genome.fa.s9.2.7.7.80.10.50.1000.7.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: Scaffold9
Parameters: 2 7 7 80 10 50 1000
Length:  3883850

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  ( 2830 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)
943979--944132	59	2.6	57	79	3	182	31	14	5	49	1.65
944012--944112	29	3.4	29	69	12	80	29	13	5	50	1.66
944952--945005	20	2.7	20	80	5	65	33	18	12	35	1.89
945034--945089	19	2.9	19	86	2	67	37	14	16	32	1.88
947572--947596	13	1.9	13	100	0	50	52	16	8	24	1.70
951651--951683	13	2.5	13	90	0	57	36	15	15	33	1.88
951728--951780	19	2.7	20	91	2	81	35	18	15	30	1.92
953328--953856	167	3.2	165	81	7	586	52	8	10	28	1.65
954395--954452	19	3.0	19	82	2	80	32	17	13	36	1.89
967714--967749	13	2.8	13	91	0	54	38	16	8	36	1.79
968071--968125	20	2.8	20	82	0	83	25	10	16	47	1.79
970423--970547	50	2.5	50	85	1	169	24	22	15	37	1.93
970486--970780	79	3.8	78	78	8	246	27	23	15	34	1.94
972683--972713	4	7.8	4	100	0	62	22	0	0	77	0.77
974147--974201	21	2.7	21	80	5	69	34	12	14	38	1.84
975913--976300	52	7.4	52	70	10	245	29	26	11	32	1.91
976080--976300	51	4.3	51	80	2	210	29	25	11	33	1.91
976283--976359	28	2.8	28	86	7	95	25	35	16	22	1.95
975918--976410	262	1.9	262	93	0	844	28	27	12	31	1.92
976313--976547	79	3.0	77	75	9	213	26	28	13	31	1.94
977458--977841	190	2.0	190	99	0	759	27	27	21	23	1.99
980409--980450	10	4.1	11	79	17	54	85	11	0	2	0.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
980408--980445	19	2.0	19	94	0	67	86	7	0	5	0.69
981744--982323	33	18.2	33	79	9	591	22	26	14	36	1.92
981744--982662	94	9.7	94	80	9	635	21	28	13	36	1.92
981750--982259	127	4.0	124	82	7	543	21	26	14	37	1.92
982301--982807	34	15.7	33	78	11	466	19	33	12	34	1.89
982305--982772	93	4.9	92	81	13	511	19	32	12	35	1.89
982433--982806	60	5.9	60	75	14	331	19	32	12	35	1.89
981744--982800	33	33.1	33	78	11	530	21	29	13	36	1.91
982957--983277	39	7.5	39	72	17	237	26	24	19	28	1.99
982898--983324	87	4.9	87	92	0	674	26	25	19	28	1.99
983244--983621	49	7.6	49	77	4	346	24	25	17	31	1.97
983240--983621	150	2.6	148	83	4	448	25	25	18	31	1.97
996044--996073	11	2.7	11	100	0	60	83	16	0	0	0.65
996041--996082	11	3.7	12	87	12	54	80	11	7	0	0.88
997071--997732	61	10.9	61	85	4	829	24	25	19	30	1.98
997934--997958	13	1.9	13	100	0	50	36	16	16	32	1.90
997912--997978	33	2.1	33	88	2	100	32	13	17	35	1.89
1004170--1004611	165	2.7	162	88	4	649	40	13	11	34	1.82
1005401--1005452	12	4.4	12	80	4	61	0	30	0	69	0.89
1006061--1006999	167	5.6	168	84	4	1046	51	8	10	29	1.66
1006132--1006999	165	5.2	165	85	3	1021	51	8	10	29	1.65
1007682--1007737	27	2.1	27	96	0	103	44	17	12	25	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1012461--1012582	39	3.1	40	73	13	119	36	13	11	38	1.80
1015650--1015698	26	1.9	25	87	4	71	36	22	6	34	1.79
1017271--1017311	21	2.0	21	90	0	64	73	12	0	14	1.11
1021416--1021441	13	2.0	13	100	0	52	30	15	15	38	1.88
1021502--1021574	20	3.6	20	81	3	101	31	19	13	35	1.91
1021480--1021574	41	2.3	42	96	1	174	29	17	12	40	1.87
1022180--1022225	16	2.8	16	93	6	74	30	39	2	28	1.69
1024030--1024068	13	3.0	13	96	0	69	35	15	17	30	1.91
1024054--1024132	20	3.7	20	70	20	70	45	16	12	25	1.82
1026143--1026173	15	2.1	15	93	0	53	12	22	16	48	1.80
1030235--1030260	13	2.0	13	100	0	52	30	15	15	38	1.88
1030321--1030393	20	3.6	20	81	3	101	31	19	13	35	1.91
1030299--1030393	41	2.3	42	96	1	174	29	17	12	40	1.87
1032341--1032407	33	2.0	33	88	0	98	34	11	13	40	1.81
1032361--1032385	13	1.9	13	100	0	50	36	16	16	32	1.90
1032451--1032475	13	1.9	13	100	0	50	32	16	16	36	1.90
1032484--1032608	52	2.4	52	94	0	214	36	18	18	27	1.94
1035302--1035331	15	2.0	15	93	0	51	16	16	0	66	1.25
1041342--1041400	28	2.1	28	93	6	102	44	10	16	28	1.81
1045810--1045845	13	2.8	13	86	0	54	72	0	0	27	0.85
1048991--1049163	52	3.3	52	92	0	283	30	16	16	36	1.91
1049151--1049176	13	2.0	13	100	0	52	38	15	15	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1049217--1049283	33	2.0	33	88	0	98	40	14	11	32	1.83
1049239--1049263	13	1.9	13	100	0	50	32	16	16	36	1.90
1050783--1051269	79	6.2	78	83	4	512	32	15	23	28	1.95
1050798--1051277	158	3.0	155	85	4	586	33	14	23	28	1.94
1050783--1051269	237	2.1	237	83	3	613	32	15	23	28	1.95
1053614--1053748	50	2.7	50	82	2	164	42	15	17	25	1.88
1056376--1056410	18	1.9	18	100	0	70	51	22	5	20	1.68
1057882--1057948	36	1.9	35	85	11	93	31	25	10	32	1.89
1061051--1061101	20	2.3	23	74	22	63	31	11	13	43	1.80
1061057--1061109	20	2.7	20	96	0	97	32	15	13	39	1.85
1061077--1061192	52	2.2	52	95	0	205	27	16	18	37	1.93
1061077--1061212	52	2.6	52	89	2	184	29	16	19	35	1.93
1061201--1061225	13	1.9	13	100	0	50	36	16	16	32	1.90
1061268--1061365	19	5.8	18	71	28	90	36	17	12	33	1.87
1061263--1061363	32	3.1	32	97	1	184	35	17	11	34	1.87
1061287--1061343	13	3.9	13	76	24	60	33	17	14	35	1.90
1061949--1061991	22	2.0	22	100	0	86	34	13	23	27	1.93
1062118--1062142	13	1.9	13	100	0	50	36	16	16	32	1.90
1063060--1063673	43	14.5	43	71	10	309	19	24	16	40	1.91
1063058--1063377	129	2.5	128	86	2	408	19	24	16	40	1.91
1065420--1065471	21	2.6	19	82	14	61	82	9	3	3	0.91
1066618--1067096	156	3.1	155	82	6	551	24	19	19	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1069111--1069667	153	3.6	153	78	7	506	35	10	7	47	1.66
1072166--1072230	32	2.0	33	87	3	96	32	9	16	41	1.80
1072267--1072421	52	3.0	52	93	1	249	34	18	16	29	1.93
1074535--1074583	27	1.9	26	84	12	66	24	38	18	18	1.93
1079003--1079069	37	1.9	35	88	11	102	29	25	11	32	1.92
1084848--1084873	13	2.0	13	100	0	52	30	15	15	38	1.88
1088622--1088684	12	4.8	12	73	17	54	80	12	3	3	0.94
1090126--1090497	56	6.5	56	88	4	501	32	32	15	19	1.93
1090126--1090514	173	2.3	172	90	3	588	32	32	15	19	1.93
1090126--1090514	27	13.6	27	80	10	391	32	32	15	19	1.93
1090548--1090897	49	7.3	49	81	4	435	24	25	19	30	1.98
1090556--1090897	98	3.6	98	93	2	543	24	24	19	31	1.98
1091315--1091686	56	6.5	56	87	4	492	32	32	15	19	1.93
1091315--1091703	58	6.8	57	87	4	491	32	32	15	19	1.93
1091317--1091703	27	13.5	29	80	9	395	32	32	15	19	1.93
1091737--1092097	49	7.5	49	80	4	430	24	25	19	30	1.98
1091771--1091857	43	2.0	43	88	0	129	25	27	18	28	1.98
1091745--1092106	98	3.7	98	91	2	547	24	25	18	31	1.98
1092825--1092889	32	2.0	33	90	3	105	32	10	16	40	1.84
1092911--1092935	13	1.9	13	100	0	50	32	16	16	36	1.90
1092944--1093072	52	2.5	52	96	0	231	36	17	17	29	1.92
1097954--1098024	20	3.5	20	74	11	65	40	14	12	32	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1097947--1098024	40	2.0	39	85	7	104	41	14	12	32	1.83
1098579--1100044	28	51.1	28	82	9	1460	23	18	30	27	1.98
1098584--1100044	111	12.7	113	84	7	1557	23	18	30	27	1.98
1101275--1101313	19	2.0	19	90	5	60	0	2	12	84	0.72
1105562--1105635	20	3.7	20	78	3	94	36	13	18	31	1.90
1105580--1105650	21	3.4	21	78	3	90	42	11	18	28	1.84
1105562--1105650	41	2.2	41	97	0	169	39	12	19	29	1.88
1105621--1105660	21	1.9	21	84	0	53	47	15	17	20	1.83
1106776--1106805	13	2.3	13	100	0	60	30	13	16	40	1.87
1108568--1108641	20	3.7	20	81	3	103	35	13	20	31	1.91

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