genome.fa.s59.2.7.7.80.10.50.1000.7.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: Scaffold59
Parameters: 2 7 7 80 10 50 1000
Length:  3999109

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   

This is table  7  of  25  ( 2913 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)
1160705--1160740	3	12.0	3	100	0	72	66	0	0	33	0.92
1164170--1164222	19	2.9	19	76	15	58	32	1	0	66	1.03
1164175--1164243	26	2.6	27	86	9	97	28	2	0	68	1.04
1173318--1173362	18	2.4	20	82	14	60	37	6	2	53	1.40
1176568--1176596	2	14.5	2	100	0	58	51	0	0	48	1.00
1179213--1179247	2	17.5	2	100	0	70	51	0	0	48	1.00
1181698--1181846	66	2.3	66	86	2	201	55	12	3	28	1.53
1182592--1182643	22	2.2	24	86	6	72	32	1	1	63	1.16
1182608--1182662	11	4.9	11	78	10	58	34	3	0	61	1.13
1182608--1182668	31	1.9	31	90	6	95	34	3	0	62	1.12
1182608--1182671	22	2.8	22	77	15	58	35	3	0	60	1.12
1183544--1183584	21	1.9	22	90	5	66	58	0	0	41	0.98
1183856--1183950	25	3.6	25	72	22	79	57	0	0	42	0.98
1183883--1183935	18	2.9	17	83	13	61	62	0	0	37	0.96
1183880--1183929	19	2.6	19	84	15	68	60	0	0	40	0.97
1183860--1183943	17	4.7	17	71	18	64	60	0	0	39	0.97
1184229--1184271	18	2.4	17	77	11	50	41	0	0	58	0.98
1184885--1184912	2	14.0	2	100	0	56	50	0	0	50	1.00
1185534--1185569	14	2.6	14	86	0	54	61	8	5	25	1.46
1188955--1188991	17	2.1	18	90	10	58	54	0	0	45	1.00
1188972--1189030	27	2.2	27	84	6	75	49	0	0	50	1.00
1191929--1191967	20	2.0	20	85	10	53	2	28	0	69	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1192304--1192361	30	1.9	30	86	6	82	62	1	0	36	1.06
1192358--1192428	11	6.3	11	79	11	81	0	16	0	83	0.66
1192364--1192430	15	4.3	15	75	22	66	0	19	0	80	0.71
1193837--1193885	24	2.0	25	84	4	64	63	4	4	28	1.31
1194104--1194171	24	2.9	23	75	14	68	64	2	0	32	1.08
1194252--1194324	33	2.2	32	77	13	78	64	2	2	30	1.21
1194250--1194323	18	4.4	16	68	13	51	63	2	2	31	1.22
1194312--1194381	25	2.8	23	75	12	59	67	0	1	31	1.00
1195237--1195297	27	2.1	27	82	8	68	47	0	0	52	1.00
1195473--1195518	19	2.3	20	85	7	67	50	0	2	47	1.13
1196691--1196731	21	2.0	21	95	0	73	51	0	0	48	1.00
1196691--1196733	19	2.1	21	87	8	63	53	0	0	46	1.00
1196782--1196813	14	2.4	13	94	5	55	65	0	0	34	0.93
1198758--1199040	142	2.0	142	89	4	432	33	8	6	51	1.57
1201333--1201387	6	9.2	6	74	21	53	54	0	0	45	0.99
1201334--1201389	26	2.3	24	88	11	71	55	0	0	44	0.99
1201345--1201402	25	2.3	25	85	11	75	51	1	1	44	1.21
1205215--1205255	11	3.5	11	84	12	55	26	0	0	73	0.84
1205203--1205255	24	2.2	25	93	3	90	26	1	0	71	0.96
1205203--1205250	13	3.8	13	81	13	64	27	2	0	70	0.98
1207268--1207495	118	1.9	118	83	7	293	42	16	7	33	1.77
1208271--1208309	2	19.5	2	100	0	78	51	0	48	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1208533--1208562	16	1.9	15	93	6	51	53	0	0	46	1.00
1211713--1211774	29	2.2	29	85	8	83	43	1	1	53	1.20
1212816--1212870	23	2.4	23	84	6	67	54	1	0	43	1.10
1215848--1215875	3	9.3	3	100	0	56	32	0	0	67	0.91
1222200--1222228	13	2.2	13	100	0	58	58	0	6	34	1.25
1222312--1222421	55	2.0	54	96	1	202	35	25	7	31	1.83
1223156--1223210	19	2.8	20	76	17	62	61	0	0	38	0.96
1225297--1225350	26	2.0	27	85	3	74	40	0	3	55	1.17
1225623--1225669	25	1.9	25	82	4	60	51	0	2	46	1.13
1225838--1225867	7	4.3	7	95	0	51	33	16	0	50	1.46
1233950--1233980	5	6.0	5	92	7	53	80	0	0	19	0.71
1233950--1233979	11	2.8	11	95	5	53	83	0	0	16	0.65
1233948--1233980	16	2.1	16	100	0	66	78	0	0	21	0.75
1233953--1234028	16	4.4	16	73	19	55	63	0	3	32	1.13
1234142--1234170	14	2.0	15	93	6	51	68	0	0	31	0.89
1238702--1238743	16	2.7	16	85	3	50	47	14	0	38	1.44
1241475--1241545	27	2.7	25	81	12	79	52	1	12	33	1.48
1242558--1242599	2	21.0	2	100	0	84	50	0	0	50	1.00
1242956--1242981	2	13.0	2	100	0	52	50	0	0	50	1.00
1247810--1248150	170	2.0	170	100	0	682	43	17	12	25	1.85
1252289--1252336	22	2.1	23	85	11	64	52	0	2	45	1.12
1253844--1253904	11	5.5	11	77	14	72	32	1	0	65	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1253848--1253904	22	2.6	23	86	8	82	31	1	0	66	1.02
1253854--1253883	16	1.9	15	93	6	51	30	3	0	66	1.07
1253835--1253914	22	3.7	21	78	8	81	32	2	0	65	1.06
1253841--1253925	38	2.2	38	78	19	97	34	2	0	63	1.07
1254292--1254332	3	13.7	3	100	0	82	68	0	0	31	0.90
1255120--1255160	15	2.7	15	80	20	50	41	2	0	56	1.13
1255167--1255230	32	2.0	33	84	3	85	43	1	0	54	1.09
1258141--1258201	28	2.1	29	82	14	72	60	0	0	39	0.97
1258143--1258207	20	3.4	19	76	6	60	56	0	0	43	0.99
1258494--1258522	2	15.0	2	92	7	51	48	0	0	51	1.00
1258772--1258962	95	2.0	95	95	0	346	40	6	9	43	1.63
1259110--1259152	14	3.0	14	80	16	52	53	0	0	46	1.00
1260534--1260571	2	19.0	2	100	0	76	50	0	0	50	1.00
1260784--1260875	19	4.9	19	69	12	66	45	0	0	54	0.99
1260806--1260912	36	2.9	35	74	17	101	49	0	0	49	1.07
1261335--1261412	32	2.5	29	76	12	75	51	0	2	46	1.14
1261389--1261430	16	2.6	17	85	14	54	59	0	0	40	0.97
1262102--1262132	3	10.3	3	92	0	53	0	32	3	64	1.09
1262131--1262166	3	12.0	3	93	0	63	33	0	2	63	1.08
1266844--1266883	2	20.0	2	100	0	80	50	0	50	0	1.00
1272152--1272197	20	2.3	20	84	0	56	36	4	47	10	1.58
1272418--1272486	11	5.9	11	73	21	52	68	2	1	27	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1273650--1273709	29	2.1	28	84	9	77	41	0	5	53	1.23
1273664--1273719	29	1.9	29	92	0	94	35	0	0	64	0.94
1273666--1273721	15	3.8	15	73	4	60	35	0	0	64	0.94
1274584--1274632	20	2.5	20	78	21	59	30	2	0	67	1.02
1275735--1275787	19	2.9	18	72	10	54	45	0	1	52	1.11
1276142--1276206	18	3.3	20	76	20	66	52	0	0	47	1.00
1276173--1276219	10	4.4	11	76	15	53	51	0	0	48	1.00
1276173--1276219	20	2.2	22	88	11	71	51	0	0	48	1.00
1276874--1276922	19	2.4	21	80	10	57	44	0	0	55	0.99
1277730--1277838	54	2.0	53	87	1	155	51	11	10	27	1.69
1278209--1278259	21	2.5	21	87	9	70	41	1	3	52	1.31
1278499--1278613	59	1.9	60	87	5	171	40	16	13	29	1.87
1279021--1279098	2	42.0	2	71	19	53	44	1	0	53	1.08
1279013--1279058	23	2.0	22	88	12	67	36	0	0	63	0.95
1279046--1279110	14	4.4	15	81	14	73	50	3	0	46	1.17
1279015--1279087	25	3.0	25	81	14	75	42	1	0	56	1.08
1279046--1279094	25	2.0	25	84	8	64	48	2	0	48	1.12
1282147--1282196	16	3.2	16	77	5	57	32	0	2	66	1.03
1282150--1282195	15	3.0	15	83	3	56	30	0	2	67	1.03
1283268--1283316	21	2.3	20	80	10	53	42	0	0	57	0.99
1283534--1283566	17	1.9	17	88	11	50	45	3	0	51	1.16
1284431--1284460	3	10.0	3	100	0	60	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1284563--1284605	12	3.1	14	80	19	54	55	0	0	44	0.99
1285648--1285673	2	13.0	2	100	0	52	50	0	0	50	1.00
1287525--1287552	2	14.0	2	100	0	56	50	0	0	50	1.00
1291320--1291433	46	2.5	46	91	1	176	41	9	5	43	1.60
1291554--1291592	11	3.5	11	82	6	51	56	0	0	43	0.99
1291554--1291599	23	2.0	23	91	0	74	52	0	2	45	1.13
1292309--1292339	6	5.0	6	96	4	53	64	0	0	35	0.94
1296688--1296741	3	18.0	3	100	0	108	33	0	0	66	0.92
1296967--1297018	23	2.3	22	78	18	54	50	1	0	48	1.12
1296976--1297069	31	3.0	31	93	3	152	51	0	0	48	1.00

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