genome.fa.s92.2.7.7.80.10.50.1000.9.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: Scaffold92
Parameters: 2 7 7 80 10 50 1000
Length:  2337674

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  ( 2187 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)
1206092--1206145	18	2.8	20	78	16	60	44	0	1	53	1.11
1206099--1206177	33	2.4	30	82	15	95	45	0	1	53	1.08
1206089--1206189	32	2.9	37	76	19	108	43	0	0	55	1.06
1206050--1206191	19	7.3	20	64	19	68	41	0	0	57	1.03
1206319--1206377	16	3.8	16	76	15	61	66	1	0	32	1.02
1206473--1206544	21	3.7	20	76	10	69	56	1	0	41	1.07
1206465--1206564	41	2.4	41	79	12	116	52	1	0	47	1.07
1206554--1206617	25	2.4	25	82	12	67	59	1	0	39	1.07
1206638--1206671	10	3.4	10	87	0	50	64	0	0	35	0.94
1207226--1207274	17	2.9	17	70	24	50	65	0	2	32	1.04
1208637--1208666	14	2.2	14	94	5	53	60	3	0	36	1.14
1209193--1209220	14	2.0	14	100	0	56	42	0	0	57	0.99
1209190--1209238	12	4.0	12	79	12	55	40	0	0	59	0.98
1209279--1209371	17	5.8	17	69	15	65	50	2	0	47	1.13
1209281--1209349	34	2.0	34	86	5	95	55	2	0	42	1.15
1209331--1209384	27	2.0	28	85	10	76	42	1	0	55	1.10
1209769--1209848	26	2.9	25	75	22	72	47	0	1	51	1.08
1209776--1209844	30	2.2	32	85	12	92	52	0	1	46	1.09
1209736--1209896	30	5.3	30	69	24	90	45	0	1	53	1.08
1209987--1210027	17	2.5	17	85	14	59	41	0	0	58	0.98
1209997--1210038	22	2.0	22	85	4	59	45	0	0	54	0.99
1213727--1213775	15	3.3	15	74	5	55	65	2	0	32	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1213730--1213775	14	3.2	14	78	6	56	67	2	0	30	1.03
1213717--1213775	29	2.0	31	86	6	86	61	1	0	37	1.07
1223151--1223218	32	2.0	32	86	8	91	54	1	0	44	1.09
1223153--1223243	27	3.1	27	76	22	87	51	0	0	48	1.00
1223166--1223220	17	3.4	17	75	25	64	56	0	0	43	0.99
1223665--1223689	7	3.6	7	100	0	50	48	0	0	52	1.00
1224424--1224471	13	3.6	13	83	10	53	56	0	2	41	1.11
1224470--1224499	15	2.0	15	93	0	51	30	0	0	70	0.88
1225891--1226010	8	12.9	10	72	21	59	34	0	0	65	0.99
1225888--1225959	20	3.6	19	78	14	74	34	0	0	65	0.93
1225887--1226014	9	14.2	9	68	26	51	35	0	0	64	1.00
1225931--1226023	25	3.6	25	75	12	66	35	1	0	63	1.02
1225891--1225977	9	9.3	9	70	15	61	34	0	0	65	0.93
1225958--1226024	36	1.9	36	81	6	84	34	1	0	64	1.03
1226345--1226413	27	2.5	29	82	15	76	56	0	1	42	1.08
1226943--1226997	24	2.3	24	78	15	60	41	0	0	58	0.98
1226912--1226973	28	2.2	27	83	8	79	45	0	0	54	0.99
1227101--1227143	19	2.3	18	76	4	50	30	0	2	67	1.03
1227981--1228035	27	2.1	26	83	10	67	45	0	0	54	0.99
1227991--1228035	13	3.4	14	82	11	60	42	0	0	57	0.98
1228539--1228579	22	1.9	21	90	5	64	41	0	0	58	0.98
1229000--1229033	15	2.4	14	90	5	50	70	0	2	26	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1232299--1232343	23	1.9	24	86	4	65	40	0	2	57	1.11
1232448--1232494	24	2.0	24	83	8	60	42	0	0	57	0.98
1232462--1232523	18	3.4	17	83	16	72	38	0	0	61	0.96
1232490--1232535	22	2.1	22	92	8	76	43	0	0	56	0.99
1233236--1233294	9	6.0	10	77	16	61	38	1	0	59	1.08
1233248--1233294	15	3.2	15	81	6	60	38	2	0	59	1.09
1233308--1233341	17	2.1	16	88	5	50	47	0	0	52	1.00
1238070--1238113	14	3.1	14	80	12	54	72	0	0	27	0.85
1238065--1238122	19	3.1	19	76	14	57	68	0	0	31	0.89
1238097--1238166	29	2.4	29	79	9	72	58	1	0	40	1.07
1238138--1238181	16	2.6	17	82	10	56	56	2	0	40	1.11
1238708--1238755	19	2.7	18	84	9	62	62	0	2	35	1.07
1238720--1238756	19	2.0	19	94	5	67	62	0	0	37	0.96
1239234--1239295	22	2.9	22	74	11	65	66	0	0	33	0.92
1240054--1240085	6	5.7	6	92	7	50	56	0	0	43	0.99
1240403--1240451	17	2.9	17	77	17	57	46	0	0	53	1.00
1240428--1240518	23	3.8	24	71	18	66	39	1	0	59	1.05
1240411--1240471	32	1.9	32	83	6	79	47	0	0	52	1.00
1240440--1240488	25	2.0	25	84	8	64	46	2	0	51	1.12
1240480--1240519	16	2.6	16	84	7	57	32	0	0	67	0.91
1240772--1240836	24	2.6	25	76	9	71	61	1	0	36	1.05
1240906--1240937	2	16.5	2	93	6	57	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1241077--1241131	15	3.8	14	73	21	51	61	0	0	38	0.96
1241102--1241136	17	2.0	18	88	5	54	57	0	0	42	0.99
1241525--1241558	15	2.2	16	89	5	52	32	5	8	52	1.56
1242348--1242398	19	3.0	16	81	18	59	45	1	0	52	1.12
1242352--1242391	19	2.1	20	90	9	66	50	2	0	47	1.14
1242350--1242402	17	3.0	17	76	15	54	43	1	0	54	1.11
1242539--1242603	22	2.8	23	79	11	71	63	1	3	32	1.19
1242606--1242675	33	2.2	33	82	10	83	51	4	8	35	1.52
1243165--1243211	2	24.5	2	89	8	71	46	0	2	51	1.13
1244291--1244344	9	5.9	9	77	12	56	48	0	1	50	1.11
1244286--1244344	14	3.9	14	79	14	55	45	0	3	50	1.18
1244652--1244693	17	2.4	17	92	4	66	59	0	0	40	0.97
1244662--1244745	17	4.6	17	70	13	51	59	0	0	40	0.97
1244657--1244730	24	3.0	24	75	18	71	56	0	0	43	0.99
1244707--1244749	21	2.0	21	91	8	70	58	0	0	41	0.98
1244718--1244749	16	2.0	16	93	0	55	59	0	0	40	0.97
1245964--1246043	30	2.8	30	85	10	107	45	0	0	55	0.99
1245966--1246022	24	2.3	24	80	17	64	45	0	0	54	0.99
1245982--1246035	17	3.4	17	71	23	55	44	0	0	55	0.99
1246545--1246577	16	2.0	17	94	5	59	60	0	0	39	0.97
1248512--1248555	21	2.1	21	86	0	61	56	2	2	38	1.24
1251028--1251092	31	2.0	33	88	11	100	26	6	3	64	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1252756--1252798	2	22.5	2	86	9	63	48	0	0	51	1.00
1253268--1253305	20	1.9	20	88	0	58	18	10	0	71	1.14
1253792--1253847	14	4.0	14	84	6	51	75	3	0	21	0.96
1253807--1253847	13	3.0	13	89	7	55	78	2	0	19	0.87
1254253--1254277	5	5.0	5	100	0	50	20	80	0	0	0.72
1259094--1259128	16	2.2	16	89	0	52	34	2	5	57	1.37
1259268--1259323	16	3.6	16	75	2	60	32	7	10	50	1.64
1260194--1260269	32	2.2	34	77	22	86	46	0	3	50	1.20
1260939--1260972	16	2.1	16	94	0	59	55	5	5	32	1.48
1263911--1263970	14	4.7	13	72	17	54	43	0	1	55	1.10
1264279--1264333	28	2.0	28	85	7	76	47	0	1	50	1.11
1264627--1264666	20	2.1	19	90	4	62	62	0	0	37	0.95
1264632--1264725	31	3.1	30	73	22	90	60	2	0	37	1.09
1264633--1264674	20	2.1	20	86	8	59	66	0	0	33	0.92
1264632--1264675	19	2.3	19	80	15	54	63	0	0	36	0.95
1264632--1264725	33	3.1	30	76	20	83	60	2	0	37	1.09
1264635--1264793	53	3.0	52	69	23	134	56	3	0	40	1.15
1265202--1265253	19	2.5	21	81	9	63	55	0	0	44	0.99
1265620--1265675	13	4.5	13	76	12	55	48	1	0	50	1.11
1266188--1266221	2	17.5	2	87	6	52	50	2	0	47	1.16
1266611--1266649	19	2.1	19	85	0	51	38	5	0	56	1.22
1266653--1266713	17	3.8	16	70	10	52	37	1	3	57	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1266627--1266680	28	1.9	28	96	0	99	37	0	0	62	0.95
1266726--1266817	30	3.1	30	82	6	107	47	0	5	46	1.25
1266901--1266956	19	2.9	18	84	12	67	32	1	1	64	1.14
1266659--1267442	295	2.8	273	84	11	1047	41	2	4	50	1.38
1267001--1267080	29	2.7	29	76	3	79	47	0	6	46	1.27
1267058--1267098	12	3.6	12	74	12	50	51	0	0	48	1.00
1267000--1267092	30	3.1	29	74	9	89	47	0	5	47	1.25
1267061--1267109	22	2.3	22	85	3	73	55	0	2	42	1.11
1267196--1267251	19	2.9	18	82	12	58	30	1	3	64	1.21
1267294--1267394	30	3.4	29	75	6	96	52	0	3	43	1.19

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