genome.fa.s78.2.7.7.80.10.50.1000.7.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: Scaffold78
Parameters: 2 7 7 80 10 50 1000
Length:  2238306

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

This is table  7  of  15  ( 1751 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)
992239--992326	27	3.1	28	76	14	65	40	1	0	57	1.06
992212--992301	42	2.0	47	83	12	118	43	0	0	56	0.99
992272--992343	35	2.3	29	81	15	81	43	1	0	55	1.08
992489--992519	14	2.2	14	100	0	62	48	0	0	51	1.00
992568--992595	2	14.0	2	100	0	56	50	0	0	50	1.00
992862--992909	26	2.0	24	88	12	71	41	2	2	54	1.24
993708--993770	28	2.2	28	88	5	92	17	6	17	58	1.58
993767--993812	24	1.9	24	86	0	65	23	6	26	43	1.78
996339--996384	21	2.1	22	84	4	58	30	17	30	21	1.96
998319--998383	24	2.7	24	78	4	69	30	4	21	43	1.73
1000079--1000108	2	15.0	2	100	0	60	0	50	0	50	1.00
1001555--1001591	14	2.7	14	84	15	51	54	0	2	43	1.14
1001583--1001663	27	2.9	27	72	7	65	58	2	1	38	1.20
1003595--1003649	16	3.4	17	75	25	64	41	0	1	56	1.10
1006331--1006362	15	2.1	15	94	0	55	53	0	0	46	1.00
1009672--1009754	34	2.4	34	100	0	166	42	38	0	19	1.51
1014419--1014535	34	3.4	34	95	0	207	41	36	0	21	1.59
1014427--1014528	25	4.4	25	63	28	62	40	37	0	21	1.60
1014702--1014734	15	2.4	14	85	14	50	0	12	0	87	0.53
1017279--1017321	10	4.7	9	80	13	52	41	0	0	58	0.98
1019314--1019354	2	20.5	2	100	0	82	48	0	0	51	1.00
1019433--1019478	20	2.6	18	76	16	51	60	2	4	32	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1021114--1021151	2	19.0	2	100	0	76	50	0	0	50	1.00
1021393--1021422	11	2.8	11	95	5	53	26	0	0	73	0.84
1021783--1021839	27	2.1	27	84	12	73	45	1	1	50	1.22
1021928--1021958	16	1.9	16	100	0	62	70	0	0	29	0.87
1022051--1022134	43	2.0	42	83	6	107	53	0	1	45	1.08
1022057--1022130	25	2.9	25	76	9	71	52	0	1	45	1.09
1022642--1022701	19	3.2	18	70	11	57	48	0	0	51	1.00
1022606--1022701	39	2.6	37	82	14	117	46	1	0	52	1.07
1023472--1023510	12	3.2	12	85	3	51	41	0	2	56	1.13
1023472--1023554	24	3.3	24	70	13	60	39	2	2	55	1.26
1023524--1023588	19	3.2	19	80	10	76	32	1	0	66	1.01
1023548--1023603	27	2.1	27	83	6	69	35	1	0	62	1.06
1023596--1023639	18	2.4	18	81	11	54	45	2	0	52	1.13
1028572--1028671	48	2.1	48	100	0	200	32	17	19	32	1.94
1029651--1029702	16	3.4	16	78	10	72	46	5	1	46	1.38
1029648--1029705	30	1.9	30	100	0	116	48	6	3	41	1.47
1029751--1029792	16	2.6	16	84	0	57	47	4	4	42	1.45
1030089--1030137	25	2.0	25	84	4	64	59	0	0	40	0.98
1035350--1035376	2	13.5	2	100	0	54	48	0	0	51	1.00
1037554--1037592	2	19.5	2	100	0	78	48	0	0	51	1.00
1039324--1039350	6	4.5	6	100	0	54	37	0	0	62	0.95
1039893--1039946	15	3.4	16	76	14	58	57	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1040756--1040780	11	2.3	11	100	0	50	64	8	28	0	1.22
1041031--1042227	600	2.0	600	98	0	2295	24	24	18	32	1.97
1047215--1047263	23	2.2	23	82	7	57	36	10	0	53	1.35
1047514--1047548	2	17.5	2	93	0	61	0	51	2	45	1.16
1048015--1048057	21	2.2	19	83	8	50	13	9	9	67	1.42
1051049--1051099	17	3.1	16	82	5	57	31	1	3	62	1.24
1051425--1051466	12	3.4	12	83	3	57	30	9	0	59	1.29
1051581--1051609	13	2.3	13	94	5	51	51	3	6	37	1.46
1053068--1053111	20	2.2	20	88	8	63	61	0	2	36	1.09
1054225--1054257	2	16.5	2	100	0	66	51	0	0	48	1.00
1059205--1059230	2	13.0	2	100	0	52	50	0	0	50	1.00
1072733--1072768	13	2.8	14	88	12	51	66	0	0	33	0.92
1072736--1072779	18	2.5	17	77	3	52	63	2	0	34	1.07
1072722--1072791	17	4.1	17	71	20	56	61	1	1	35	1.14
1072983--1073026	16	2.9	15	83	6	61	56	0	0	43	0.99
1073228--1073286	25	2.5	23	81	10	82	50	1	1	45	1.21
1073693--1073740	24	2.0	24	88	8	71	25	0	2	72	0.95
1073691--1073744	19	2.8	19	84	15	60	25	0	1	72	0.95
1073737--1073789	23	2.3	23	86	0	70	33	1	11	52	1.48
1073748--1073795	23	2.1	23	92	0	78	29	0	16	54	1.43
1074115--1074199	25	3.4	25	76	14	77	48	0	0	51	1.00
1074920--1075022	16	5.8	17	65	22	52	42	0	0	57	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1074906--1074965	26	2.4	25	76	15	61	45	1	0	53	1.10
1074941--1075022	33	2.5	33	83	11	91	42	0	0	57	0.98
1080567--1080605	2	19.5	2	100	0	78	51	0	0	48	1.00
1081672--1081745	18	4.1	18	75	13	71	58	0	0	41	0.98
1081676--1081726	19	3.1	17	78	18	54	58	0	0	41	0.98
1081678--1081747	19	3.9	17	68	18	52	60	0	0	40	0.97
1081890--1081939	24	2.1	24	88	7	75	62	2	0	36	1.07
1081929--1082038	30	3.3	34	80	14	113	57	0	0	42	0.98
1081935--1082002	8	8.9	8	76	12	63	51	0	0	48	1.00
1081932--1082028	15	5.9	15	74	16	59	53	0	0	46	1.00
1081976--1082037	15	4.1	15	87	0	79	58	0	0	41	0.98
1082499--1082557	25	2.5	23	76	10	64	49	3	1	45	1.28
1082831--1082868	20	1.9	20	88	0	58	44	0	0	55	0.99
1082886--1082927	21	2.0	22	86	13	61	59	2	0	38	1.10
1083082--1083159	17	4.9	17	72	20	78	61	0	0	38	0.96
1083087--1083167	15	5.6	14	68	27	53	59	0	0	40	0.98
1083083--1083176	43	2.2	43	81	11	113	61	0	0	38	0.96
1083083--1083176	20	4.4	21	73	20	70	61	0	0	38	0.96
1083082--1083163	33	2.6	31	84	5	103	62	0	0	37	0.96
1083578--1083664	30	2.8	31	76	22	92	60	0	0	39	0.97
1083580--1083659	6	13.5	6	70	20	53	61	0	0	38	0.96
1083611--1083664	28	2.0	26	89	7	81	64	0	0	35	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1083819--1083873	16	3.6	15	79	13	67	41	0	0	58	0.98
1083833--1083918	18	4.4	20	70	20	67	43	0	0	56	0.99
1083819--1083907	36	2.5	34	80	7	106	42	0	0	57	0.98
1083810--1083918	15	7.2	16	71	16	74	42	0	0	57	0.98
1083809--1083924	20	6.2	19	70	16	73	42	0	0	56	1.05
1083884--1083933	21	2.4	20	80	6	55	46	2	0	52	1.12
1087935--1087965	2	15.5	2	100	0	62	48	0	0	51	1.00
1089854--1089889	18	2.0	18	100	0	72	44	0	0	55	0.99
1090395--1090439	19	2.4	19	88	3	65	68	0	2	28	1.01
1093477--1093506	15	2.0	15	100	0	60	20	13	6	60	1.55
1102840--1102866	13	2.1	13	100	0	54	37	14	0	48	1.45
1103125--1103154	2	15.0	2	92	0	51	50	3	0	46	1.18
1104007--1104041	12	2.9	12	91	0	52	65	11	22	0	1.24
1104580--1104613	3	11.3	3	87	0	50	61	0	35	2	1.11
1106590--1106640	12	4.3	12	75	12	52	31	3	1	62	1.24
1107974--1108016	23	2.0	22	86	13	63	58	16	2	23	1.50
1114012--1115754	436	4.0	436	98	0	3396	29	21	17	31	1.96
1115954--1116017	32	2.0	32	100	0	128	34	25	15	25	1.95
1120592--1120637	18	2.6	18	89	0	74	2	39	2	56	1.24
1122288--1122318	16	1.9	16	93	0	53	29	0	3	67	1.06
1122303--1122363	20	3.2	20	75	13	65	40	0	1	57	1.08
1129004--1129028	10	2.5	10	100	0	50	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1129023--1129076	26	2.0	27	82	10	67	46	0	0	53	1.00
1130852--1130923	21	3.8	20	70	17	57	51	0	1	47	1.09
1130847--1130923	29	2.8	26	78	14	84	50	0	1	48	1.09
1130848--1130914	35	1.9	35	84	6	91	47	0	1	50	1.10
1130887--1130911	3	8.3	3	100	0	50	64	0	0	36	0.94
1131276--1131345	29	2.4	29	86	6	90	62	1	1	34	1.13
1131724--1131784	30	2.0	30	90	0	95	55	3	4	36	1.38
1131726--1131816	31	3.0	31	82	4	87	57	3	4	35	1.35
1131783--1131878	29	3.4	28	81	12	92	57	3	4	35	1.34
1131805--1131872	26	2.4	27	83	9	75	57	4	4	33	1.39

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