1.36
987573--987621	22	2.2	21	79	10	53	38	0	8	53	1.31
990117--990151	2	17.5	2	100	0	70	48	0	0	51	1.00
994409--994498	47	1.9	46	82	14	114	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
994650--994689	16	2.5	16	88	8	55	50	0	0	50	1.00
995348--995395	23	2.1	22	85	11	62	62	0	0	37	0.95
995663--995716	28	2.0	27	88	3	81	29	14	24	31	1.95
997267--997300	16	2.1	16	88	0	50	32	20	8	38	1.84
1001900--1001980	36	2.2	34	77	14	81	50	2	0	46	1.14
1003307--1003336	10	3.1	10	90	9	53	60	0	0	40	0.97
1003307--1003352	19	2.4	19	85	7	58	63	0	2	34	1.07
1003532--1003569	20	1.9	20	88	0	58	42	5	0	52	1.24
1004661--1004919	36	7.6	35	72	17	179	55	0	2	41	1.18
1004717--1004775	28	2.1	28	84	6	75	50	0	3	45	1.18
1004663--1004919	99	2.6	99	94	2	433	55	0	2	41	1.18
1004692--1004812	63	1.9	64	85	10	167	55	0	1	42	1.15
1004676--1004955	67	4.1	68	71	17	183	55	1	1	40	1.21
1004885--1004975	38	2.4	37	83	9	110	59	3	1	36	1.21
1005316--1005373	25	2.2	27	78	9	66	39	3	0	56	1.16
1007209--1007239	2	15.5	2	93	0	53	48	3	0	48	1.17
1008149--1008189	21	2.0	21	85	9	57	39	0	2	58	1.11
1008719--1008745	13	2.1	13	100	0	54	40	7	7	44	1.60
1008875--1008932	26	2.1	28	81	12	68	37	0	12	50	1.40
1009839--1009863	2	12.5	2	100	0	50	52	0	0	48	1.00
1010255--1010303	21	2.3	22	78	3	55	40	2	4	53	1.32
1010899--1010941	22	2.0	23	86	9	63	62	2	9	25	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1011008--1011066	17	3.8	16	75	11	59	74	0	1	23	0.91
1010997--1011048	24	2.1	24	89	7	77	67	0	0	32	0.91
1011012--1011063	24	2.2	24	86	6	70	76	0	1	21	0.87
1011009--1011066	23	2.5	23	81	10	73	75	0	1	22	0.89
1012748--1012786	16	2.6	14	84	15	51	58	0	0	41	0.98
1012748--1012786	7	5.1	7	85	14	51	58	0	0	41	0.98
1013025--1013066	22	1.9	22	90	9	68	40	0	0	59	0.97
1013060--1013101	19	2.2	20	87	12	61	42	0	2	54	1.13
1013556--1013731	68	2.6	68	99	0	345	42	10	6	40	1.65
1014027--1014101	20	3.8	20	78	0	87	34	13	12	40	1.81

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