genome.fa.s30.2.7.7.80.10.50.1000.8.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: 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  8  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)
1118247--1118308	30	2.0	33	87	9	94	4	9	6	79	1.06
1118252--1118319	31	2.2	30	82	7	75	5	11	5	76	1.14
1122472--1122600	52	2.5	52	96	0	231	30	18	16	34	1.93
1122472--1122620	52	2.9	52	86	6	203	31	17	16	34	1.93
1122609--1122633	13	1.9	13	100	0	50	36	16	16	32	1.90
1122674--1122739	32	2.0	33	91	2	107	37	16	10	34	1.83
1124874--1124898	13	1.9	13	100	0	50	28	0	0	72	0.86
1125330--1125396	34	1.9	35	84	3	91	53	11	16	17	1.72
1125647--1125701	20	2.8	20	85	0	65	32	18	10	38	1.85
1127440--1127506	37	1.9	35	88	11	102	29	25	11	32	1.92
1127964--1127989	13	2.0	13	100	0	52	30	15	15	38	1.88
1127944--1128007	32	2.0	33	90	3	103	28	14	15	42	1.86
1128634--1128724	39	2.3	41	81	9	116	34	19	5	40	1.75
1129130--1129173	21	2.1	21	87	4	63	27	27	9	36	1.87
1130188--1130234	24	2.0	24	84	12	62	61	19	6	12	1.52
1131113--1131277	84	2.0	84	80	7	192	24	20	3	51	1.63
1133997--1134022	13	2.0	13	100	0	52	30	15	15	38	1.88
1133977--1134040	32	2.0	33	90	3	103	28	14	15	42	1.86
1134574--1134929	48	7.3	49	82	6	395	31	18	25	24	1.98
1134614--1134898	92	3.0	93	85	4	385	31	17	25	24	1.97
1134966--1135117	28	5.3	28	87	4	189	17	16	29	36	1.92
1134966--1135122	86	1.8	84	82	8	201	19	15	29	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1135108--1135182	35	2.2	35	85	2	107	34	9	33	22	1.86
1135160--1135331	29	5.9	29	82	6	197	24	16	30	27	1.97
1135177--1135337	86	1.9	86	89	2	252	22	16	31	29	1.96
1136768--1136808	15	2.7	15	92	3	64	0	2	12	85	0.70
1136781--1136826	24	1.9	24	82	8	58	4	4	6	84	0.85
1136814--1136845	10	3.3	10	95	4	57	15	0	0	84	0.63
1136781--1136845	14	4.6	14	78	17	62	7	3	4	84	0.85
1147150--1147240	46	2.0	46	91	0	146	16	16	36	30	1.91
1149853--1149900	21	2.3	20	82	6	60	43	16	16	22	1.87
1150735--1150866	52	2.5	53	95	1	230	29	16	18	34	1.94
1150940--1151001	32	1.9	33	93	3	108	35	16	14	33	1.89
1153253--1153277	13	1.9	13	100	0	50	28	0	0	72	0.86
1154027--1154081	20	2.8	20	82	0	65	32	20	10	36	1.87
1164540--1164603	33	2.0	32	87	3	92	26	14	17	42	1.87
1165733--1165774	9	4.4	9	78	21	50	0	21	0	78	0.75
1165722--1165779	20	2.8	20	84	2	80	0	22	0	77	0.77
1165722--1165778	29	2.0	29	92	0	96	0	22	0	77	0.77
1166083--1166127	21	2.1	21	87	0	63	64	2	2	31	1.18
1166366--1166728	164	2.2	165	84	3	473	50	10	11	28	1.71
1174756--1174786	13	2.4	13	88	0	53	35	12	16	35	1.87
1174737--1174801	33	2.0	33	84	6	87	35	20	10	33	1.87
1174831--1174886	19	2.9	19	83	2	58	33	14	17	33	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1176809--1177332	180	2.9	180	87	3	761	41	13	11	32	1.80
1178792--1178853	25	2.5	26	86	5	92	19	22	11	46	1.81
1179002--1179070	14	4.9	14	72	10	59	43	11	21	23	1.85
1179015--1179098	25	3.7	24	72	23	83	45	10	20	23	1.82
1178994--1179099	43	2.5	43	90	3	171	43	12	21	22	1.86
1179148--1179203	10	5.7	9	76	21	51	16	3	0	80	0.85
1181336--1181384	23	2.1	23	96	0	89	20	24	4	51	1.65
1184714--1184874	63	2.6	63	87	0	232	32	16	14	35	1.90
1184840--1184877	20	1.9	20	100	0	76	36	21	10	31	1.87
1186542--1187324	167	4.7	166	79	6	825	28	11	7	53	1.64
1186542--1187334	332	2.4	329	82	5	913	28	11	7	52	1.64
1188188--1188250	33	1.9	33	90	0	99	33	15	14	36	1.88
1188280--1188333	19	2.8	20	88	2	83	37	16	16	29	1.91
1188280--1188350	20	3.6	19	84	3	70	36	15	16	30	1.90
1189173--1189277	20	4.7	20	70	22	84	29	15	14	40	1.86
1192660--1192839	77	2.3	77	92	3	292	31	22	7	38	1.82
1193823--1193848	13	2.0	13	100	0	52	38	15	15	30	1.88
1193904--1193947	20	2.1	22	91	8	74	40	20	9	29	1.83
1201911--1201941	15	2.1	15	100	0	62	25	25	0	48	1.52
1203542--1203606	33	2.0	33	90	0	103	33	15	13	36	1.87
1204211--1204250	20	2.0	20	100	0	80	30	10	30	30	1.90
1204524--1204569	21	2.2	20	85	11	58	82	2	15	0	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1206182--1206241	13	5.1	13	73	22	69	33	13	16	36	1.88
1206182--1206258	33	2.3	33	100	0	154	35	11	18	35	1.87
1206194--1206258	20	3.6	20	73	26	81	36	10	18	33	1.86
1208227--1208282	10	5.6	10	77	8	51	12	1	7	78	1.02
1208781--1210587	42	42.7	42	72	10	959	34	19	28	16	1.94
1208788--1210587	127	14.2	126	75	8	554	35	19	28	16	1.94
1208788--1210377	85	18.8	85	78	5	1228	35	19	28	16	1.94
1210051--1210587	85	6.3	84	80	4	323	34	21	28	16	1.94
1208781--1210545	677	2.6	678	88	2	2534	35	19	28	16	1.94
1219033--1219077	22	2.0	23	86	4	65	51	0	17	31	1.46
1219038--1219084	22	2.1	22	84	7	60	48	2	19	29	1.60
1224279--1224313	16	2.2	16	89	0	52	51	22	5	20	1.68
1225601--1225659	30	2.0	30	86	6	84	40	11	20	27	1.87
1225775--1225812	16	2.3	17	86	4	51	10	2	10	76	1.12
1226738--1226793	19	2.9	19	86	2	67	37	16	14	32	1.88
1229156--1229201	22	2.3	21	82	17	62	47	0	21	30	1.51
1229156--1229234	21	3.9	20	72	21	58	46	0	20	32	1.51
1229168--1229209	21	2.0	22	85	4	59	52	0	19	28	1.46
1235596--1235646	20	2.5	20	81	6	59	37	17	9	35	1.83
1237883--1237922	20	2.0	20	100	0	80	35	10	10	45	1.71
1238029--1238053	13	1.9	13	100	0	50	32	16	16	36	1.90
1238959--1239376	49	8.7	49	81	7	484	30	18	25	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1238959--1239376	92	4.4	94	86	4	522	30	18	25	25	1.98
1239369--1239487	33	3.7	32	87	6	163	19	18	35	26	1.95
1239481--1239571	33	2.8	33	86	3	130	31	14	32	20	1.93
1239548--1239621	27	2.7	27	87	0	112	20	17	36	25	1.94
1240620--1240680	23	2.6	22	80	14	70	0	8	9	81	0.86
1240617--1240679	28	2.3	28	86	10	87	0	9	7	82	0.84
1240627--1240680	16	3.4	16	76	20	60	0	7	11	81	0.87
1240934--1240973	10	3.7	11	84	15	57	0	0	12	87	0.54
1240934--1240974	21	2.0	21	90	0	64	0	0	12	87	0.53
1240920--1240975	11	4.9	11	86	6	76	0	1	12	85	0.67
1240920--1240976	23	2.5	23	88	0	87	0	1	12	85	0.66
1240936--1240994	23	2.6	23	76	13	50	1	1	15	81	0.86
1240920--1240986	34	1.9	35	85	8	93	1	2	11	83	0.82
1247853--1247977	52	2.4	52	95	0	223	28	17	18	36	1.94
1247853--1247997	52	2.8	51	89	4	211	29	17	18	34	1.94
1247986--1248010	13	1.9	13	100	0	50	36	16	16	32	1.90
1248050--1248107	20	3.0	20	84	2	73	46	12	10	31	1.74
1248706--1249090	155	2.5	155	84	3	463	22	18	19	39	1.92
1250218--1250717	156	3.3	155	77	9	551	40	20	14	25	1.90
1251249--1251982	165	4.5	164	84	6	873	44	17	7	30	1.75
1253072--1253116	22	2.0	23	86	4	65	42	6	0	51	1.28
1253208--1253648	154	2.9	152	81	5	507	49	7	9	32	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1263825--1263877	24	2.2	25	83	10	65	66	3	7	22	1.34
1265337--1265374	2	19.0	2	88	0	58	50	0	0	50	1.00
1268514--1268546	15	2.2	15	94	0	57	36	15	15	33	1.88
1271863--1271889	13	2.1	13	100	0	54	40	14	14	29	1.86
1278036--1278065	13	2.3	13	100	0	60	36	6	16	40	1.75
1278015--1278079	33	2.0	33	87	6	96	35	13	13	36	1.85
1281861--1281896	2	18.0	2	100	0	72	50	50	0	0	1.00
1296853--1296908	27	2.1	27	83	6	69	60	0	0	39	0.97
1296892--1296938	18	2.6	19	80	10	62	48	2	0	48	1.13
1297128--1297164	19	1.9	19	88	0	56	56	2	2	37	1.28

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