genome.fa.s11.2.7.7.80.10.50.1000.2.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: Chr12
Parameters: 2 7 7 80 10 50 1000
Length:  24583705

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   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   

This is table  2  of  75  ( 8944 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)
352552--352588	5	7.4	5	87	0	56	78	2	2	16	0.98
352542--352588	15	3.1	15	84	0	67	76	4	6	12	1.12
353812--353851	17	2.4	16	88	8	62	60	5	2	32	1.32
353966--354087	60	2.0	60	88	3	183	54	12	0	32	1.44
354080--354123	19	2.3	19	100	0	88	52	15	0	31	1.44
355299--355324	7	3.7	7	100	0	52	15	0	0	84	0.62
360539--360599	22	2.7	21	78	16	52	50	0	3	45	1.17
365215--365269	29	1.9	29	92	3	94	41	20	14	23	1.89
368241--368283	23	1.9	22	85	4	59	9	0	25	65	1.22
370693--370727	16	2.2	16	89	0	52	71	0	0	28	0.86
389174--389255	19	4.4	19	73	11	64	68	1	1	29	1.05
389688--389741	19	2.7	19	78	13	56	35	0	3	61	1.14
389790--389819	15	2.1	15	93	6	53	30	0	0	70	0.88
394014--394114	50	2.0	50	100	0	202	27	26	13	31	1.94
406067--406117	19	2.6	19	85	14	61	58	5	0	35	1.22
411359--411644	142	2.0	143	96	1	529	32	18	17	30	1.95
424532--424556	2	12.5	2	100	0	50	52	0	0	48	1.00
430560--430590	15	2.0	16	93	6	55	58	0	0	41	0.98
436556--436641	30	2.9	29	80	13	77	39	1	8	51	1.39
436658--436687	12	2.6	12	94	5	53	50	6	0	43	1.28
436781--436866	31	2.9	30	75	5	84	39	10	12	37	1.78
439493--439527	18	1.9	18	94	0	61	48	5	8	37	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
446956--446987	2	16.5	2	93	6	57	46	0	0	53	1.00
446972--447134	80	2.0	81	98	1	319	29	18	8	43	1.80
456108--456133	2	13.0	2	100	0	52	50	0	0	50	1.00
456563--456624	30	2.1	30	90	0	97	59	12	3	24	1.48
457058--457093	2	18.0	2	100	0	72	50	0	0	50	1.00
460557--460614	29	2.0	29	90	3	91	43	13	1	41	1.55
461468--461584	31	3.9	30	71	18	82	41	5	15	37	1.69
468495--468727	116	2.0	117	99	0	459	42	5	4	48	1.45
487930--487975	14	3.2	14	81	3	56	69	4	0	26	1.07
487920--487975	29	1.9	29	85	7	78	67	3	3	25	1.22
489419--489625	109	1.9	109	93	3	362	21	23	17	38	1.93
496148--496197	24	2.1	24	96	0	91	46	26	14	14	1.81
496996--497052	28	2.1	27	90	6	89	24	0	22	52	1.47
497002--497063	28	2.2	28	91	0	97	22	0	24	53	1.46
497427--497470	17	2.5	17	88	3	61	47	9	6	36	1.62
502217--502248	2	16.0	2	100	0	64	0	50	0	50	1.00
505629--505668	16	2.5	16	83	0	53	60	0	5	35	1.19
505617--505868	131	1.9	130	95	2	461	48	12	16	23	1.80
508167--508226	31	1.9	31	93	0	102	30	10	13	46	1.75
509830--509910	31	2.6	32	82	5	87	55	11	7	25	1.61
513773--514213	223	2.0	223	86	0	623	32	17	13	36	1.88
525850--526144	147	2.0	148	99	0	583	44	4	6	44	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
529823--529892	36	2.0	35	91	2	113	32	8	27	31	1.87
530194--530285	48	1.9	48	86	0	130	21	14	19	44	1.86
535004--535075	36	2.0	35	91	2	117	31	8	27	31	1.86
541533--541827	128	2.3	129	85	5	393	30	20	21	28	1.98
541586--542086	44	11.5	44	70	13	222	29	20	21	27	1.98
541665--542087	218	1.9	218	99	0	837	29	21	22	26	1.99
541846--542005	87	1.8	87	80	5	189	30	22	21	25	1.99
541665--542182	218	2.4	217	90	3	713	29	22	22	26	1.99
542074--542357	87	3.3	87	94	1	500	29	22	24	23	1.99
542448--542983	84	6.4	85	69	10	373	31	18	23	27	1.97
542359--542858	168	3.0	168	95	0	896	32	19	22	26	1.97
542615--542985	127	2.9	128	73	11	382	30	18	23	27	1.98
542911--543046	40	3.3	41	86	5	168	27	20	19	31	1.97
542359--543005	336	1.9	334	82	5	795	31	19	22	26	1.97
542636--543026	127	3.1	125	70	14	336	30	17	23	27	1.97
542932--543055	43	3.0	42	86	5	146	26	19	22	31	1.98
550927--550982	22	2.5	22	82	11	69	33	7	1	57	1.37
550938--550979	10	4.1	10	82	14	50	28	4	2	64	1.26
553676--553705	14	2.1	14	93	0	51	36	10	43	10	1.72
553891--553920	14	2.1	14	100	0	60	33	16	13	36	1.88
554039--554091	3	18.0	3	84	3	72	62	1	0	35	1.06
554786--554823	14	2.4	17	87	12	55	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
554803--554846	12	3.7	11	80	14	52	45	2	0	52	1.13
554798--554860	24	2.7	23	78	9	65	50	1	0	47	1.10
554815--554863	20	2.5	20	76	6	55	53	2	0	44	1.12
556286--556401	51	2.2	52	81	4	137	37	17	9	36	1.82
557395--557626	127	1.8	126	82	2	297	25	4	23	47	1.70
562014--562039	3	8.7	3	100	0	52	0	34	0	65	0.93
562077--562198	42	2.8	42	91	3	190	13	31	18	36	1.90
563736--563777	17	2.5	17	80	7	50	35	4	2	57	1.33
564698--564748	26	2.0	26	92	0	84	72	7	5	13	1.26
564698--564746	24	2.0	25	92	8	82	71	8	6	14	1.29
567720--567761	22	2.0	22	86	13	61	38	21	2	38	1.67
577091--577128	18	2.2	18	90	4	60	39	2	0	57	1.12
577570--577616	17	2.8	17	93	0	76	25	14	25	34	1.94
578178--578227	14	3.5	14	80	2	55	70	10	0	20	1.16
578175--578219	17	2.6	17	85	0	63	71	6	0	22	1.09
586827--586886	14	4.3	14	75	14	52	55	3	0	41	1.16
599074--599109	3	12.3	3	88	5	56	63	0	0	36	0.94
601210--601317	54	2.0	54	94	0	189	36	16	9	37	1.81
604169--604225	22	2.5	24	77	13	66	47	1	0	50	1.11
604156--604211	28	2.0	28	83	13	71	53	1	0	44	1.11
612200--612233	16	2.2	16	89	5	52	11	0	32	55	1.36
612275--612398	34	3.7	33	71	22	105	36	0	16	46	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
612257--612390	69	2.0	68	86	7	191	36	0	20	43	1.52
612467--612857	125	3.2	125	81	7	460	36	19	16	27	1.93
615303--615350	25	1.9	25	87	8	71	58	4	0	37	1.18
615300--615355	25	2.3	24	79	11	69	51	3	0	44	1.18
615491--615545	21	2.6	21	82	8	76	7	14	43	34	1.73
616411--616435	7	3.6	7	100	0	50	60	12	0	28	1.32
621376--621404	2	14.5	2	100	0	58	48	0	0	51	1.00
622527--622624	50	1.9	51	97	2	189	38	8	4	48	1.52
622557--622598	22	1.9	22	95	0	75	38	9	4	47	1.57
622582--622727	31	4.8	30	71	12	86	37	13	6	42	1.70
623594--623630	16	2.3	17	86	9	51	18	8	18	54	1.68
627819--627849	15	2.0	16	93	6	55	0	32	58	9	1.31
627819--627850	16	2.0	16	93	0	55	0	31	59	9	1.29
630850--630884	3	12.0	3	93	6	63	68	0	0	31	0.90
631165--631204	18	2.2	18	86	0	53	25	7	20	47	1.75
637843--637894	16	3.2	16	88	0	77	32	0	32	34	1.58
638145--638179	18	2.0	17	88	5	52	54	0	0	45	0.99
643579--643608	12	2.5	12	94	0	51	43	20	23	13	1.86
643873--643903	14	2.2	14	100	0	62	45	29	6	19	1.75
644263--644334	35	2.0	36	94	5	128	37	13	27	20	1.91
647591--647625	17	2.1	17	100	0	70	31	11	17	40	1.85
652645--652673	6	4.8	6	100	0	58	65	17	0	17	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
653999--654040	21	2.0	21	85	4	57	61	2	7	28	1.35
654698--654735	15	2.5	15	87	8	51	34	0	5	60	1.19
654771--654828	29	2.0	29	86	0	80	48	8	12	31	1.70
661492--661526	17	2.1	17	100	0	70	48	17	22	11	1.79
662567--662592	4	6.5	4	100	0	52	50	0	0	50	1.00
666569--666618	17	2.8	18	72	22	52	54	6	4	36	1.44
666924--666984	13	4.7	13	83	0	86	40	26	1	31	1.66
667181--667213	17	1.9	17	88	11	50	51	3	3	42	1.32
672323--672357	18	1.9	18	88	0	52	42	8	2	45	1.49
672326--672417	35	2.6	34	81	14	107	42	9	8	39	1.69

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   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75