genome.fa.s7.2.7.7.80.10.50.1000.6.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: Scaffold7
Parameters: 2 7 7 80 10 50 1000
Length:  6555642

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   30   31   32   
          33   34   35   36   37   

This is table  6  of  37  ( 4421 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)
839228--839351	52	2.4	50	95	2	221	42	7	16	33	1.75
840186--840328	51	2.8	51	88	1	196	44	12	15	27	1.83
840398--840451	20	2.7	20	91	2	81	35	16	9	38	1.81
840487--840529	21	2.1	20	95	4	77	39	16	20	23	1.92
843192--843353	28	5.4	28	77	11	144	29	29	15	25	1.96
843192--843353	29	5.4	29	77	9	128	29	29	15	25	1.96
843193--843338	30	4.8	31	77	9	97	29	28	16	25	1.97
843187--843385	93	2.2	87	84	6	254	30	29	14	25	1.95
843342--843407	30	2.1	31	91	5	107	31	31	12	24	1.92
843198--843487	123	2.4	121	80	9	297	31	27	15	26	1.96
843482--843575	31	3.0	31	85	3	98	24	29	19	26	1.98
843455--843578	32	3.9	31	79	4	113	27	27	18	26	1.98
843807--844343	52	10.4	52	76	5	336	28	22	14	34	1.94
843807--844344	155	3.5	153	78	5	519	28	22	14	34	1.94
844280--844415	52	2.6	52	82	3	157	22	24	18	35	1.96
844299--844419	52	2.3	52	85	2	163	22	23	19	34	1.96
848302--848630	100	3.2	103	78	5	321	29	23	11	36	1.89
848313--848630	103	3.1	98	77	8	298	28	22	11	36	1.90
857031--857162	42	3.1	42	84	2	167	9	43	2	44	1.50
858851--859031	31	5.8	31	83	5	222	24	23	24	28	2.00
859596--859679	13	6.6	12	75	15	71	36	14	16	32	1.89
859560--859685	27	4.8	24	72	16	74	34	15	17	32	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
860977--861018	12	3.2	13	83	12	50	16	2	4	76	1.07
864125--864176	20	2.5	21	90	3	79	26	19	15	38	1.91
867388--868175	58	13.6	58	77	4	635	24	12	18	44	1.83
867774--867816	20	2.2	19	88	12	61	18	11	11	58	1.63
867388--868175	115	6.8	114	79	6	638	24	12	18	44	1.83
868446--868562	58	2.0	58	90	3	182	29	20	23	25	1.99
868612--868678	33	2.0	33	100	0	134	26	8	17	46	1.78
869376--869408	17	1.9	17	100	0	66	48	9	6	36	1.60
877836--877911	12	6.9	11	75	15	52	39	2	48	9	1.49
877835--877920	24	3.8	24	72	17	85	41	2	45	10	1.51
877826--877944	42	2.8	42	91	2	177	42	2	46	9	1.49
886030--886061	9	3.6	9	91	0	55	43	0	43	12	1.42
886039--886110	33	2.2	33	92	0	117	43	0	44	12	1.42
886057--886110	15	3.4	15	73	14	54	42	0	46	11	1.39
886009--886088	42	1.9	42	89	0	124	42	1	42	13	1.52
886060--886112	18	3.1	18	72	22	60	43	0	45	11	1.40
888294--888514	75	2.9	75	93	1	363	17	30	16	35	1.92
894711--894829	42	2.8	42	90	0	184	8	45	2	43	1.47
894735--894820	24	3.8	24	70	17	85	10	44	2	43	1.51
894726--894796	18	3.6	18	69	20	52	9	43	2	43	1.52
901933--902025	24	4.2	22	70	18	68	9	45	2	43	1.49
901916--902034	42	2.8	42	90	0	184	8	45	2	43	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
901949--902024	12	6.9	11	75	15	52	9	48	2	39	1.49
903693--903768	12	6.9	11	77	15	61	39	1	48	10	1.46
903692--903777	24	3.8	24	73	17	85	41	1	45	11	1.48
903713--903773	9	7.1	9	72	10	56	42	1	44	11	1.50
903683--903801	42	2.8	42	90	0	184	42	1	46	9	1.46
903737--903782	12	3.9	12	81	13	51	43	0	43	13	1.43
908947--908985	18	2.2	18	86	4	53	5	17	5	71	1.23
909429--910204	390	2.0	386	93	2	1340	29	26	13	30	1.94
913677--913726	8	5.7	9	75	11	50	72	8	6	14	1.27
915487--915849	79	4.6	77	80	4	368	26	25	13	34	1.93
915487--915845	157	2.3	156	82	3	459	27	25	13	33	1.93
920453--920530	18	4.0	18	72	18	66	43	2	42	11	1.54
920423--920544	42	2.9	42	91	0	190	44	1	44	9	1.47
922321--922396	12	6.9	11	75	15	52	39	2	48	9	1.49
922320--922405	24	3.8	24	72	17	85	41	2	45	10	1.51
922311--922429	42	2.8	42	92	0	193	42	2	46	8	1.47
932120--932180	9	7.1	9	74	10	65	13	44	0	42	1.43
932107--932177	18	3.6	18	72	20	61	12	43	0	43	1.42
932089--932210	42	2.9	42	93	0	199	10	45	0	43	1.44
932125--932201	12	6.9	12	77	19	71	12	46	0	40	1.42
935466--935516	19	2.6	20	79	14	61	37	9	23	29	1.87
935576--935737	72	2.3	72	88	4	233	37	13	23	25	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
940231--940359	42	3.1	41	81	7	138	47	0	39	12	1.47
947224--947327	42	2.5	42	91	0	172	9	45	3	41	1.55
947239--947309	18	3.6	18	69	20	52	9	40	4	45	1.57
947224--947342	42	2.8	42	83	2	150	8	43	3	44	1.51
953660--953731	29	2.5	29	88	0	108	25	27	16	30	1.97
956115--956181	28	2.4	28	73	16	75	14	14	7	62	1.52
962646--962721	12	6.9	11	75	15	52	39	2	48	9	1.49
962645--962730	24	3.8	24	72	17	85	41	2	45	10	1.51
962636--962754	42	2.8	42	92	0	193	42	2	46	8	1.47
975422--975540	42	2.8	42	92	0	193	8	46	2	42	1.47
975455--975530	12	6.9	11	75	15	52	9	48	2	39	1.49
975446--975531	24	3.8	24	72	17	85	10	45	2	41	1.51
975437--975507	18	3.6	18	69	20	52	9	43	2	43	1.52
980804--980879	12	6.9	11	75	15	52	39	2	48	9	1.49
980803--980888	24	3.8	24	72	17	85	41	2	45	10	1.51
980794--980912	42	2.8	42	92	0	193	42	2	46	8	1.47
988087--988196	58	1.9	58	90	0	175	29	20	20	30	1.97
988102--988196	29	3.3	29	68	16	79	26	20	22	31	1.98
988710--988749	19	2.1	19	95	0	71	42	10	35	12	1.76
990352--990470	42	2.8	42	92	0	193	42	1	47	9	1.45
990434--990476	18	2.4	18	80	7	52	41	0	48	9	1.35
1002524--1002564	12	3.7	12	75	18	52	17	46	0	36	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1002489--1002564	21	3.6	21	76	13	75	13	44	1	40	1.51
1004261--1004376	42	2.8	42	90	2	189	44	1	44	8	1.44
1004336--1004384	18	2.8	18	84	3	64	44	2	44	8	1.45
1017752--1017801	26	1.9	26	100	0	100	22	20	20	38	1.94
1019536--1019820	142	2.0	142	98	0	552	34	25	16	24	1.95
1025508--1025626	42	2.8	42	92	0	193	8	46	2	42	1.47
1025541--1025616	12	6.9	11	75	15	52	9	48	2	39	1.49
1025532--1025617	24	3.8	24	72	17	85	10	45	2	41	1.51
1025523--1025593	18	3.6	18	69	20	52	9	43	2	43	1.52
1032822--1032940	42	2.8	42	88	0	175	10	45	0	42	1.45
1032866--1032930	12	6.0	11	79	15	57	12	49	0	38	1.41
1032879--1032910	9	3.6	9	91	0	55	12	43	0	43	1.42
1041133--1041212	42	1.9	42	92	0	133	10	46	2	41	1.51
1041166--1041232	12	5.9	11	75	18	57	10	49	1	38	1.46
1041161--1041242	33	2.5	33	89	0	119	9	45	1	43	1.44
1048023--1048081	28	2.1	28	84	9	77	59	6	22	11	1.56
1053781--1053908	65	2.0	65	95	0	229	33	14	18	32	1.92
1054390--1054598	104	2.0	104	87	3	305	33	11	15	40	1.83
1056045--1056161	57	2.0	57	85	4	155	39	13	11	35	1.82
1059735--1060094	166	2.2	166	82	5	406	31	9	7	51	1.62
1059834--1060134	166	1.8	165	85	5	428	31	11	8	48	1.70
1061580--1061636	21	2.8	20	81	2	69	36	14	14	35	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1061674--1061725	19	2.7	20	78	6	61	32	13	15	38	1.86
1061694--1061744	19	2.6	20	84	3	68	37	9	15	37	1.81
1066179--1066203	13	1.9	13	100	0	50	36	16	16	32	1.90
1066161--1066224	32	2.0	33	87	3	94	39	15	14	31	1.87
1066550--1066626	21	3.7	21	96	0	136	19	7	9	63	1.48
1067501--1067899	156	2.6	155	80	5	439	23	15	20	39	1.91
1069413--1069456	21	2.1	21	83	8	54	25	31	4	38	1.76
1069544--1069587	21	2.1	21	83	8	54	25	31	4	38	1.76
1069380--1069636	131	2.0	131	99	0	505	25	26	5	42	1.77
1071390--1071428	13	3.0	13	100	0	78	38	15	15	30	1.88

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   30   31   32   
          33   34   35   36   37