genome.fa.s82.2.7.7.80.10.50.1000.9.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: Scaffold82
Parameters: 2 7 7 80 10 50 1000
Length:  2626005

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

This is table  9  of  17  ( 2012 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)
1111171--1111237	2	35.0	2	73	19	54	43	1	2	52	1.25
1111180--1111228	19	2.5	19	83	3	62	40	2	4	53	1.32
1112303--1112343	22	1.9	21	90	5	64	53	2	0	43	1.13
1113919--1113987	32	2.2	32	86	5	95	39	8	5	46	1.59
1114472--1114509	20	2.0	20	89	5	60	47	13	5	34	1.65
1114520--1114569	21	2.4	21	80	16	59	46	10	6	38	1.62
1116215--1116342	20	5.8	20	74	21	105	28	14	12	43	1.82
1116255--1116390	51	2.7	51	93	2	220	27	17	11	44	1.82
1118542--1118771	97	2.4	97	86	2	327	28	26	13	30	1.94
1128071--1128102	16	2.0	17	88	11	50	12	28	28	31	1.93
1130335--1130369	10	3.5	10	92	0	61	88	11	0	0	0.51
1130338--1130369	16	1.9	17	93	6	57	87	12	0	0	0.54
1131478--1131800	28	11.5	28	87	4	386	29	30	16	23	1.96
1131788--1131837	25	2.0	25	88	0	73	30	24	24	22	1.99
1131957--1132031	25	3.2	25	64	14	68	22	28	16	33	1.95
1131942--1132015	21	3.2	24	62	14	64	21	28	13	36	1.91
1131948--1132315	48	7.8	48	89	1	537	20	28	16	34	1.94
1131911--1132315	142	2.9	143	88	2	552	20	27	16	34	1.95
1131948--1132315	190	1.9	190	92	0	610	20	28	16	34	1.94
1133024--1133098	20	3.8	20	83	0	105	33	14	13	38	1.85
1135297--1135541	97	2.5	97	90	1	368	27	29	13	28	1.95
1137491--1137607	57	2.1	57	84	4	150	42	5	4	47	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1139559--1139631	27	2.7	26	72	10	65	52	2	1	43	1.24
1143893--1143971	32	2.5	32	89	0	122	18	17	31	31	1.95
1143893--1144259	28	12.6	31	72	15	121	25	16	29	29	1.97
1143898--1145035	27	40.9	28	78	6	374	29	15	29	26	1.96
1143898--1144306	117	3.5	111	79	9	356	24	16	30	29	1.96
1143898--1144432	55	9.4	55	74	10	282	26	16	29	27	1.96
1144285--1145024	27	27.2	27	82	3	712	31	14	28	24	1.95
1144153--1145024	82	10.6	81	81	3	748	29	15	29	25	1.96
1144285--1145032	109	6.9	107	81	5	655	31	15	28	24	1.95
1144165--1145024	191	4.5	191	82	3	883	30	15	29	25	1.95
1145451--1145487	19	1.9	20	88	5	58	35	8	18	37	1.81
1146308--1146398	20	4.2	21	73	16	62	8	13	5	72	1.26
1153085--1153127	22	2.0	22	86	4	61	0	13	2	83	0.74
1153087--1153127	12	3.5	11	87	9	55	0	12	2	85	0.70
1154998--1155252	129	2.0	127	84	6	336	54	4	5	35	1.44
1155120--1155170	21	2.5	21	81	12	54	60	1	5	31	1.31
1155302--1155336	7	5.0	7	100	0	70	42	0	0	57	0.99
1156592--1156663	36	2.1	36	86	5	103	31	4	11	52	1.56
1157655--1157688	17	2.1	17	88	5	52	67	0	0	32	0.91
1157635--1157688	15	3.4	16	74	7	56	64	0	1	33	1.04
1157622--1157688	31	2.2	30	78	7	73	62	0	2	34	1.10
1161019--1161094	20	3.8	20	80	0	98	31	13	13	42	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1162726--1162755	10	2.8	11	90	10	53	33	10	0	56	1.32
1175006--1175077	19	3.5	19	81	12	81	86	8	2	2	0.77
1175010--1175093	26	3.0	26	80	15	89	84	9	2	3	0.83
1175008--1175057	9	5.7	9	88	4	75	90	8	0	2	0.54
1175007--1175065	1	59.0	1	79	0	64	89	6	0	3	0.57
1176310--1176775	28	16.5	28	85	4	585	29	30	16	22	1.96
1176310--1176775	114	4.1	113	87	1	659	29	30	16	22	1.96
1177716--1177790	20	3.8	20	85	0	105	32	13	13	41	1.83
1182152--1182181	7	4.3	7	91	0	51	16	13	0	70	1.18
1183963--1184070	17	6.4	16	72	14	65	75	0	5	19	1.00
1184023--1184072	5	10.0	5	79	12	50	80	0	4	16	0.87
1186670--1186744	20	3.8	20	74	0	78	32	13	14	40	1.85
1186739--1186786	24	2.0	24	100	0	96	25	16	8	50	1.73
1190007--1190046	19	2.1	19	85	0	53	12	10	7	70	1.35
1190169--1190195	14	1.9	14	100	0	54	29	18	37	14	1.91
1198461--1198486	13	2.0	13	100	0	52	30	15	15	38	1.88
1198495--1198624	52	2.5	52	90	3	192	33	18	16	32	1.93
1203345--1203392	9	5.0	9	85	10	60	83	14	2	0	0.74
1203346--1203404	19	2.8	20	87	10	75	83	11	3	1	0.85
1203346--1203404	10	5.7	10	82	9	66	83	11	3	1	0.85
1203346--1203404	23	2.6	23	83	2	66	83	11	3	1	0.85
1204618--1205513	28	31.5	28	84	6	961	27	31	18	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1206121--1206195	20	3.8	20	84	7	98	34	12	13	40	1.81
1210360--1210400	21	1.9	22	85	5	57	56	0	4	39	1.21
1212645--1212690	17	2.6	17	79	3	56	50	0	0	50	1.00
1213512--1213564	17	3.1	18	72	27	53	37	0	0	62	0.96
1213779--1213818	22	1.9	22	90	10	66	52	2	0	45	1.14
1213863--1213946	21	4.1	21	70	14	61	57	2	1	39	1.20
1213866--1213907	21	2.0	21	90	4	66	52	0	0	47	1.00
1213961--1214001	17	2.4	18	80	8	50	56	2	2	39	1.26
1214205--1214266	7	8.1	8	74	18	53	40	0	0	59	0.97
1214208--1214267	22	2.7	23	77	15	63	38	0	0	61	0.96
1214422--1214470	22	2.2	22	88	3	71	36	8	10	44	1.68
1214400--1214478	23	3.5	23	82	1	88	34	7	13	44	1.73
1215403--1215461	16	3.4	18	80	17	63	44	0	0	55	0.99
1215395--1215453	27	2.2	26	80	16	68	45	0	0	54	0.99
1215425--1215475	15	3.3	15	78	10	50	50	0	0	49	1.00
1215447--1215513	5	13.4	5	73	17	59	59	0	0	40	0.97
1215472--1215584	15	7.4	16	66	22	55	57	0	0	42	0.98
1215446--1215573	57	2.4	51	74	20	127	57	0	0	42	0.99
1215441--1215589	21	6.9	22	69	26	79	56	0	0	43	0.99
1215443--1215551	42	2.7	40	76	16	109	55	0	0	44	0.99
1215492--1215588	27	3.4	27	71	20	90	56	0	0	43	0.99
1215424--1215589	75	2.3	71	77	12	176	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1221000--1221050	17	2.9	17	75	16	59	56	5	17	19	1.61
1221389--1221436	23	2.1	22	81	14	53	37	2	0	60	1.09
1221941--1221988	17	2.8	17	81	15	55	33	0	0	66	0.92
1221940--1221985	16	2.8	17	80	9	51	32	0	0	67	0.91
1222252--1222285	2	17.0	2	100	0	68	50	0	0	50	1.00
1223153--1223186	17	1.9	18	88	5	52	5	14	0	79	0.91
1224866--1224891	13	2.0	13	100	0	52	38	15	15	30	1.88
1227107--1227151	21	2.1	21	84	8	56	53	4	20	22	1.63
1228955--1228985	15	2.1	15	93	0	53	48	16	22	12	1.80
1231064--1231102	13	3.0	13	88	0	60	30	17	12	38	1.88
1231222--1231267	21	2.2	20	81	11	58	32	19	4	43	1.71
1233656--1233681	13	2.0	13	100	0	52	38	15	15	30	1.88
1235898--1235942	21	2.1	21	84	8	56	53	4	20	22	1.63
1238318--1238531	33	6.0	33	69	20	94	35	14	16	34	1.89
1238412--1238462	20	2.6	19	85	11	68	35	15	15	33	1.90
1240838--1240881	21	2.0	21	86	4	61	61	0	11	27	1.30
1240887--1240911	10	2.5	10	100	0	50	28	0	20	52	1.47
1241001--1241059	13	5.0	13	69	23	58	40	13	15	30	1.86
1241014--1241078	20	3.6	20	73	26	81	41	12	15	30	1.84
1241000--1241078	33	2.4	33	100	0	158	40	12	15	31	1.84
1247247--1247298	20	2.7	20	82	5	63	38	17	13	30	1.88
1247911--1247951	18	2.2	18	86	4	55	26	0	0	73	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1247964--1248021	18	3.4	18	76	23	63	41	0	0	58	0.98
1247971--1248014	17	2.3	19	77	22	56	38	0	0	61	0.96
1248136--1248182	2	23.5	2	100	0	94	48	0	0	51	1.00
1249609--1249683	14	5.2	14	73	10	62	65	1	0	33	1.01
1251213--1251247	16	2.1	17	89	5	54	74	0	5	20	1.02
1253007--1253091	44	1.9	44	83	9	111	44	11	12	30	1.79
1254839--1254874	18	1.9	18	88	5	54	80	0	2	16	0.83
1254923--1255533	216	3.0	205	79	8	563	45	6	7	39	1.58
1255333--1255358	13	2.0	13	100	0	52	61	0	0	38	0.96
1255148--1255533	200	2.0	197	84	6	496	46	6	8	39	1.59

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