genome.fa.s2.2.7.7.80.10.50.1000.40.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: CP032246.1 Gossypioides kirkii chromosome KI_03
Parameters: 2 7 7 80 10 50 1000
Length:  42061019

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  40  of  135  ( 16151 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)
10303135--10303171	18	2.1	18	89	0	56	35	18	13	32	1.90
10304149--10304206	25	2.4	25	71	28	61	39	6	5	48	1.52
10305007--10305055	27	2.0	23	84	15	62	61	6	2	30	1.32
10308234--10308283	17	3.0	17	97	2	93	70	0	0	30	0.88
10334946--10335008	24	2.6	24	87	0	90	25	14	9	50	1.72
10336929--10336983	24	2.3	24	90	0	83	25	12	10	50	1.73
10340828--10340859	14	2.3	14	100	0	64	6	12	21	59	1.55
10340828--10340867	14	2.8	14	92	3	53	10	12	20	57	1.63
10341934--10341986	4	12.5	4	81	15	54	69	0	30	0	0.88
10341932--10341983	18	2.9	18	80	13	63	67	0	32	0	0.91
10341942--10341997	21	2.7	21	76	17	64	69	0	30	0	0.89
10341940--10341988	17	2.9	15	80	19	53	71	0	28	0	0.86
10342261--10342315	25	2.3	23	81	15	58	20	0	7	72	1.07
10342374--10342417	21	2.2	20	91	4	70	31	0	13	54	1.39
10344328--10344432	43	2.4	43	78	12	117	29	14	12	43	1.82
10344886--10344921	6	6.0	6	86	0	54	55	0	44	0	0.99
10344886--10344921	12	3.0	12	95	0	63	55	0	44	0	0.99
10344886--10344920	18	1.9	18	94	0	61	57	0	42	0	0.99
10345344--10345401	21	2.8	21	89	5	82	20	1	29	48	1.60
10346365--10346415	20	2.6	21	84	9	63	66	1	0	31	1.03
10347464--10347684	29	7.6	28	77	12	189	35	24	3	37	1.72
10347474--10347667	29	6.6	28	80	9	192	34	22	3	40	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10347474--10347684	59	3.6	57	80	7	230	35	23	3	37	1.71
10354293--10354346	27	2.0	27	100	0	108	37	18	14	29	1.91
10358898--10359004	42	2.5	42	78	7	99	40	16	27	15	1.89
10359858--10360028	39	4.4	39	73	4	130	25	31	16	26	1.97
10359862--10360108	78	3.2	76	80	7	264	25	28	17	27	1.98
10359989--10360249	133	2.0	132	86	2	371	23	30	21	24	1.99
10360190--10360331	39	3.7	39	75	5	137	24	33	18	23	1.97
10360123--10360396	77	3.5	78	81	3	320	24	33	18	23	1.97
10361522--10361572	20	2.6	21	84	9	63	66	1	0	31	1.03
10362571--10362970	29	13.6	29	72	14	191	36	25	2	36	1.67
10362571--10362896	59	5.6	58	76	8	288	36	24	1	37	1.66
10364276--10364477	112	1.8	112	91	2	334	40	26	11	21	1.88
10366951--10367021	24	3.0	24	91	0	115	19	15	16	47	1.82
10367943--10368029	44	2.0	44	93	0	147	34	5	20	39	1.77
10381589--10381623	4	8.8	4	93	0	61	22	0	22	54	1.45
10381986--10382031	15	2.9	17	78	15	55	43	0	10	45	1.39
10385995--10386025	15	2.1	15	93	0	53	12	16	19	51	1.76
10386587--10386645	21	2.8	21	78	0	64	33	27	11	27	1.92
10390219--10390295	38	2.0	38	100	0	154	53	12	2	31	1.53
10392967--10393034	16	4.2	16	69	14	50	30	10	16	42	1.81
10393791--10393835	23	2.0	23	82	8	56	17	24	8	48	1.75
10398161--10398196	2	18.0	2	100	0	72	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10405791--10405853	24	2.6	24	79	0	63	19	36	0	44	1.51
10406287--10406363	34	2.2	34	95	2	136	23	6	22	48	1.74
10411750--10411813	27	2.4	26	92	2	101	53	6	0	40	1.26
10414553--10414605	22	2.3	23	80	3	63	43	18	24	13	1.86
10416508--10416571	28	2.3	28	80	0	83	26	10	23	39	1.88
10416525--10416636	28	4.0	28	72	10	84	28	16	23	31	1.96
10416594--10416683	27	3.2	28	75	9	85	30	16	25	27	1.97
10416810--10416906	27	3.6	27	73	12	90	29	15	22	31	1.95
10430026--10430094	19	3.6	19	69	18	61	40	18	18	21	1.91
10438861--10438931	29	2.4	29	81	9	81	45	15	7	32	1.73
10442853--10442893	20	2.0	20	100	0	82	63	17	9	9	1.51
10454337--10454363	12	2.2	12	100	0	54	55	11	18	14	1.68
10462163--10462192	16	1.9	16	93	6	53	20	16	3	60	1.50
10471784--10471817	18	1.9	18	88	5	52	47	8	17	26	1.77
10472215--10472308	31	3.1	29	83	4	107	34	5	21	39	1.76
10472221--10472356	30	4.5	30	82	5	159	35	5	24	34	1.80
10472221--10472346	29	4.2	29	80	8	128	34	5	23	35	1.79
10472230--10472344	60	1.9	61	89	5	180	34	5	24	35	1.78
10483757--10483791	6	5.8	6	86	0	52	57	17	11	14	1.66
10486358--10486393	19	1.9	18	88	5	54	2	30	0	66	1.06
10490410--10490455	2	23.0	2	100	0	92	0	50	0	50	1.00
10491548--10491579	13	2.5	13	94	0	55	46	0	12	40	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10494752--10494814	6	10.0	6	80	10	63	69	1	0	28	0.97
10494752--10494817	13	5.2	13	83	3	71	69	1	0	28	0.97
10494476--10495375	458	2.0	457	81	5	1059	47	7	7	37	1.60
10497006--10497054	20	2.4	21	90	10	75	77	0	12	10	0.99
10500197--10500326	23	5.5	24	78	14	103	12	30	20	37	1.89
10500218--10500326	48	2.3	47	83	10	132	12	29	20	37	1.90
10507352--10507430	23	3.3	23	74	19	74	8	30	21	39	1.84
10507371--10507478	25	4.4	25	86	4	114	12	33	18	36	1.88
10509446--10509483	20	1.9	20	88	0	58	68	5	2	23	1.23
10515390--10515424	16	2.1	17	89	10	54	74	8	0	17	1.06
10516051--10516117	30	2.3	28	82	10	80	61	7	5	25	1.46
10516051--10516108	29	2.0	29	89	3	89	63	5	6	24	1.40
10527623--10527665	19	2.4	18	81	11	52	60	20	6	11	1.54
10534657--10534700	3	14.7	3	100	0	88	31	0	0	68	0.90
10537427--10537463	18	2.1	18	94	0	65	54	0	2	43	1.14
10537577--10537614	3	12.7	3	94	0	58	28	0	5	65	1.14
10547521--10548178	327	2.0	327	93	0	1127	30	15	22	30	1.95
10552497--10552521	12	2.1	12	100	0	50	16	32	28	24	1.96
10556967--10557024	23	2.5	23	77	5	64	37	18	10	32	1.85
10557083--10557121	9	4.1	9	83	9	51	35	2	0	61	1.10
10557089--10557131	19	2.3	19	83	0	50	39	2	0	58	1.11
10557675--10557773	30	3.3	30	97	0	180	9	35	7	48	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10562110--10562513	30	13.7	30	77	10	223	35	26	3	34	1.73
10562110--10562353	90	2.7	87	84	11	289	35	26	1	36	1.67
10562303--10562438	29	4.6	29	89	1	200	34	31	4	29	1.77
10562303--10562462	58	2.7	59	82	10	195	35	30	4	30	1.77
10565939--10565984	25	1.9	23	86	8	65	34	4	4	56	1.39
10567408--10567483	6	11.8	6	70	13	53	21	2	1	75	1.00
10567407--10567483	27	2.9	25	75	11	73	20	3	1	74	1.06
10567442--10567471	13	2.4	12	94	5	51	26	3	0	70	1.03
10567408--10567478	33	2.2	33	79	5	81	21	2	1	74	1.02
10567442--10567483	13	3.2	13	83	9	50	23	2	0	73	0.94
10569460--10569504	10	4.7	10	83	8	58	77	0	6	15	0.96
10569460--10569503	19	2.3	19	92	4	70	79	0	6	13	0.92
10569460--10569504	18	2.4	18	92	7	72	77	0	6	15	0.96
10569511--10569553	12	3.7	11	85	11	59	20	6	0	72	1.08
10570513--10570548	18	1.9	19	94	5	65	72	0	16	11	1.12
10572695--10572737	20	2.2	20	83	8	52	18	2	2	76	1.00
10574768--10574816	11	4.3	11	85	10	62	32	0	0	67	0.91
10574769--10574816	6	8.2	6	88	4	71	31	0	0	68	0.90
10575747--10575794	9	5.3	9	89	0	69	85	0	10	4	0.73
10575741--10575777	16	2.3	16	90	9	58	89	0	10	0	0.49
10575741--10575794	17	3.2	17	86	2	65	85	0	11	3	0.73
10576849--10576894	25	1.9	24	83	16	60	34	4	6	54	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10577957--10578012	20	2.8	19	78	10	58	16	1	3	78	0.97
10580045--10580109	6	11.4	5	83	15	58	20	4	1	73	1.08
10580028--10580104	35	2.2	35	76	4	84	27	3	2	66	1.22
10580045--10580112	11	5.9	11	83	6	73	20	4	1	73	1.08
10581033--10581102	9	7.6	9	78	12	70	80	2	12	4	0.98
10581062--10581130	27	2.4	29	85	4	88	76	1	14	7	1.06
10581033--10581115	18	4.5	17	76	19	69	77	2	14	6	1.07
10581062--10581103	17	2.4	18	88	11	61	80	2	9	7	0.97
10582158--10582203	25	1.9	23	86	8	65	34	4	4	56	1.39
10583298--10583327	13	2.4	13	94	5	53	26	3	0	70	1.03

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