genome.fa.s409.2.7.7.80.10.50.1000.4.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: Scaffold409
Parameters: 2 7 7 80 10 50 1000
Length:  3905031

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   

This is table  4  of  25  ( 2882 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)
492682--492749	28	2.4	28	87	0	100	25	25	17	32	1.97
492707--493036	79	4.2	79	79	4	362	28	23	14	34	1.93
492599--492794	107	1.8	107	87	2	295	26	24	16	33	1.96
492603--492829	107	2.1	107	82	1	285	27	25	14	33	1.94
492970--493089	51	2.4	51	88	2	170	32	28	9	30	1.88
492707--493036	156	2.1	158	82	2	405	28	23	14	34	1.93
494092--494193	29	3.2	29	64	26	71	46	7	21	24	1.78
494103--494208	33	3.2	33	63	26	78	50	7	18	23	1.73
494083--494213	67	2.0	67	98	0	253	46	8	21	23	1.78
497374--497445	20	3.5	21	75	16	71	38	13	15	31	1.87
505294--506077	28	26.2	31	77	11	334	23	17	28	30	1.97
505294--506150	56	14.4	60	77	9	508	23	17	28	30	1.97
505384--506151	28	26.2	28	78	10	501	23	17	29	30	1.97
505384--505715	86	3.8	85	82	8	341	25	16	28	29	1.96
505446--506077	114	5.4	114	77	9	372	22	17	28	31	1.97
506082--506980	27	32.8	27	79	5	759	27	14	32	25	1.94
506082--506987	109	8.2	109	80	7	856	28	13	32	25	1.94
506082--506979	82	10.9	80	78	8	824	27	14	32	25	1.94
507698--507725	12	2.3	12	100	0	56	39	7	42	10	1.67
512085--512163	38	2.1	38	92	0	131	49	16	13	20	1.79
525983--526052	15	4.5	15	70	28	56	4	24	1	70	1.14
525958--526044	10	8.4	10	71	20	63	5	19	1	73	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
526225--526265	21	2.0	21	100	0	82	24	17	4	53	1.63
526231--526270	10	3.9	10	80	6	53	22	15	7	55	1.65
536350--536545	68	2.9	68	75	7	193	24	13	28	33	1.93
536549--537077	67	7.9	66	82	5	514	24	16	30	29	1.96
536842--536944	32	3.1	32	62	22	77	26	17	28	28	1.98
536569--537077	201	2.5	200	82	4	580	24	15	30	29	1.96
549653--549720	28	2.4	28	87	0	91	25	17	33	23	1.96
549709--550096	52	7.4	51	71	12	232	31	10	27	30	1.90
549602--550093	262	1.9	262	93	0	840	30	11	28	29	1.92
552468--552509	21	2.0	21	100	0	84	28	19	9	42	1.82
552534--552582	19	2.5	20	90	9	84	34	20	12	32	1.90
553407--554249	61	14.4	60	83	7	936	25	20	28	25	1.99
553407--554242	232	3.6	232	87	3	1090	24	20	28	25	1.99
553423--554249	293	2.8	287	87	4	1124	25	20	28	25	1.99
556146--556335	79	2.4	79	77	4	195	33	14	25	26	1.94
556266--556434	52	3.3	51	75	8	164	31	11	26	30	1.91
556408--556591	80	2.4	76	85	8	253	32	15	27	24	1.95
556530--556647	51	2.4	49	83	13	154	33	11	23	30	1.91
559000--559093	13	5.7	18	70	27	66	39	18	10	31	1.85
558995--559091	32	3.1	32	89	1	142	38	18	10	32	1.85
559941--560027	28	3.1	28	62	21	65	24	21	28	25	1.99
559921--560607	61	11.9	55	85	8	729	26	20	27	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
559920--560645	353	2.1	348	88	4	1088	26	20	26	26	1.99
560408--560491	26	3.0	29	64	22	79	19	20	33	27	1.96
573984--574168	79	2.3	78	78	5	185	31	15	28	24	1.96
574121--574191	28	2.5	28	86	0	88	22	18	36	22	1.95
574213--574348	51	2.6	50	83	3	164	32	13	27	27	1.93
574179--574348	52	3.3	51	78	4	189	32	12	26	28	1.92
574282--574459	80	2.2	80	86	4	245	28	16	30	25	1.96
574412--574489	27	2.9	27	88	5	113	24	19	33	23	1.97
574470--574587	51	2.4	49	84	10	161	34	11	22	30	1.90
576934--577094	32	5.1	32	90	1	243	37	18	10	34	1.85
576956--577012	13	3.9	13	74	24	51	31	19	14	35	1.91
576934--577095	63	2.6	63	91	1	261	37	17	10	33	1.85
577499--577546	1	48.0	1	78	0	51	0	2	8	89	0.56
577499--577545	10	4.8	10	84	5	60	0	2	8	89	0.57
577493--577546	11	4.8	11	86	6	56	0	5	7	87	0.68
577501--577546	18	2.6	17	83	10	65	0	2	8	89	0.57
577499--577546	11	4.4	11	86	5	62	0	2	8	89	0.56
589103--589173	28	2.5	28	83	0	79	23	18	35	22	1.96
589161--589329	52	3.3	51	81	6	189	30	12	27	29	1.93
589262--589450	80	2.4	79	85	7	240	29	14	29	25	1.95
589262--589488	80	2.9	78	80	9	237	29	14	28	26	1.95
594745--594819	20	3.8	20	82	3	89	41	12	12	34	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
594742--594819	40	2.0	39	85	7	104	41	12	11	34	1.80
595384--596277	28	31.0	29	84	7	1017	22	18	31	27	1.97
595385--596276	58	15.5	56	83	8	978	22	18	31	27	1.97
595430--596277	255	3.3	256	87	4	1185	22	18	31	27	1.97
597508--597576	1	69.0	1	76	0	66	0	1	10	88	0.58
597510--597577	5	14.0	5	82	11	79	0	1	11	86	0.63
597510--597577	14	5.0	14	91	5	104	0	1	11	86	0.63
610578--610634	22	2.6	22	89	10	91	64	8	8	17	1.46
611543--611617	20	3.8	20	80	3	80	40	12	13	34	1.81
611540--611617	40	2.0	39	87	2	111	39	12	12	34	1.82
612156--612222	34	2.0	33	88	2	98	44	13	17	23	1.85
612246--612316	32	2.2	32	92	0	115	35	18	14	32	1.90
612354--612430	21	3.7	21	82	3	93	38	15	11	33	1.84
614025--614094	23	2.8	23	79	14	61	28	20	30	21	1.98
614049--614094	23	2.0	23	91	0	74	30	19	28	21	1.98
615566--615597	13	2.5	13	100	0	64	40	12	15	31	1.85
622515--622559	21	2.1	21	84	8	56	53	4	20	22	1.63
624361--624391	15	2.1	15	93	0	53	48	16	22	12	1.80
626469--626494	13	2.0	13	100	0	52	30	15	15	38	1.88
626601--626641	22	2.0	22	86	13	61	21	21	4	51	1.67
629021--629082	32	1.9	33	86	3	90	43	17	11	27	1.83
634711--634842	51	2.6	51	85	1	183	41	12	17	28	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
634993--635034	21	2.0	21	90	0	66	40	9	19	30	1.83
636679--637130	237	1.9	237	98	0	868	36	15	20	27	1.92
639464--639592	52	2.5	52	81	5	170	28	15	17	37	1.91
639657--639740	13	5.5	13	71	28	60	36	16	13	33	1.87
639665--639761	19	5.7	19	71	26	92	39	16	11	32	1.84
639657--639759	32	3.2	32	97	0	188	37	17	11	33	1.86
640540--641629	101	11.1	100	88	5	1330	33	17	24	23	1.96
640540--641629	49	22.1	49	82	7	1205	33	17	24	23	1.96
641165--641631	92	5.0	92	88	3	632	32	17	24	25	1.96
641165--641628	141	3.3	140	79	10	457	32	17	24	26	1.97
641697--641934	31	7.9	30	83	8	175	29	14	31	24	1.95
641697--642023	62	5.4	61	79	9	205	28	16	31	24	1.96
641789--642023	31	7.7	30	87	6	244	26	17	30	25	1.98
641819--642023	60	3.4	61	84	7	231	26	18	29	25	1.98
643303--643344	13	3.2	13	78	18	50	2	2	21	73	1.06
643301--643357	26	2.2	26	81	9	64	7	7	17	68	1.35
643301--643358	27	2.3	26	82	11	75	6	6	17	68	1.34
650233--650413	52	3.5	52	94	0	308	27	16	18	37	1.92
650422--650446	13	1.9	13	100	0	50	36	16	16	32	1.90
650491--650542	13	3.5	13	73	26	50	36	17	13	32	1.89
650499--650563	19	3.7	19	75	23	79	38	16	12	32	1.86
650491--650561	32	2.2	32	97	0	133	36	18	12	32	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
652524--652620	48	2.0	48	93	0	167	43	16	18	21	1.88
653564--653960	67	5.9	67	82	2	402	21	16	31	30	1.95
656765--657079	154	2.1	152	84	5	402	33	7	7	51	1.59
667676--667702	13	2.1	13	100	0	54	40	14	14	29	1.86
668920--669046	32	4.0	31	76	8	112	22	17	30	29	1.96
668936--669046	33	3.5	31	78	6	105	19	18	29	31	1.96
668925--669037	32	3.5	33	79	4	115	23	17	29	29	1.97
668949--669519	115	4.9	114	83	5	617	23	16	29	29	1.97
668989--669512	29	18.1	29	83	2	581	23	17	29	29	1.97
669519--669582	26	2.5	26	74	20	71	34	17	15	32	1.91

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