genome.fa.s2.2.7.7.80.10.50.1000.41.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  41  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)
10585370--10585410	6	6.8	6	97	0	55	17	7	0	75	1.02
10585367--10585410	12	3.7	12	90	0	70	15	6	0	77	0.97
10586283--10586322	16	2.5	16	87	0	53	85	0	10	5	0.75
10586294--10586335	15	2.5	18	81	18	63	76	0	14	9	1.02
10586295--10586331	16	2.3	17	90	9	60	75	0	13	10	1.04
10586400--10586435	16	2.2	16	100	0	72	16	5	13	63	1.47
10587048--10587094	25	2.0	23	87	8	67	31	2	6	59	1.34
10593681--10593976	60	5.0	60	81	4	275	29	18	17	35	1.94
10597662--10597712	19	2.5	20	84	6	59	23	3	3	68	1.23
10598354--10598422	12	5.8	12	75	0	66	23	36	34	5	1.79
10598922--10599030	30	3.6	30	81	7	123	29	6	3	60	1.39
10600003--10600126	60	2.1	59	86	4	169	37	16	20	25	1.93
10603694--10603758	31	2.1	31	82	5	78	33	13	9	43	1.76
10606493--10606519	2	13.5	2	100	0	54	0	0	51	48	1.00
10616802--10616841	17	2.3	18	83	12	57	52	0	7	40	1.30
10620102--10620248	38	3.8	38	75	3	125	35	19	15	29	1.93
10620097--10620274	77	2.3	77	84	3	225	34	17	15	32	1.91
10620110--10620340	39	6.0	38	74	7	182	35	19	16	29	1.93
10621421--10621464	6	7.3	6	87	10	63	70	0	0	29	0.88
10622776--10622820	21	2.1	22	88	8	67	15	0	33	51	1.44
10624593--10624686	6	15.7	6	90	0	125	0	60	5	34	1.19
10625758--10625800	21	2.1	20	87	12	61	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10628059--10628100	15	2.8	15	78	10	50	50	0	0	50	1.00
10630943--10631236	114	2.6	112	82	4	331	34	15	15	34	1.89
10630943--10631511	55	10.1	55	76	9	463	32	15	15	36	1.89
10630975--10631511	169	3.2	164	79	7	524	32	15	14	36	1.89
10633318--10633403	5	16.0	5	78	15	75	55	2	0	41	1.12
10633318--10633386	27	2.6	27	90	0	102	56	2	0	40	1.14
10633307--10633401	6	16.8	6	73	16	78	54	4	0	41	1.20
10633321--10633415	17	5.8	16	81	10	102	53	3	1	42	1.23
10633365--10633422	28	2.0	29	83	9	75	55	3	1	39	1.27
10633813--10634016	37	5.4	36	69	12	140	30	18	14	36	1.90
10633775--10634018	75	3.2	75	89	4	373	30	18	15	36	1.91
10645795--10645848	5	10.0	5	84	15	72	55	3	0	40	1.17
10645795--10645865	11	6.3	11	82	11	74	54	5	1	38	1.33
10645785--10645865	28	2.8	28	85	10	110	53	7	1	38	1.37
10645804--10645860	17	3.4	17	88	9	82	52	5	1	40	1.34
10645938--10646030	30	3.1	30	92	1	150	62	4	5	27	1.36
10646487--10646533	12	3.9	12	85	0	58	8	36	27	27	1.86
10646483--10646534	24	2.2	24	89	0	77	7	36	28	26	1.84
10647196--10647238	21	2.0	21	81	4	50	60	2	6	30	1.35
10647082--10647347	127	2.1	128	96	2	493	53	2	6	38	1.38
10647279--10647472	97	2.0	95	90	3	300	53	3	5	37	1.40
10647383--10647453	36	2.0	35	86	2	97	54	2	4	38	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10647446--10647490	20	2.4	19	85	14	58	62	2	6	28	1.33
10647432--10647486	28	1.9	29	81	3	67	61	1	5	30	1.29
10647521--10647576	20	2.9	20	81	5	62	64	5	3	26	1.32
10648853--10649476	93	6.7	93	95	0	1079	44	4	7	44	1.50
10648853--10649476	278	2.2	279	93	0	1079	44	4	7	44	1.50
10649586--10649622	19	1.9	19	88	0	56	45	10	0	43	1.39
10649675--10649709	17	2.1	16	89	5	52	37	8	0	54	1.31
10653656--10654323	54	11.8	54	76	12	435	36	15	15	31	1.90
10653656--10654079	118	3.7	114	75	13	375	38	15	15	31	1.88
10653755--10654223	176	2.8	165	79	9	447	37	15	14	32	1.88
10653693--10654179	230	2.1	227	84	5	631	37	14	15	32	1.88
10653806--10654310	176	3.0	166	79	8	477	37	16	15	31	1.90
10660927--10660958	17	1.9	16	93	6	55	59	9	18	12	1.59
10664927--10664974	12	4.2	12	77	20	57	2	35	0	62	1.07
10664927--10664971	22	2.0	22	86	0	63	2	35	0	62	1.08
10674121--10674192	27	2.7	27	100	0	144	27	5	29	37	1.79
10674525--10674595	32	2.2	32	80	7	81	60	9	9	19	1.56
10676031--10676106	17	4.5	17	81	6	84	50	1	1	47	1.18
10676041--10676103	6	11.2	6	71	19	55	52	1	1	44	1.20
10676525--10676706	90	2.0	91	95	1	330	18	20	23	37	1.94
10676983--10677196	39	5.6	38	69	19	138	24	19	30	25	1.98
10676914--10677231	78	4.1	77	84	5	381	25	19	30	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10677502--10677757	49	5.2	49	86	1	352	12	27	22	37	1.90
10679006--10679084	12	6.4	12	77	18	74	0	22	2	74	0.93
10679025--10679083	21	2.8	20	80	12	64	0	25	0	74	0.82
10679006--10679084	9	8.6	9	72	21	58	0	22	2	74	0.93
10679048--10679079	15	2.1	15	94	0	55	0	28	0	71	0.86
10680029--10680063	10	3.5	10	84	0	52	0	17	0	82	0.66
10680023--10680065	20	2.2	20	92	8	72	0	16	0	83	0.64
10684746--10685086	59	5.8	60	77	8	274	33	4	23	37	1.77
10684740--10685122	117	3.2	117	82	6	409	33	4	23	37	1.77
10684776--10685089	29	10.7	29	76	12	241	34	5	23	36	1.77
10684774--10685094	88	3.6	88	77	11	327	33	4	23	37	1.77
10684866--10685122	29	8.8	29	80	10	156	34	5	22	37	1.77
10685988--10686017	13	2.3	13	100	0	60	26	13	0	60	1.34
10686992--10687068	6	13.5	6	71	15	65	55	1	0	42	1.07
10686982--10687068	17	5.1	17	81	7	79	52	1	0	45	1.08
10686983--10687068	34	2.5	34	81	5	111	53	1	0	45	1.07
10690219--10690248	15	2.0	15	100	0	60	40	26	13	20	1.89
10694461--10694502	18	2.3	18	83	0	57	2	42	21	33	1.66
10696615--10696649	18	1.9	18	88	11	54	48	0	2	48	1.16
10696828--10696889	11	5.7	11	71	21	51	51	1	0	46	1.10
10696880--10696912	15	2.3	15	89	5	50	42	3	0	54	1.15
10708374--10708435	30	2.1	30	96	0	115	35	16	8	40	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10709178--10709252	14	5.3	15	78	13	63	72	4	2	21	1.14
10709194--10709252	14	4.2	14	79	14	68	72	3	1	22	1.08
10709152--10709262	17	6.5	17	66	18	61	69	3	5	21	1.24
10711191--10711352	50	3.3	50	70	8	170	23	20	20	34	1.97
10711159--10711426	97	2.7	97	88	1	383	23	19	20	36	1.95
10729884--10730105	47	4.8	47	80	5	202	34	14	24	26	1.94
10731100--10731413	30	10.5	30	79	8	223	35	1	26	36	1.68
10731086--10731385	89	3.4	87	80	7	309	35	2	27	35	1.70
10731100--10731413	60	5.3	58	79	9	276	35	1	26	36	1.68
10731142--10731413	89	3.0	85	78	10	278	34	1	27	36	1.68
10733384--10734368	208	4.8	208	87	2	1347	23	20	17	39	1.92
10733916--10734082	85	2.0	85	83	2	210	22	20	17	39	1.92
10734124--10734286	85	1.9	85	86	2	229	23	23	15	37	1.93
10739418--10739463	22	2.1	22	84	8	58	4	21	10	63	1.44
10746140--10746181	17	2.4	17	88	4	57	50	2	26	21	1.61
10750694--10750736	17	2.5	17	88	3	59	46	2	30	20	1.63
10750709--10750756	24	2.0	24	83	0	60	43	2	35	18	1.62
10751173--10751484	30	10.5	30	81	4	312	35	2	25	36	1.69
10751140--10751514	89	4.2	90	81	6	372	34	3	25	36	1.72
10751141--10751514	59	6.3	57	76	10	313	35	3	25	36	1.72
10753042--10753077	18	2.0	18	94	0	63	27	13	16	41	1.87
10758597--10758623	2	13.5	2	100	0	54	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10758810--10758918	40	2.7	41	88	5	159	33	15	14	35	1.88
10763898--10763945	21	2.3	21	85	0	60	43	27	12	16	1.84
10768368--10768528	87	1.9	86	84	6	218	29	14	21	34	1.93
10775339--10775990	337	1.9	337	88	0	980	25	18	26	30	1.98
10781355--10781388	17	2.0	17	100	0	68	35	5	29	29	1.81
10782915--10783207	39	7.5	39	81	5	288	39	18	17	25	1.91
10782956--10783149	78	2.5	78	94	0	343	38	20	18	23	1.93
10782915--10783182	117	2.3	117	83	3	317	39	18	16	25	1.91
10791042--10791192	56	2.6	58	78	9	166	42	2	3	51	1.32
10792335--10792399	30	2.2	30	94	5	114	20	1	16	61	1.42

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