genome.fa.s145.2.7.7.80.10.50.1000.5.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: Scaffold145
Parameters: 2 7 7 80 10 50 1000
Length:  2608604

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

This is table  5  of  15  ( 1729 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)
947858--947888	12	2.6	12	94	0	53	3	51	0	45	1.17
956002--956035	17	2.1	17	88	5	52	82	0	17	0	0.67
957042--957083	16	2.6	16	88	3	57	38	0	0	61	0.96
958272--958310	5	8.0	5	82	5	53	58	0	0	41	0.98
958272--958313	20	2.1	20	90	0	66	57	0	0	42	0.99
963632--963668	18	2.0	19	85	15	51	45	8	16	29	1.76
969674--969763	22	4.1	22	64	21	55	55	2	0	42	1.12
969695--969734	21	1.9	21	89	0	62	57	2	0	40	1.12
969685--969742	30	2.0	30	83	10	75	56	1	0	41	1.09
971174--971218	21	2.2	21	84	4	56	44	0	4	51	1.21
972108--972155	4	12.0	4	86	0	51	41	2	6	50	1.39
972108--972155	6	8.0	6	78	0	51	41	2	6	50	1.39
972434--972463	2	15.0	2	100	0	60	50	0	0	50	1.00
973025--973115	14	6.8	14	71	15	59	40	1	0	58	1.05
974601--974680	30	2.7	30	75	11	85	45	0	1	53	1.08
974614--974647	14	2.5	14	90	4	52	44	0	0	55	0.99
978932--978960	2	14.5	2	100	0	58	48	0	0	51	1.00
983585--983626	20	2.0	20	82	13	50	64	2	0	33	1.07
983595--983621	11	2.5	11	100	0	54	62	0	0	37	0.95
983749--983789	19	2.2	18	86	4	55	63	0	0	36	0.95
983725--983787	11	6.1	11	75	15	55	61	1	0	36	1.05
991898--991937	13	3.0	13	85	3	53	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
992822--992867	24	2.0	23	95	4	83	32	0	0	67	0.91
1002478--1002522	21	2.1	22	87	4	65	33	0	2	64	1.06
1002475--1002530	21	2.4	24	74	20	64	37	0	1	60	1.07
1005025--1005055	14	2.2	14	100	0	62	58	12	6	22	1.58
1005220--1005250	16	1.9	16	93	0	53	70	0	0	29	0.87
1005319--1005365	22	2.1	22	96	0	85	59	2	8	29	1.39
1007158--1007189	2	16.0	2	100	0	64	50	0	0	50	1.00
1008022--1008064	20	2.2	20	91	4	70	51	0	0	48	1.00
1009358--1009409	22	2.3	22	83	9	61	38	1	0	59	1.08
1009345--1009415	22	3.0	22	71	20	56	43	1	0	54	1.08
1009382--1009429	25	2.0	24	84	11	64	41	0	0	58	0.98
1009415--1009456	15	2.7	15	85	10	50	64	0	0	35	0.94
1009763--1009795	16	2.1	15	94	5	57	0	9	0	90	0.44
1009763--1009798	12	3.0	12	95	0	63	0	11	0	88	0.50
1009862--1009894	1	33.0	1	100	0	66	100	0	0	0	0.00
1011065--1011104	20	2.0	21	85	9	57	27	0	2	70	1.01
1011072--1011113	20	2.0	21	86	13	61	23	0	0	76	0.79
1012177--1012224	18	2.5	19	80	16	55	52	0	0	47	1.00
1015003--1015055	2	26.5	2	100	0	106	50	0	0	49	1.00
1015873--1015900	2	14.0	2	100	0	56	0	50	0	50	1.00
1016455--1016559	27	3.8	26	78	14	97	55	0	1	42	1.11
1016467--1016541	26	2.7	27	76	15	66	54	0	1	44	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1017566--1017590	10	2.5	10	100	0	50	52	0	0	48	1.00
1024206--1024283	32	2.5	32	85	6	99	48	0	0	51	1.00
1024349--1024449	37	2.7	37	82	11	116	40	0	2	56	1.14
1024407--1024478	11	6.2	12	77	16	64	40	0	0	59	0.97
1024457--1024503	19	2.5	19	77	19	53	40	0	0	59	0.97
1024749--1024973	111	2.0	111	99	0	441	46	7	9	36	1.63
1025833--1025865	16	2.1	16	88	11	50	45	12	0	42	1.41
1026557--1026611	15	3.5	15	85	9	65	30	0	1	67	1.01
1028378--1028424	25	1.9	24	86	4	67	48	0	2	48	1.13
1028831--1028878	14	3.3	14	77	11	51	47	0	2	50	1.12
1028820--1028863	16	2.7	15	86	10	52	50	0	0	50	1.00
1029264--1029308	22	2.1	21	84	8	56	31	4	0	64	1.13
1030920--1030968	24	2.0	24	100	0	98	34	16	8	40	1.78
1034708--1034794	13	6.4	14	74	14	58	49	1	1	48	1.16
1034718--1034780	24	2.5	24	85	10	74	49	0	1	49	1.10
1034709--1034780	25	2.8	26	79	12	78	50	0	1	48	1.09
1035150--1035181	2	16.0	2	100	0	64	50	0	0	50	1.00
1035961--1036034	18	4.2	18	70	19	57	62	0	1	36	1.04
1035985--1036061	32	2.3	33	82	10	79	59	0	1	38	1.06
1036501--1036563	16	4.0	15	76	10	54	39	0	0	60	0.97
1036617--1036666	8	5.9	8	77	13	55	56	0	0	44	0.99
1036617--1036672	17	3.1	19	71	19	57	57	0	0	42	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1040319--1040344	2	13.0	2	100	0	52	50	0	0	50	1.00
1041940--1041997	29	2.0	30	89	3	91	36	0	0	63	0.94
1043728--1043785	29	2.0	29	96	0	107	37	29	10	22	1.87
1046836--1046875	20	2.0	20	100	0	80	20	20	15	45	1.86
1047478--1047544	35	2.0	34	83	13	86	56	1	0	41	1.08
1047787--1047835	19	2.7	20	78	15	61	51	0	0	48	1.00
1047797--1047879	20	3.8	21	68	20	62	45	0	0	54	0.99
1047783--1047848	27	2.3	28	82	17	75	48	0	0	51	1.00
1047795--1047883	33	2.8	32	80	11	101	44	0	0	55	0.99
1049075--1049106	2	16.0	2	100	0	64	50	0	0	50	1.00
1051590--1051635	19	2.4	20	82	7	51	56	0	0	43	0.99
1051768--1051809	21	2.0	21	85	0	57	64	0	7	28	1.20
1052021--1052056	19	2.1	19	85	15	51	11	11	2	75	1.16
1057895--1058089	97	2.0	97	91	5	315	33	21	12	33	1.90
1060759--1060790	17	1.9	16	93	6	55	78	0	0	21	0.76
1060743--1060792	16	3.1	16	80	13	57	74	0	0	26	0.83
1071227--1071266	21	1.9	21	89	0	62	5	57	2	35	1.34
1076722--1076754	16	2.0	17	94	5	59	42	0	0	57	0.98
1076639--1077069	215	2.0	215	93	0	738	35	6	10	48	1.62
1076875--1076950	21	3.7	20	76	15	75	36	0	6	56	1.25
1076896--1076941	12	4.2	11	83	10	51	32	0	4	63	1.14
1076873--1076967	9	9.8	9	71	21	50	38	0	5	55	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1076937--1076969	16	2.0	17	88	5	50	39	0	0	60	0.97
1077278--1077318	11	3.5	12	78	15	50	41	0	0	58	0.98
1077278--1077333	23	2.4	23	82	8	60	44	0	1	53	1.11
1077729--1077769	20	2.0	21	90	4	66	63	0	0	36	0.95
1077740--1077889	40	3.9	39	71	20	129	52	0	0	46	1.05
1077729--1077769	7	6.0	7	86	11	50	63	0	0	36	0.95
1077728--1077893	39	4.5	37	71	18	112	54	0	0	45	1.04
1077830--1077996	5	32.6	5	65	15	56	43	0	1	55	1.07
1077741--1077894	20	8.1	20	72	21	100	51	0	0	47	1.05
1077717--1077954	74	3.1	75	75	15	188	52	0	0	46	1.06
1077825--1077938	18	6.7	18	70	18	77	45	0	0	53	1.06
1077928--1077982	22	2.5	23	79	8	60	38	0	1	60	1.08
1078403--1078431	2	14.5	2	100	0	58	0	51	0	48	1.00
1080213--1080251	20	2.0	20	90	9	64	51	0	0	48	1.00
1080211--1080258	19	2.5	19	84	15	64	52	0	0	47	1.00
1080979--1081003	4	6.2	4	100	0	50	24	0	24	52	1.48
1083426--1083507	28	2.9	28	80	7	96	26	17	31	24	1.97
1083490--1083660	51	3.3	51	79	4	198	32	11	26	29	1.92
1083643--1083718	27	2.8	28	84	6	93	22	21	32	23	1.98
1086177--1086202	13	2.0	13	100	0	52	38	15	15	30	1.88
1086156--1086222	33	2.0	33	88	0	98	43	16	14	25	1.86
1086242--1086309	19	3.9	18	76	23	83	38	14	11	35	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1086264--1086288	13	1.9	13	100	0	50	32	16	16	36	1.90
1086245--1086307	32	2.0	32	96	0	117	36	15	12	34	1.86
1086365--1086421	21	2.7	21	100	0	114	36	21	10	31	1.87
1091317--1091437	52	2.3	52	97	0	224	28	18	18	34	1.94
1091317--1091457	52	2.7	51	90	4	212	30	17	18	33	1.94
1091446--1091470	13	1.9	13	100	0	50	36	16	16	32	1.90
1091537--1091561	13	1.9	13	100	0	50	32	16	16	36	1.90
1091515--1091581	33	2.0	33	88	0	98	40	13	11	34	1.81
1092508--1093862	49	27.4	49	86	5	1879	32	17	26	23	1.96
1092507--1093866	101	13.8	101	95	3	2321	32	17	26	23	1.96

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