genome.fa.s96.2.7.7.80.10.50.1000.5.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: Scaffold96
Parameters: 2 7 7 80 10 50 1000
Length:  1013983

Tables:   1   2   3   4   5   6   7   8   

This is table  5  of  8  ( 903 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)
553348--553446	21	4.7	21	96	0	180	32	10	20	37	1.86
553348--553466	42	2.8	42	93	2	168	33	12	18	35	1.89
553348--553466	63	1.9	63	87	3	177	33	12	18	35	1.89
553502--553569	19	3.9	19	78	21	94	33	11	14	39	1.83
553523--553547	13	1.9	13	100	0	50	36	16	16	32	1.90
553504--553566	32	2.0	32	100	0	126	33	12	15	38	1.86
553609--553634	13	2.0	13	100	0	52	30	15	15	38	1.88
553589--553655	33	2.0	33	88	0	98	25	14	16	43	1.86
555312--555707	52	7.6	51	69	15	182	29	25	12	32	1.92
555429--555504	27	2.8	28	88	9	104	23	34	21	21	1.97
555489--555708	52	4.3	50	75	7	190	30	24	11	34	1.90
555696--555767	28	2.6	28	86	0	90	22	33	19	25	1.97
555318--555818	263	1.9	263	86	4	724	28	26	13	31	1.94
555642--555846	107	1.9	107	81	5	243	25	27	16	30	1.97
555721--555925	79	2.6	79	83	1	241	23	30	17	28	1.97
557315--557428	19	6.6	19	74	23	117	37	18	10	33	1.85
557351--557407	13	3.9	13	76	24	60	33	17	14	35	1.90
557332--557427	32	3.0	32	96	1	174	35	18	11	34	1.87
558380--558420	13	3.2	13	89	3	66	39	17	17	26	1.91
564583--564613	13	2.4	13	94	0	53	35	12	16	35	1.87
567790--567852	29	2.2	29	94	0	108	30	9	7	52	1.62
570461--570961	93	5.4	91	75	9	406	34	1	12	51	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
570461--570961	187	2.7	183	82	6	564	34	1	12	51	1.49
572187--572220	17	2.0	17	88	0	50	26	2	0	70	1.01
572168--572244	29	2.5	29	83	10	82	24	2	3	68	1.19
572380--572430	22	2.3	22	72	27	54	41	0	0	58	0.98
588574--588632	16	3.7	15	88	6	82	37	0	0	62	0.95
588573--588642	15	4.4	16	77	13	65	38	0	0	61	0.96
589025--589064	15	2.7	15	84	0	62	37	10	0	52	1.35
589128--589163	18	2.1	18	89	5	56	52	2	2	41	1.30
597295--597338	20	2.0	22	83	12	56	63	4	0	31	1.14
597350--597390	20	2.0	20	90	0	64	31	7	7	53	1.56
597759--597828	30	2.3	30	90	0	104	11	18	25	44	1.83
597807--597842	18	2.0	18	94	0	63	5	19	27	47	1.72
598001--598048	20	2.6	18	84	15	62	8	4	8	79	1.06
598044--598139	45	2.1	45	92	0	156	25	0	19	55	1.44
600020--600066	23	2.0	23	95	0	85	31	12	19	36	1.89
602987--603053	23	2.9	23	88	0	89	2	14	22	59	1.49
603122--603191	13	5.1	13	72	16	52	2	24	27	45	1.67
603123--603194	22	3.3	22	76	18	87	2	23	27	45	1.66
603099--603245	43	3.4	43	87	3	197	4	21	25	48	1.67
603123--603204	22	3.8	21	76	19	80	3	23	28	45	1.70
603126--603263	45	3.1	45	88	6	194	4	21	24	49	1.68
603305--603390	35	2.5	35	84	0	109	10	15	25	48	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
604576--604640	21	3.6	19	73	26	70	43	15	12	29	1.83
604594--604619	13	2.0	13	100	0	52	38	15	15	30	1.88
604576--604640	34	2.0	33	93	6	114	43	15	12	29	1.83
606243--606313	28	2.5	28	88	0	97	23	18	35	22	1.96
606303--606419	52	2.3	51	82	5	128	30	12	24	31	1.93
606438--606565	51	2.4	52	78	8	134	32	10	25	32	1.89
606291--606551	135	2.0	131	84	7	348	32	11	25	30	1.91
606274--606551	132	2.1	130	83	9	339	31	12	25	30	1.92
608919--608944	13	2.0	13	100	0	52	38	15	15	30	1.88
608898--608964	33	2.0	33	88	0	98	43	14	14	26	1.85
609011--609035	13	1.9	13	100	0	50	32	16	16	36	1.90
609002--609056	19	3.2	19	71	28	68	41	16	10	30	1.83
609112--609168	21	2.7	21	97	0	105	36	19	10	33	1.86
609756--610390	55	11.4	54	88	7	827	22	19	28	28	1.98
609756--610388	110	5.7	110	89	5	929	22	19	28	28	1.98
609756--610389	165	3.8	163	88	6	936	22	19	28	28	1.98
609968--610053	27	3.1	27	62	15	68	23	18	30	27	1.98
610197--610282	26	3.2	26	66	15	66	18	18	33	29	1.95
611364--611430	1	67.0	1	74	0	53	0	4	8	86	0.69
611364--611416	16	3.5	15	80	12	63	0	1	9	88	0.58
611364--611430	31	2.2	30	86	5	89	0	4	8	86	0.69
611374--611431	26	2.2	26	87	3	80	0	3	10	86	0.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
611364--611431	14	5.5	12	81	15	68	0	4	10	85	0.73
623918--623988	28	2.5	28	88	0	97	23	18	35	22	1.96
623978--624094	52	2.2	52	83	5	139	30	13	24	30	1.94
624113--624240	51	2.4	52	78	8	134	32	10	25	32	1.89
623966--624226	135	2.0	131	84	7	339	32	11	25	29	1.92
623949--624226	132	2.1	130	83	9	330	31	12	25	29	1.93
626590--626615	13	2.0	13	100	0	52	38	15	15	30	1.88
626569--626635	33	2.0	33	88	0	98	43	16	14	25	1.86
626655--626722	19	3.9	18	76	23	83	38	14	11	35	1.83
626677--626701	13	1.9	13	100	0	50	32	16	16	36	1.90
626658--626720	32	2.0	32	96	0	117	36	15	12	34	1.86
626778--626834	21	2.7	21	97	0	105	36	19	10	33	1.86
628739--628788	21	2.3	21	80	10	57	56	4	18	22	1.58
630586--630624	15	2.6	15	91	0	60	51	15	20	12	1.76
632698--632735	13	2.9	13	96	0	67	34	18	15	31	1.92
632847--632892	21	2.2	20	81	11	58	32	19	4	43	1.71
635270--635334	21	3.6	19	73	26	70	43	15	12	29	1.83
635288--635313	13	2.0	13	100	0	52	38	15	15	30	1.88
635270--635334	34	2.0	33	93	6	114	43	15	12	29	1.83
639180--639621	165	2.7	165	80	8	506	27	13	9	50	1.71
641999--642497	153	3.2	154	80	3	515	24	16	20	38	1.93
645786--645850	27	2.4	27	77	10	69	72	4	16	6	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
647368--647497	41	3.1	42	67	11	104	45	13	22	19	1.84
647371--647577	82	2.5	81	82	6	247	43	12	23	19	1.85
647936--648279	42	8.2	42	74	6	243	40	18	26	14	1.89
647938--648124	83	2.2	84	84	2	234	43	18	24	13	1.87
647928--648263	125	2.7	127	78	5	308	39	19	26	14	1.90
647978--648220	83	2.9	82	81	5	247	40	18	25	14	1.89
648409--648649	44	5.5	44	72	3	144	39	14	23	21	1.91
648397--648645	88	2.8	88	82	1	302	39	14	23	22	1.91
648361--648676	88	3.6	87	77	5	298	38	14	25	21	1.92
648663--648819	48	3.3	47	77	3	154	39	18	23	18	1.92
649412--649556	20	6.7	20	76	16	137	30	17	12	40	1.86
654938--655012	20	3.8	20	80	0	87	40	13	16	30	1.86
654935--655012	40	2.0	39	87	2	111	39	14	15	30	1.87
655911--656412	28	17.5	28	85	4	576	23	17	30	28	1.97
655911--656412	85	5.8	85	86	5	600	23	17	30	28	1.97
655911--656412	57	8.7	58	85	5	630	23	17	30	28	1.97
657631--657689	11	5.4	11	80	8	57	1	3	10	84	0.80
657653--657688	18	2.0	18	100	0	72	0	0	11	88	0.50
660011--660035	12	2.1	12	100	0	50	24	16	36	24	1.94
664647--664703	13	3.9	13	76	24	60	35	14	17	33	1.90
664627--664727	32	3.1	32	97	1	184	34	11	17	35	1.87
664625--664722	19	5.8	18	71	28	90	33	12	17	36	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
664765--664789	13	1.9	13	100	0	50	32	16	16	36	1.90
678703--679009	79	3.9	79	76	4	289	32	13	25	28	1.93
678945--679060	51	2.3	51	87	0	169	30	12	26	31	1.92
679017--679270	105	2.4	107	80	3	300	35	11	24	28	1.91
679148--679218	28	2.5	28	90	4	108	28	15	30	25	1.96
679223--679351	51	2.5	51	82	5	170	35	9	22	32	1.86
681673--681748	20	3.8	20	75	13	75	42	11	14	31	1.82
682477--682601	45	2.9	42	78	14	137	37	12	31	18	1.88
682603--682888	61	4.9	59	80	6	284	26	20	25	26	1.99
682728--682910	55	3.3	55	88	1	251	22	20	26	31	1.98

Tables:   1   2   3   4   5   6   7   8