genome.fa.s105.2.7.7.80.10.50.1000.8.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: Scaffold105
Parameters: 2 7 7 80 10 50 1000
Length:  2918491

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

This is table  8  of  16  ( 1849 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)
1185096--1185133	19	2.0	19	94	0	67	50	0	0	50	1.00
1186345--1186377	6	5.5	6	100	0	66	0	81	0	18	0.68
1186376--1186418	6	7.2	6	81	0	50	0	60	0	39	0.97
1186376--1186413	12	3.2	12	88	0	58	0	57	0	42	0.98
1186349--1186418	18	3.9	18	84	0	77	0	70	0	30	0.88
1186345--1186413	24	2.9	24	84	0	84	0	69	0	30	0.89
1190825--1190902	25	3.0	24	76	22	70	38	1	0	60	1.05
1193095--1193167	2	38.5	2	76	10	64	46	1	5	46	1.34
1193095--1193130	13	2.8	13	95	4	65	52	0	0	47	1.00
1199610--1199654	22	2.3	18	85	14	54	31	4	6	57	1.44
1199825--1199875	26	2.0	26	84	7	68	50	0	0	49	1.00
1200412--1200438	2	13.5	2	100	0	54	51	0	0	48	1.00
1200825--1200878	3	18.0	3	100	0	108	66	0	0	33	0.92
1201398--1201429	16	2.1	16	94	5	57	50	0	0	50	1.00
1201914--1201949	15	2.5	14	90	4	54	47	0	2	50	1.15
1202554--1202590	2	18.5	2	100	0	74	0	48	0	51	1.00
1216607--1216679	18	3.8	18	71	26	51	53	0	6	39	1.28
1216828--1216937	19	6.1	17	69	20	62	50	1	8	40	1.43
1217073--1217102	2	15.0	2	100	0	60	50	0	0	50	1.00
1217100--1217131	4	8.0	4	100	0	64	25	0	25	50	1.50
1217709--1217790	2	43.0	2	73	9	55	47	6	1	45	1.35
1217695--1217788	32	3.1	32	83	12	142	45	7	2	44	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1217713--1217793	28	2.9	28	83	3	110	46	8	1	43	1.42
1217919--1217958	18	2.2	18	90	4	62	52	0	2	45	1.14
1218553--1218627	32	2.3	34	81	11	93	56	0	1	42	1.08
1218573--1218627	18	3.3	18	72	23	50	56	0	0	43	0.99
1221095--1221135	3	13.7	3	94	0	73	34	0	2	63	1.08
1221600--1221632	16	2.0	17	88	5	50	54	6	9	30	1.56
1221843--1221893	26	1.9	27	92	4	86	66	7	1	23	1.28
1221887--1221953	11	6.3	10	78	13	71	70	0	0	29	0.88
1221894--1221951	16	3.6	16	79	9	64	68	0	0	31	0.89
1221857--1221957	19	5.4	19	73	20	72	68	2	0	27	1.11
1221901--1221961	11	5.6	11	81	11	81	68	0	0	31	0.89
1221885--1221957	22	3.3	21	92	7	119	69	0	0	30	0.88
1222188--1222218	16	2.0	15	93	6	53	64	0	35	0	0.94
1222238--1222290	22	2.4	20	84	15	61	69	0	28	1	0.99
1222212--1222290	25	3.4	25	75	20	71	69	0	26	3	1.05
1223121--1223159	20	1.9	21	84	5	53	43	2	2	51	1.29
1223867--1223900	17	2.0	17	88	11	52	50	8	5	35	1.58
1225053--1225081	2	14.5	2	100	0	58	51	0	0	48	1.00
1225723--1225781	30	2.0	30	90	3	93	67	0	3	28	1.06
1233992--1234065	22	3.4	22	75	17	66	50	0	0	50	1.00
1234405--1234431	3	9.0	3	100	0	54	33	0	0	66	0.92
1244179--1244362	3	61.3	3	85	0	188	1	23	33	40	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1244181--1244362	18	10.3	18	89	3	244	1	23	33	41	1.65
1247063--1247112	25	2.1	23	82	14	57	54	0	2	44	1.11
1247631--1247682	17	2.9	17	74	20	52	40	0	0	59	0.97
1250330--1250533	107	1.9	108	91	1	338	34	27	11	26	1.90
1253621--1253748	67	1.9	67	88	0	193	54	3	8	33	1.47
1258370--1258395	12	2.2	12	100	0	52	57	0	7	34	1.27
1258428--1258504	33	2.3	33	82	6	93	40	1	2	55	1.22
1259014--1259041	2	14.0	2	100	0	56	50	0	0	50	1.00
1259655--1259704	21	2.4	22	87	9	70	38	2	0	60	1.09
1259817--1259862	22	2.0	23	87	4	67	65	2	0	32	1.05
1259929--1259953	11	2.3	11	100	0	50	56	0	0	44	0.99
1260239--1260280	19	2.2	19	86	4	57	50	0	2	47	1.14
1263376--1263424	15	3.3	15	77	13	57	65	0	0	34	0.93
1263417--1263496	43	1.9	42	80	14	94	55	0	1	43	1.08
1263718--1263759	2	21.0	2	100	0	84	0	50	0	50	1.00
1266156--1266218	25	2.5	25	79	7	65	33	1	11	53	1.46
1268794--1268845	15	3.3	15	73	21	52	44	0	0	55	0.99
1268836--1268882	16	2.9	17	79	17	55	27	0	2	70	0.99
1271247--1271291	3	15.0	3	100	0	90	66	0	0	33	0.92
1274716--1274766	16	3.2	16	78	10	59	33	1	11	52	1.49
1275576--1275629	16	3.4	16	82	10	74	22	16	18	42	1.89
1275576--1275636	32	1.9	32	93	0	104	22	16	18	42	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1275618--1275674	16	3.5	16	79	11	62	29	8	12	49	1.70
1275947--1275990	2	22.0	2	100	0	88	50	0	0	50	1.00
1276190--1276250	7	8.4	7	76	7	50	40	0	0	59	0.98
1276936--1276967	2	16.0	2	93	0	55	50	3	0	46	1.17
1277250--1277285	17	2.1	17	100	0	72	50	16	5	27	1.68
1277969--1278002	2	17.0	2	100	0	68	50	0	0	50	1.00
1278970--1279188	34	6.5	34	85	2	280	25	7	26	40	1.82
1278970--1279188	102	2.2	101	91	1	357	25	7	26	40	1.82
1279494--1279556	19	3.3	19	90	0	90	28	17	19	34	1.94
1283622--1283840	34	6.5	34	84	4	273	26	7	25	40	1.82
1283622--1283840	102	2.2	101	90	1	348	26	7	25	40	1.82
1284290--1284339	2	25.0	2	95	0	91	50	2	0	48	1.12
1284530--1284569	21	1.9	21	100	0	80	5	15	2	77	1.04
1284617--1284672	23	2.5	22	91	2	85	69	0	0	30	0.89
1284617--1284683	12	5.2	13	81	15	61	68	1	0	29	0.98
1284638--1284734	7	12.8	8	66	23	50	59	1	0	39	1.04
1284600--1284735	14	8.9	15	66	21	61	61	1	0	36	1.10
1284715--1284764	20	2.4	22	80	16	61	60	2	0	38	1.09
1285186--1285239	27	2.0	27	85	0	72	3	20	9	66	1.35
1285375--1285406	3	11.0	3	93	6	57	34	34	0	31	1.58
1286415--1286470	2	29.0	2	92	7	98	0	50	0	50	1.00
1292078--1292137	20	2.8	21	78	19	61	40	1	1	56	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1292117--1292147	16	1.9	16	93	0	53	51	3	0	45	1.17
1292335--1292392	18	3.0	19	77	7	55	60	5	3	31	1.35
1293860--1293964	52	2.0	52	87	3	149	56	2	0	40	1.14
1294507--1294531	6	4.2	6	100	0	50	16	0	36	48	1.46
1294839--1294867	2	14.5	2	100	0	58	51	0	0	48	1.00
1294997--1295031	2	17.5	2	100	0	70	48	0	0	51	1.00
1295715--1295818	32	3.3	31	84	5	129	47	3	1	47	1.31
1295702--1295834	64	2.1	63	84	6	171	45	3	1	49	1.29
1296547--1296605	16	3.9	16	68	20	54	47	0	1	50	1.11
1296522--1296623	45	2.2	47	77	5	109	49	0	0	50	1.07
1296583--1296625	19	2.3	18	80	4	50	46	0	0	53	1.00
1298284--1298309	4	6.5	4	100	0	52	0	26	0	73	0.84
1300414--1300463	24	2.1	24	81	7	57	46	0	2	52	1.12
1305457--1305575	59	2.0	59	98	0	229	27	18	13	40	1.88
1312029--1312073	17	2.7	18	86	13	69	53	0	0	46	1.00
1312157--1312225	32	2.2	32	84	2	86	46	0	1	52	1.09
1312288--1312384	48	2.0	49	82	9	119	51	5	2	41	1.36
1320318--1320369	16	3.4	16	82	12	65	63	0	3	32	1.12
1320396--1320446	18	2.9	17	79	5	57	41	0	0	58	0.98
1320609--1320657	2	24.5	2	100	0	98	51	0	0	48	1.00
1321041--1321095	21	2.6	21	77	8	58	50	0	1	47	1.11
1328556--1328604	24	2.0	24	84	7	64	71	4	12	12	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1335479--1335512	18	1.9	17	88	5	50	50	20	0	29	1.49
1335487--1335570	26	3.2	26	68	24	77	46	19	2	32	1.62
1335467--1335574	52	2.1	52	98	0	207	42	19	2	35	1.66
1337515--1337580	17	3.8	17	71	15	53	31	1	3	63	1.19
1337487--1337607	36	3.4	38	71	17	91	34	0	2	61	1.15
1343077--1343175	38	2.6	38	81	9	112	39	1	5	54	1.29
1349594--1349732	71	2.0	71	95	0	251	31	10	20	38	1.85
1350568--1350638	36	2.0	35	83	2	88	36	5	4	53	1.44
1352990--1353047	22	2.6	22	88	0	80	50	17	3	29	1.62
1353500--1353535	18	1.9	19	88	5	56	50	2	5	41	1.40

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