genome.fa.s34.2.7.7.80.10.50.1000.8.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: Scaffold34
Parameters: 2 7 7 80 10 50 1000
Length:  1758877

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  8  of  12  ( 1352 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)
1048724--1048880	61	2.6	61	86	6	212	29	16	27	26	1.97
1052435--1052653	79	2.8	78	90	4	332	32	13	24	29	1.94
1052583--1052703	51	2.4	51	84	6	158	33	9	25	32	1.87
1052826--1052940	51	2.3	50	83	3	131	32	12	25	30	1.92
1055240--1055313	20	3.7	19	80	7	76	39	13	17	29	1.88
1056083--1056182	41	2.5	40	79	8	112	43	10	28	19	1.83
1056201--1056335	42	3.1	42	78	13	141	41	13	27	17	1.87
1056080--1056301	118	1.9	115	80	13	256	41	12	25	20	1.87
1056319--1056547	122	1.9	121	90	4	372	25	21	27	25	2.00
1056319--1056552	61	3.9	61	88	5	334	26	21	27	24	1.99
1056591--1056845	60	4.4	60	79	9	227	24	21	27	27	1.99
1056709--1056843	52	2.5	53	85	4	182	23	22	25	27	2.00
1056318--1056943	267	2.3	266	85	5	817	26	20	27	25	1.99
1057917--1057996	1	80.0	1	74	0	70	0	3	8	87	0.65
1057931--1057993	10	6.9	9	87	12	85	0	1	11	87	0.62
1057917--1057995	29	2.9	26	80	12	79	0	3	8	87	0.66
1057919--1057994	10	7.9	10	85	10	81	0	3	9	86	0.68
1070394--1070613	79	2.8	78	87	3	305	35	15	23	26	1.94
1070545--1070659	51	2.3	51	79	8	128	35	7	25	31	1.84
1070677--1070850	79	2.2	80	81	4	201	32	15	23	28	1.95
1070468--1070896	237	1.8	237	84	6	591	35	13	23	28	1.92
1073536--1073594	11	5.8	10	73	16	50	54	11	3	30	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1073536--1073600	20	3.2	20	78	8	78	55	10	3	30	1.50
1073597--1073650	20	2.7	20	88	5	83	51	14	3	29	1.60
1073650--1073716	27	2.4	27	85	5	80	49	2	4	43	1.38
1074740--1074764	13	1.9	13	100	0	50	40	20	8	32	1.81
1074773--1074815	20	2.0	22	91	8	72	13	11	23	51	1.74
1074793--1074950	72	2.2	72	98	0	307	26	18	13	41	1.88
1075594--1075660	34	2.0	34	96	0	125	29	20	2	46	1.66
1077767--1077798	15	2.3	15	89	10	50	62	12	3	21	1.43
1081521--1081567	21	2.2	21	92	0	76	23	17	0	59	1.37
1082020--1082059	3	13.3	3	94	0	71	30	32	0	37	1.58
1084178--1084238	21	2.9	21	82	0	77	55	6	6	31	1.51
1084862--1084892	2	15.5	2	100	0	62	51	0	0	48	1.00
1089092--1089129	18	2.1	18	100	0	76	44	15	0	39	1.47
1098353--1098381	7	4.3	7	95	4	51	0	10	0	89	0.48
1104815--1104854	18	2.2	18	90	0	62	30	0	0	70	0.88
1104822--1104861	18	2.2	18	86	0	53	32	5	0	62	1.17
1108921--1109065	72	2.0	72	98	0	281	29	13	13	43	1.82
1112742--1112779	2	19.0	2	100	0	76	50	0	0	50	1.00
1113687--1113734	24	1.9	26	87	8	73	54	2	4	39	1.32
1113685--1113740	24	2.3	23	82	14	69	53	1	3	41	1.29
1119512--1119557	19	2.5	19	86	10	60	71	0	0	28	0.86
1119512--1119558	13	3.4	14	78	16	53	72	0	0	27	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1120890--1120933	16	2.7	17	82	10	56	50	0	0	50	1.00
1120868--1120921	28	1.9	28	85	7	74	44	0	0	55	0.99
1120997--1121030	9	3.7	9	84	7	50	38	0	0	61	0.96
1121156--1121210	28	2.0	28	85	0	74	60	1	0	38	1.08
1123997--1124038	2	21.0	2	90	0	66	50	0	0	50	1.00
1124084--1124118	17	2.1	17	94	0	61	42	2	17	37	1.64
1131530--1131930	210	1.9	210	89	0	613	30	23	21	24	1.99
1135381--1135431	20	2.5	20	100	0	102	39	11	13	35	1.82
1135468--1135495	13	2.2	13	100	0	56	39	17	14	28	1.89
1135548--1135610	19	3.6	19	68	24	66	31	19	15	33	1.93
1135540--1135610	32	2.2	32	92	0	124	32	19	15	32	1.93
1136340--1137288	52	18.8	51	81	7	1037	32	17	26	23	1.97
1136389--1137244	101	8.4	101	89	2	1089	32	17	26	23	1.97
1137374--1137691	34	10.0	32	75	16	270	35	11	30	22	1.90
1137355--1137744	61	6.3	61	82	10	395	33	12	31	22	1.92
1137355--1137629	96	2.9	95	85	3	383	34	12	30	21	1.91
1137380--1137690	157	1.9	159	85	6	423	34	12	30	22	1.91
1137701--1138053	31	11.6	31	85	8	363	30	15	30	24	1.96
1137711--1138048	61	5.6	61	83	10	435	29	16	29	24	1.96
1137504--1137869	122	3.0	119	81	8	359	32	12	31	23	1.92
1139356--1139396	11	3.6	11	87	12	57	7	9	0	82	0.83
1139357--1139395	20	2.0	20	89	0	60	7	10	0	82	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1150810--1150929	52	2.3	52	97	0	222	29	17	18	35	1.94
1150810--1150949	52	2.7	51	90	4	210	30	17	18	33	1.94
1150938--1150962	13	1.9	13	100	0	50	36	16	16	32	1.90
1151027--1151051	13	1.9	13	100	0	50	32	16	16	36	1.90
1153467--1153518	19	2.6	21	84	6	72	38	11	15	34	1.83
1153819--1153843	13	1.9	13	100	0	50	36	16	16	32	1.90
1153928--1154076	52	2.9	53	87	2	187	35	18	15	30	1.92
1157198--1157223	13	2.0	13	100	0	52	30	15	15	38	1.88
1159645--1159714	27	2.5	28	86	6	90	25	32	18	22	1.97
1159668--1160110	79	5.6	79	90	2	694	25	26	16	32	1.96
1160064--1160136	28	2.6	28	86	0	101	23	28	21	26	1.99
1164134--1164167	16	2.1	16	100	0	68	47	0	0	52	1.00
1164329--1164390	29	2.1	29	84	0	79	51	1	3	43	1.27
1165563--1165605	18	2.4	18	88	7	61	30	0	0	69	0.88
1165563--1165606	6	7.3	6	80	10	54	31	0	0	68	0.90
1166031--1166069	2	19.5	2	100	0	78	51	0	0	48	1.00
1170324--1170407	25	3.4	24	77	11	71	28	0	1	70	0.95
1170334--1170409	8	9.0	8	77	16	73	27	0	0	72	0.85
1170334--1170409	17	4.5	17	79	11	84	27	0	0	72	0.85
1170323--1170421	27	3.6	27	79	18	107	30	1	1	67	1.04
1170752--1170873	53	2.3	53	84	1	154	27	13	18	39	1.89
1174858--1174904	23	2.0	24	87	4	69	34	8	10	46	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1177613--1177651	9	4.1	9	90	9	60	33	0	10	56	1.33
1177613--1177651	19	2.1	19	95	0	69	33	0	10	56	1.33
1180736--1180808	20	3.7	20	87	10	105	32	16	8	42	1.78
1180909--1180933	13	1.9	13	100	0	50	36	16	16	32	1.90
1180889--1180954	32	2.0	33	94	2	116	34	12	16	36	1.86
1180995--1181019	13	1.9	13	100	0	50	32	16	16	36	1.90
1181028--1181155	52	2.5	52	96	1	231	35	17	17	28	1.94
1185909--1186282	78	4.8	79	77	6	311	39	10	20	30	1.85
1188301--1188362	30	2.1	30	87	6	90	35	12	19	32	1.90
1192395--1192462	26	2.6	27	85	4	102	44	1	13	41	1.52
1192856--1192893	20	1.9	19	89	5	58	81	5	5	7	0.98
1194075--1194283	34	6.4	34	75	11	184	24	6	27	42	1.78
1194134--1194248	61	1.9	61	89	3	178	26	6	27	39	1.80
1194100--1194278	95	1.9	95	83	2	234	26	6	27	40	1.79
1194583--1194644	19	3.3	18	86	6	88	32	20	16	30	1.95
1198737--1198950	68	3.1	67	89	4	331	23	7	27	42	1.79
1198733--1198950	34	6.4	34	83	0	256	23	6	27	42	1.79
1201994--1202063	20	3.5	20	76	7	70	34	17	8	40	1.80
1213751--1213780	15	1.9	16	93	6	53	10	30	33	26	1.89
1216009--1216087	10	7.8	10	82	12	99	87	11	1	0	0.61
1216010--1216103	40	2.3	42	84	15	133	85	11	2	1	0.75
1216009--1216088	1	80.0	1	74	0	70	87	11	1	0	0.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1217315--1218191	28	29.9	29	83	7	990	29	29	16	24	1.97
1217446--1218192	57	12.9	57	86	4	935	29	29	16	23	1.97
1218655--1218703	20	2.5	20	77	12	55	36	12	14	36	1.83
1219632--1219671	20	2.0	21	90	5	64	22	10	10	57	1.61
1222989--1223021	15	2.1	16	88	5	50	39	0	9	51	1.34
1223467--1223505	19	2.0	21	90	10	64	30	2	0	66	1.05
1223696--1223742	23	2.0	23	84	8	60	36	2	0	61	1.08
1246809--1247173	195	1.9	195	97	0	685	27	12	24	35	1.91
1248536--1248598	3	21.0	3	100	0	126	66	0	0	33	0.92
1248709--1248751	20	2.2	20	100	0	86	39	4	4	51	1.44

Tables:   1   2   3   4   5   6   7   8   9   10   11   12