genome.fa.s263.2.7.7.80.10.50.1000.8.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: Scaffold263
Parameters: 2 7 7 80 10 50 1000
Length:  1338270

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

This is table  8  of  10  ( 1134 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)
1021917--1021975	31	1.9	30	90	10	93	50	0	0	49	1.00
1021915--1021981	30	2.2	30	84	10	93	49	0	0	50	1.00
1022169--1022227	25	2.4	24	83	8	66	50	0	3	45	1.18
1022206--1022277	32	2.2	33	85	5	101	50	2	1	45	1.25
1022238--1022293	21	2.8	20	74	17	53	53	0	5	41	1.24
1022516--1022552	16	2.4	15	91	8	65	59	8	0	32	1.27
1025293--1025343	23	2.2	24	82	10	61	43	1	5	49	1.38
1025659--1025701	19	2.3	19	88	11	63	37	0	0	62	0.95
1025703--1025737	18	1.9	18	88	0	52	54	5	0	40	1.24
1026451--1026537	27	3.2	26	73	12	77	21	50	9	18	1.74
1026683--1026718	6	6.0	6	100	0	72	16	50	33	0	1.46
1027589--1027714	11	12.0	11	70	18	63	59	0	1	38	1.13
1027588--1027635	10	4.8	10	82	14	55	68	0	0	31	0.90
1027589--1027719	27	4.8	28	75	14	94	59	0	1	38	1.12
1028346--1028379	16	2.1	17	88	5	52	41	2	5	50	1.42
1028857--1028895	9	4.3	9	83	0	51	25	58	2	12	1.47
1028847--1028909	27	2.3	27	83	0	72	22	52	6	19	1.68
1030502--1030559	27	2.1	28	84	9	75	60	0	0	39	0.97
1030514--1030578	27	2.3	27	82	15	71	60	0	0	40	0.97
1031314--1031376	16	3.7	18	66	21	55	42	1	0	55	1.09
1031274--1031406	56	2.3	58	73	7	130	40	2	1	55	1.21
1031418--1031450	11	2.8	12	86	9	50	39	3	0	57	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1031854--1031884	15	2.1	15	93	0	53	41	0	0	58	0.98
1032066--1032132	31	2.2	31	100	0	134	41	8	8	40	1.68
1033120--1033174	16	3.4	17	71	16	53	56	1	1	40	1.21
1034011--1034059	22	2.3	22	79	10	57	51	0	0	48	1.00
1034151--1034176	13	2.0	13	100	0	52	0	7	15	76	0.99
1034454--1034497	23	2.0	21	82	8	52	59	0	0	40	0.98
1048929--1048955	13	2.1	13	100	0	54	48	7	7	37	1.59
1056624--1056655	16	1.9	17	93	6	57	37	0	0	62	0.95
1056722--1056772	25	2.0	26	85	11	70	29	0	0	70	0.87
1056722--1056772	14	4.0	13	80	16	54	29	0	0	70	0.87
1056626--1056810	94	2.0	93	91	3	300	42	2	1	53	1.25
1056880--1056918	17	2.3	17	86	0	60	33	0	0	66	0.92
1061923--1061953	2	15.5	2	100	0	62	0	48	0	51	1.00
1061953--1061978	2	13.0	2	100	0	52	50	0	0	50	1.00
1062602--1063119	176	2.9	176	84	2	646	25	12	19	42	1.87
1067927--1067960	15	2.3	15	100	0	68	26	26	20	26	1.99
1068871--1068908	19	2.1	18	90	5	58	55	0	2	42	1.14
1068857--1068908	9	5.7	9	80	10	52	57	0	3	38	1.17
1069089--1069130	16	2.5	17	88	7	59	33	0	0	66	0.92
1069094--1069152	27	2.1	28	84	9	77	33	0	0	66	0.92
1069105--1069230	23	5.2	23	72	17	87	32	0	2	65	1.06
1069088--1069202	18	6.7	18	71	18	59	33	0	0	66	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1075727--1075757	2	15.5	2	100	0	62	0	0	48	51	1.00
1077137--1077180	19	2.3	19	96	0	79	45	4	11	38	1.61
1077411--1077452	14	3.1	14	79	3	50	33	0	0	66	0.92
1080056--1080080	2	12.5	2	100	0	50	0	52	0	48	1.00
1084371--1084438	23	3.1	22	82	12	86	44	0	1	54	1.09
1084736--1084788	13	3.8	13	77	7	52	52	0	0	47	1.00
1085432--1085468	14	2.6	14	91	0	56	45	0	0	54	1.00
1085421--1085465	13	3.4	13	81	6	54	48	2	2	46	1.26
1086164--1086196	3	11.0	3	100	0	66	66	0	0	33	0.92
1086197--1086225	3	9.7	3	100	0	58	34	0	0	65	0.93
1087496--1087531	6	6.0	6	93	0	54	33	22	33	11	1.89
1089151--1089180	7	4.1	7	91	8	51	60	0	0	40	0.97
1089151--1089180	15	2.1	15	93	6	53	60	0	0	40	0.97
1089272--1089298	2	13.5	2	100	0	54	51	0	48	0	1.00
1089618--1089672	25	2.2	25	84	9	76	49	0	0	50	1.00
1089857--1089886	14	2.1	14	100	0	60	50	6	0	43	1.28
1090374--1090403	2	15.0	2	92	0	51	53	0	0	46	1.00
1090648--1090705	30	1.9	30	85	0	80	44	0	1	53	1.10
1091196--1091237	22	1.9	22	90	9	68	38	0	0	61	0.96
1092361--1092432	30	2.4	30	81	4	92	45	0	19	34	1.51
1093642--1093701	13	4.2	14	75	24	63	36	0	1	61	1.06
1093649--1093692	17	2.5	17	85	7	52	34	0	2	63	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1093902--1093934	16	2.1	17	88	11	52	51	12	0	36	1.39
1094558--1094651	42	2.2	41	80	15	104	48	2	2	46	1.25
1097168--1097194	13	2.1	13	100	0	54	14	0	0	85	0.61
1097366--1097418	27	2.0	27	81	7	63	49	0	0	50	1.00
1098054--1098109	16	3.5	15	75	17	51	39	0	1	58	1.08
1098055--1098138	32	2.5	35	88	11	129	40	0	1	58	1.06
1098067--1098121	16	3.4	16	79	20	69	41	0	0	58	0.98
1098468--1098563	9	10.1	9	67	14	50	45	1	1	52	1.14
1098504--1098562	5	12.0	5	71	10	50	45	0	0	54	0.99
1098488--1098529	14	2.9	15	75	7	50	38	0	0	61	0.96
1098466--1098563	20	5.1	20	75	11	80	46	1	1	51	1.14
1098773--1098874	43	2.3	47	83	14	135	41	0	0	58	0.98
1098827--1098891	16	3.8	18	67	22	50	46	0	0	53	1.00
1098836--1098892	19	3.3	17	79	13	55	45	0	0	54	0.99
1098892--1098946	21	2.6	21	82	8	58	30	1	0	67	1.01
1099167--1099206	20	2.0	21	85	5	55	37	0	0	62	0.95
1099939--1099980	20	2.1	20	86	8	59	47	0	2	50	1.14
1100039--1100102	10	6.0	11	73	25	57	29	1	3	65	1.17
1100025--1100090	27	2.4	28	79	18	77	28	3	3	65	1.23
1101087--1101151	28	2.4	27	87	10	89	47	23	7	21	1.76
1103034--1103079	21	2.1	22	84	4	58	19	30	19	30	1.97
1105532--1105577	20	2.3	20	84	0	56	36	4	47	10	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1105659--1105724	27	2.4	27	90	7	98	46	22	7	22	1.77
1107039--1107087	24	2.0	25	84	8	64	51	0	0	48	1.00
1108020--1108114	2	46.5	2	83	4	73	45	11	2	41	1.52
1108032--1108096	25	2.6	25	92	0	103	43	16	3	36	1.64
1109186--1109248	24	2.5	23	75	22	56	58	3	0	38	1.14
1109274--1109343	29	2.6	27	79	20	83	60	0	1	38	1.06
1110082--1110117	16	2.2	16	90	5	54	41	0	0	58	0.98
1110603--1110631	13	2.1	14	93	6	51	41	0	0	58	0.98
1110646--1110687	15	2.7	15	88	3	57	52	4	4	38	1.44
1110852--1110894	2	21.5	2	100	0	86	51	0	0	48	1.00
1112432--1112477	22	2.1	22	92	8	76	39	0	0	60	0.97
1115210--1115235	3	8.7	3	100	0	52	34	0	0	65	0.93
1117013--1117067	26	2.1	26	83	10	67	54	0	0	45	0.99
1118110--1118150	2	21.0	2	95	5	75	48	0	0	51	1.00
1119223--1119256	3	11.7	3	93	6	61	35	0	0	64	0.94
1119646--1119681	2	18.5	2	94	5	65	47	0	0	52	1.00
1120196--1120223	14	2.0	14	100	0	56	64	0	0	35	0.94
1121331--1121428	40	2.5	39	80	8	99	33	4	6	56	1.43
1122397--1122424	3	9.3	3	100	0	56	67	0	0	32	0.91
1122733--1123147	151	2.8	150	83	4	543	32	14	11	41	1.81
1123656--1123719	2	32.0	2	82	0	74	48	4	3	43	1.39
1123649--1123699	26	2.0	26	92	0	84	50	7	1	39	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1123647--1123719	30	2.4	30	90	0	119	49	6	2	41	1.44
1124507--1124551	20	2.2	20	80	0	54	48	0	0	51	1.00
1124581--1124630	17	2.8	19	85	11	63	56	0	0	44	0.99
1125394--1125428	2	17.5	2	93	0	61	48	2	0	48	1.16
1126560--1126618	6	9.7	6	75	23	52	64	0	0	35	0.94
1126560--1126597	13	2.9	13	84	11	51	65	0	0	34	0.93
1126561--1126635	24	3.3	24	75	20	72	60	1	0	38	1.06
1126816--1126877	28	2.3	27	80	2	79	74	1	1	22	1.00
1127019--1127043	12	2.1	12	100	0	50	84	0	0	16	0.63
1128711--1128757	22	2.1	22	84	7	60	23	8	21	46	1.78

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