genome.fa.s89.2.7.7.80.10.50.1000.8.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: Scaffold89
Parameters: 2 7 7 80 10 50 1000
Length:  5168001

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   25   26   27   

This is table  8  of  27  ( 3236 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)
1025505--1025557	16	2.8	19	75	21	58	49	0	0	50	1.00
1025457--1025576	37	3.2	36	67	10	98	50	1	0	47	1.17
1025420--1025564	74	2.0	73	88	4	211	50	2	1	46	1.21
1026141--1026179	20	1.9	21	84	5	53	41	0	2	56	1.13
1027627--1027673	18	2.7	18	84	12	55	74	2	4	19	1.09
1028074--1028138	18	3.5	19	79	6	71	66	0	1	32	1.01
1028136--1028219	8	10.5	8	69	17	50	51	0	0	48	1.00
1028131--1028219	32	2.8	33	82	5	110	51	0	0	48	1.00
1036334--1036425	48	1.9	48	93	0	157	25	14	22	38	1.92
1045232--1045282	18	2.8	17	85	14	66	54	1	1	41	1.22
1045212--1045284	16	4.5	17	75	16	57	52	1	1	45	1.18
1045232--1045282	19	2.7	19	85	14	70	54	1	1	41	1.22
1045598--1045676	38	2.1	39	95	2	142	48	10	0	41	1.37
1045607--1045667	19	3.2	19	72	9	70	50	8	0	40	1.32
1046326--1046389	24	2.7	24	81	13	78	46	3	1	48	1.27
1046371--1046425	20	2.6	22	77	11	62	38	1	0	60	1.08
1046753--1046809	8	6.8	8	78	11	60	68	1	0	29	1.00
1046753--1046809	17	3.4	17	83	9	71	68	1	0	29	1.00
1046895--1046925	16	1.9	16	93	0	53	35	0	0	64	0.94
1054304--1054345	21	2.0	22	86	13	61	50	0	0	50	1.00
1054314--1054379	35	1.9	33	85	11	89	51	0	0	48	1.00
1054339--1054404	22	3.1	21	74	18	66	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1054611--1054638	14	2.0	14	100	0	56	14	42	14	28	1.84
1055464--1055538	8	10.0	8	75	12	54	40	0	1	58	1.06
1055476--1055533	22	2.6	22	76	10	55	37	0	1	60	1.07
1057550--1057625	34	2.2	34	79	9	84	46	6	1	46	1.37
1057622--1057677	23	2.5	22	79	20	64	50	1	0	48	1.11
1058001--1058066	10	7.0	9	77	10	53	40	0	0	59	0.98
1058026--1058073	19	2.8	17	82	14	62	37	0	0	62	0.95
1058002--1058066	19	3.4	19	77	12	71	40	0	0	60	0.97
1063455--1064256	403	2.0	402	93	1	1367	32	20	19	27	1.97
1076157--1076211	20	2.8	20	83	5	67	61	0	0	38	0.96
1076160--1076205	15	3.0	15	80	3	56	60	0	0	39	0.97
1080922--1080969	21	2.2	22	92	3	80	56	6	4	33	1.44
1081075--1081265	32	6.0	33	72	19	140	52	1	1	45	1.17
1081114--1081242	28	4.4	29	77	11	129	53	0	2	44	1.13
1081081--1081265	62	3.0	62	81	8	207	51	1	1	45	1.18
1081944--1081984	2	20.5	2	100	0	82	51	0	0	48	1.00
1085493--1085517	12	2.1	12	100	0	50	92	0	8	0	0.40
1085762--1085867	49	2.3	44	78	12	113	42	3	2	50	1.34
1085831--1085862	14	2.4	14	90	10	50	37	0	0	62	0.95
1086896--1086928	16	2.0	17	94	5	59	81	0	0	18	0.68
1086897--1086934	17	2.2	17	86	9	51	84	2	0	13	0.73
1087404--1087439	2	18.0	2	94	0	63	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1087671--1087744	29	2.6	28	77	12	69	40	0	1	58	1.07
1087670--1087756	27	3.2	27	74	11	70	39	0	2	58	1.11
1087893--1087940	18	2.6	19	80	6	55	50	0	2	47	1.12
1088987--1089058	22	3.2	21	75	14	65	55	1	0	43	1.08
1089027--1089116	23	4.0	23	76	17	75	54	1	0	44	1.07
1089031--1089093	30	2.1	30	82	5	74	52	1	0	46	1.10
1089118--1089151	18	1.9	18	94	5	61	61	2	0	35	1.11
1095828--1095895	20	3.4	20	74	11	68	44	1	0	54	1.09
1096879--1097015	50	2.8	48	83	6	186	35	16	18	29	1.93
1101371--1101628	50	5.2	50	83	2	288	37	15	15	31	1.89
1104343--1104486	48	3.0	48	94	0	261	38	8	16	36	1.79
1104707--1104763	27	2.1	27	80	6	62	52	3	1	42	1.28
1105269--1105321	16	3.1	17	82	17	65	56	0	0	43	0.99
1106022--1106089	32	2.1	33	86	2	93	50	1	1	47	1.19
1106682--1106724	20	2.3	19	88	11	63	60	0	4	34	1.17
1109139--1109210	37	2.0	38	84	13	98	41	2	1	54	1.23
1109697--1109738	21	2.0	21	90	9	68	33	14	0	52	1.42
1112634--1112665	16	2.0	16	93	0	55	53	0	0	46	1.00
1112839--1112863	12	2.1	12	100	0	50	64	0	0	36	0.94
1112962--1113233	138	2.0	138	99	0	535	42	11	8	37	1.72
1113252--1113315	31	2.2	28	83	10	76	37	0	14	48	1.44
1117883--1117946	33	1.9	33	84	6	85	42	3	1	53	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1118978--1119039	22	2.9	22	81	13	67	43	0	1	54	1.09
1119276--1119308	2	17.0	2	93	6	59	51	0	0	48	1.00
1125388--1125438	21	2.4	22	80	9	61	43	0	0	56	0.99
1126778--1126830	19	2.8	20	77	5	56	43	0	0	56	0.99
1126771--1126832	13	4.8	13	73	11	56	38	0	0	61	0.96
1132392--1132429	2	19.0	2	100	0	76	50	0	0	50	1.00
1135427--1135473	3	15.7	3	95	0	85	29	0	2	68	1.02
1144252--1144285	16	2.2	15	89	5	50	50	0	0	50	1.00
1144668--1144709	22	1.9	22	90	0	66	47	0	0	52	1.00
1148955--1149026	33	2.1	34	97	2	137	30	12	8	48	1.70
1153758--1153842	32	2.5	35	82	14	92	45	0	0	54	1.00
1154813--1154841	2	14.5	2	100	0	58	48	0	0	51	1.00
1155014--1155104	22	4.3	22	73	15	66	45	3	1	50	1.25
1155825--1155853	14	2.0	15	93	6	51	48	6	0	44	1.29
1156453--1156503	22	2.3	23	77	16	54	37	1	9	50	1.47
1156428--1156485	16	3.6	16	83	0	71	37	1	6	53	1.38
1156985--1157091	20	5.4	19	72	13	74	43	0	0	55	1.06
1159494--1159528	2	17.5	2	100	0	70	0	48	0	51	1.00
1160028--1160052	2	12.5	2	100	0	50	52	0	0	48	1.00
1162715--1162756	2	21.0	2	100	0	84	0	50	0	50	1.00
1163175--1163211	13	2.8	14	84	12	51	24	0	2	72	0.97
1163178--1163222	19	2.3	19	85	11	56	24	0	2	73	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1163477--1163521	3	15.0	3	95	0	81	64	0	0	35	0.94
1165524--1165570	20	2.2	21	85	14	62	53	0	0	46	1.00
1165566--1165601	20	1.9	20	88	11	58	44	2	0	52	1.15
1165972--1166020	20	2.7	18	79	14	55	61	0	2	36	1.08
1166330--1166383	24	2.2	26	83	6	67	44	0	0	55	0.99
1177185--1177219	2	17.5	2	100	0	70	51	0	48	0	1.00
1177381--1177424	12	3.6	12	75	6	52	31	0	0	68	0.90
1177381--1177434	24	2.2	25	96	3	101	27	0	0	72	0.85
1177391--1177440	12	4.2	12	79	5	57	26	0	0	74	0.83
1177561--1177605	20	2.2	21	88	7	67	55	0	2	42	1.12
1178178--1178255	28	2.9	27	81	11	79	29	2	0	67	1.03
1178211--1178252	7	6.0	7	88	0	57	19	2	0	78	0.86
1179553--1179586	14	2.4	14	90	9	52	55	0	0	44	0.99
1179931--1180040	29	3.8	28	78	11	105	42	0	3	52	1.25
1179953--1180009	25	2.4	23	73	18	62	40	0	0	59	0.97
1180480--1180549	29	2.4	29	79	9	81	51	1	1	45	1.18
1185193--1185281	17	5.5	17	69	22	66	48	0	1	50	1.08
1185214--1185299	17	5.2	17	73	15	65	47	1	1	50	1.16
1185278--1185317	19	2.2	18	86	4	53	60	5	0	35	1.19
1185405--1185494	33	2.6	33	80	7	90	22	20	18	38	1.93
1185968--1186015	21	2.2	23	82	14	57	35	25	2	37	1.68
1187291--1187360	31	2.3	30	78	14	72	60	4	1	34	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1187340--1187384	22	2.0	22	87	8	65	66	2	0	31	1.04
1187766--1187819	8	7.0	8	78	14	60	24	0	0	75	0.80
1187761--1187819	12	5.2	12	73	23	56	25	0	0	74	0.82
1187787--1187825	12	3.4	11	86	10	51	28	0	2	69	1.02
1188773--1188886	56	2.0	56	89	0	174	12	33	19	35	1.89
1199808--1199837	13	2.3	13	94	0	51	70	0	0	30	0.88
1201656--1201696	11	3.5	12	84	12	50	46	0	0	53	1.00
1201656--1201697	12	3.6	12	81	15	52	45	0	0	54	0.99
1219974--1220045	11	6.2	11	76	22	67	66	1	0	31	1.00
1219953--1219993	17	2.3	19	88	12	61	63	0	0	36	0.95

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   25   26   27