genome.fa.s8.2.7.7.80.10.50.1000.121.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  121  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)
43830493--43830542	20	2.5	20	83	9	66	64	10	2	24	1.35
43830562--43830618	9	6.3	9	91	0	87	29	10	19	40	1.85
43842163--43842202	21	1.9	21	89	0	62	27	5	0	67	1.11
43846290--43846447	54	2.9	54	88	0	253	27	15	31	25	1.96
43853568--43853637	21	3.5	20	71	11	63	40	1	0	58	1.07
43853642--43853855	102	2.1	104	98	1	414	37	8	18	35	1.81
43861510--43862142	313	2.0	313	98	0	1212	38	14	15	30	1.88
43863846--43863872	12	2.2	12	100	0	54	77	0	7	14	0.97
43865523--43865573	22	2.4	21	81	12	59	33	21	9	35	1.86
43865508--43865573	21	3.1	20	79	12	69	30	22	12	34	1.91
43865575--43865606	14	2.3	14	100	0	64	31	25	6	37	1.81
43865839--43865999	76	2.1	76	97	1	304	54	11	16	17	1.71
43867250--43867289	20	2.0	20	90	0	62	50	12	10	27	1.72
43867674--43867701	2	14.0	2	100	0	56	50	0	0	50	1.00
43868516--43868567	24	2.1	25	85	3	70	9	5	28	55	1.55
43869187--43869235	25	2.0	25	83	0	62	18	8	24	48	1.75
43867754--43870309	726	3.6	723	87	4	3431	34	11	15	37	1.84
43882269--43882347	38	2.1	38	97	0	149	34	24	6	35	1.81
43882412--43882470	24	2.5	24	100	0	118	22	23	8	45	1.79
43884540--43884588	24	2.0	24	84	7	64	34	10	2	53	1.47
43886195--43886241	24	2.0	24	83	8	60	34	29	0	36	1.58
43887768--43887862	35	2.7	35	86	3	120	42	29	13	14	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43893427--43893476	25	2.1	23	82	17	59	50	4	20	26	1.66
43894031--43894139	41	2.7	41	88	0	146	17	23	25	33	1.96
43894411--43894623	42	5.0	42	68	5	119	28	16	21	33	1.95
43894991--43895041	21	2.4	21	83	0	66	3	49	15	31	1.63
43895286--43895428	41	3.5	41	85	0	160	20	23	23	32	1.98
43896120--43896148	2	15.0	2	92	7	51	48	0	0	51	1.00
43897450--43897742	148	2.0	144	88	2	433	43	14	10	32	1.79
43903932--43903972	21	2.0	21	90	9	66	58	2	4	34	1.32
43907407--43907439	17	1.9	18	88	11	52	42	9	0	48	1.35
43912590--43912615	12	2.2	12	100	0	52	76	0	7	15	0.99
43915145--43915196	11	5.0	10	77	9	50	23	3	3	69	1.22
43918430--43918496	35	1.9	35	85	11	93	35	2	0	61	1.12
43918432--43918495	24	2.7	24	80	0	83	35	3	0	60	1.12
43918432--43918489	13	4.8	13	75	12	61	39	3	0	56	1.16
43919578--43919606	6	4.8	6	100	0	58	82	0	0	17	0.66
43952796--43952843	21	2.4	19	75	6	51	68	2	0	29	1.01
43954256--43954370	45	2.6	44	86	4	158	23	25	23	27	2.00
43954604--43954715	44	2.5	44	81	5	120	31	18	20	29	1.97
43954251--43954730	217	2.2	214	83	7	587	26	22	20	30	1.98
43954974--43955106	44	3.0	44	92	0	221	27	25	18	27	1.98
43955139--43955481	44	7.8	44	74	8	153	28	25	16	28	1.97
43955508--43956212	44	16.0	44	70	8	387	29	24	16	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43955142--43956290	132	8.8	131	69	8	742	29	24	17	28	1.97
43955151--43956290	264	4.3	265	93	2	1856	29	24	17	28	1.97
43956162--43956388	87	2.6	88	85	2	296	26	26	19	26	1.99
43956196--43956330	44	3.1	44	67	6	121	28	28	18	23	1.98
43974838--43974862	12	2.1	12	100	0	50	84	0	0	16	0.63
43978372--43978493	54	2.3	54	83	0	163	27	27	26	18	1.98
43979449--43979480	6	5.3	6	96	0	55	50	12	15	21	1.77
44015905--44016021	45	2.6	45	83	1	137	22	23	25	28	1.99
44015941--44016065	45	2.8	44	84	4	151	20	24	24	29	1.99
44016108--44016407	44	6.9	44	69	12	188	26	21	20	31	1.98
44015943--44016422	217	2.2	214	85	7	632	25	22	21	31	1.98
44016665--44016797	44	3.0	44	89	0	212	27	24	19	28	1.98
44016811--44017152	44	7.7	45	72	5	167	27	25	19	27	1.99
44016920--44017314	89	4.6	88	68	11	294	30	24	16	28	1.96
44017155--44017323	44	3.8	44	76	4	178	33	23	13	30	1.93
44016915--44017393	256	1.9	256	91	1	791	29	24	16	28	1.97
44017667--44017699	13	2.4	14	90	5	50	66	0	0	33	0.92
44017993--44018031	18	2.2	18	85	0	51	35	20	0	43	1.52
44027157--44027204	4	11.8	4	91	4	78	25	0	27	47	1.52
44028717--44028741	7	3.6	7	100	0	50	16	12	40	32	1.84
44030999--44031041	21	2.2	20	87	8	61	25	2	4	67	1.22
44031003--44031052	21	2.3	22	83	10	59	24	2	2	72	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44036271--44036301	15	2.1	15	100	0	62	54	6	6	32	1.51
44036715--44036770	26	2.1	27	83	6	71	53	5	3	37	1.41
44042284--44042339	14	3.9	14	76	23	62	60	8	5	25	1.47
44046694--44046753	30	2.0	30	90	0	93	10	6	13	70	1.34
44055533--44055633	18	5.4	18	69	23	68	55	2	0	40	1.22
44055527--44055635	53	2.1	53	98	0	209	53	3	2	40	1.33
44056227--44056268	22	1.9	22	90	9	68	61	4	2	30	1.29
44056289--44056600	136	2.3	138	83	4	389	43	11	8	35	1.72
44060528--44060553	6	4.3	6	100	0	52	0	15	0	84	0.62
44062822--44062869	15	3.1	15	80	11	60	35	4	0	60	1.16
44069455--44069493	12	3.0	13	88	7	53	17	7	0	74	1.05
44072089--44072159	20	3.4	20	79	13	72	60	4	0	35	1.16
44078987--44079021	17	2.1	17	89	5	54	54	0	0	45	0.99
44079710--44079735	13	2.0	13	100	0	52	53	0	0	46	1.00
44082678--44082729	21	2.5	21	76	14	54	21	5	42	30	1.76
44083887--44083929	21	2.0	21	81	4	50	60	4	2	32	1.30
44083889--44083936	19	2.6	17	78	18	51	60	2	2	35	1.20
44086533--44086577	20	2.2	21	88	4	65	40	2	8	48	1.47
44086539--44086583	20	2.2	20	84	7	56	44	0	6	48	1.29
44088606--44088637	10	3.4	10	91	8	50	71	0	0	28	0.86
44089058--44089334	138	2.0	139	99	0	547	46	16	4	32	1.67
44091616--44091940	160	2.0	160	90	0	506	38	9	18	34	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44100506--44100531	2	13.0	2	100	0	52	50	0	0	50	1.00
44101910--44101958	24	2.1	23	81	11	55	55	10	0	34	1.34
44104122--44104164	23	1.9	23	85	4	61	34	4	2	58	1.32
44106121--44106146	5	5.2	5	100	0	52	42	57	0	0	0.98
44107710--44107751	21	2.0	21	100	0	84	23	19	0	57	1.41
44107792--44107828	19	2.0	19	89	5	58	37	0	5	56	1.22
44107792--44107842	18	2.7	19	85	8	61	41	0	5	52	1.25
44110381--44110462	31	2.7	30	75	17	89	35	8	12	43	1.72
44113191--44113217	12	2.2	12	100	0	54	0	7	7	85	0.75
44117184--44117221	20	1.9	20	94	0	67	52	0	5	42	1.24
44117489--44117522	7	4.7	7	96	3	59	41	2	14	41	1.61
44120496--44120793	113	2.6	113	79	4	294	33	17	12	36	1.88
44122551--44122610	25	2.4	25	94	0	102	56	21	3	18	1.55
44124145--44124214	24	3.0	23	76	15	56	44	8	0	47	1.34
44124784--44124808	2	12.5	2	100	0	50	52	0	0	48	1.00
44130848--44130892	19	2.4	19	80	0	54	13	8	20	57	1.62
44141252--44141308	19	2.9	20	73	19	57	52	1	0	45	1.11
44141918--44142507	290	2.0	291	99	0	1164	38	10	11	38	1.77
44142590--44142643	20	2.7	20	80	8	56	57	9	1	31	1.41
44142624--44142689	18	3.7	18	72	6	53	51	4	0	43	1.22
44142716--44142749	9	3.8	9	92	0	59	70	0	0	29	0.87
44148786--44148842	27	2.2	26	87	9	80	8	15	3	71	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44157109--44157147	19	2.0	21	90	10	64	56	7	0	35	1.28
44157108--44157213	19	5.2	20	69	27	57	55	8	0	35	1.30
44157109--44157178	19	3.7	18	76	19	63	57	10	0	32	1.32
44157240--44157268	7	4.1	7	100	0	58	86	0	0	13	0.58
44157610--44157663	28	1.9	28	88	0	81	46	11	5	37	1.63
44157610--44157669	29	2.1	28	84	3	75	46	10	5	38	1.59
44159742--44159780	20	2.0	20	94	0	69	33	17	23	25	1.96
44160280--44160520	122	2.0	121	88	0	356	39	16	12	31	1.86
44161448--44161488	18	2.2	19	83	12	50	65	7	0	26	1.18
44181641--44182053	204	2.0	204	88	0	610	25	28	15	30	1.96

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