genome.fa.s9.2.7.7.80.10.50.1000.162.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: CP032253.1 Gossypioides kirkii chromosome KI_11
Parameters: 2 7 7 80 10 50 1000
Length:  55708359

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   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   

This is table  162  of  182  ( 21729 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)
49368347--49368372	3	8.7	3	100	0	52	65	0	0	34	0.93
49373490--49373576	20	4.3	20	74	11	79	8	4	14	72	1.24
49373541--49373643	35	3.2	32	77	11	93	9	3	15	70	1.28
49373584--49373671	12	7.8	12	74	7	60	6	4	19	69	1.29
49373596--49373687	43	2.1	44	86	6	125	8	3	18	69	1.28
49373594--49373661	31	2.2	30	82	12	77	5	4	20	69	1.28
49373629--49373673	12	3.8	12	81	0	63	4	4	20	71	1.21
49373800--49373887	39	2.3	38	81	11	99	27	0	6	65	1.17
49374497--49374549	25	2.1	25	96	0	97	39	13	9	37	1.77
49379821--49379933	57	2.0	58	82	8	142	40	9	5	44	1.60
49388681--49388732	24	2.3	22	87	9	70	50	0	1	48	1.12
49402239--49402300	20	3.0	20	77	11	54	51	0	0	48	1.00
49405072--49405096	13	1.9	13	100	0	50	40	0	0	60	0.97
49405440--49405708	43	6.3	42	79	3	268	28	26	17	27	1.98
49405440--49405708	86	3.1	86	83	1	299	28	26	17	27	1.98
49407661--49407701	21	2.0	21	85	4	57	56	17	4	21	1.60
49407707--49407753	20	2.2	21	85	7	60	19	4	10	65	1.39
49408126--49408282	41	3.8	40	77	6	136	21	26	21	30	1.98
49408258--49408306	24	2.0	24	96	0	89	14	28	22	34	1.93
49408215--49408337	65	1.9	64	86	1	174	17	28	21	33	1.95
49408274--49408387	40	2.8	39	82	4	111	17	27	21	34	1.95
49413958--49414032	38	2.0	38	82	10	91	53	0	5	41	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49415684--49415731	23	2.1	23	84	0	60	52	10	0	37	1.36
49426231--49426306	23	3.3	23	77	3	82	44	19	23	11	1.84
49429872--49429918	18	2.6	18	80	16	60	57	0	0	42	0.98
49429875--49429919	21	2.1	21	91	0	72	55	0	0	44	0.99
49433790--49433828	20	2.0	19	85	5	51	66	10	0	23	1.22
49436821--49436861	19	2.1	19	86	13	57	68	0	0	31	0.90
49437448--49437488	20	2.0	20	90	0	64	68	17	2	12	1.31
49437441--49437518	32	2.4	33	76	8	88	67	14	2	15	1.33
49437497--49437563	12	5.6	12	73	5	55	65	16	8	8	1.45
49437559--49437628	19	3.6	19	81	12	81	71	20	1	7	1.17
49438343--49438387	14	3.2	14	81	12	56	77	2	13	6	1.05
49439552--49439585	3	11.3	3	100	0	68	0	32	0	67	0.91
49446444--49446473	16	1.9	15	93	6	51	93	6	0	0	0.35
49462136--49462160	13	1.9	13	100	0	50	36	0	8	56	1.29
49462034--49462325	143	2.0	143	97	1	550	31	8	18	40	1.82
49462279--49462303	13	1.9	13	100	0	50	36	0	8	56	1.29
49465024--49465083	17	3.3	18	88	11	88	38	1	0	60	1.07
49465024--49465068	23	2.0	23	86	0	63	40	0	0	60	0.97
49465036--49465068	6	5.7	6	85	7	50	42	0	0	57	0.98
49466535--49466711	30	6.0	29	76	4	156	38	18	2	39	1.66
49466530--49466711	60	3.1	59	82	4	231	37	20	2	39	1.67
49466539--49466706	89	1.9	90	82	3	214	38	17	2	41	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49466545--49466829	59	4.8	60	81	5	228	36	21	2	39	1.67
49466664--49466873	59	3.6	58	81	6	210	35	22	2	39	1.69
49466791--49466976	29	6.4	30	71	19	94	27	28	4	38	1.77
49466747--49466853	29	3.6	30	68	14	87	31	20	2	44	1.66
49466684--49466881	58	3.4	59	82	6	208	32	23	3	40	1.70
49466861--49466913	27	1.9	28	92	3	90	28	30	3	37	1.75
49466905--49466998	30	3.2	30	69	14	86	28	26	5	39	1.78
49466888--49467020	59	2.2	61	85	5	191	30	29	4	35	1.77
49466744--49467027	145	2.0	144	83	6	360	30	26	4	38	1.75
49466810--49466998	29	6.5	28	71	19	95	30	26	4	39	1.75
49466921--49467060	59	2.4	59	82	7	160	31	27	4	36	1.76
49473084--49473153	34	2.0	35	83	13	90	45	12	7	34	1.70
49473305--49473391	45	1.9	45	100	0	174	36	9	24	29	1.86
49474364--49474425	28	2.2	29	82	2	72	35	4	4	54	1.43
49483508--49483597	25	3.6	25	84	1	99	21	16	28	33	1.95
49488444--49488517	27	2.7	27	91	0	112	18	18	27	35	1.95
49488498--49488679	55	3.4	54	82	7	217	26	17	21	34	1.95
49488540--49488679	52	2.6	54	84	7	171	29	17	21	32	1.96
49488498--49488723	55	4.2	54	79	7	190	26	17	21	34	1.95
49494006--49494095	28	3.2	28	65	12	76	24	13	30	32	1.93
49493946--49494175	56	4.2	56	87	2	281	24	15	30	30	1.95
49494023--49494110	28	3.1	28	63	18	74	25	12	29	32	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49493992--49494211	112	2.0	112	81	0	260	27	14	27	31	1.95
49497937--49498045	27	4.0	27	71	11	96	21	18	27	33	1.96
49497964--49498130	55	3.0	55	84	1	210	23	17	23	34	1.96
49501421--49501504	10	8.8	10	66	15	52	34	5	1	58	1.30
49501419--49501459	18	2.3	18	87	8	57	36	2	2	58	1.24
49501421--49501492	28	2.5	28	78	12	76	33	5	1	59	1.29
49501403--49501503	19	5.4	18	70	16	64	34	6	0	57	1.32
49502155--49502213	18	3.2	18	75	17	57	59	0	5	35	1.20
49502203--49502241	21	1.9	19	85	10	51	64	0	5	30	1.15
49502334--49502532	99	2.0	99	97	1	373	28	32	15	23	1.95
49507022--49507105	43	2.0	43	92	0	141	30	8	25	35	1.85
49511308--49511359	3	17.0	3	96	4	95	34	0	0	65	0.93
49511536--49511576	16	2.6	16	92	0	64	70	2	0	26	0.99
49512489--49512519	11	2.9	11	95	4	55	0	0	25	74	0.82
49512542--49512592	22	2.3	22	75	0	57	29	1	3	64	1.22
49512689--49512730	16	2.9	16	80	20	56	38	0	0	61	0.96
49527203--49527237	17	2.1	17	88	0	52	37	8	0	54	1.31
49528350--49528400	23	2.3	22	86	6	68	56	11	3	27	1.52
49528931--49528970	21	1.9	21	90	10	64	22	5	27	45	1.73
49528927--49528977	20	2.4	21	80	6	68	31	5	23	39	1.79
49546762--49546800	17	2.3	17	90	0	60	46	25	12	15	1.81
49552454--49552918	232	2.0	230	97	0	885	41	16	9	32	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49554022--49554090	30	2.2	30	87	5	102	37	33	10	18	1.85
49554105--49554212	54	2.0	54	94	0	189	28	19	20	31	1.97
49554360--49554451	15	6.4	14	73	12	53	31	29	18	20	1.96
49554354--49554448	14	6.7	13	75	13	64	31	28	20	20	1.97
49555899--49555943	19	2.5	17	80	16	54	40	8	2	48	1.47
49555898--49556008	58	1.9	59	81	5	136	40	6	1	51	1.38
49555966--49556081	18	6.3	18	72	13	76	34	5	0	59	1.26
49555966--49556082	19	6.4	18	70	15	71	34	5	0	59	1.25
49555961--49556051	9	10.3	9	68	12	55	32	6	0	60	1.23
49556009--49556050	17	2.4	17	80	11	50	30	9	0	59	1.29
49556029--49556071	20	2.2	20	83	8	52	27	4	2	65	1.25
49556029--49556071	21	2.1	20	86	4	59	27	4	2	65	1.25
49556116--49556167	9	5.7	9	77	4	59	42	1	0	55	1.10
49556109--49556143	18	1.9	18	94	0	61	34	2	0	62	1.10
49557198--49557234	19	2.0	20	89	10	60	54	2	5	37	1.38
49557323--49557380	26	2.2	26	84	6	73	62	0	5	32	1.18
49557339--49557419	18	4.4	18	68	11	56	62	0	6	30	1.19
49557453--49557498	9	4.9	9	81	7	56	63	2	2	32	1.19
49558072--49558138	33	2.0	33	88	5	100	37	10	23	28	1.88
49563359--49563414	29	1.9	29	85	0	76	39	16	7	37	1.76
49565714--49565755	19	2.2	20	86	4	59	71	0	4	23	1.05
49565819--49565871	19	2.7	20	76	5	63	45	1	0	52	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49577397--49577443	24	2.0	24	83	8	60	74	2	12	10	1.16
49577803--49578049	126	2.0	126	92	2	417	37	17	10	34	1.85
49578464--49578507	18	2.5	17	82	10	52	56	0	0	43	0.99
49578469--49578513	22	2.1	22	87	4	65	48	0	0	51	1.00
49581302--49581355	23	2.4	22	79	14	74	48	0	3	48	1.19
49581337--49581395	30	2.0	30	86	0	82	44	1	3	50	1.28
49582272--49582311	18	2.4	17	87	8	55	42	0	20	37	1.52
49583395--49583445	24	2.1	24	92	0	84	27	11	5	54	1.59
49583395--49583457	24	2.6	24	87	0	72	28	14	7	49	1.71
49585392--49585446	24	2.3	24	87	0	74	27	14	10	47	1.78

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   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182