genome.fa.s88.2.7.7.80.10.50.1000.7.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: Scaffold88
Parameters: 2 7 7 80 10 50 1000
Length:  1260485

Tables:   1   2   3   4   5   6   7   8   

This is table  7  of  8  ( 920 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)
891772--891816	23	2.0	23	81	0	54	51	0	0	48	1.00
900833--900890	30	2.0	28	83	6	71	50	0	0	50	1.00
901849--901887	21	1.9	20	84	5	51	56	7	0	35	1.28
904095--904139	21	2.1	22	84	12	58	51	0	0	48	1.00
906885--906913	4	7.5	4	92	7	51	51	0	0	48	1.00
907870--907960	38	2.4	38	80	10	109	47	0	0	52	1.00
907932--907984	20	2.6	19	78	21	54	60	0	0	39	0.97
907945--907989	20	2.3	20	82	17	60	57	0	0	42	0.98
907945--907992	18	2.5	21	80	12	59	58	0	0	41	0.98
908027--908053	5	5.4	5	100	0	54	55	0	0	44	0.99
909459--909524	2	34.0	2	90	6	109	46	0	1	51	1.10
909948--909978	2	15.5	2	100	0	62	51	0	0	48	1.00
910062--910131	27	2.7	26	75	16	74	30	5	15	48	1.68
912647--912687	21	2.0	21	90	0	64	31	19	26	21	1.97
914720--914764	13	3.5	13	87	0	63	13	35	4	46	1.63
916666--916705	15	2.7	15	92	0	62	85	2	0	12	0.71
916666--916723	6	9.3	6	80	19	50	81	3	1	13	0.91
916666--916723	7	8.1	7	77	9	55	81	3	1	13	0.91
917452--917482	16	1.9	16	93	0	53	38	0	0	61	0.96
924297--924349	22	2.4	22	75	9	63	66	0	0	33	0.92
924306--924346	11	3.7	11	90	9	66	70	0	0	29	0.87
924332--924419	36	2.5	34	81	7	104	51	0	1	47	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
928410--928523	57	2.0	57	98	0	219	36	20	14	28	1.91
929096--929148	22	2.4	22	87	9	72	54	0	0	45	0.99
929395--929427	2	16.5	2	100	0	66	48	0	0	51	1.00
929837--929861	6	4.2	6	100	0	50	32	0	0	68	0.90
932094--932123	14	2.1	15	93	6	53	46	0	6	46	1.29
933784--933810	2	13.5	2	100	0	54	51	0	0	48	1.00
934715--934762	3	16.0	3	100	0	96	66	0	0	33	0.92
937286--937345	22	2.7	22	84	7	68	61	0	0	38	0.96
937286--937360	29	2.7	26	76	15	71	64	0	0	36	0.94
937295--937346	26	2.0	27	85	11	72	59	0	0	40	0.97
938591--938623	2	17.0	2	93	6	59	51	0	0	48	1.00
944423--944471	11	4.5	11	75	14	57	32	2	0	65	1.04
944589--944619	2	15.5	2	100	0	62	51	0	0	48	1.00
945038--945077	17	2.4	17	87	8	55	55	0	0	45	0.99
945483--945519	19	1.9	20	94	5	67	48	2	0	48	1.15
945515--945555	16	2.5	18	81	18	54	56	0	0	43	0.99
945809--945836	14	2.0	14	100	0	56	64	0	0	35	0.94
945826--945880	17	3.3	17	82	7	60	69	3	0	27	1.05
946128--946162	2	17.5	2	100	0	70	51	0	0	48	1.00
950070--950112	2	21.5	2	100	0	86	48	0	51	0	1.00
953383--953451	17	4.0	17	72	26	56	55	0	0	44	0.99
953488--953518	14	2.1	15	94	5	55	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
953566--953656	5	18.4	5	68	20	50	51	2	2	43	1.26
953567--953658	13	6.6	13	72	21	71	50	2	2	45	1.26
953566--953658	9	10.0	9	73	19	75	50	2	2	45	1.25
954872--954908	3	12.3	3	100	0	74	32	0	0	67	0.91
956369--956395	2	13.5	2	100	0	54	0	0	48	51	1.00
957688--957719	12	2.7	12	90	0	55	0	40	3	56	1.15
961321--961347	2	13.5	2	100	0	54	0	48	0	51	1.00
962377--962401	2	12.5	2	100	0	50	52	0	0	48	1.00
962893--962931	15	2.5	15	87	4	51	43	0	0	56	0.99
964811--964848	19	2.0	20	89	5	60	36	0	0	63	0.95
965915--965963	21	2.3	21	75	0	53	28	30	22	18	1.97
967237--967273	19	2.0	18	89	5	56	40	0	0	59	0.97
974799--974829	1	31.0	1	93	0	53	0	3	0	96	0.21
978173--978207	2	17.5	2	93	0	61	45	0	2	51	1.16
980430--980531	30	3.3	30	71	13	91	45	0	0	53	1.06
981048--981109	23	2.7	24	80	11	76	53	1	0	45	1.10
983054--983118	21	3.0	20	73	18	60	46	3	0	50	1.17
983667--983693	3	9.0	3	100	0	54	33	0	0	66	0.92
983940--983968	3	9.7	3	100	0	58	31	0	0	68	0.89
985385--985441	21	2.8	20	81	7	69	47	0	0	52	1.00
985439--985466	14	2.0	14	100	0	56	71	0	7	21	1.09
986807--987076	85	3.2	85	93	2	431	39	26	25	8	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
986807--987089	42	6.7	43	91	2	416	39	27	25	7	1.83
986798--987089	127	2.3	125	90	2	467	40	27	24	7	1.83
988438--988465	2	14.0	2	100	0	56	50	0	50	0	1.00
991020--991066	25	2.0	23	87	8	67	44	0	0	55	0.99
991332--991375	22	2.0	22	91	4	72	36	6	0	56	1.26
992206--992247	16	2.7	16	88	3	59	47	0	0	52	1.00
992210--992247	2	19.5	2	83	5	51	47	0	0	52	1.00
992722--992774	24	2.2	24	83	6	72	54	1	0	43	1.11
992719--992775	23	2.3	26	76	14	75	54	1	0	43	1.10
995667--995704	18	2.1	18	95	0	67	50	26	5	18	1.68
995951--996015	28	2.3	28	84	5	78	56	12	1	29	1.45
996672--996744	29	2.6	28	76	12	78	52	5	8	34	1.55
998415--998458	22	2.0	21	87	12	63	59	0	0	40	0.98
999120--999154	2	17.5	2	93	0	61	45	0	2	51	1.16
1009641--1009675	2	17.5	2	100	0	70	48	0	51	0	1.00
1009940--1009980	21	1.9	22	85	5	57	43	0	0	56	0.99
1011833--1011867	3	11.7	3	100	0	70	68	0	0	31	0.90
1013510--1013541	17	1.9	17	93	6	57	9	0	3	87	0.64
1013697--1013744	13	3.3	15	80	19	66	37	0	6	56	1.25
1013698--1013742	14	3.3	14	76	17	58	37	0	6	55	1.26
1015511--1015585	38	2.0	37	89	2	114	21	16	34	28	1.94
1017423--1017459	16	2.2	17	86	13	51	59	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1017515--1017571	29	1.9	30	85	3	80	45	8	1	43	1.45
1018465--1018521	28	2.0	29	86	3	80	52	0	1	45	1.11
1018800--1018845	15	2.9	15	78	12	56	60	0	0	39	0.97
1018802--1018844	17	2.7	16	82	10	52	62	0	0	37	0.95
1018834--1018885	27	1.9	27	84	7	70	38	0	1	59	1.08
1030495--1030519	2	12.5	2	100	0	50	52	0	48	0	1.00
1031144--1031185	22	2.0	21	85	4	57	45	2	0	52	1.13
1031229--1031267	20	1.9	21	94	5	71	58	0	0	41	0.98
1031151--1031261	15	7.1	15	71	19	68	54	2	0	43	1.14
1034333--1034383	2	25.5	2	100	0	102	50	0	0	49	1.00
1034824--1034856	3	11.0	3	93	0	57	66	3	0	30	1.06
1040274--1040304	2	15.5	2	100	0	62	48	0	51	0	1.00
1053425--1053480	21	2.7	21	82	17	73	55	0	1	42	1.10
1054374--1054408	11	3.3	11	92	4	54	40	0	5	54	1.24
1054426--1054464	13	3.2	12	89	7	53	53	0	2	43	1.14
1055940--1055987	21	2.4	18	83	16	60	45	0	0	54	0.99
1056484--1056514	2	15.5	2	100	0	62	48	0	0	51	1.00
1057408--1057434	2	13.5	2	100	0	54	48	0	0	51	1.00
1058732--1058763	2	16.0	2	100	0	64	50	0	0	50	1.00
1061960--1061989	14	2.1	14	93	0	51	13	16	0	70	1.18
1071275--1071310	3	12.0	3	100	0	72	33	0	0	66	0.92
1072388--1072425	2	19.0	2	100	0	76	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1072617--1072654	16	2.4	16	90	0	58	34	0	13	52	1.40
1072842--1072870	2	14.5	2	100	0	58	0	0	48	51	1.00
1072873--1072919	24	2.0	24	88	12	71	53	2	27	17	1.55
1072999--1073036	12	3.2	12	78	14	51	47	0	2	50	1.15
1072998--1073038	11	3.5	11	81	12	55	48	0	2	48	1.14
1073089--1073132	2	22.0	2	80	0	52	50	0	6	43	1.29
1073090--1073132	12	3.6	12	87	0	59	51	0	6	41	1.29
1076532--1076563	13	2.4	14	89	10	57	87	6	6	0	0.67
1078380--1078415	2	18.0	2	100	0	72	50	0	0	50	1.00
1091713--1091764	2	26.0	2	82	0	59	44	0	1	53	1.11

Tables:   1   2   3   4   5   6   7   8