genome.fa.s33.2.7.7.80.10.50.1000.8.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: Scaffold33
Parameters: 2 7 7 80 10 50 1000
Length:  2032796

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

This is table  8  of  13  ( 1521 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)
1081207--1081372	52	3.2	51	81	7	192	31	27	9	31	1.89
1081387--1081619	79	2.9	78	77	6	254	25	26	14	33	1.94
1083769--1084045	137	2.0	138	94	0	484	31	25	19	23	1.98
1086762--1086836	32	2.3	33	82	11	100	41	0	2	56	1.13
1088330--1088377	24	2.0	24	87	0	69	39	12	6	41	1.68
1088503--1088547	20	2.4	18	80	16	56	60	2	0	37	1.09
1088571--1088631	29	2.1	29	81	6	70	44	0	1	54	1.10
1089029--1089097	22	3.1	23	82	14	74	53	0	0	46	1.00
1089081--1089114	10	3.6	9	85	14	50	47	0	0	52	1.00
1090444--1090497	20	2.7	20	82	5	65	33	12	20	33	1.91
1098552--1098629	22	3.5	22	91	0	120	35	6	33	24	1.81
1100930--1100962	2	16.5	2	100	0	66	0	48	0	51	1.00
1103123--1103161	2	20.0	2	94	5	71	51	0	0	48	1.00
1104479--1104511	2	16.5	2	100	0	66	51	0	0	48	1.00
1108234--1108277	23	2.0	21	82	8	52	45	2	0	52	1.13
1108749--1108783	2	17.5	2	100	0	70	51	0	0	48	1.00
1108941--1108968	2	14.0	2	100	0	56	50	0	0	50	1.00
1109577--1109611	2	17.5	2	93	0	52	48	5	0	45	1.26
1111310--1111336	2	13.5	2	100	0	54	51	0	0	48	1.00
1113372--1113418	21	2.2	21	85	7	60	42	8	10	38	1.70
1113380--1113422	21	2.0	21	95	0	77	39	9	11	39	1.74
1115604--1115632	13	2.2	13	100	0	58	65	6	6	20	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1115911--1115955	20	2.1	22	84	8	58	55	6	2	35	1.38
1116013--1116048	18	2.0	18	94	0	63	36	0	11	52	1.37
1116814--1116848	2	17.5	2	93	0	61	45	0	2	51	1.16
1117209--1117250	21	2.0	21	90	4	68	66	0	0	33	0.92
1122819--1122874	11	4.8	12	79	16	55	35	1	0	62	1.06
1122819--1122870	13	3.8	13	80	14	52	34	1	0	63	1.06
1123291--1123364	23	3.3	22	73	19	73	33	1	0	64	1.02
1123297--1123365	22	3.2	22	70	15	63	36	1	0	62	1.04
1123422--1123488	25	2.7	26	75	15	77	59	0	0	40	0.97
1123523--1123548	7	3.7	7	100	0	52	15	0	0	84	0.62
1126936--1127092	79	2.0	79	93	0	269	29	10	26	33	1.90
1131347--1131426	40	2.0	40	95	0	142	38	21	12	27	1.89
1131612--1131637	3	8.7	3	100	0	52	34	0	30	34	1.58
1136660--1136707	24	2.0	24	83	0	60	22	29	8	39	1.83
1139623--1139660	19	2.1	19	85	9	53	36	0	18	44	1.50
1148776--1148817	18	2.3	19	80	12	52	52	0	2	45	1.13
1151325--1151404	13	5.4	13	71	25	61	35	11	18	35	1.87
1151324--1151404	32	2.6	30	90	3	126	34	11	18	35	1.86
1151338--1151398	17	3.7	17	77	20	67	34	11	19	34	1.88
1151445--1151547	52	2.0	52	86	3	145	33	20	16	29	1.94
1154940--1154972	11	3.3	10	91	8	50	42	0	3	54	1.15
1156880--1156940	32	1.9	32	82	0	77	32	9	24	32	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1157711--1157750	21	1.9	21	89	0	62	35	12	17	35	1.88
1158962--1159003	2	21.0	2	100	0	84	50	0	0	50	1.00
1159249--1159341	45	2.1	45	84	8	118	30	11	12	45	1.78
1159295--1159475	58	3.1	57	80	4	166	27	9	15	48	1.76
1159317--1159513	58	3.4	58	75	8	186	27	10	14	47	1.77
1159964--1159993	11	2.7	11	94	0	51	46	16	0	36	1.47
1160610--1160650	20	1.9	22	85	14	59	14	14	4	65	1.42
1161613--1161676	33	2.0	32	87	3	92	42	14	15	28	1.86
1161778--1161817	21	1.9	21	85	10	55	40	7	5	47	1.54
1162296--1162337	21	1.9	23	85	9	61	30	23	0	45	1.53
1162637--1162684	10	5.2	9	79	20	55	64	12	4	18	1.43
1163645--1163680	17	2.1	17	89	0	54	11	8	25	55	1.62
1168885--1168922	3	12.7	3	94	0	67	31	31	0	36	1.58
1168885--1168931	9	5.2	9	89	0	58	29	29	0	40	1.57
1170230--1170264	13	2.7	13	100	0	70	68	8	8	14	1.38
1171163--1171216	20	2.7	19	77	8	63	29	11	20	38	1.87
1171186--1171258	20	3.4	21	76	12	69	27	10	17	43	1.83
1187691--1187733	20	2.1	20	86	4	59	44	0	0	55	0.99
1187696--1187751	26	2.2	26	83	6	69	39	0	0	60	0.97
1191212--1191251	7	5.7	7	90	0	62	35	0	0	65	0.93
1191490--1191529	18	2.3	17	86	4	53	82	5	0	12	0.82
1195202--1195245	21	2.0	22	82	4	54	34	4	4	56	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1196840--1196932	21	4.4	21	73	10	73	43	18	9	29	1.82
1198253--1198286	17	2.1	16	88	5	50	14	11	17	55	1.68
1206498--1206527	15	2.1	14	93	6	51	56	0	0	43	0.99
1206521--1206553	10	3.3	10	91	8	50	42	0	0	57	0.98
1206507--1206555	21	2.6	21	78	15	54	48	0	0	51	1.00
1206874--1206930	25	2.2	25	81	9	62	56	3	5	35	1.39
1208088--1208122	2	17.5	2	100	0	70	48	0	0	51	1.00
1208120--1208165	7	6.4	7	87	2	65	28	23	2	45	1.65
1217490--1217624	51	2.6	51	85	0	171	44	11	13	30	1.79
1221979--1222008	14	2.2	14	94	5	53	30	13	23	33	1.93
1224820--1224861	22	1.9	22	85	9	59	64	4	2	28	1.26
1225021--1225051	2	15.5	2	100	0	62	51	0	0	48	1.00
1229798--1229897	20	4.8	20	70	17	69	37	14	17	32	1.89
1229861--1229928	34	2.1	32	86	10	93	35	14	16	33	1.89
1229861--1229908	13	4.1	13	70	25	52	37	14	16	31	1.89
1230008--1230033	13	2.0	13	100	0	52	38	15	15	30	1.88
1230798--1230882	41	2.0	42	82	10	104	50	0	0	49	1.00
1231106--1231148	21	2.0	21	86	8	61	39	0	0	60	0.97
1231817--1231855	21	1.9	21	89	5	62	58	0	5	35	1.20
1231821--1231868	22	2.2	22	84	0	60	60	0	8	31	1.26
1234512--1234541	15	2.0	15	100	0	60	6	6	13	73	1.24
1238062--1238108	18	2.5	19	89	3	69	46	21	6	25	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1239838--1239893	28	1.9	28	89	7	85	35	19	23	21	1.96
1239804--1239975	79	2.2	79	82	3	204	31	17	26	24	1.97
1239927--1239998	28	2.6	28	88	0	99	23	19	34	22	1.96
1239987--1240373	159	2.4	155	77	11	383	32	12	25	30	1.92
1239986--1240373	51	7.4	51	73	9	262	32	12	25	30	1.92
1240193--1240264	26	2.6	28	85	12	105	23	20	31	23	1.98
1242726--1242751	13	2.0	13	100	0	52	38	15	15	30	1.88
1242705--1242771	33	2.0	33	88	0	98	43	16	14	25	1.86
1242791--1242858	19	3.9	18	76	23	83	39	14	11	33	1.83
1242812--1242838	13	2.1	13	100	0	54	40	14	14	29	1.86
1242793--1242857	32	2.0	32	96	0	121	40	15	12	32	1.84
1243872--1243909	15	2.6	15	91	4	60	34	10	15	39	1.82
1243936--1243975	15	2.7	15	76	0	53	30	17	17	35	1.93
1243985--1244053	15	4.7	15	76	5	61	33	26	15	24	1.95
1248269--1248396	51	2.5	52	89	1	204	29	17	17	35	1.93
1248405--1248429	13	1.9	13	100	0	50	36	16	16	32	1.90
1248482--1248533	19	2.7	19	93	0	95	40	17	11	30	1.85
1253340--1253367	13	2.2	13	100	0	56	39	17	14	28	1.89
1253399--1253494	19	5.7	19	70	26	99	36	18	12	32	1.89
1253394--1253493	32	3.1	32	94	0	182	36	19	12	33	1.88
1253418--1253442	13	1.9	13	100	0	50	32	16	16	36	1.90
1255680--1255778	51	1.9	51	87	4	146	30	24	11	34	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1255714--1255965	79	3.2	77	75	10	249	27	27	12	31	1.93
1261075--1261113	19	2.1	19	95	0	69	56	5	10	28	1.54
1263776--1263909	63	2.1	63	87	4	189	43	2	5	48	1.39
1264161--1264190	16	1.9	15	93	6	51	56	0	0	43	0.99
1264147--1264209	17	3.8	17	75	10	60	57	0	0	42	0.99
1265586--1265625	20	2.0	20	95	0	71	52	0	0	47	1.00
1266736--1266784	14	3.5	14	78	15	57	38	0	0	61	0.96
1274609--1274661	20	2.7	20	85	5	63	62	9	5	22	1.47
1275476--1275520	17	2.7	17	93	3	74	57	0	4	37	1.19
1281903--1281953	20	2.5	20	87	0	66	31	15	13	39	1.87

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