genome.fa.s9.2.7.7.80.10.50.1000.178.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  178  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)
54190645--54190723	39	1.9	39	85	7	104	30	5	7	56	1.49
54190947--54191004	21	2.6	22	75	8	55	44	3	1	50	1.29
54207031--54207088	26	2.3	27	79	8	68	58	0	0	41	0.98
54217210--54217311	54	1.9	52	82	4	123	55	5	1	36	1.35
54217633--54217790	72	2.2	72	86	2	219	20	14	22	42	1.88
54219122--54219160	20	2.0	20	90	10	62	30	5	2	61	1.31
54220915--54220948	18	1.9	17	88	5	50	26	17	44	11	1.83
54232788--54232815	3	9.3	3	100	0	56	67	0	0	32	0.91
54232950--54233006	9	6.6	8	78	13	60	19	1	1	77	0.95
54232950--54233006	17	3.3	17	79	18	64	19	1	1	77	0.95
54232957--54233006	26	1.9	26	88	8	75	18	2	2	78	0.95
54234477--54234507	4	8.0	4	92	7	55	25	0	25	48	1.52
54237156--54237190	14	2.3	16	90	9	56	42	34	0	22	1.54
54239054--54239087	12	2.7	13	81	9	52	55	0	0	44	0.99
54247589--54247641	16	3.2	16	74	12	54	24	7	20	47	1.76
54256159--54256183	6	4.2	6	100	0	50	84	0	16	0	0.63
54257962--54258019	30	1.9	31	85	3	82	51	8	6	32	1.59
54262125--54262149	1	25.0	1	100	0	50	0	0	100	0	0.00
54262906--54262962	25	2.2	26	87	3	80	17	5	10	66	1.40
54264381--54264432	6	8.3	6	81	14	61	48	0	1	50	1.12
54264417--54264461	18	2.5	18	85	7	56	64	0	0	35	0.94
54265493--54265526	12	2.8	12	86	0	50	67	0	32	0	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54265958--54266251	161	1.8	162	87	2	439	23	15	14	46	1.82
54266366--54266473	30	3.6	30	88	1	164	37	25	3	33	1.74
54266455--54266851	30	13.5	30	68	12	223	31	26	4	37	1.76
54266425--54266858	59	7.4	59	91	2	660	31	27	4	36	1.77
54266425--54266858	178	2.5	177	91	3	696	31	27	4	36	1.77
54269587--54269625	17	2.3	17	100	0	78	43	10	25	20	1.83
54279715--54280602	69	12.8	69	88	3	1244	31	16	21	29	1.95
54280410--54280545	39	3.6	39	84	5	156	31	18	20	29	1.96
54280896--54280934	6	6.2	6	82	11	51	48	0	2	48	1.15
54280977--54281051	29	2.6	28	77	6	87	42	24	12	21	1.86
54281994--54282027	12	2.8	12	86	0	50	67	0	32	0	0.91
54282458--54282765	161	1.9	162	87	2	458	23	15	14	46	1.83
54282480--54282797	161	2.0	160	84	3	397	24	16	13	44	1.84
54282866--54282973	30	3.6	30	89	1	173	37	26	3	32	1.74
54282925--54283415	59	8.4	59	90	1	731	31	26	4	36	1.78
54290101--54290166	30	2.2	30	84	12	84	43	9	6	40	1.61
54298021--54298060	18	2.2	18	90	0	62	62	0	32	5	1.17
54298870--54298935	30	2.2	30	84	12	84	43	9	6	40	1.61
54303773--54303874	30	3.2	30	65	26	73	41	10	3	44	1.58
54304837--54305053	105	2.1	105	90	0	335	23	31	16	29	1.96
54306617--54306758	30	4.7	30	96	0	257	33	2	24	39	1.70
54306677--54306731	19	3.3	19	63	36	54	29	3	27	40	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54308603--54308711	6	18.0	6	74	15	82	47	1	0	49	1.18
54308647--54308696	25	2.0	25	88	0	73	54	4	0	42	1.19
54308640--54308703	31	2.1	31	91	5	103	53	3	0	43	1.16
54308618--54308711	42	2.3	43	83	5	113	50	2	0	47	1.13
54308641--54308711	17	4.4	16	79	16	85	54	2	0	42	1.14
54308997--54309165	90	1.9	90	86	0	239	30	25	13	30	1.93
54311254--54311299	22	2.1	22	84	8	58	47	4	10	36	1.58
54313091--54313148	30	1.9	31	89	3	91	41	15	5	37	1.70
54313486--54313515	15	1.9	16	93	6	53	50	20	6	23	1.71
54315167--54315209	20	2.1	21	86	4	61	48	2	0	48	1.14
54317229--54317365	29	4.7	29	70	10	82	35	5	28	30	1.81
54317229--54317544	59	5.4	58	85	5	370	34	6	27	31	1.82
54317229--54317544	117	2.7	117	85	2	447	34	6	27	31	1.82
54317352--54317444	30	3.2	29	64	18	75	35	8	24	31	1.86
54317390--54317572	30	6.2	30	68	19	91	33	4	26	35	1.78
54317524--54317635	30	3.7	30	88	4	156	32	3	26	37	1.74
54317728--54318041	162	1.9	162	89	3	490	46	12	16	24	1.81
54317775--54318124	162	2.2	161	81	6	404	49	12	16	22	1.78
54318169--54318220	22	2.4	22	93	0	86	9	28	44	17	1.80
54319522--54319641	6	20.2	6	73	13	97	49	2	0	48	1.14
54319554--54319641	17	5.4	17	78	10	85	53	3	0	43	1.17
54320573--54320628	21	2.7	21	83	13	71	60	3	1	33	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54320894--54320937	25	1.9	22	82	17	54	43	15	0	40	1.47
54322268--54322312	13	3.5	12	85	11	54	42	2	17	37	1.62
54326135--54326195	30	2.0	31	84	6	81	49	4	1	44	1.33
54326210--54326259	26	2.0	25	84	4	64	56	0	2	42	1.11
54327224--54327259	15	2.4	15	90	0	54	55	0	11	33	1.35
54333069--54333137	31	2.2	31	84	0	93	39	17	17	26	1.91
54351521--54351583	2	31.5	2	100	0	126	50	0	0	49	1.00
54356680--54356717	3	12.7	3	88	0	58	28	2	34	34	1.71
54370451--54370490	16	2.5	15	88	8	53	37	7	27	27	1.84
54370660--54370800	58	2.4	59	88	7	207	51	0	0	47	1.05
54370660--54370805	29	5.0	28	69	21	104	52	0	0	47	1.05
54379516--54379544	5	5.8	5	100	0	58	41	17	20	20	1.90
54414138--54414231	44	2.1	45	90	6	145	42	4	6	46	1.48
54415367--54415417	24	2.1	24	88	0	75	56	11	9	21	1.63
54416259--54416338	31	2.6	30	90	5	117	30	3	15	51	1.60
54418865--54418939	33	2.2	34	84	11	93	41	5	6	46	1.53
54421969--54422104	72	1.9	72	89	0	209	29	23	13	33	1.93
54430619--54430822	105	1.9	105	88	0	309	38	9	8	42	1.69
54433375--54433400	12	2.2	12	100	0	52	57	7	7	26	1.54
54434678--54434724	23	2.0	24	84	12	62	59	0	2	38	1.09
54441165--54441221	6	9.0	6	77	11	51	19	5	3	71	1.19
54442135--54442171	19	2.0	19	89	5	58	72	0	16	10	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54442121--54442172	19	2.7	19	77	14	54	75	0	13	11	1.06
54443062--54443087	4	6.5	4	100	0	52	26	0	23	50	1.50
54451401--54451428	3	9.3	3	100	0	56	32	0	35	32	1.58
54472372--54472748	173	2.2	174	80	5	413	23	18	16	41	1.90
54474335--54474550	29	7.3	30	65	16	130	31	27	4	37	1.77
54474338--54474578	58	4.1	57	81	4	293	30	29	4	35	1.77
54474335--54474578	117	2.1	117	84	5	323	30	28	4	36	1.77
54474338--54474578	116	2.1	117	85	3	324	30	29	4	35	1.77
54474554--54474637	28	3.0	27	77	10	71	28	27	4	39	1.77
54479278--54479324	15	2.9	16	84	12	53	46	6	8	38	1.60
54482308--54482397	47	1.9	47	97	0	171	33	5	20	41	1.75
54483921--54483963	19	2.3	19	84	8	52	58	4	0	37	1.19
54484951--54485044	44	2.1	47	92	6	158	42	3	6	47	1.45
54485494--54485526	17	1.9	18	88	11	52	36	0	3	60	1.12
54486093--54486171	29	2.6	29	86	6	95	29	7	15	48	1.72
54486114--54486172	29	2.0	30	93	3	102	28	5	13	52	1.61
54486118--54486181	29	2.2	29	86	8	85	31	6	10	51	1.62
54491867--54492002	72	1.9	72	87	0	200	29	24	13	33	1.93
54503596--54503763	23	7.3	22	80	9	133	11	23	20	43	1.85
54503597--54503718	46	2.7	46	85	2	165	11	22	21	44	1.84
54503620--54503763	69	2.1	66	84	10	182	12	22	20	44	1.85
54506140--54506174	6	5.8	6	100	0	70	17	0	65	17	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54512270--54512325	24	2.5	23	81	16	64	57	1	1	39	1.20
54513228--54513281	27	2.0	27	88	0	81	64	11	0	24	1.25
54513805--54513867	31	2.0	31	81	6	74	41	9	4	44	1.58
54513854--54513937	31	2.7	31	72	9	80	48	10	1	39	1.46
54518811--54518884	35	2.3	30	73	20	78	45	9	12	32	1.73
54519620--54519667	20	2.4	20	85	0	69	50	8	6	35	1.58
54520668--54522985	810	2.9	809	94	1	3984	33	12	24	29	1.92
54530267--54530309	18	2.5	17	78	17	52	25	2	11	60	1.43
54530983--54531031	26	1.9	26	84	12	66	10	12	2	75	1.13
54531562--54531891	169	2.0	168	82	4	398	40	13	8	38	1.74

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