genome.fa.s8.2.7.7.80.10.50.1000.105.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:  48574783

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   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   

This is table  105  of  135  ( 16172 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)
38870621--38870920	29	10.4	29	91	5	486	45	31	0	23	1.53
38870621--38870920	82	3.5	82	91	6	456	45	31	0	23	1.53
38875357--38875581	42	5.4	42	100	0	450	19	32	29	19	1.96
38875901--38875946	19	2.4	19	81	3	56	67	0	8	23	1.18
38887351--38887396	24	2.0	24	86	4	67	32	15	4	47	1.65
38896419--38896447	15	1.9	15	100	0	58	10	0	13	75	1.04
38903571--38903604	17	2.0	17	100	0	68	41	0	0	58	0.98
38903571--38903618	15	3.0	15	81	9	51	41	2	0	56	1.11
38903751--38903856	44	2.5	41	79	18	135	35	30	3	30	1.75
38903768--38903858	46	2.0	46	93	4	159	38	29	4	27	1.76
38903838--38903874	16	2.3	16	100	0	74	21	35	5	37	1.77
38907590--38907642	24	2.2	24	80	6	63	39	5	1	52	1.36
38910927--38910982	26	2.2	26	96	0	103	35	12	0	51	1.40
38910927--38910991	26	2.5	26	89	0	85	36	16	0	46	1.48
38913774--38913823	26	1.9	26	91	0	82	30	18	36	16	1.92
38916482--38916518	18	2.0	19	85	15	51	62	0	5	32	1.18
38921467--38921518	25	2.1	25	82	13	63	55	0	0	44	0.99
38927469--38927512	16	2.6	17	89	3	72	31	11	0	56	1.35
38927543--38927714	2	86.0	2	92	2	283	47	1	0	51	1.12
38929415--38929442	9	3.1	9	100	0	56	57	10	0	32	1.33
38929385--38929526	68	2.1	66	93	2	239	45	8	4	41	1.56
38929515--38929556	16	2.6	16	92	0	66	42	7	2	47	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38929385--38929548	68	2.5	66	86	10	216	45	8	4	41	1.54
38940389--38940414	2	13.0	2	100	0	52	50	0	0	50	1.00
38946640--38946717	3	26.0	3	89	0	120	62	1	3	32	1.21
38947657--38947709	20	2.5	22	80	17	67	13	13	7	66	1.45
38947658--38947709	22	2.4	23	78	12	65	13	11	7	67	1.42
38955315--38955349	11	3.2	11	100	0	70	28	0	20	51	1.47
38958268--38958294	13	2.1	13	100	0	54	29	7	22	40	1.81
38962930--38962967	20	1.9	20	88	0	58	21	13	15	50	1.78
38972283--38972317	15	2.3	15	90	9	54	54	2	14	28	1.54
38972594--38972918	3	108.3	3	100	0	650	66	0	0	33	0.92
38973755--38973779	12	2.1	12	100	0	50	84	0	16	0	0.63
38975567--38975609	11	3.8	11	82	17	61	62	2	2	32	1.20
38975563--38975606	23	1.9	23	95	0	79	59	4	2	34	1.30
38978314--38978355	22	1.9	22	85	0	57	9	4	21	64	1.42
38980387--38980436	16	2.8	18	72	22	52	36	4	6	54	1.44
38982652--38982794	43	3.3	43	86	1	180	28	20	22	28	1.98
38984374--38984559	92	2.0	92	100	0	372	37	19	11	31	1.88
38989267--38989315	18	2.7	18	93	0	80	36	0	12	51	1.40
38989267--38989322	27	2.1	27	89	0	85	35	1	14	48	1.54
38989267--38989328	18	3.4	18	90	2	79	37	1	12	48	1.51
38989267--38989322	9	6.2	9	80	0	67	35	1	14	48	1.54
38989437--38989470	17	1.9	18	88	5	52	55	0	5	38	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38989494--38989528	9	3.9	9	84	0	52	37	0	14	48	1.44
38989492--38989536	18	2.5	18	96	0	81	40	0	11	48	1.39
38995018--38995077	11	5.8	10	75	11	50	81	10	8	0	0.87
38995017--38995091	9	8.1	9	74	15	64	80	12	8	0	0.92
38995515--38995555	17	2.4	17	91	0	64	82	2	14	0	0.76
38995903--38996098	108	1.8	108	89	2	313	25	16	11	46	1.80
38996540--38997413	88	10.0	88	88	1	1234	29	24	22	23	1.99
38996540--38997387	175	4.8	175	91	0	1275	29	24	22	23	1.99
38996540--38997405	263	3.3	262	88	1	1227	29	24	22	23	1.99
38997114--38997336	44	5.1	44	67	11	161	32	24	20	23	1.98
38997468--38997699	44	5.3	44	72	4	162	29	20	24	25	1.99
38997410--38997803	132	3.0	132	90	1	587	30	20	23	25	1.99
38997729--38998723	42	24.2	42	77	11	587	31	26	19	22	1.97
38997727--38998702	82	11.9	82	90	0	1447	31	26	19	22	1.98
39000330--39000402	26	3.0	24	78	11	76	30	10	0	58	1.32
39003339--39003823	251	2.0	240	87	5	704	32	21	16	29	1.95
39004222--39004271	14	3.6	14	77	0	55	40	34	0	26	1.56
39004224--39004271	21	2.3	20	75	10	51	39	33	0	27	1.57
39011730--39011772	4	10.8	4	94	0	77	46	25	0	27	1.53
39017547--39017691	63	2.3	64	90	2	220	29	11	17	42	1.83
39022856--39022890	2	17.5	2	100	0	70	0	0	48	51	1.00
39025331--39025371	19	2.2	19	90	0	64	34	14	7	43	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39025444--39025518	32	2.4	31	75	14	82	21	34	22	21	1.97
39025682--39025711	12	2.5	12	94	0	51	23	43	26	6	1.78
39028307--39028377	10	7.0	10	74	7	63	39	1	0	59	1.06
39028307--39028375	21	3.3	20	78	11	68	37	1	0	60	1.06
39030633--39030715	41	2.0	41	97	0	157	32	10	9	46	1.71
39031390--39031428	18	2.3	16	84	16	60	46	28	0	25	1.53
39031394--39031428	18	1.9	18	100	0	70	48	28	0	22	1.51
39035437--39035492	26	2.2	25	90	3	85	16	23	21	39	1.92
39035444--39035514	26	2.8	26	85	6	85	16	25	23	33	1.96
39035591--39035648	24	2.4	24	100	0	116	24	24	17	34	1.96
39042242--39042269	14	2.0	14	100	0	56	21	7	28	42	1.79
39056146--39056186	21	1.9	22	90	5	66	39	9	12	39	1.76
39065222--39065317	37	2.6	37	84	0	120	22	16	17	42	1.88
39065678--39065823	49	3.0	50	79	3	163	43	11	10	33	1.76
39069587--39069619	3	11.0	3	100	0	66	66	0	0	33	0.92
39070556--39070588	17	1.9	17	93	0	57	45	6	24	24	1.75
39074063--39074095	17	1.9	17	100	0	66	42	6	27	24	1.78
39076125--39076160	17	2.1	17	89	0	54	58	0	5	36	1.22
39087814--39087886	28	2.6	27	82	4	83	24	20	16	38	1.93
39089095--39089165	17	4.2	17	75	7	72	26	7	19	46	1.75
39089095--39089165	34	2.1	34	84	5	90	26	7	19	46	1.75
39089341--39089809	237	2.0	237	91	0	767	26	12	27	32	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39090100--39090263	81	2.0	82	97	2	312	44	14	10	29	1.80
39100269--39100382	32	3.6	32	84	8	137	39	0	0	58	1.10
39100339--39100385	23	2.0	23	95	0	85	38	0	0	61	0.96
39101004--39101037	12	2.8	12	83	16	52	76	14	0	8	1.01
39102636--39102680	21	2.2	21	84	11	58	53	2	8	35	1.45
39103040--39103111	29	2.5	28	81	16	78	62	6	5	25	1.42
39115356--39115411	29	2.0	28	86	10	78	62	8	5	23	1.45
39117694--39117737	18	2.3	20	84	7	56	54	4	0	40	1.21
39117691--39117772	33	2.7	29	72	18	69	46	4	0	48	1.23
39119802--39119861	30	2.0	30	93	0	102	56	13	3	26	1.52
39121984--39122015	3	10.7	3	100	0	64	65	0	0	34	0.93
39123586--39123611	4	6.5	4	100	0	52	0	26	0	73	0.84
39126433--39126489	28	2.0	28	96	0	105	52	3	24	19	1.61
39126628--39126652	12	2.1	12	100	0	50	32	40	0	28	1.57
39127697--39127850	45	3.4	45	78	9	129	34	27	14	23	1.94
39135756--39135824	31	2.3	31	92	2	113	46	15	7	30	1.73
39148428--39148753	109	3.0	109	88	6	484	32	14	16	36	1.89
39148857--39149827	107	9.2	107	84	8	1217	30	17	13	38	1.89
39149811--39149835	10	2.5	10	100	0	50	0	8	0	92	0.40
39150397--39150597	94	2.1	96	90	2	316	39	14	15	30	1.87
39151068--39151511	98	4.1	108	80	11	447	28	16	13	41	1.86
39151496--39151520	10	2.5	10	100	0	50	0	8	0	92	0.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39154061--39154093	17	1.9	17	100	0	66	24	27	6	42	1.78
39162343--39162380	19	2.0	19	89	0	58	28	2	2	65	1.19
39162373--39162420	24	2.1	23	84	7	62	25	8	4	62	1.41
39163286--39163454	3	56.3	3	100	0	338	66	0	0	33	0.92
39163733--39163771	11	3.4	11	82	10	51	38	0	5	56	1.22
39168094--39168214	33	3.7	33	77	10	115	49	5	26	18	1.69
39168110--39168270	33	4.9	33	75	4	128	46	8	27	17	1.76
39168110--39168252	66	2.2	66	84	5	182	46	8	26	18	1.78
39175781--39175822	21	2.0	21	100	0	84	38	19	19	23	1.93
39176664--39176724	29	2.1	29	82	8	72	22	22	26	27	1.99

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   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135