genome.fa.s2356.2.7.7.80.10.50.1000.3.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: scaffold131
Parameters: 2 7 7 80 10 50 1000
Length:  1240061

Tables:   1   2   3   4   

This is table  3  of  4  ( 392 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)
873163--873210	18	2.5	20	78	21	57	68	0	0	31	0.90
872947--873340	196	2.0	197	99	0	781	38	4	16	40	1.69
874904--874942	18	2.2	17	86	13	53	33	0	20	46	1.51
875061--875089	8	3.6	8	100	0	58	24	13	27	34	1.93
875184--875274	23	4.0	23	95	0	146	21	21	25	30	1.99
877918--877996	39	2.0	39	95	0	140	54	7	1	36	1.37
879337--879488	33	4.5	34	71	23	106	33	27	18	20	1.96
879365--879416	27	1.9	27	100	0	104	30	32	21	15	1.94
879291--879491	102	2.0	102	94	0	357	32	27	18	21	1.97
879392--879502	33	2.9	41	71	25	123	33	26	17	23	1.96
881263--881439	87	2.0	88	95	1	320	29	18	7	44	1.77
885012--885072	28	2.2	28	93	0	104	26	26	19	27	1.99
888372--888419	24	2.0	25	83	4	62	16	6	8	68	1.35
889614--889640	11	2.5	11	100	0	54	33	0	0	66	0.92
892076--892140	33	2.0	33	87	6	96	35	6	13	44	1.69
895202--895388	51	3.7	50	74	7	162	26	12	23	36	1.91
897661--897840	41	4.4	41	87	0	234	21	28	21	28	1.98
899343--899385	22	1.9	22	85	4	59	37	13	0	48	1.43
899351--899400	22	2.3	21	80	10	55	38	12	0	50	1.40
904953--905025	33	2.2	33	85	4	94	32	30	10	26	1.90
905225--905365	41	3.4	41	85	1	176	19	30	19	29	1.97
905224--905411	82	2.3	82	80	5	202	20	29	21	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
905266--905439	41	4.2	40	77	2	150	21	29	21	27	1.99
909955--910071	1	117.0	1	100	0	234	0	0	0	100	0.00
919712--919736	2	12.5	2	100	0	50	0	0	48	52	1.00
920218--920263	16	2.6	18	77	16	51	30	0	0	69	0.89
920970--921031	31	2.0	31	84	6	81	43	9	1	45	1.46
921327--921375	24	2.0	24	92	0	80	42	12	18	26	1.85
924385--924411	4	6.8	4	100	0	54	77	22	0	0	0.76
927624--927991	184	2.0	184	96	0	673	48	18	10	22	1.78
930036--930114	37	2.2	36	90	2	122	51	25	10	12	1.70
930045--930123	37	2.2	37	83	2	97	55	21	11	11	1.66
930681--930730	3	16.7	3	100	0	100	68	0	0	32	0.90
931036--931073	18	2.1	18	95	0	67	18	5	18	57	1.58
935946--935995	20	2.5	19	83	6	64	40	2	4	54	1.31
942063--942117	29	1.9	28	81	3	65	27	7	5	60	1.46
944266--944314	19	2.6	19	93	0	80	67	8	4	20	1.34
945292--945352	20	3.0	20	80	4	79	59	6	13	21	1.57
945369--945521	42	3.7	42	73	6	141	52	9	16	21	1.72
945270--945664	20	19.7	20	64	16	68	52	8	17	20	1.71
945371--945539	83	2.0	83	90	2	268	53	9	17	20	1.71
945564--945676	38	2.9	38	79	9	120	53	6	20	20	1.67
947232--947257	2	13.0	2	100	0	52	50	0	0	50	1.00
950151--950201	20	2.6	19	79	14	50	45	3	1	49	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
950148--950195	21	2.3	21	79	10	55	50	4	0	45	1.21
950124--950200	40	1.9	40	81	5	93	46	3	3	45	1.39
952621--952672	24	2.1	25	85	3	70	17	23	21	38	1.93
952637--952689	24	2.2	24	82	0	61	16	30	20	32	1.95
964878--965005	63	2.0	63	93	0	220	29	14	13	42	1.83
965611--965693	33	2.5	33	83	11	116	46	7	15	30	1.73
966970--967729	151	5.0	151	91	3	1070	30	9	7	52	1.62
966970--967734	301	2.5	304	87	4	1080	30	9	7	52	1.61
972524--972570	24	2.0	24	91	0	76	31	25	6	36	1.81
992579--992662	39	2.2	39	97	0	159	23	21	17	36	1.94
996423--996456	3	11.3	3	87	12	52	35	2	0	61	1.11
997638--997672	17	2.0	18	88	5	54	31	8	5	54	1.54
1001560--1001596	11	3.8	10	83	16	51	27	0	0	72	0.84
1001887--1001930	17	2.4	18	81	14	54	18	4	2	75	1.09
1002255--1002325	31	2.3	31	77	15	76	33	11	15	39	1.83
1002459--1002551	31	3.1	30	78	12	75	49	7	7	35	1.59
1003480--1003516	18	2.1	19	90	10	60	32	0	2	64	1.07
1004284--1004348	29	2.3	29	81	5	71	23	16	16	43	1.88
1004590--1004615	12	2.2	12	100	0	52	30	30	0	38	1.58
1004588--1004709	51	2.4	51	93	4	201	28	29	0	41	1.56
1004717--1004775	31	1.9	31	96	0	109	38	0	0	61	0.96
1005823--1005847	7	3.6	7	100	0	50	28	0	12	60	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1006842--1006990	71	2.1	70	93	1	253	35	3	14	46	1.62
1006995--1007097	30	3.9	24	82	15	82	47	28	0	24	1.52
1006997--1007102	29	3.6	29	93	3	176	46	27	0	26	1.53
1016480--1016538	30	2.0	28	87	6	82	33	10	22	33	1.87
1017484--1017516	13	2.4	14	90	10	59	36	12	9	42	1.74
1017488--1017517	13	2.3	13	100	0	60	36	13	6	43	1.70
1020479--1020511	15	2.1	16	88	5	50	54	3	6	36	1.41
1021004--1021055	16	3.0	16	76	23	52	46	0	28	25	1.53
1021414--1021450	9	4.1	9	89	0	56	32	8	13	45	1.73
1021504--1021534	9	3.4	9	90	0	53	38	22	12	25	1.90
1024708--1024738	9	3.4	9	90	0	53	25	12	22	38	1.90
1026681--1026726	24	1.9	24	100	0	92	41	8	0	50	1.33
1026807--1026874	27	2.5	27	85	4	93	26	30	27	14	1.95
1026947--1027093	44	3.5	43	78	17	164	70	0	28	0	0.92
1026946--1027059	49	2.4	48	86	5	158	71	0	27	0	0.91
1026921--1027080	18	8.6	18	72	18	114	71	0	28	0	0.91
1026916--1027054	4	34.0	4	77	17	119	70	0	28	0	0.92
1026946--1027086	49	2.9	47	76	13	142	71	0	27	0	0.91
1030766--1030810	18	2.5	18	88	0	72	15	48	6	28	1.70
1031600--1031634	3	11.7	3	100	0	70	68	31	0	0	0.90
1031701--1031739	20	2.0	21	85	10	55	66	10	0	23	1.22
1031762--1031791	11	2.7	11	89	0	51	0	30	0	70	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1031892--1031966	27	2.8	27	93	4	125	16	29	29	25	1.96
1031892--1031975	27	3.1	27	89	0	123	15	30	28	25	1.96
1032018--1032064	23	2.0	23	100	0	94	57	0	8	34	1.29
1039687--1039721	18	1.9	18	94	0	61	14	22	37	25	1.92
1051651--1051694	23	2.0	22	81	4	52	11	11	2	75	1.15
1052707--1052741	15	2.2	16	90	5	54	54	0	0	45	0.99
1063371--1063455	41	2.0	42	97	2	163	50	4	7	37	1.51
1084708--1084804	10	10.6	9	71	16	74	64	1	3	30	1.15
1084721--1084768	19	2.5	20	86	6	71	64	0	2	33	1.05
1085002--1085066	19	3.4	19	79	8	69	30	7	0	61	1.24
1085002--1085055	19	2.7	20	85	8	74	25	7	0	66	1.17
1089704--1089743	22	1.9	22	90	10	66	62	15	12	10	1.54
1091365--1091391	2	13.5	2	100	0	54	48	0	0	51	1.00
1094092--1094120	15	1.9	15	100	0	58	72	0	0	27	0.85
1096360--1096513	61	2.5	60	82	5	177	44	5	9	40	1.62
1098605--1098659	24	2.3	24	87	3	76	30	10	0	58	1.33
1100450--1100492	21	2.0	21	82	8	52	55	9	9	25	1.61
1103503--1103532	15	1.9	16	93	6	53	33	0	6	60	1.23
1104270--1104701	150	3.0	149	84	9	511	31	9	7	52	1.60
1104298--1104728	138	3.0	146	84	9	496	31	9	7	51	1.62
1104823--1104861	19	2.1	19	85	4	53	66	15	12	5	1.41
1108948--1109122	43	4.1	43	100	0	350	18	23	18	39	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1111662--1111708	24	2.0	24	84	8	62	44	4	10	40	1.59
1112655--1113725	216	5.0	217	87	1	1444	30	17	18	33	1.94
1119424--1119553	66	1.9	68	85	3	183	31	16	24	26	1.97
1119549--1119578	12	2.4	13	94	5	53	46	0	10	43	1.37
1126349--1126391	17	2.5	17	96	0	77	48	6	4	39	1.51
1134329--1134411	21	4.0	22	70	16	77	57	0	2	39	1.12
1134329--1134411	11	7.9	11	75	18	70	57	0	2	39	1.12
1134344--1134428	41	2.1	40	95	2	152	64	0	2	32	1.06
1139475--1140035	279	2.0	279	98	0	1077	37	9	12	39	1.77
1142422--1142483	14	4.4	14	74	8	54	59	1	0	38	1.07

Tables:   1   2   3   4