genome.fa.s16.2.7.7.80.10.50.1000.4.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: Scaffold16
Parameters: 2 7 7 80 10 50 1000
Length:  5287347

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   

This is table  4  of  35  ( 4175 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)
581718--581759	22	1.9	22	90	9	68	38	0	0	61	0.96
585025--585382	177	2.0	177	82	5	438	41	9	14	33	1.79
587559--587614	20	2.9	19	84	5	76	30	14	14	41	1.85
588756--588820	27	2.4	28	79	7	71	40	10	9	40	1.72
589814--590193	148	2.5	151	80	7	393	27	11	17	43	1.83
589823--590232	153	2.7	147	77	9	407	27	11	17	44	1.82
594210--594249	22	1.9	21	90	10	64	45	10	10	35	1.71
594320--594360	20	2.0	21	85	9	57	36	26	12	24	1.91
594370--594394	13	1.9	13	100	0	50	32	16	16	36	1.90
594349--594410	33	1.9	32	87	9	90	29	14	16	40	1.88
594469--594506	20	1.9	20	100	0	76	31	10	21	36	1.87
595278--595446	90	1.9	90	86	4	243	35	10	26	27	1.89
596002--596049	23	2.0	24	88	8	71	58	4	4	33	1.36
596002--596049	25	2.0	24	88	8	71	58	4	4	33	1.36
599078--599118	15	2.8	14	88	7	55	78	0	21	0	0.76
599078--599120	16	2.6	16	82	14	52	76	0	23	0	0.78
604011--604244	77	3.0	77	77	7	251	33	13	12	40	1.82
608517--608554	2	19.0	2	100	0	76	0	50	0	50	1.00
608716--608742	2	13.5	2	100	0	54	51	0	48	0	1.00
609563--609597	12	3.0	12	91	4	54	34	2	0	62	1.10
610149--610180	2	16.0	2	100	0	64	50	0	0	50	1.00
610957--610982	2	13.0	2	100	0	52	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)
611021--611069	21	2.4	21	78	18	59	38	0	4	57	1.18
611678--611702	5	5.0	5	100	0	50	80	0	0	20	0.72
612589--612622	3	11.3	3	100	0	68	32	0	0	67	0.91
616597--616629	2	17.0	2	87	6	50	48	0	3	48	1.17
616982--617083	44	2.3	44	93	0	177	35	15	16	32	1.91
619523--619556	2	17.0	2	93	0	59	0	47	0	52	1.00
620503--620555	19	2.7	19	83	11	63	9	11	3	75	1.16
620491--620576	29	2.8	31	75	22	85	13	10	2	73	1.19
620502--620577	21	3.8	19	75	18	66	14	10	2	72	1.22
620491--620582	28	3.1	29	74	14	73	14	9	2	73	1.17
629248--629320	34	2.1	34	100	0	146	45	13	13	27	1.82
629238--629320	34	2.5	33	92	3	139	40	15	13	30	1.85
629248--629337	34	2.7	33	88	5	94	41	14	14	30	1.85
629613--629808	99	2.0	100	94	1	349	32	13	16	37	1.87
630003--630134	31	4.3	31	80	0	120	34	12	17	35	1.88
629985--630134	62	2.4	62	81	0	174	34	12	18	35	1.88
632490--633200	155	4.6	151	80	5	759	39	19	16	24	1.91
632490--633200	153	4.6	153	81	4	783	39	19	16	24	1.91
632516--633200	306	2.2	304	85	5	873	40	20	15	23	1.90
644408--644858	80	5.6	80	79	6	387	29	28	10	31	1.90
648856--648889	10	3.4	10	87	0	50	8	8	20	61	1.52
649223--649291	24	2.8	23	74	20	59	52	1	7	39	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
649197--649305	25	4.6	23	72	18	66	49	0	5	44	1.32
649198--649291	49	1.9	49	86	4	136	50	1	6	42	1.35
649261--649317	21	2.8	21	78	19	66	49	0	3	47	1.18
649293--649332	20	2.0	20	85	5	53	52	0	0	47	1.00
649323--649390	34	2.0	35	82	8	86	47	0	4	48	1.22
649375--649404	14	2.1	15	93	6	53	43	0	0	56	0.99
649619--649681	31	2.0	31	90	6	101	25	6	3	65	1.32
649747--649794	20	2.4	21	86	10	66	47	0	6	45	1.27
649747--649805	20	3.0	20	82	7	59	50	0	6	42	1.28
650743--650789	24	2.0	25	84	16	64	40	4	2	53	1.32
651936--652004	32	2.1	33	86	7	97	42	0	2	55	1.15
651923--651987	23	3.1	21	72	12	62	43	0	0	56	0.99
652002--652054	8	6.4	8	82	8	61	26	0	0	73	0.83
651983--652073	34	2.8	31	74	19	87	31	0	2	65	1.04
651996--652054	24	2.5	24	83	5	66	25	0	1	72	0.93
652041--652094	21	2.7	19	83	13	56	35	0	0	64	0.94
655536--655578	20	2.1	20	86	4	59	18	13	9	58	1.62
655350--655880	166	3.2	164	78	7	506	30	11	8	48	1.70
656391--656446	9	5.7	10	78	18	64	78	0	21	0	0.75
656391--656446	12	4.6	12	78	12	60	78	0	21	0	0.75
656394--656434	15	2.7	15	85	10	57	82	0	17	0	0.66
656406--656446	21	2.0	20	85	4	55	82	0	17	0	0.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
656395--656455	18	3.3	18	82	11	79	80	0	18	1	0.80
656392--656445	25	2.0	25	86	10	72	79	0	20	0	0.73
660487--660512	13	2.0	13	100	0	52	38	15	15	30	1.88
661532--661705	84	2.1	84	80	6	192	54	3	17	24	1.59
666288--666313	13	2.0	13	100	0	52	38	15	15	30	1.88
666270--666333	32	2.0	33	90	3	103	39	18	14	28	1.90
670586--670714	52	2.5	52	97	0	240	28	18	17	34	1.94
670723--670747	13	1.9	13	100	0	50	36	16	16	32	1.90
670792--670843	13	3.5	13	73	26	50	36	17	13	32	1.89
670800--670864	19	3.7	19	75	23	79	38	16	12	32	1.86
670792--670862	32	2.2	32	97	0	133	36	18	12	32	1.88
671743--671833	32	2.8	33	75	14	98	29	25	14	30	1.95
671738--671835	36	2.9	35	82	8	116	28	26	13	31	1.94
672410--672598	81	2.3	82	83	4	240	34	8	20	35	1.83
674922--674965	21	2.0	21	86	4	61	36	13	11	38	1.81
674929--674983	21	2.7	21	80	5	69	34	12	14	38	1.84
675008--675049	21	2.0	21	100	0	84	42	9	19	28	1.82
675036--675061	13	2.0	13	100	0	52	30	15	15	38	1.88
677420--677816	52	7.6	51	72	8	289	29	27	11	30	1.91
677432--677926	262	1.9	262	94	0	882	28	27	12	30	1.93
677799--677870	28	2.6	29	86	4	94	26	30	18	25	1.98
677829--678028	79	2.5	79	82	3	233	25	28	17	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
679450--679905	155	2.9	153	82	4	497	38	20	15	25	1.92
680146--680923	140	5.7	140	83	4	865	43	8	11	35	1.73
680661--680923	129	2.1	125	86	3	364	42	9	12	35	1.75
681589--681720	62	2.1	62	95	0	237	40	18	11	28	1.86
682325--682748	168	2.5	168	83	5	486	49	9	10	31	1.68
683453--683550	36	2.9	33	85	11	121	30	24	11	33	1.90
684777--684897	61	2.0	60	90	6	190	32	26	3	38	1.73
686947--686985	20	1.9	21	89	5	62	56	23	2	17	1.53
687905--687959	21	2.5	22	80	14	69	14	23	1	60	1.44
689585--689670	36	2.6	32	74	15	93	32	25	12	29	1.93
689601--689669	36	1.9	35	91	2	111	27	27	11	33	1.91
690971--691139	35	4.8	35	80	5	180	42	13	21	22	1.87
690977--691139	70	2.3	70	83	4	220	42	11	22	23	1.86
691176--691392	45	4.8	45	76	5	184	38	19	20	21	1.93
691130--691392	45	5.7	46	74	11	166	38	20	19	21	1.94
691130--691393	93	2.9	92	77	6	243	38	20	19	21	1.94
691846--692012	89	1.9	89	88	2	255	26	16	28	28	1.97
691808--692040	89	2.6	89	81	4	240	29	15	26	28	1.96
692621--692819	82	2.4	82	78	8	211	40	11	20	27	1.86
693616--693655	20	2.0	20	85	0	53	5	17	2	75	1.10
693938--693995	25	2.4	25	80	8	68	6	13	1	77	1.05
693954--693989	6	5.8	6	87	6	54	2	16	0	80	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
694876--694920	23	2.0	23	86	8	65	53	13	0	33	1.40
697600--697867	79	3.4	79	74	12	251	36	9	23	30	1.86
697747--697907	80	2.0	80	80	4	182	34	9	24	31	1.87
706204--706342	51	2.7	51	86	5	199	41	10	17	29	1.84
706378--706433	21	2.7	21	94	0	94	35	12	10	41	1.78
707812--707849	18	2.1	18	100	0	76	31	21	5	42	1.75
707985--708443	157	2.9	155	84	4	568	38	20	15	25	1.92
708744--709505	141	5.4	140	87	2	1048	43	9	11	35	1.74
708744--709505	281	2.7	280	88	2	1102	43	9	11	35	1.74
710193--710220	11	2.5	11	100	0	56	57	7	10	25	1.58

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