genome.fa.s221.2.7.7.80.10.50.1000.9.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: Scaffold221
Parameters: 2 7 7 80 10 50 1000
Length:  2539808

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  9  of  19  ( 2279 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)
1053774--1053828	1	55.0	1	77	0	56	89	7	3	0	0.60
1053773--1053820	12	3.9	12	89	5	78	87	10	2	0	0.62
1053786--1053843	9	6.1	10	80	6	50	82	6	6	3	0.93
1055055--1055150	29	3.3	29	95	0	165	29	32	14	23	1.94
1056417--1056450	4	8.2	4	90	3	50	52	0	0	47	1.00
1058639--1058713	20	3.8	20	78	0	87	34	13	12	40	1.81
1058639--1058716	40	2.0	39	87	2	111	34	12	12	39	1.82
1059629--1059684	22	2.5	23	94	5	105	17	10	8	62	1.52
1059637--1059691	22	2.6	21	88	5	58	20	9	9	61	1.52
1065259--1065291	9	3.8	9	92	4	50	75	0	0	24	0.80
1065257--1065295	15	2.5	16	87	8	62	74	0	0	25	0.82
1065261--1065320	23	2.6	23	82	10	68	68	0	0	31	0.90
1066024--1066052	14	2.1	14	100	0	58	58	6	20	13	1.58
1066036--1066176	71	2.0	71	88	0	210	43	11	9	35	1.74
1068104--1068148	24	1.9	23	86	13	65	62	2	0	35	1.08
1068162--1068223	18	3.4	18	73	10	54	56	0	0	43	0.99
1068171--1068222	18	3.0	17	83	10	61	57	0	0	42	0.98
1068555--1068590	14	2.6	14	86	0	54	41	5	0	52	1.24
1069441--1069475	3	11.7	3	87	0	52	31	5	0	62	1.18
1069442--1069475	9	3.8	9	92	0	59	32	5	0	61	1.20
1069887--1069946	24	2.4	25	86	8	86	45	0	0	55	0.99
1070069--1070123	22	2.6	21	83	11	69	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1070067--1070123	21	2.7	21	77	15	64	54	0	0	45	0.99
1070183--1070250	17	3.9	17	80	14	77	41	1	0	57	1.08
1070221--1070259	14	2.7	15	80	11	55	38	0	0	61	0.96
1070513--1070552	19	2.1	19	90	0	62	60	0	0	40	0.97
1070583--1070618	17	2.2	17	95	5	65	52	0	0	47	1.00
1070609--1070658	19	2.5	19	81	15	57	52	2	0	46	1.12
1071461--1071503	22	2.0	22	86	9	61	62	0	0	37	0.95
1074540--1074570	7	4.3	7	92	8	53	41	0	0	58	0.98
1074540--1074607	15	4.6	15	72	20	63	42	0	0	57	0.98
1074533--1074595	27	2.3	28	78	15	69	41	0	0	58	0.98
1074587--1074663	31	2.6	31	82	12	90	41	1	2	54	1.22
1074529--1074682	31	4.9	31	66	25	83	40	0	1	57	1.11
1074959--1075064	5	20.2	5	71	19	74	42	0	0	57	0.98
1074959--1075064	16	6.6	17	71	16	68	42	0	0	57	0.98
1074959--1075061	33	3.2	32	72	18	90	41	0	0	58	0.98
1074965--1075046	27	3.0	26	80	15	78	40	0	0	59	0.97
1075014--1075077	32	2.0	32	84	9	85	46	0	0	53	1.00
1075175--1075211	16	2.4	16	86	8	51	56	0	0	43	0.99
1075184--1075270	30	3.0	29	79	12	90	48	0	0	51	1.00
1075217--1075278	31	2.0	29	81	15	70	46	0	0	53	1.00
1075892--1076055	58	2.7	60	78	13	178	47	6	4	41	1.50
1076729--1076769	19	2.3	17	84	12	55	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1076738--1076814	35	2.1	36	80	4	84	58	0	0	41	0.98
1077078--1077143	15	4.4	15	73	21	66	40	0	0	59	0.98
1077084--1077174	18	5.5	17	70	19	59	40	0	0	59	0.97
1077115--1077169	18	3.2	17	79	20	62	41	0	0	58	0.98
1077078--1077183	30	3.5	28	73	22	83	42	0	0	57	0.98
1077078--1077183	47	2.3	43	74	17	106	42	0	0	57	0.98
1077082--1077189	32	3.3	30	74	17	92	41	0	0	57	1.05
1077451--1077492	23	1.9	22	85	9	59	59	2	4	33	1.31
1077624--1077680	23	2.5	22	78	15	64	52	0	0	47	1.00
1077655--1077684	16	1.9	15	93	6	51	60	0	0	40	0.97
1078053--1078103	10	5.4	10	77	20	56	33	0	0	66	0.92
1078076--1078113	17	2.2	17	86	9	51	34	0	2	63	1.09
1078142--1078180	13	2.9	14	85	7	55	56	0	0	43	0.99
1078633--1078666	16	2.1	16	88	5	50	38	0	0	61	0.96
1080077--1080114	12	3.2	12	88	3	51	34	0	0	65	0.93
1080150--1080184	11	3.0	12	83	8	54	25	0	0	74	0.82
1080420--1080489	20	3.5	22	74	20	64	58	2	0	38	1.13
1080427--1080486	18	3.2	20	77	20	58	56	3	0	40	1.16
1084382--1084441	19	3.1	19	76	9	66	48	0	0	51	1.00
1094076--1094100	2	12.5	2	100	0	50	52	0	0	48	1.00
1097731--1097872	45	3.3	40	71	15	97	51	1	1	45	1.18
1097745--1097848	45	2.3	46	85	3	131	50	0	0	48	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1097768--1097797	13	2.4	13	94	5	53	56	0	0	43	0.99
1098290--1098332	23	2.0	21	90	9	68	44	0	0	55	0.99
1098318--1098379	30	2.1	30	84	6	81	53	0	0	46	1.00
1103045--1103137	30	3.1	30	82	0	123	32	24	13	29	1.94
1107029--1107135	31	3.5	31	75	0	115	49	12	16	21	1.78
1107024--1107143	62	1.9	62	89	0	186	50	13	15	20	1.78
1113961--1114239	145	1.9	143	87	7	404	34	15	13	36	1.86
1115830--1115870	18	2.4	17	87	4	55	56	0	0	43	0.99
1115861--1115922	30	2.2	27	83	11	72	41	1	0	56	1.09
1118034--1118100	34	1.9	34	82	11	82	49	0	0	50	1.00
1118078--1118116	20	2.0	20	89	0	60	43	0	0	56	0.99
1118275--1118341	34	1.9	35	82	8	84	49	2	0	47	1.16
1118551--1118586	16	2.1	18	90	10	58	27	0	2	69	1.02
1118584--1118647	32	2.0	32	84	3	83	39	1	3	56	1.25
1118602--1118692	44	2.1	44	95	0	164	39	0	5	54	1.23
1118720--1118771	20	2.8	17	75	16	50	25	7	3	63	1.38
1119024--1119057	17	2.1	17	88	5	52	47	2	0	50	1.16
1119446--1119572	45	2.7	46	73	17	107	57	1	0	40	1.14
1119503--1119574	31	2.3	31	83	7	101	61	0	0	38	0.96
1119751--1119780	2	15.0	2	100	0	60	0	50	0	50	1.00
1126538--1126562	12	2.1	12	100	0	50	60	0	8	32	1.26
1127063--1127234	84	2.0	84	83	4	213	29	17	22	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1127308--1127363	24	2.3	24	77	17	62	53	3	0	42	1.18
1128031--1128075	19	2.4	19	85	10	58	40	0	0	60	0.97
1129189--1129250	32	2.0	31	87	9	90	64	0	1	33	1.03
1129185--1129239	17	3.5	15	75	15	58	67	0	1	30	1.01
1129319--1129358	20	2.0	20	90	9	64	47	0	2	50	1.14
1129925--1129962	18	2.2	17	90	4	58	63	0	2	34	1.09
1130533--1130584	25	2.0	25	85	11	68	55	0	3	40	1.18
1130684--1130748	20	3.1	21	76	13	71	47	0	0	52	1.00
1134991--1135055	21	3.2	20	72	23	55	46	0	1	52	1.10
1134990--1135067	22	3.6	23	79	17	71	47	0	1	51	1.09
1135026--1135089	20	3.3	19	76	10	58	54	0	0	45	0.99
1135502--1135543	19	2.1	20	78	13	50	54	0	2	42	1.13
1137431--1137479	24	2.1	23	84	3	62	48	0	0	51	1.00
1137773--1137802	3	10.0	3	100	0	60	0	33	0	66	0.92
1138154--1138235	37	2.2	38	95	4	148	32	2	12	52	1.52
1141173--1141228	17	3.4	18	71	26	52	55	8	0	35	1.31
1143028--1143065	19	2.0	19	94	0	67	31	18	21	28	1.97
1143889--1143936	23	2.0	24	84	8	62	47	0	0	52	1.00
1143880--1143939	32	1.9	30	83	6	75	48	0	0	51	1.00
1144024--1144067	21	2.2	21	84	8	56	47	4	0	47	1.22
1144062--1144113	9	5.8	9	78	13	54	75	0	0	25	0.81
1144066--1144126	21	3.2	21	69	26	71	72	0	0	27	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1144054--1144132	36	2.1	38	93	6	144	69	0	0	30	0.89
1149062--1149094	3	11.0	3	100	0	66	33	33	33	0	1.58
1149834--1149918	21	3.9	22	67	29	58	54	1	2	42	1.21
1149936--1149980	19	2.2	21	77	18	51	51	0	0	48	1.00
1151302--1151371	2	34.5	2	82	2	68	42	1	8	47	1.43
1152302--1152332	15	2.1	15	93	0	53	25	25	0	48	1.52
1153125--1153256	60	2.2	60	86	2	176	41	3	8	46	1.49
1153498--1153544	17	2.6	19	78	21	57	48	0	0	51	1.00
1153491--1153596	16	6.0	16	67	23	61	56	0	0	42	1.05
1156908--1156937	14	2.1	14	93	0	51	33	10	33	23	1.88

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19