genome.fa.s11.2.7.7.80.10.50.1000.8.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: Scaffold11
Parameters: 2 7 7 80 10 50 1000
Length:  5230303

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   26   27   28   29   

This is table  8  of  29  ( 3461 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)
1077777--1077892	43	2.7	42	79	10	119	43	13	23	18	1.86
1077864--1078089	42	5.4	41	79	6	193	39	13	25	22	1.90
1077887--1078089	83	2.4	85	79	4	241	41	12	24	21	1.87
1078074--1078798	62	11.9	62	82	6	797	30	18	25	24	1.98
1078072--1078798	185	4.0	185	82	7	833	30	18	25	24	1.98
1078074--1078798	123	6.0	124	82	8	787	30	18	25	24	1.98
1078487--1078692	112	1.8	111	88	1	313	30	17	25	26	1.97
1078423--1078757	174	1.9	173	87	3	485	30	17	26	25	1.97
1078746--1078897	82	1.9	82	85	2	216	32	19	21	26	1.97
1078671--1078931	144	1.8	144	84	3	364	31	19	22	26	1.98
1078815--1078976	62	2.6	62	90	2	247	32	19	23	24	1.97
1079235--1079281	9	4.7	10	77	17	53	78	0	0	21	0.75
1079238--1079279	7	5.7	7	81	18	50	80	0	0	19	0.70
1079235--1079296	13	4.4	14	82	15	58	75	1	0	22	0.88
1079237--1079313	22	3.5	22	69	24	54	72	2	0	24	0.97
1082726--1082880	62	2.5	61	82	3	186	36	19	20	23	1.95
1082726--1082939	62	3.5	61	79	6	177	35	18	21	25	1.96
1083017--1083096	32	2.5	32	83	0	97	40	13	21	25	1.90
1084295--1084333	20	2.0	20	84	0	51	7	7	5	79	1.05
1085783--1085826	21	2.1	21	86	0	61	40	2	15	40	1.60
1087320--1087369	24	2.1	24	85	7	66	30	4	6	60	1.39
1095797--1095846	24	2.1	24	85	7	66	30	4	6	60	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1099989--1100015	12	2.2	12	100	0	54	33	14	18	33	1.92
1099970--1100134	32	5.2	32	74	10	124	34	15	14	35	1.88
1100084--1100143	13	4.2	13	75	24	59	31	15	15	38	1.88
1100065--1100127	19	3.6	19	72	24	66	38	17	11	33	1.85
1100052--1100138	32	2.7	32	94	0	147	35	16	13	34	1.88
1101109--1101133	13	1.9	13	100	0	50	32	16	16	36	1.90
1101121--1101173	20	2.6	21	84	3	72	39	15	16	28	1.89
1107604--1107684	29	2.8	29	85	11	103	53	0	0	46	1.00
1107604--1107682	30	2.6	31	86	9	103	53	0	0	46	1.00
1110368--1110421	13	4.1	14	75	13	53	46	0	0	53	1.00
1110373--1110429	13	4.4	12	77	14	51	43	1	0	54	1.10
1110386--1110459	28	2.7	27	80	15	89	47	1	1	50	1.18
1110682--1110910	116	2.0	115	92	2	379	24	25	27	22	2.00
1111218--1111258	15	2.6	16	81	14	50	46	0	0	53	1.00
1111793--1111897	37	2.8	37	92	4	165	41	0	1	55	1.17
1112812--1112908	28	3.4	29	71	19	78	27	6	9	56	1.54
1113264--1113322	27	2.1	28	81	9	68	40	3	1	54	1.27
1113517--1113552	19	1.9	19	88	5	56	19	5	8	66	1.38
1113828--1113871	23	1.9	23	85	0	61	18	4	11	65	1.40
1114094--1114165	32	2.2	32	83	9	85	45	4	1	48	1.30
1114272--1114380	13	7.4	15	71	21	63	43	0	0	55	1.05
1114277--1114351	27	2.7	27	72	24	66	41	0	1	57	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1116548--1116578	3	10.3	3	92	0	53	32	3	0	64	1.09
1117063--1117096	13	2.4	14	90	9	52	55	0	0	44	0.99
1119670--1119710	17	2.4	18	88	12	68	63	0	0	36	0.95
1120819--1120859	18	2.3	18	86	0	55	36	7	0	56	1.27
1121201--1121227	2	13.5	2	100	0	54	48	0	0	51	1.00
1122889--1122928	13	3.0	13	88	3	53	50	0	0	50	1.00
1123387--1123444	25	2.2	25	84	6	71	48	0	0	51	1.00
1123391--1123451	26	2.4	25	71	13	61	50	0	0	49	1.00
1123474--1123533	17	3.4	17	77	22	61	58	0	0	41	0.98
1123474--1123515	20	2.0	22	90	9	70	59	0	0	40	0.97
1123495--1123533	15	2.4	17	83	8	55	56	0	0	43	0.99
1125853--1125931	42	1.9	40	87	5	113	58	7	18	15	1.60
1126505--1126539	2	17.5	2	100	0	70	48	0	0	51	1.00
1131135--1131176	22	1.9	22	90	0	66	61	2	0	35	1.09
1131161--1131191	15	2.1	15	94	5	55	61	0	0	38	0.96
1131978--1132020	21	2.1	20	87	12	61	48	0	0	51	1.00
1133091--1133149	28	2.1	28	81	12	68	40	3	1	54	1.27
1133195--1133230	18	1.9	19	88	5	56	19	8	8	63	1.47
1133806--1133855	26	1.9	26	84	8	66	28	8	8	56	1.57
1133804--1133861	26	2.2	26	75	6	64	25	6	6	60	1.48
1135225--1135274	25	1.9	26	84	15	68	48	2	2	48	1.24
1137054--1137110	18	3.2	18	80	9	55	71	1	1	24	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1137080--1137120	17	2.4	17	87	4	55	78	0	4	17	0.93
1137073--1137120	17	2.8	17	80	3	51	75	2	4	18	1.07
1137054--1137230	82	2.2	83	78	9	195	64	2	2	29	1.21
1137152--1137212	16	3.6	17	78	10	54	65	4	1	27	1.22
1137166--1137220	16	3.2	16	84	7	56	69	1	1	27	1.09
1141498--1141537	2	20.0	2	84	0	53	57	0	42	0	0.98
1141498--1141537	12	3.3	12	89	0	62	57	0	42	0	0.98
1141760--1141809	6	8.3	6	80	6	57	64	0	0	36	0.94
1141760--1141807	17	2.7	18	78	12	55	64	0	0	35	0.94
1141930--1141988	19	3.1	19	80	7	66	47	0	0	52	1.00
1141930--1142008	29	2.6	30	78	7	81	46	0	0	53	1.00
1143041--1143100	32	1.9	31	82	3	75	23	1	11	63	1.37
1144869--1144905	11	3.2	12	88	7	51	56	0	0	43	0.99
1145250--1145467	34	6.4	34	81	0	247	43	27	5	23	1.76
1145250--1145467	68	3.2	68	88	1	321	43	27	5	23	1.76
1145250--1145467	102	2.1	102	82	1	276	43	27	5	23	1.76
1148564--1148618	19	2.9	19	83	0	74	40	14	14	30	1.86
1148918--1149201	34	8.4	34	81	0	336	43	27	5	23	1.77
1148918--1149202	68	4.2	68	89	0	428	43	27	5	23	1.77
1150801--1150837	3	12.3	3	100	0	74	67	0	0	32	0.91
1151364--1151530	11	15.7	11	70	18	88	40	1	0	57	1.11
1151417--1151476	8	7.4	8	76	10	50	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1151402--1151481	18	4.4	18	75	17	67	48	0	0	51	1.00
1151363--1151524	19	8.0	19	71	17	87	41	1	0	56	1.11
1153037--1153088	20	2.6	20	78	9	70	48	1	0	50	1.12
1153619--1153680	19	3.2	18	76	13	61	43	4	11	40	1.62
1156629--1156705	20	3.8	20	82	0	109	31	12	12	42	1.81
1157602--1157640	20	1.9	21	89	5	62	23	10	10	56	1.63
1168858--1168887	15	2.0	15	93	0	51	63	13	6	16	1.50
1169545--1169586	20	2.2	20	82	4	50	50	11	9	28	1.70
1169841--1169891	21	2.4	21	87	6	68	45	1	1	50	1.24
1169851--1169922	21	3.3	21	78	5	63	51	1	0	47	1.09
1170278--1170320	13	3.2	13	80	3	50	48	2	0	48	1.14
1171647--1171721	20	3.8	20	76	0	78	36	13	10	40	1.79
1171647--1171724	40	2.0	39	84	2	102	35	12	11	39	1.80
1172632--1172688	22	2.5	24	88	11	100	17	10	8	63	1.51
1172641--1172695	22	2.6	21	88	5	58	20	9	9	61	1.52
1179591--1179687	20	4.7	20	78	7	113	30	18	12	38	1.88
1190391--1190460	35	2.0	35	97	0	131	34	21	20	24	1.97
1191344--1191558	98	2.2	96	79	7	245	30	24	8	35	1.86
1196420--1196487	34	1.9	36	91	5	113	23	13	5	57	1.58
1198317--1198489	86	2.0	86	97	0	328	41	19	16	22	1.91
1209601--1209626	13	2.0	13	100	0	52	46	0	38	15	1.46
1210380--1210410	2	15.5	2	93	0	53	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1211466--1211519	2	27.0	2	96	0	99	48	0	1	50	1.11
1212535--1212565	2	15.5	2	100	0	62	48	0	0	51	1.00
1213678--1213728	22	2.3	21	75	15	50	56	7	3	31	1.46
1215712--1215763	26	2.0	25	85	3	68	1	26	0	71	0.97
1215715--1215782	15	4.5	15	73	12	50	1	27	0	70	0.96
1216259--1216288	15	2.0	15	93	0	51	56	13	10	20	1.65
1217473--1217604	65	2.0	65	91	5	214	40	2	3	53	1.29
1217549--1217582	16	2.1	16	89	10	52	29	0	0	70	0.87
1217822--1217875	28	1.9	28	81	7	65	33	0	3	62	1.12
1218269--1218428	9	16.6	10	64	27	53	38	1	1	58	1.17

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   26   27   28   29