genome.fa.s30.2.7.7.80.10.50.1000.7.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: Scaffold30
Parameters: 2 7 7 80 10 50 1000
Length:  2650045

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  7  of  17  ( 1999 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)
889619--889662	21	2.1	21	87	8	63	0	6	11	81	0.86
892188--892242	13	3.8	13	75	25	56	36	14	16	32	1.89
892199--892261	19	3.7	18	76	24	73	33	12	17	36	1.88
892188--892266	32	2.5	32	97	0	149	35	12	16	35	1.87
892304--892328	13	1.9	13	100	0	50	32	16	16	36	1.90
892337--892412	32	2.4	32	93	0	125	32	18	21	27	1.96
892492--892538	22	2.1	22	96	0	85	34	14	19	31	1.92
906259--906312	10	5.3	10	84	10	74	87	11	0	1	0.63
906258--906312	19	2.9	18	79	12	65	85	12	0	1	0.68
907802--907962	34	4.7	33	78	9	153	18	32	11	36	1.87
907798--907957	68	2.3	68	86	4	205	20	32	12	35	1.90
907930--908001	27	2.6	28	88	4	101	25	31	15	27	1.95
907930--908057	28	4.6	28	79	5	109	29	31	15	23	1.95
908177--908347	48	3.5	48	85	10	222	23	26	18	30	1.98
909070--909112	13	3.1	13	75	18	50	23	6	9	60	1.51
909288--909312	13	1.9	13	100	0	50	36	16	16	32	1.90
909266--909331	19	3.8	19	72	25	65	33	12	15	39	1.84
909270--909336	32	2.1	33	94	2	118	35	11	16	35	1.86
909352--909432	13	7.1	12	70	28	61	37	17	11	34	1.85
909353--909432	34	2.4	34	95	0	151	36	17	11	35	1.86
909441--909569	52	2.5	52	94	0	231	36	17	17	27	1.93
909618--909662	22	2.0	22	95	0	81	33	11	22	33	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
917732--917763	16	2.0	16	100	0	64	50	18	12	18	1.78
926516--926579	28	2.3	28	83	0	74	39	18	18	23	1.93
928320--929358	404	2.6	404	77	3	876	27	29	20	22	1.98
952807--952878	35	2.1	35	97	0	135	36	20	5	37	1.76
969413--969580	84	2.0	84	94	0	291	40	14	22	22	1.90
976750--976799	12	4.3	12	82	7	52	84	12	4	0	0.76
976750--976799	23	2.2	22	86	10	66	84	12	4	0	0.76
976750--976811	20	3.0	19	79	13	61	80	12	6	0	0.89
978046--979122	28	37.5	28	80	6	941	27	29	18	24	1.98
978046--979122	57	18.7	58	79	7	1006	27	29	18	24	1.98
978046--979122	261	4.2	256	82	5	1149	27	29	18	24	1.98
979994--980069	20	3.8	20	82	5	91	32	10	14	42	1.80
980979--981039	22	2.9	21	92	7	106	24	9	9	55	1.63
982168--992983	983	11.0	983	99	0	21218	29	20	14	35	1.93
997514--997683	79	2.2	79	80	2	189	32	15	25	25	1.96
997623--997734	51	2.2	51	85	3	145	33	15	25	26	1.95
997749--997862	49	2.3	49	84	6	140	32	13	24	29	1.93
997778--997890	49	2.3	50	87	3	156	35	8	23	32	1.86
997778--997911	49	2.7	48	82	9	135	35	10	23	30	1.89
1000327--1000378	21	2.6	21	90	6	81	32	15	13	38	1.86
1005285--1005403	62	1.9	63	85	1	168	22	45	15	16	1.85
1006883--1008771	405	4.7	403	79	4	1730	18	24	29	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1007142--1008771	810	2.0	809	82	2	1977	18	23	30	27	1.98
1010835--1011942	554	2.0	554	95	0	1993	32	16	20	30	1.94
1014422--1014492	20	3.6	19	83	7	88	40	12	15	30	1.85
1015128--1015166	10	4.0	10	86	3	53	2	7	7	82	0.94
1015139--1015175	19	1.9	19	88	0	56	8	2	13	75	1.13
1016537--1017080	28	18.9	28	80	7	445	23	18	29	28	1.97
1016640--1017080	113	3.8	113	80	7	406	23	18	29	28	1.97
1026881--1027048	51	3.3	49	80	6	156	30	12	26	29	1.93
1027039--1027104	28	2.4	27	80	7	78	27	21	28	22	1.99
1027052--1027107	28	2.0	28	89	0	85	30	17	30	21	1.96
1033481--1033506	13	2.0	13	100	0	52	30	15	15	38	1.88
1036563--1036676	34	3.4	34	86	6	144	30	23	8	36	1.85
1041312--1041929	161	3.8	162	81	6	614	41	13	10	34	1.78
1042873--1042910	15	2.5	15	91	4	58	2	21	0	76	0.91
1043317--1043771	162	2.8	162	77	5	389	51	8	11	28	1.67
1043394--1043771	162	2.3	162	81	6	435	52	7	10	29	1.63
1053844--1053995	52	2.9	52	89	3	218	30	15	17	36	1.92
1054014--1054111	19	5.8	17	71	28	77	36	18	12	32	1.88
1054033--1054089	13	3.9	13	76	24	60	33	19	14	33	1.91
1054012--1054109	32	3.0	32	93	1	169	35	18	12	33	1.88
1054964--1055031	21	3.2	21	62	25	52	27	17	29	25	1.97
1054963--1055287	43	7.1	44	77	12	341	30	17	26	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1054955--1055287	92	3.6	92	94	0	576	30	17	25	25	1.97
1054964--1055287	135	2.4	131	79	12	321	30	17	25	25	1.98
1055285--1055807	32	16.2	32	85	7	673	20	18	33	28	1.96
1055284--1055807	65	8.1	65	89	3	774	20	18	33	28	1.96
1055282--1055807	98	5.4	98	90	3	798	20	18	33	27	1.96
1055809--1056162	34	10.9	34	72	17	204	32	13	34	20	1.91
1055814--1055998	61	3.0	61	90	4	273	30	12	36	20	1.90
1055809--1056154	95	3.6	96	81	8	339	31	13	34	20	1.91
1055999--1056058	29	2.1	29	87	0	84	33	13	28	25	1.93
1055965--1056157	63	3.0	62	77	12	189	33	13	32	20	1.92
1056064--1056130	35	1.9	35	87	0	98	32	14	32	19	1.92
1055846--1056162	95	3.3	98	84	7	341	30	13	35	20	1.91
1055835--1056155	61	5.0	67	78	14	221	31	13	34	20	1.91
1059770--1059841	28	2.6	28	86	4	92	22	19	36	22	1.95
1062589--1062733	55	2.9	47	86	10	166	18	22	28	29	1.98
1062636--1063420	59	13.5	59	87	4	910	25	21	27	25	1.99
1062634--1063420	234	3.4	235	87	4	1021	26	20	27	25	1.99
1064410--1064477	31	2.2	31	81	5	75	0	10	5	83	0.79
1064425--1064477	17	3.2	16	81	10	63	0	5	7	86	0.69
1064426--1064478	27	2.0	27	88	0	79	0	5	9	84	0.76
1064440--1064477	15	2.5	15	100	0	76	0	5	5	89	0.59
1077028--1077099	28	2.6	28	86	4	92	22	19	36	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1077088--1077211	51	2.4	50	81	5	140	33	12	21	32	1.90
1084813--1084941	52	2.5	52	92	0	213	28	18	17	34	1.94
1084950--1084974	13	1.9	13	100	0	50	36	16	16	32	1.90
1085017--1085081	19	3.7	19	75	23	79	38	16	12	32	1.86
1085036--1085060	13	1.9	13	100	0	50	32	16	16	36	1.90
1085015--1085079	32	2.0	32	96	0	121	36	16	12	33	1.87
1086223--1086259	3	12.3	3	88	0	56	27	32	2	37	1.71
1087828--1087879	13	4.0	13	80	9	70	40	17	11	30	1.85
1087831--1087891	26	2.3	26	91	0	95	40	19	8	31	1.81
1087831--1087891	13	4.7	13	78	8	61	40	19	8	31	1.81
1093280--1094231	29	33.4	29	78	6	687	29	26	16	28	1.96
1094048--1094120	25	2.7	27	81	6	87	30	30	10	28	1.91
1095164--1095217	20	2.7	20	88	2	72	40	9	16	33	1.80
1095276--1095329	21	2.6	21	82	8	67	33	14	20	31	1.93
1096178--1096216	21	1.9	21	89	5	62	20	23	10	46	1.81
1097365--1097636	97	2.8	97	84	3	336	27	23	11	37	1.89
1098617--1098860	79	3.1	77	73	7	204	47	16	20	15	1.83
1098810--1098903	41	2.3	41	85	1	127	46	15	21	15	1.83
1099026--1099349	86	3.8	86	75	6	257	41	15	23	19	1.89
1099026--1099349	43	7.6	43	73	6	228	41	15	23	19	1.89
1099269--1099384	43	2.7	43	84	4	128	43	18	20	18	1.89
1100592--1100643	19	2.7	20	87	6	79	28	13	15	42	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1101277--1101372	47	2.0	47	97	0	183	32	18	10	38	1.85
1102745--1102787	20	2.1	20	91	4	68	9	27	44	18	1.80
1103229--1103266	13	2.9	13	96	0	67	31	15	18	34	1.92
1105347--1105377	15	2.1	15	93	0	53	12	22	16	48	1.80
1109438--1109463	13	2.0	13	100	0	52	30	15	15	38	1.88
1114936--1115347	80	5.2	78	81	6	411	33	11	26	28	1.91
1114969--1115347	159	2.4	159	81	5	426	35	11	25	28	1.90
1117919--1117943	7	3.6	7	100	0	50	12	12	0	76	1.04
1117912--1117959	23	2.1	23	88	0	69	8	16	0	75	1.04
1117925--1117961	16	2.3	16	90	0	56	5	13	0	81	0.86

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17