genome.fa.s7.2.7.7.80.10.50.1000.22.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: CP032251.1 Gossypioides kirkii chromosome KI_09
Parameters: 2 7 7 80 10 50 1000
Length:  38743931

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   

This is table  22  of  144  ( 17169 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)
5422563--5422608	18	2.5	19	83	13	60	0	19	0	80	0.71
5422563--5422608	13	3.8	12	81	13	58	0	19	0	80	0.71
5423268--5423305	3	12.7	3	83	10	51	0	26	0	73	0.83
5424213--5424251	9	4.3	9	83	0	51	46	12	10	30	1.75
5424392--5424507	58	2.0	58	88	3	171	47	18	0	33	1.49
5430461--5430513	21	2.6	21	82	8	65	20	3	1	73	1.08
5430470--5430513	20	2.2	20	84	8	54	20	4	2	72	1.13
5430461--5430521	28	2.3	26	83	11	70	21	3	1	73	1.06
5430461--5430521	14	4.5	13	75	15	61	21	3	1	73	1.06
5450660--5450712	23	2.3	23	90	0	79	22	18	5	52	1.66
5454612--5454644	12	2.5	13	85	14	50	21	3	0	75	0.93
5454842--5454884	18	2.4	18	84	3	61	37	9	0	53	1.33
5459939--5460175	51	4.6	51	89	1	350	29	23	14	32	1.94
5467941--5467978	18	2.1	19	85	14	53	55	5	2	36	1.37
5469842--5470098	48	5.4	48	92	0	415	21	27	15	35	1.94
5469842--5470111	24	11.2	24	80	0	288	21	26	15	36	1.94
5473264--5473310	25	2.0	23	87	8	67	31	2	6	59	1.34
5476586--5476639	28	1.9	28	85	7	74	33	42	3	20	1.70
5484598--5484651	17	3.4	16	85	15	67	42	5	0	51	1.25
5484564--5484651	31	2.9	30	80	13	83	39	4	3	52	1.39
5485366--5485464	19	5.1	19	73	13	76	57	1	5	36	1.27
5485417--5485463	3	15.3	3	78	12	51	63	0	0	36	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5485417--5485473	19	2.9	19	82	10	53	64	0	3	31	1.10
5485720--5485760	7	5.7	7	86	11	57	82	2	14	0	0.76
5485716--5485755	12	3.6	11	80	12	55	82	2	15	0	0.77
5485710--5485756	22	2.1	23	92	4	78	80	4	12	2	0.94
5486201--5486523	162	2.0	163	86	0	459	27	15	13	43	1.84
5486610--5486976	30	12.3	30	81	6	381	40	21	2	35	1.68
5486611--5486976	90	4.1	90	86	3	454	39	21	2	35	1.68
5486967--5487162	59	3.4	57	74	6	189	30	29	4	36	1.76
5498865--5499480	68	8.9	68	90	3	869	34	15	20	29	1.93
5499251--5499365	31	3.5	31	72	14	106	36	12	21	29	1.90
5498865--5499479	274	2.2	272	88	5	903	34	15	20	29	1.93
5499828--5499881	17	3.4	16	85	15	67	42	5	0	51	1.25
5499794--5499881	31	2.9	30	80	13	83	39	4	3	52	1.39
5500643--5500689	3	15.3	3	82	12	60	65	0	0	34	0.93
5500659--5500690	16	2.0	16	100	0	64	68	0	0	31	0.90
5500945--5500990	12	3.9	12	76	23	53	80	2	17	0	0.81
5500939--5500986	24	2.0	25	88	8	73	79	4	14	2	0.98
5501435--5501729	162	1.8	163	87	3	443	26	15	13	44	1.83
5501830--5502206	30	12.7	30	83	6	380	39	24	2	33	1.69
5501831--5502200	89	4.1	90	83	6	459	39	23	2	34	1.69
5501830--5502206	118	3.2	116	83	7	370	39	24	2	33	1.69
5511877--5511947	20	3.5	20	72	14	74	50	0	0	49	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5511870--5511947	11	7.6	11	76	21	64	51	0	1	47	1.09
5512345--5512450	34	3.2	34	94	2	180	40	1	38	18	1.62
5512436--5512486	17	3.2	16	76	18	54	50	1	35	11	1.50
5512502--5512553	9	6.6	9	72	28	55	46	0	0	53	1.00
5512514--5512555	20	2.0	22	90	9	70	52	0	0	47	1.00
5512493--5512561	20	3.6	20	73	23	67	46	1	0	52	1.09
5513855--5513886	16	2.0	16	93	0	55	46	3	0	50	1.17
5514731--5514770	19	2.1	19	86	9	55	55	0	5	40	1.22
5514718--5514785	23	2.9	23	77	14	75	60	1	2	35	1.21
5514707--5514772	23	2.7	25	79	11	75	57	0	4	37	1.19
5530157--5530191	16	2.2	16	100	0	70	17	25	20	37	1.94
5534356--5534606	83	3.0	83	93	0	430	28	14	20	36	1.92
5539249--5539293	18	2.5	19	89	10	76	42	17	13	26	1.86
5542223--5542268	22	2.1	22	88	8	67	45	0	0	54	0.99
5544090--5544428	30	11.5	30	82	6	299	37	26	1	34	1.64
5544090--5544380	89	3.3	87	82	6	309	36	26	1	35	1.66
5544097--5544479	30	13.0	30	79	10	244	37	27	1	34	1.66
5544305--5544462	29	5.4	30	78	9	157	37	29	1	31	1.68
5544305--5544479	57	3.0	58	85	8	214	38	28	1	30	1.67
5546157--5546191	12	2.8	13	86	4	54	25	8	8	57	1.57
5548941--5549078	24	5.8	24	80	0	132	14	39	5	39	1.70
5548943--5549060	48	2.5	48	91	0	182	15	40	5	38	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5561102--5561154	25	2.1	25	100	0	106	66	7	11	15	1.44
5562515--5562558	3	14.3	3	80	4	52	59	4	0	36	1.18
5563248--5563311	33	2.0	33	84	9	87	23	12	3	60	1.46
5563577--5564110	29	18.2	29	68	22	220	31	29	4	34	1.77
5563589--5564079	59	8.3	59	82	5	568	31	29	3	35	1.75
5563589--5564079	117	4.2	118	84	6	588	31	29	3	35	1.75
5565568--5565835	41	6.6	41	80	6	276	15	29	25	29	1.96
5565568--5565835	82	3.3	81	85	2	315	15	29	25	29	1.96
5565568--5565835	123	2.2	121	83	6	326	15	29	25	29	1.96
5569881--5569919	20	2.0	20	94	0	69	28	20	7	43	1.79
5570622--5570842	43	5.1	42	78	7	194	26	15	27	30	1.96
5570651--5570848	86	2.3	86	85	3	256	25	15	26	32	1.96
5573016--5573056	17	2.4	17	100	0	82	19	29	26	24	1.98
5575279--5575308	11	2.7	11	100	0	60	56	0	10	33	1.32
5575390--5575511	22	5.4	22	83	5	129	11	22	23	41	1.86
5582624--5582687	22	2.8	22	79	13	76	9	17	23	50	1.75
5594328--5594364	18	2.0	19	89	5	58	54	0	2	43	1.14
5599740--5599785	14	3.4	13	82	8	56	63	0	6	30	1.20
5606505--5606544	19	2.2	19	86	4	55	37	0	7	55	1.29
5606516--5606582	28	2.4	28	81	13	77	35	2	1	59	1.22
5607731--5607859	37	3.5	37	80	8	165	50	15	10	24	1.74
5607748--5607873	34	3.6	34	78	8	144	48	17	10	23	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5607739--5607884	72	2.0	71	96	1	265	47	16	10	25	1.78
5607843--5607970	54	2.3	55	88	5	188	51	15	7	25	1.70
5609604--5609644	19	2.2	19	86	0	55	68	0	4	26	1.10
5612835--5612923	31	2.9	31	83	3	92	32	11	11	44	1.75
5612865--5612926	29	2.1	31	87	6	92	29	14	12	43	1.83
5617316--5617375	30	2.0	30	86	0	84	40	3	16	40	1.65
5619020--5619109	39	2.2	40	92	3	146	37	1	5	55	1.31
5619475--5619700	43	5.3	43	82	3	260	26	31	19	21	1.98
5619984--5620035	21	2.5	21	70	0	50	3	48	15	32	1.63
5621546--5621635	39	2.2	40	94	3	155	37	0	2	60	1.09
5621694--5621728	17	2.0	18	88	5	54	48	5	0	45	1.26
5625515--5625681	36	4.7	35	79	3	154	25	14	23	35	1.94
5625515--5625681	72	2.3	72	81	6	178	25	14	23	35	1.94
5626869--5627079	80	2.6	80	87	3	273	33	26	18	21	1.96
5630924--5630965	22	1.9	22	90	0	66	40	19	16	23	1.91
5632809--5632900	20	4.6	20	77	0	94	13	25	17	44	1.84
5632809--5632922	40	2.8	40	94	0	192	13	24	18	43	1.85
5632936--5632985	21	2.4	21	83	6	57	18	26	18	38	1.93
5634419--5634477	29	2.0	29	86	0	82	33	33	10	22	1.87
5651487--5651576	45	2.0	45	100	0	180	40	15	17	26	1.90
5656997--5657026	12	2.6	11	90	10	51	53	36	0	10	1.35
5657718--5657757	18	2.3	18	86	4	55	17	15	12	55	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5660028--5660065	20	1.9	20	89	10	60	23	23	21	31	1.98
5660930--5660977	24	2.0	23	88	4	69	45	2	6	45	1.40
5664889--5665032	58	2.5	59	83	3	175	24	13	14	47	1.80
5665216--5665307	28	3.2	28	71	13	87	50	10	17	21	1.77
5665199--5665389	60	3.2	60	84	3	231	48	11	16	24	1.79
5671367--5671393	2	13.5	2	100	0	54	0	48	0	51	1.00
5681383--5681477	32	3.0	32	73	6	84	26	2	25	46	1.64
5681487--5681575	44	2.0	43	91	2	142	21	0	32	46	1.52
5683325--5683360	18	2.0	18	88	0	54	19	0	61	19	1.35
5683480--5683647	54	2.8	59	75	19	170	21	2	50	25	1.61

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