genome.fa.s3.2.7.7.80.10.50.1000.26.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: CP032247.1 Gossypioides kirkii chromosome KI_05
Parameters: 2 7 7 80 10 50 1000
Length:  50980411

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   

This is table  26  of  171  ( 20472 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)
11906856--11906905	26	2.0	25	88	11	75	42	2	0	56	1.11
11906836--11906912	41	1.9	39	84	5	100	42	2	0	54	1.14
11907640--11907674	13	2.7	13	86	13	54	77	2	5	14	1.07
11908892--11908936	20	2.2	20	92	7	74	33	0	2	64	1.06
11908906--11908947	20	2.1	20	86	0	57	35	0	2	61	1.09
11916494--11916537	22	2.0	22	86	8	63	65	4	2	27	1.23
11917685--11917733	25	1.9	25	83	4	62	51	8	10	30	1.65
11917849--11917878	2	15.0	2	100	0	60	50	0	0	50	1.00
11919071--11919114	22	2.0	22	86	8	63	65	4	2	27	1.23
11920150--11920188	17	2.3	17	90	0	60	46	25	12	15	1.81
11923232--11923369	23	5.9	22	78	12	109	11	25	23	39	1.88
11926293--11926347	24	2.2	25	84	9	69	30	5	14	49	1.66
11931994--11932130	40	3.5	39	71	11	102	29	28	20	21	1.98
11932026--11932128	37	2.7	37	75	6	89	31	27	19	22	1.98
11936165--11936198	16	2.1	16	88	5	50	55	2	0	41	1.15
11936284--11936356	38	1.9	38	83	5	94	53	5	6	34	1.51
11938510--11938558	25	1.9	25	83	4	62	51	8	10	30	1.65
11938674--11938705	2	16.0	2	100	0	64	50	0	0	50	1.00
11939899--11939942	22	2.0	22	86	8	63	65	4	2	27	1.23
11947890--11947942	22	2.5	22	84	3	63	35	1	1	60	1.19
11950030--11950054	13	1.9	13	100	0	50	68	8	8	16	1.38
11964384--11964430	24	2.0	24	86	0	67	25	14	6	53	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11967155--11967302	23	6.3	23	80	10	149	14	23	20	41	1.88
11967267--11967342	39	1.9	39	86	0	107	19	22	17	40	1.91
11968618--11968676	20	3.0	19	79	18	59	33	3	0	62	1.12
11976780--11976825	24	2.0	22	83	12	56	52	2	4	41	1.33
11981674--11981703	3	10.3	3	92	7	53	70	0	0	30	0.88
11982754--11982834	7	11.9	7	81	5	85	34	22	24	18	1.96
11982754--11982826	20	3.6	20	90	3	110	35	21	24	17	1.95
11982754--11982847	34	2.8	34	83	3	118	37	21	23	18	1.94
11982754--11982834	41	2.0	41	90	0	126	34	22	24	18	1.96
11982842--11982913	11	6.5	11	75	0	63	26	26	26	20	1.99
11983320--11983394	11	6.5	11	73	14	62	69	0	25	5	1.09
11983328--11983392	12	5.5	12	70	17	55	70	0	23	6	1.09
11983320--11983392	23	3.1	23	75	11	67	69	0	24	5	1.09
11991311--11991346	3	11.7	3	94	5	63	63	0	36	0	0.94
11992510--11992552	2	22.0	2	90	4	70	48	0	0	51	1.00
11998436--11998481	18	2.5	20	79	13	53	39	0	4	56	1.19
12001371--12001399	6	4.8	6	100	0	58	65	17	17	0	1.27
12008666--12008698	16	2.0	17	88	5	50	42	0	6	51	1.26
12008883--12008972	39	2.3	39	100	0	180	28	3	7	60	1.41
12014841--12014866	5	5.2	5	100	0	52	38	0	61	0	0.96
12019917--12020104	61	3.1	60	74	12	163	27	15	17	38	1.91
12019916--12020164	118	2.1	118	81	7	283	28	17	17	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12019916--12020164	119	2.1	118	80	5	272	28	17	17	36	1.93
12019954--12020211	118	2.2	116	78	9	272	32	17	14	36	1.90
12020920--12020984	21	3.2	20	78	10	69	70	3	0	26	1.01
12020924--12020976	28	1.9	27	88	3	79	73	1	0	24	0.93
12020945--12020984	19	2.1	19	90	4	62	75	2	0	22	0.93
12048684--12048709	13	2.0	13	100	0	52	84	0	15	0	0.62
12056613--12056641	6	5.0	6	95	4	51	17	0	65	17	1.27
12063374--12063414	17	2.4	18	80	12	50	39	24	19	17	1.92
12075695--12075735	21	2.0	21	90	4	66	41	0	0	58	0.98
12081226--12081262	16	2.2	17	90	4	58	16	0	8	75	1.02
12086168--12086192	3	8.3	3	100	0	50	0	68	0	32	0.90
12092019--12092069	25	2.0	25	100	0	102	52	23	0	23	1.47
12101365--12101439	27	2.6	28	77	10	80	50	1	6	41	1.37
12119055--12119219	81	2.0	81	100	0	330	23	15	13	47	1.81
12126867--12126918	16	3.3	15	80	15	61	44	0	1	53	1.11
12126875--12126924	16	3.2	16	80	8	59	48	0	4	48	1.20
12139133--12139252	58	2.1	58	87	0	168	32	0	17	50	1.47
12139157--12139267	58	1.9	58	83	3	143	31	0	18	50	1.47
12139390--12139418	9	3.2	9	100	0	58	31	10	10	48	1.71
12139462--12139507	23	2.0	23	86	0	65	34	19	13	32	1.90
12143404--12143433	2	15.0	2	92	0	51	46	3	50	0	1.18
12173157--12173223	31	2.2	31	100	0	134	17	14	14	52	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12176683--12176707	2	12.5	2	100	0	50	48	0	0	52	1.00
12181585--12181619	18	2.0	17	88	5	52	68	0	2	28	1.04
12184507--12184552	2	23.0	2	100	0	92	0	50	0	50	1.00
12188384--12188441	30	2.0	29	83	10	73	56	6	1	34	1.36
12199104--12199162	25	2.4	24	79	17	68	16	6	10	66	1.43
12209329--12209362	2	17.0	2	100	0	68	50	0	0	50	1.00
12209522--12209635	46	2.5	46	95	0	201	12	22	19	45	1.83
12209465--12209637	23	7.4	23	78	6	161	13	23	19	43	1.86
12212838--12212879	20	2.1	20	86	0	57	61	4	0	33	1.17
12214147--12214187	12	3.2	13	82	10	57	34	0	2	63	1.08
12221702--12221765	2	32.0	2	100	0	128	50	0	0	50	1.00
12256038--12256069	3	10.7	3	100	0	64	34	0	0	65	0.93
12269375--12269413	14	2.8	14	92	0	60	53	5	0	41	1.23
12269659--12269687	2	14.5	2	100	0	58	48	0	0	51	1.00
12272730--12272761	15	2.1	15	94	0	55	84	0	15	0	0.63
12274851--12274876	12	2.2	12	100	0	52	50	0	7	42	1.31
12278276--12278317	20	2.0	21	86	4	59	57	23	4	14	1.56
12279558--12279589	12	2.8	12	90	9	50	40	6	6	46	1.54
12286436--12286517	43	1.9	43	92	0	137	25	12	15	46	1.81
12297935--12297976	18	2.4	18	84	4	59	47	14	11	26	1.78
12298363--12298410	13	3.6	14	84	13	50	39	14	2	43	1.57
12316951--12317028	29	2.6	31	76	11	81	51	11	14	23	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12320332--12320399	28	2.5	28	77	20	72	32	0	2	64	1.08
12320396--12320439	21	2.1	21	86	0	61	29	0	6	63	1.20
12320504--12320573	32	2.2	32	85	10	90	45	1	0	52	1.09
12326325--12326358	16	2.1	16	88	0	50	41	2	11	44	1.56
12332614--12332812	105	1.9	106	87	1	292	37	23	18	20	1.94
12342193--12342231	2	19.5	2	94	0	69	51	2	46	0	1.14
12344059--12344094	18	2.0	18	88	0	54	30	8	2	58	1.42
12345400--12345452	25	2.2	25	89	3	81	71	1	5	20	1.16
12346249--12346335	18	4.3	19	69	25	54	29	0	1	68	0.96
12346246--12346355	25	4.6	25	69	16	72	32	0	0	66	0.98
12346255--12346334	20	4.0	18	68	26	54	30	0	1	68	0.97
12346255--12346347	46	2.1	44	90	6	143	31	0	1	67	0.98
12348713--12348784	30	2.4	31	80	2	83	50	16	11	22	1.77
12350088--12350159	30	2.4	31	85	2	92	20	15	18	45	1.85
12356745--12356785	15	2.8	15	88	3	57	65	2	0	31	1.05
12357938--12357962	10	2.5	10	100	0	50	60	20	20	0	1.37
12357991--12358038	16	2.8	17	87	6	62	37	2	2	58	1.22
12358030--12358057	13	2.2	13	100	0	56	50	0	0	50	1.00
12360466--12360524	6	9.8	6	85	7	84	16	1	13	67	1.30
12360597--12360673	26	2.9	26	76	3	73	57	9	1	32	1.38
12363483--12363532	25	2.0	25	96	0	91	26	20	6	48	1.72
12363665--12363787	58	2.1	58	79	8	135	34	3	4	56	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12363966--12364055	27	3.3	27	93	0	153	17	32	32	17	1.94
12379868--12380155	96	3.0	96	95	0	524	38	8	17	36	1.79
12380454--12380478	9	2.8	9	100	0	50	56	0	0	44	0.99
12386049--12386107	22	2.8	21	79	5	57	47	0	1	50	1.11
12386248--12386280	15	2.2	15	89	10	50	75	0	0	24	0.80
12386508--12386534	14	1.9	14	100	0	54	11	0	0	88	0.50
12386858--12386890	15	2.2	15	89	10	50	75	0	0	24	0.80
12386148--12387382	607	2.0	609	98	0	2388	27	17	9	44	1.79
12393104--12393138	11	3.1	11	87	4	52	60	0	2	37	1.12
12394634--12394702	34	2.0	35	97	2	131	37	5	0	56	1.23

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