genome.fa.s92.2.7.7.80.10.50.1000.8.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: 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  8  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)
1071950--1072011	21	3.0	21	78	4	72	51	0	0	48	1.00
1072049--1072087	21	1.9	21	84	5	53	46	2	5	46	1.38
1073974--1074000	2	13.5	2	100	0	54	48	0	0	51	1.00
1074234--1074274	21	2.1	19	86	9	55	56	0	0	43	0.99
1078041--1078080	20	2.0	20	85	4	55	27	2	2	67	1.16
1080867--1080897	2	15.5	2	100	0	62	51	0	0	48	1.00
1081599--1082747	595	1.9	595	96	1	2124	37	11	15	36	1.83
1083550--1083655	41	2.6	41	93	0	176	39	14	16	30	1.87
1083833--1083949	58	2.0	58	91	0	189	34	15	15	35	1.89
1084275--1084352	41	1.9	41	82	10	97	39	15	16	28	1.89
1085699--1085747	21	2.5	19	77	9	53	51	0	0	48	1.00
1086259--1086302	19	2.4	18	82	17	56	40	0	2	56	1.11
1089600--1089633	2	17.0	2	100	0	68	50	0	0	50	1.00
1090555--1090595	15	2.8	15	79	17	50	43	0	0	56	0.99
1090877--1090925	19	2.7	19	81	9	57	48	0	2	48	1.12
1091321--1091380	14	4.1	15	75	10	52	55	3	1	40	1.27
1097947--1098104	79	2.0	79	83	9	198	29	5	16	48	1.67
1099608--1099671	23	2.7	23	83	14	69	34	0	3	62	1.11
1099694--1100159	73	6.4	72	83	5	560	31	2	12	53	1.52
1099696--1100159	218	2.1	218	85	4	614	31	2	12	53	1.53
1100758--1100827	25	2.9	24	83	12	99	38	0	2	58	1.13
1100858--1101304	74	6.1	73	82	7	493	35	2	8	53	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1102405--1102440	2	18.0	2	100	0	72	0	50	0	50	1.00
1102859--1102905	2	23.5	2	91	0	76	44	0	4	51	1.21
1103094--1103127	7	4.6	7	86	13	50	47	0	0	52	1.00
1103096--1103127	16	2.1	15	94	5	55	50	0	0	50	1.00
1103847--1103888	22	1.9	22	90	9	68	38	0	0	61	0.96
1105123--1105151	15	1.9	15	100	0	58	48	6	3	41	1.47
1110049--1110088	20	2.0	20	85	0	53	47	0	2	50	1.14
1110197--1110242	22	2.0	23	87	4	67	50	2	0	47	1.13
1110197--1110274	36	2.2	36	86	6	106	46	1	1	51	1.17
1110197--1110311	36	3.2	36	78	7	101	47	0	2	48	1.21
1110910--1110963	21	2.6	20	82	8	63	48	1	0	50	1.11
1110974--1111034	32	2.0	32	90	6	99	42	1	0	55	1.09
1110995--1111095	22	4.7	21	73	11	80	45	0	0	53	1.07
1110970--1111107	31	4.6	30	77	15	110	46	0	0	52	1.05
1110990--1111083	15	6.2	15	71	14	61	44	1	0	54	1.07
1110996--1111093	21	4.6	21	72	16	69	44	1	0	54	1.07
1110968--1111056	6	14.7	6	71	19	60	42	1	0	56	1.06
1111020--1111116	28	3.4	28	75	20	94	48	0	0	51	1.00
1118364--1118388	2	12.5	2	100	0	50	0	48	0	52	1.00
1119938--1120041	44	2.3	45	95	5	192	27	17	19	35	1.94
1121798--1121908	34	3.2	36	71	21	94	41	0	0	56	1.11
1121807--1121888	32	2.6	32	81	11	96	42	0	1	56	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1121803--1121862	18	3.5	18	72	17	56	41	0	1	56	1.09
1122933--1122959	2	13.5	2	100	0	54	48	0	0	51	1.00
1123122--1123148	2	13.5	2	100	0	54	48	0	0	51	1.00
1123452--1123492	20	2.0	21	85	4	57	68	2	0	29	1.03
1123758--1123833	6	13.8	6	73	19	51	68	1	1	28	1.06
1123857--1123906	26	1.9	26	84	8	66	52	4	0	44	1.20
1126069--1126106	19	2.0	20	84	5	51	13	10	44	31	1.77
1127603--1127710	53	2.0	53	98	0	207	35	6	16	41	1.74
1142364--1142394	12	2.7	11	90	9	53	70	0	0	29	0.87
1142367--1142393	12	2.2	12	100	0	54	77	0	0	22	0.76
1142704--1142768	26	2.4	28	80	10	82	50	1	4	43	1.32
1145020--1145045	2	13.0	2	100	0	52	50	50	0	0	1.00
1162706--1162732	2	13.5	2	100	0	54	48	0	0	51	1.00
1163431--1163473	14	3.1	14	75	0	50	39	9	0	51	1.34
1163639--1163717	29	2.7	30	77	16	85	37	3	0	58	1.16
1163697--1163917	110	2.0	111	91	2	356	39	9	1	48	1.47
1166989--1167020	2	16.0	2	100	0	64	50	50	0	0	1.00
1167034--1167066	2	16.5	2	93	0	57	48	0	0	51	1.00
1168362--1168402	2	20.5	2	100	0	82	48	0	0	51	1.00
1169356--1169395	17	2.4	17	83	8	55	50	2	2	45	1.28
1169452--1169516	25	2.5	26	82	10	78	46	0	0	53	1.00
1169475--1169531	25	2.2	25	84	9	69	47	0	1	50	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1169503--1169574	26	2.7	26	80	12	74	48	0	1	50	1.09
1169618--1169665	21	2.3	21	85	0	60	64	12	0	22	1.27
1170193--1170274	33	2.3	36	70	20	82	40	3	1	54	1.26
1173826--1174008	92	2.0	93	86	3	262	46	15	16	21	1.84
1175332--1175372	14	3.1	14	89	6	59	36	0	0	63	0.95
1175388--1175476	23	3.8	23	76	14	101	57	0	3	39	1.15
1175492--1175574	36	2.3	37	84	12	102	55	0	0	44	0.99
1175463--1175587	42	3.0	43	79	12	120	56	0	0	42	1.10
1175606--1175638	16	2.1	16	88	5	50	45	0	3	51	1.16
1175623--1175723	43	2.3	43	83	6	116	43	0	0	55	1.06
1175839--1175873	16	2.1	17	89	5	54	34	0	0	65	0.93
1177398--1177468	16	4.6	16	72	14	60	35	0	0	64	0.94
1177412--1177468	29	1.9	30	82	10	73	36	0	0	63	0.95
1182285--1182314	15	1.9	16	93	6	53	46	0	0	53	1.00
1183473--1183518	2	23.0	2	100	0	92	50	0	0	50	1.00
1183782--1183888	52	2.1	52	96	0	196	54	2	4	38	1.36
1184557--1184597	14	2.9	13	86	13	55	58	4	0	36	1.20
1184558--1184605	14	3.4	14	77	13	53	58	6	0	35	1.23
1185017--1185078	30	2.2	29	83	11	76	53	0	0	46	1.00
1185196--1185263	22	3.2	22	76	12	70	57	0	0	42	0.98
1185312--1185342	16	2.0	16	93	6	55	16	0	0	83	0.64
1185736--1185783	24	2.1	23	88	7	71	41	0	2	56	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1185757--1185856	41	2.5	39	81	12	107	45	1	1	53	1.14
1185789--1185866	18	3.8	20	72	20	63	47	1	1	50	1.17
1185850--1185902	5	10.6	5	82	6	54	47	0	0	52	1.00
1185833--1185901	30	2.3	30	85	7	88	49	0	1	49	1.09
1196294--1196343	19	2.5	20	78	15	59	62	0	0	38	0.96
1196310--1196355	19	2.6	18	77	16	51	65	2	0	32	1.05
1197049--1197105	12	4.1	14	76	17	57	29	5	0	64	1.15
1197066--1197113	25	1.9	25	87	8	71	37	2	0	60	1.09
1197298--1197351	21	2.5	23	82	14	78	42	0	0	57	0.98
1197466--1197532	25	2.8	23	82	8	73	44	0	0	55	0.99
1197553--1197584	15	2.1	15	94	0	55	59	3	0	37	1.13
1198202--1198234	17	1.9	17	88	11	50	42	0	0	57	0.98
1198895--1198948	23	2.3	24	76	23	62	62	0	0	37	0.95
1198917--1198963	6	8.0	6	79	11	53	61	0	0	38	0.96
1198950--1198992	23	1.9	22	81	13	52	55	2	0	41	1.12
1199263--1199303	20	2.0	20	86	9	57	39	0	0	60	0.96
1199262--1199342	26	3.4	25	78	11	82	45	0	0	54	0.99
1199557--1199620	20	3.1	21	84	10	71	45	0	0	54	0.99
1199899--1199968	21	3.1	22	75	17	63	58	0	0	41	0.98
1199909--1199937	14	2.1	14	93	6	51	62	0	0	37	0.96
1200115--1200162	23	2.1	22	88	3	69	43	0	4	52	1.20
1200150--1200216	28	2.4	27	76	16	73	41	2	1	53	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1200311--1200351	21	2.0	21	90	0	64	51	9	0	39	1.35
1201514--1201539	3	8.7	3	100	0	52	0	0	65	34	0.93
1202784--1202819	2	18.0	2	94	0	63	47	0	2	50	1.15
1203702--1203740	20	2.0	20	84	0	51	48	0	0	51	1.00
1204914--1204975	32	2.0	31	84	9	81	54	0	1	43	1.09
1203987--1205415	752	1.9	728	84	8	1898	39	10	8	41	1.69
1205752--1205794	5	8.8	5	82	14	54	60	2	0	37	1.10
1205752--1205794	18	2.2	21	84	12	56	60	2	0	37	1.10
1205800--1205854	26	2.1	26	83	12	69	54	1	0	43	1.10
1206073--1206144	20	3.6	20	78	16	69	43	0	1	55	1.08

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