genome.fa.s9.2.7.7.80.10.50.1000.12.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: chr9
Parameters: 2 7 7 80 10 50 1000
Length:  38630433

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   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   

This is table  12  of  97  ( 11551 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)
5880571--5880686	41	2.8	41	97	0	214	32	6	24	36	1.82
5883210--5883248	13	3.2	13	85	7	55	41	7	0	51	1.31
5883453--5883494	20	2.1	20	86	0	57	50	0	4	45	1.23
5889824--5889906	20	4.4	19	70	21	66	19	10	8	61	1.54
5889823--5889910	21	4.6	20	69	23	64	19	11	7	61	1.54
5889809--5889932	56	2.2	56	91	2	205	19	11	10	58	1.60
5890050--5890133	42	2.0	42	86	4	116	34	10	5	48	1.62
5890242--5890289	24	2.0	24	92	4	80	22	12	8	56	1.63
5890649--5890780	66	2.0	66	82	2	158	33	10	13	42	1.79
5901886--5901925	9	4.4	9	80	0	53	85	10	5	0	0.75
5902179--5902243	30	2.2	30	97	0	121	30	15	40	13	1.86
5914671--5914723	2	26.5	2	92	7	90	49	1	0	49	1.12
5940634--5940675	15	2.6	16	85	14	52	40	2	4	52	1.35
5952446--5952474	8	3.6	8	100	0	58	37	0	10	51	1.36
5952413--5952487	22	3.8	20	71	11	55	41	8	9	41	1.66
5972089--5972118	2	15.0	2	100	0	60	50	0	0	50	1.00
5972178--5972207	2	15.0	2	100	0	60	50	0	0	50	1.00
5975086--5975125	2	20.0	2	100	0	80	50	0	0	50	1.00
5999294--5999424	42	3.0	42	82	8	120	16	58	2	22	1.49
5999415--5999452	18	2.1	18	90	0	58	18	63	2	15	1.43
5999462--5999526	3	21.7	3	75	6	51	21	69	1	7	1.22
5999459--5999521	21	3.0	21	79	6	65	20	68	1	9	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5999474--5999524	15	3.4	15	78	8	59	21	68	1	7	1.25
5999691--5999746	24	2.3	24	84	6	69	26	58	3	10	1.48
5999688--5999746	21	2.8	21	76	0	64	27	55	3	13	1.54
6014334--6014380	2	24.0	2	86	4	69	4	48	0	46	1.21
6015149--6015185	2	18.5	2	100	0	74	48	0	0	51	1.00
6047070--6047120	24	2.1	24	100	0	102	33	21	3	41	1.72
6057870--6057909	21	1.9	21	89	0	62	57	12	15	15	1.66
6060043--6060085	15	2.9	14	89	10	59	72	6	0	20	1.08
6062222--6062285	2	32.0	2	77	0	65	45	6	4	43	1.50
6062222--6062266	8	5.6	8	91	0	72	48	8	2	40	1.47
6062222--6062285	16	4.0	16	89	0	83	45	6	4	43	1.50
6066462--6066506	21	2.1	21	100	0	90	13	51	6	28	1.66
6082063--6082171	45	2.5	43	80	10	114	45	3	5	44	1.44
6082068--6082161	45	2.1	45	86	4	127	44	4	6	44	1.49
6082323--6082451	63	2.0	61	79	8	134	34	6	6	51	1.56
6084905--6084979	37	2.0	37	100	0	150	26	13	18	41	1.87
6085988--6086049	28	2.2	28	82	5	72	50	1	1	46	1.20
6086011--6086049	15	2.8	13	82	14	51	46	2	0	51	1.14
6086006--6086047	13	3.0	14	80	13	50	42	2	2	52	1.27
6087679--6087708	15	2.0	15	100	0	60	13	20	26	40	1.89
6089641--6089744	50	2.1	50	100	0	208	41	19	12	26	1.87
6089886--6089928	16	2.7	15	78	7	50	76	0	18	4	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6099238--6099270	2	16.5	2	100	0	66	48	0	51	0	1.00
6099301--6099333	2	16.0	2	93	6	57	48	0	48	3	1.17
6099230--6099362	63	2.1	62	93	5	223	27	9	36	25	1.86
6099333--6099383	23	2.2	23	96	0	93	7	25	19	47	1.76
6102046--6102077	2	16.5	2	93	6	57	50	0	0	50	1.00
6108247--6108292	19	2.3	20	75	14	51	47	0	2	50	1.13
6118533--6118581	17	2.7	18	76	17	57	67	6	0	26	1.14
6126967--6127057	39	2.3	39	84	1	119	30	16	5	47	1.69
6127284--6127327	22	2.0	22	82	8	54	50	0	2	47	1.13
6127817--6127893	38	2.0	38	94	0	136	24	23	12	38	1.90
6131401--6131445	19	2.4	18	82	10	54	73	6	2	17	1.15
6131399--6131435	5	7.6	5	82	17	51	78	2	0	18	0.87
6131458--6131572	6	18.3	6	74	12	61	53	0	0	45	1.00
6131458--6131572	13	9.7	12	73	22	66	53	0	0	45	1.00
6131491--6131569	2	42.5	2	83	14	107	53	0	0	46	1.00
6131458--6131569	56	2.0	56	85	7	154	53	0	0	45	1.00
6143884--6143911	2	14.0	2	100	0	56	50	0	50	0	1.00
6156875--6156925	23	2.3	23	82	3	59	33	1	0	64	1.05
6156882--6156932	24	2.1	24	82	7	59	33	3	0	62	1.13
6159379--6159426	2	24.0	2	100	0	96	50	0	0	50	1.00
6164125--6164161	2	18.5	2	100	0	74	48	0	0	51	1.00
6164269--6164303	16	2.2	16	89	0	52	62	0	0	37	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6166741--6166841	33	3.1	33	97	0	193	14	41	13	29	1.85
6187820--6187868	2	25.0	2	91	4	82	48	2	0	48	1.12
6190789--6190976	69	2.7	69	79	6	168	26	17	23	31	1.97
6200758--6201022	133	2.0	132	100	0	521	24	12	19	43	1.85
6202927--6202974	22	2.1	23	84	3	62	66	6	2	25	1.26
6203605--6203646	21	2.0	21	100	0	84	47	0	0	52	1.00
6206349--6206398	3	16.7	3	91	0	82	34	2	2	62	1.18
6211697--6211820	64	1.9	64	88	0	185	28	13	20	37	1.90
6218273--6218317	18	2.6	17	86	13	65	75	0	0	24	0.80
6223958--6224004	12	3.9	12	88	0	67	2	59	0	38	1.09
6223958--6224019	18	3.5	18	82	2	72	1	61	0	37	1.06
6223964--6224013	6	8.3	6	90	0	64	0	64	0	36	0.94
6225800--6225857	26	2.2	26	87	3	80	39	3	25	31	1.73
6225808--6225861	26	2.1	26	92	0	90	33	3	27	35	1.75
6236777--6236816	15	2.7	15	84	0	53	70	2	27	0	1.01
6251835--6251869	15	2.3	15	90	5	52	71	2	0	25	1.00
6260570--6260642	3	24.3	3	88	0	74	0	21	34	43	1.53
6260572--6260639	27	2.5	27	95	0	118	0	20	33	45	1.52
6264242--6264355	49	2.3	50	84	4	151	48	0	0	50	1.07
6264274--6264360	17	5.1	17	67	24	58	47	0	0	51	1.00
6289737--6289778	2	21.0	2	100	0	84	50	0	0	50	1.00
6296679--6296708	2	14.5	2	93	6	51	50	0	3	46	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6304639--6304668	14	2.1	14	100	0	60	20	0	0	80	0.72
6305037--6305080	10	4.2	11	83	16	58	25	2	0	72	0.96
6305042--6305090	25	2.0	25	92	8	82	22	2	2	73	1.04
6314811--6314848	14	2.8	13	88	7	58	26	0	0	73	0.83
6324094--6324151	2	30.0	2	87	6	84	51	0	1	46	1.11
6324210--6324254	2	22.5	2	100	0	90	48	0	0	51	1.00
6328613--6328640	7	4.0	7	100	0	56	85	0	0	14	0.59
6329512--6329565	27	2.0	28	89	10	85	44	31	0	24	1.54
6329537--6329611	23	3.3	22	75	5	69	44	32	5	18	1.72
6329759--6329806	21	2.3	21	82	10	64	45	22	4	27	1.70
6329903--6329947	21	2.1	21	87	0	63	44	24	4	26	1.72
6329846--6330013	63	2.7	63	74	10	153	45	22	6	25	1.76
6330055--6330130	20	3.6	21	71	8	66	47	25	3	23	1.69
6330055--6330130	21	3.6	21	74	12	68	47	25	3	23	1.69
6330055--6330142	22	4.1	22	75	7	83	46	25	3	25	1.68
6334688--6334715	4	7.0	4	100	0	56	0	0	25	75	0.81
6336332--6336360	2	14.5	2	100	0	58	0	51	0	48	1.00
6337585--6337691	31	3.5	31	81	10	125	35	3	4	56	1.38
6342531--6342556	2	13.0	2	100	0	52	50	0	0	50	1.00
6342531--6342629	51	1.9	50	91	8	155	56	3	10	29	1.47
6347490--6347549	21	3.0	21	69	18	56	58	3	1	36	1.25
6348056--6348103	21	2.3	21	79	17	55	56	0	12	31	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6348058--6348103	22	2.1	21	84	4	56	56	0	13	30	1.37
6352770--6352797	2	14.0	2	100	0	56	50	0	0	50	1.00
6355204--6355232	2	14.5	2	100	0	58	0	51	0	48	1.00
6362208--6362248	20	2.0	20	90	0	64	53	4	0	41	1.22
6371314--6371354	2	20.5	2	100	0	82	51	0	0	48	1.00
6371314--6371365	14	3.9	14	92	5	72	53	0	0	46	1.00
6371637--6371673	3	12.3	3	100	0	74	35	0	0	64	0.94
6384626--6384654	3	9.7	3	100	0	58	34	34	0	31	1.58
6390384--6390420	14	2.9	12	85	14	56	43	2	0	54	1.14
6390353--6390449	15	6.9	15	69	20	59	47	2	0	50	1.12

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   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97