genome.fa.s1165.2.7.7.80.10.50.1000.4.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: scaffold158
Parameters: 2 7 7 80 10 50 1000
Length:  3161772

Tables:   1   2   3   4   5   6   7   8   9   

This is table  4  of  9  ( 1067 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)
1017494--1017816	152	2.1	152	85	2	452	30	22	23	23	1.99
1017486--1017805	76	4.2	76	85	4	405	29	22	23	24	1.99
1018602--1018679	40	2.0	39	85	7	104	39	16	19	24	1.91
1018789--1018906	41	2.9	41	80	1	128	18	13	27	39	1.89
1031974--1032355	198	1.9	198	91	4	628	36	20	14	28	1.92
1032841--1032886	24	1.9	24	82	8	58	13	4	2	80	0.95
1033595--1035429	227	8.1	227	97	0	3230	27	20	16	34	1.95
1035562--1035653	41	2.2	41	86	3	123	19	16	32	31	1.94
1035748--1035794	25	2.0	25	83	8	62	61	8	8	21	1.51
1036591--1036649	7	7.9	7	83	14	64	16	0	49	33	1.47
1036590--1036649	24	2.6	23	92	5	95	16	0	48	35	1.47
1038750--1038775	12	2.2	12	100	0	52	23	7	7	61	1.49
1039347--1039404	25	2.3	26	90	3	91	37	15	5	41	1.70
1040399--1040676	16	16.8	16	71	18	169	47	17	1	32	1.57
1040403--1040495	34	2.8	34	80	3	100	48	19	2	30	1.61
1040399--1040691	25	11.7	25	71	18	209	47	17	1	32	1.58
1040568--1040650	41	2.0	41	95	0	148	49	21	1	27	1.57
1040568--1040676	41	2.7	40	87	5	139	48	20	0	30	1.56
1040824--1040975	66	2.3	66	88	2	216	39	17	29	13	1.88
1040946--1040995	21	2.4	21	89	0	73	38	18	44	0	1.50
1041318--1041522	43	4.8	43	91	0	302	25	20	32	20	1.97
1043825--1044017	66	2.9	67	83	6	239	43	9	7	39	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1049400--1049471	27	2.7	27	80	6	67	36	18	8	37	1.81
1049423--1049474	27	1.9	27	92	0	86	30	17	9	42	1.81
1055357--1055392	18	2.0	18	89	10	56	16	11	16	55	1.68
1063512--1063568	21	2.7	21	73	13	62	35	8	33	22	1.85
1064022--1064055	17	2.0	17	88	0	50	20	8	11	58	1.59
1068225--1068257	15	2.1	16	88	5	50	69	3	0	27	1.03
1068875--1068934	30	2.0	30	96	0	111	56	11	3	28	1.51
1079849--1079925	34	2.3	34	84	2	111	20	1	15	62	1.40
1081774--1081887	43	2.7	43	82	13	153	22	21	28	27	1.99
1082733--1082879	23	6.3	23	77	6	143	25	18	14	41	1.89
1082733--1082879	70	2.1	70	93	0	249	25	18	14	41	1.89
1082796--1082889	47	2.0	47	87	2	136	24	17	18	40	1.91
1082809--1082923	47	2.4	47	82	2	124	25	17	18	39	1.92
1082792--1082949	23	6.8	23	73	5	75	25	16	17	40	1.90
1087865--1087953	45	2.0	45	95	0	160	32	24	17	24	1.97
1087960--1088100	51	2.8	51	83	4	185	32	28	16	22	1.96
1090713--1090771	24	2.5	24	77	0	64	20	15	20	44	1.87
1093339--1093378	20	2.0	20	85	5	53	37	5	15	42	1.68
1095752--1096027	143	2.0	132	84	7	354	42	13	19	25	1.87
1100945--1100979	18	1.9	18	88	11	54	22	2	25	48	1.64
1105522--1106300	388	2.0	387	98	0	1513	39	8	16	35	1.79
1107024--1107133	33	3.3	33	63	14	89	30	17	24	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1107025--1107188	68	2.4	68	88	5	240	30	17	26	26	1.97
1107367--1107426	30	2.0	30	87	3	86	36	13	23	26	1.92
1111461--1111656	103	1.9	103	100	0	392	22	28	27	21	1.99
1112682--1112725	22	1.9	22	86	9	61	38	13	2	45	1.56
1112954--1113031	25	3.1	24	71	14	68	29	16	21	32	1.96
1116949--1117051	52	2.0	52	98	0	197	43	18	17	20	1.88
1118128--1118186	30	1.9	31	86	10	86	44	8	20	27	1.80
1127478--1127530	20	2.7	20	90	0	79	49	0	24	26	1.51
1138213--1138562	89	3.9	89	82	4	402	27	25	18	28	1.98
1138213--1138562	178	2.0	177	83	2	443	27	25	18	28	1.98
1151091--1151232	48	3.0	48	86	0	176	25	28	17	28	1.98
1156741--1156939	48	4.1	48	90	0	218	23	29	19	27	1.98
1162039--1162071	16	2.1	16	88	5	50	54	15	9	21	1.68
1162543--1162595	13	4.1	13	95	0	97	39	24	7	28	1.82
1162882--1162968	41	2.1	42	95	2	158	36	2	17	43	1.62
1162891--1162981	41	2.2	41	90	5	141	36	3	19	40	1.68
1164025--1164249	75	3.0	75	92	0	369	45	9	14	30	1.77
1164224--1164644	138	3.1	138	90	2	650	40	9	6	43	1.63
1166664--1166690	14	1.9	14	100	0	54	14	25	22	37	1.93
1177304--1177499	27	7.3	27	80	6	193	44	18	16	19	1.86
1177304--1177516	53	4.0	53	75	7	148	45	17	17	19	1.86
1187086--1187185	50	2.0	50	92	0	164	20	30	22	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1188758--1189046	51	5.6	51	79	10	293	29	15	25	28	1.96
1188755--1189052	102	2.9	102	84	7	354	29	16	25	28	1.96
1188926--1189037	56	2.0	56	98	0	215	31	17	25	25	1.97
1195507--1195850	102	3.4	101	87	2	451	28	16	25	29	1.96
1195507--1195844	51	6.7	50	78	7	315	28	16	25	29	1.96
1202628--1202676	18	2.7	18	84	6	55	8	30	16	44	1.76
1207518--1207561	22	2.0	22	90	0	70	56	0	2	40	1.11
1207508--1207559	11	4.8	11	79	13	54	57	1	1	38	1.21
1210664--1210701	5	7.6	5	100	0	76	60	0	0	39	0.97
1221435--1221509	6	12.5	6	100	0	150	0	32	0	68	0.90
1226341--1226618	144	1.9	144	82	1	342	31	16	21	30	1.95
1226590--1226644	28	2.0	28	85	0	74	20	23	36	20	1.95
1226618--1226854	104	2.3	104	84	0	357	32	20	20	27	1.97
1228439--1228480	20	2.1	20	100	0	84	38	23	9	28	1.86
1228822--1229218	197	2.0	198	99	0	787	37	22	14	25	1.92
1236250--1236308	30	2.0	30	89	0	91	28	3	8	59	1.43
1243227--1243256	14	2.1	14	93	0	51	83	0	13	3	0.77
1244949--1245219	124	2.2	125	86	5	370	28	14	24	33	1.94
1249986--1250056	27	2.8	26	78	17	69	40	2	0	56	1.14
1250011--1250080	19	3.5	21	79	16	78	48	4	0	47	1.21
1250046--1250086	19	2.2	19	100	0	82	58	4	0	36	1.20
1250637--1250704	30	2.2	31	81	5	84	36	1	0	61	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1251252--1251282	15	2.0	16	93	6	55	29	0	0	70	0.87
1251329--1251363	18	1.9	18	88	11	54	54	0	2	42	1.15
1251870--1251897	12	2.3	12	100	0	56	35	0	0	64	0.94
1252488--1252530	22	2.0	22	85	0	59	60	9	11	18	1.57
1252495--1252535	11	3.7	11	80	0	55	56	9	14	19	1.66
1254278--1254358	18	4.4	18	71	4	56	37	7	1	54	1.37
1254129--1254336	3	70.7	3	74	6	149	31	4	2	60	1.32
1259496--1259542	19	2.5	19	86	6	60	27	19	8	44	1.79
1262318--1262357	17	2.4	17	91	4	64	82	2	5	10	0.91
1262319--1262357	8	4.8	8	87	6	60	84	2	2	10	0.81
1262740--1262772	16	1.9	17	88	11	50	84	3	12	0	0.72
1262740--1262773	17	1.9	18	88	5	52	85	2	11	0	0.71
1263658--1263804	44	3.4	44	76	5	138	27	21	22	29	1.99
1263775--1263858	44	1.9	44	85	0	114	29	22	20	27	1.98
1263986--1265122	45	24.7	49	70	15	458	32	17	20	29	1.96
1264267--1264384	46	2.7	42	79	8	123	33	16	18	31	1.94
1263981--1265248	138	9.2	137	71	11	410	32	18	20	29	1.96
1263977--1264604	321	2.0	321	92	1	1046	31	18	20	29	1.96
1264394--1265127	185	4.0	181	86	2	788	32	17	19	29	1.95
1264264--1265248	44	21.6	44	71	13	475	32	17	19	29	1.96
1264536--1265030	92	5.4	92	71	9	312	33	17	18	30	1.94
1264446--1265127	183	3.7	182	86	2	803	32	17	19	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1263974--1265154	506	2.3	497	81	6	1433	32	18	20	29	1.96
1264479--1265203	183	3.9	179	83	5	696	33	17	19	29	1.95
1266785--1266865	18	4.4	18	71	4	56	37	7	1	54	1.37
1266676--1266843	3	57.3	3	69	8	87	32	5	2	58	1.37
1268946--1269036	44	2.1	44	85	4	121	43	4	12	39	1.62
1270706--1270780	19	3.9	19	75	3	62	24	21	24	30	1.99
1282887--1283017	30	4.4	31	79	5	137	36	20	0	41	1.58
1282887--1283018	59	2.2	60	83	1	158	36	21	0	41	1.58
1283352--1283409	21	2.7	21	86	5	71	79	6	10	3	1.04
1283492--1283565	13	6.0	13	78	15	77	75	0	24	0	0.80

Tables:   1   2   3   4   5   6   7   8   9