genome.fa.s40.2.7.7.80.10.50.1000.7.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: Scaffold40
Parameters: 2 7 7 80 10 50 1000
Length:  3440810

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  ( 2833 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)
910568--911023	166	2.8	164	76	7	395	30	13	8	48	1.71
914662--914752	28	3.3	28	78	1	85	10	17	8	62	1.52
917785--917837	21	2.5	21	82	11	63	43	0	0	56	0.99
918100--918148	15	3.2	15	75	16	55	55	0	0	44	0.99
918093--918157	33	2.0	33	85	11	89	53	0	0	46	1.00
919915--919970	24	2.2	26	90	6	89	46	0	0	53	1.00
919915--919970	12	4.5	12	80	12	60	46	0	0	53	1.00
920079--920118	15	2.5	16	92	8	64	75	0	0	25	0.81
923426--923479	22	2.5	22	75	16	60	51	0	0	48	1.00
926971--927049	38	2.1	39	92	2	133	22	0	18	58	1.40
926927--927063	45	3.2	44	78	14	160	24	0	18	56	1.41
927083--927133	21	2.5	20	81	6	57	41	0	0	58	0.98
931851--931891	21	2.0	21	90	0	64	51	2	0	46	1.14
933103--933129	7	3.9	7	100	0	54	85	0	0	14	0.61
933988--934040	20	2.6	21	79	11	65	39	11	20	28	1.87
937744--937799	21	2.7	22	81	10	64	33	7	23	35	1.82
940055--940109	22	2.7	19	74	15	56	23	12	14	49	1.78
940151--940234	27	3.1	27	86	1	116	23	30	11	33	1.91
940108--940234	58	2.3	55	80	9	134	22	31	12	33	1.91
940124--940366	34	7.7	33	79	11	183	20	31	11	35	1.89
940206--940365	34	4.7	34	82	7	184	19	30	11	38	1.88
940206--940373	69	2.5	67	84	8	207	18	30	11	39	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
940367--940465	32	3.2	31	80	11	112	26	31	19	23	1.98
940367--940491	63	2.0	63	85	3	171	28	29	18	23	1.98
940367--940507	63	2.2	63	81	5	160	27	31	17	24	1.97
940573--940874	52	6.4	43	69	18	172	24	23	17	34	1.96
940599--940844	52	4.9	52	78	11	253	23	23	17	35	1.95
940576--940792	95	2.3	94	87	1	299	24	23	17	35	1.95
940620--940900	147	1.9	147	91	0	454	25	23	15	35	1.94
940746--940921	95	1.9	95	82	2	228	26	21	16	36	1.94
940599--940921	147	2.2	147	82	6	436	25	22	16	35	1.95
947916--947982	17	4.1	17	75	11	61	65	0	0	34	0.93
947902--947982	33	2.5	33	82	9	87	62	0	0	37	0.95
947909--947961	17	3.1	18	81	10	67	58	0	0	41	0.98
948208--948265	18	3.3	17	77	15	64	55	0	0	44	0.99
948186--948249	18	3.0	21	78	17	62	54	0	1	43	1.09
949872--949929	28	2.1	28	96	0	107	32	17	12	37	1.86
952321--952364	22	1.9	24	86	9	65	40	4	6	47	1.50
953710--953763	22	2.5	22	75	16	60	51	0	0	48	1.00
960712--960760	22	2.2	22	96	0	89	69	8	6	16	1.33
961680--961754	20	3.8	20	80	3	80	40	12	13	34	1.81
961677--961754	40	2.0	39	87	2	111	39	12	12	34	1.82
961991--962024	17	1.9	17	94	5	59	91	2	5	0	0.51
961991--962023	8	3.7	9	88	12	50	90	3	6	0	0.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
962281--962482	99	2.0	100	90	2	318	22	17	16	43	1.88
962815--962903	42	2.1	42	85	2	117	28	25	5	40	1.78
965186--965437	34	7.4	34	93	0	387	23	0	35	40	1.58
965245--965346	25	4.4	25	64	28	71	21	0	37	41	1.54
970166--970334	34	5.0	34	91	0	248	24	0	34	40	1.56
973951--973995	20	2.2	21	81	18	60	51	0	0	48	1.00
973951--973993	22	2.1	20	83	12	52	53	0	0	46	1.00
976031--976080	21	2.4	21	75	18	50	42	6	16	36	1.72
977195--977247	28	1.9	27	88	3	79	16	18	7	56	1.63
977195--977258	27	2.3	28	86	2	85	15	17	7	59	1.59
978505--978548	24	1.9	23	90	9	72	36	20	22	20	1.95
982626--982689	28	2.3	28	79	15	78	54	1	1	42	1.19
983095--983163	18	4.3	17	70	27	53	52	0	0	47	1.00
983104--983154	19	2.7	19	79	11	61	50	0	0	49	1.00
987257--987290	18	1.9	18	94	5	61	35	0	8	55	1.31
987262--987332	18	3.9	17	74	10	52	40	0	4	54	1.20
987328--987512	73	2.6	73	77	8	175	31	0	11	56	1.35
987657--987760	34	3.1	35	71	9	108	41	0	5	52	1.25
987644--987835	67	2.8	72	78	13	231	41	0	5	52	1.29
988625--988674	14	3.6	14	81	5	66	66	0	0	34	0.92
988627--988674	13	3.7	12	81	13	51	66	0	0	33	0.92
988623--988674	27	1.9	27	96	0	95	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
996316--996518	100	2.0	100	90	0	316	23	18	18	39	1.92
997120--997259	68	2.1	68	97	0	262	37	13	22	27	1.91
998864--998916	16	3.2	16	86	5	70	60	0	1	37	1.08
998958--998998	16	2.3	18	84	12	50	70	0	0	29	0.87
998984--999018	17	2.1	17	89	10	54	54	0	0	45	0.99
999111--999151	21	1.9	22	85	14	59	60	4	0	34	1.18
999664--999707	9	4.2	10	78	21	54	40	0	0	59	0.98
999666--999714	21	2.2	23	82	13	59	44	0	0	55	0.99
999928--999987	27	2.1	30	84	12	81	55	0	0	45	0.99
1000574--1000636	25	2.5	25	82	7	74	53	1	1	42	1.19
1000589--1000685	32	3.1	33	80	16	100	55	0	2	42	1.11
1000678--1000741	17	3.6	16	78	21	58	67	1	1	29	1.09
1000678--1000725	18	2.6	18	78	15	53	66	0	2	31	1.03
1000678--1000732	18	3.0	18	73	21	51	67	0	1	30	1.01
1007327--1007392	30	2.2	30	97	0	123	30	4	10	54	1.54
1007741--1007786	21	2.2	21	84	0	56	34	8	21	34	1.84
1008261--1008388	66	1.9	66	81	6	152	27	10	17	44	1.82
1008777--1008801	13	1.9	13	100	0	50	88	0	12	0	0.53
1008872--1008938	28	2.4	26	80	11	80	14	17	10	56	1.66
1009369--1009399	6	5.2	6	92	0	53	32	0	19	48	1.49
1010771--1010813	18	2.3	19	84	11	54	67	4	16	11	1.38
1011835--1011859	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)
1013800--1013829	13	2.3	13	100	0	60	33	16	13	36	1.88
1016011--1016044	17	1.9	18	88	5	52	35	0	2	61	1.11
1016112--1016167	25	2.3	24	82	11	69	35	0	0	64	0.94
1016115--1016167	8	6.5	8	77	12	54	35	0	0	64	0.94
1016114--1016161	17	2.8	17	78	12	62	39	0	0	60	0.97
1017429--1017614	79	2.4	78	83	4	214	35	22	15	26	1.94
1017429--1017635	78	2.6	77	80	7	220	35	22	14	28	1.93
1017892--1018212	59	5.4	58	78	7	308	44	16	10	28	1.80
1017942--1018035	29	3.2	28	72	8	80	45	17	8	28	1.77
1017933--1018212	119	2.4	117	83	6	359	45	17	9	28	1.79
1018843--1018877	12	3.0	12	95	4	63	0	22	0	77	0.78
1018843--1018891	23	2.1	24	84	3	64	0	24	0	75	0.80
1020119--1020338	84	2.6	84	83	3	246	37	19	8	34	1.82
1023286--1023315	15	1.9	16	93	6	53	10	23	0	66	1.21
1023616--1023664	24	2.0	24	100	0	98	28	20	16	34	1.94
1024544--1024578	18	2.0	17	88	5	52	71	2	2	22	1.13
1025153--1025252	49	2.0	49	100	0	200	26	10	23	41	1.85
1029939--1030724	429	1.8	429	96	0	1475	35	15	15	33	1.89
1031806--1031847	21	2.0	21	90	0	66	38	28	0	33	1.58
1036375--1036422	19	2.5	19	78	18	55	12	4	2	81	0.93
1036385--1036429	22	2.0	23	86	4	65	6	8	2	82	0.93
1036470--1036521	19	2.7	18	82	14	52	51	3	0	44	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1038157--1038207	16	3.3	15	76	17	50	45	0	0	54	0.99
1038150--1038232	32	2.5	33	84	7	107	45	1	0	53	1.08
1038209--1038259	25	2.0	25	85	7	68	39	1	0	58	1.09
1038219--1038293	11	6.8	11	72	11	55	33	1	1	64	1.11
1043160--1043248	34	2.7	33	80	15	94	55	0	0	44	0.99
1043191--1043254	15	4.0	16	74	20	53	56	0	0	43	0.99
1043198--1043252	27	2.0	27	83	13	69	56	0	0	43	0.99
1043235--1043294	25	2.4	25	81	13	61	65	0	0	35	0.93
1043221--1043288	17	3.9	17	77	11	66	61	0	0	38	0.96
1043255--1043307	23	2.4	22	84	6	70	60	0	0	39	0.97

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