genome.fa.s3.2.7.7.80.10.50.1000.96.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  96  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)
31219742--31219780	18	2.1	19	86	13	55	56	2	2	38	1.27
31220876--31221252	188	2.0	187	95	0	682	31	24	9	34	1.88
31226192--31226240	12	4.2	12	81	2	55	42	14	14	28	1.84
31227530--31227574	22	2.0	22	82	0	54	46	26	0	26	1.53
31228212--31228281	23	3.0	23	82	2	95	41	17	12	28	1.86
31229659--31229734	21	3.5	21	78	3	80	65	21	6	6	1.39
31229723--31229752	12	2.6	12	94	5	53	76	23	0	0	0.78
31241608--31242233	314	2.0	314	99	0	1243	35	18	11	35	1.87
31244561--31244675	59	1.9	59	94	0	203	26	8	21	42	1.82
31244722--31244748	12	2.2	12	100	0	54	25	22	25	25	2.00
31248413--31248469	30	1.9	30	89	7	89	26	33	28	12	1.92
31251915--31251947	14	2.3	15	94	5	59	51	0	0	48	1.00
31251921--31251963	16	2.6	18	79	20	58	53	0	0	46	1.00
31254388--31254439	21	2.5	21	90	3	79	30	0	23	46	1.53
31254403--31254448	21	2.2	21	92	0	74	32	0	17	50	1.47
31256098--31256144	13	3.5	13	82	8	51	51	2	0	46	1.13
31256921--31256957	11	3.2	12	85	14	51	72	0	0	27	0.84
31256915--31256955	18	2.2	19	86	4	57	70	0	0	29	0.87
31260614--31260671	6	10.0	6	77	19	61	48	1	0	50	1.11
31260614--31260656	17	2.6	17	96	3	79	41	2	0	55	1.12
31260612--31260660	23	2.1	24	77	11	57	42	2	0	55	1.11
31260604--31260663	17	3.6	17	79	4	68	45	1	1	51	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31261435--31261484	21	2.5	19	80	6	55	48	0	6	46	1.27
31262579--31262856	29	9.6	29	72	19	165	32	29	3	34	1.76
31262604--31262858	58	4.4	58	86	5	347	31	29	4	34	1.77
31262604--31262895	116	2.5	116	84	3	311	30	30	5	33	1.80
31275006--31275606	76	7.9	76	91	2	872	33	15	18	32	1.92
31276764--31276813	21	2.5	19	80	6	55	48	0	6	46	1.27
31277942--31278423	58	8.3	59	87	3	683	32	28	3	35	1.74
31277942--31278423	117	4.1	115	86	6	625	32	28	3	35	1.74
31281890--31281923	14	2.3	15	90	5	52	61	2	2	32	1.26
31282594--31282637	21	2.1	21	87	8	63	59	0	0	40	0.98
31282648--31282705	28	2.0	30	83	6	75	46	3	0	50	1.18
31282840--31282881	10	4.2	10	85	11	50	73	0	2	23	0.94
31282830--31282882	19	2.8	20	81	16	67	71	0	1	26	0.96
31283229--31283394	85	1.9	86	84	3	219	34	7	15	42	1.75
31284074--31284123	22	2.4	22	80	16	61	68	2	2	28	1.12
31287152--31287231	33	2.4	34	82	4	117	32	11	11	45	1.75
31288350--31288374	9	2.8	9	100	0	50	36	0	0	64	0.94
31294217--31294259	16	2.6	16	81	3	50	27	9	2	60	1.40
31299482--31299520	21	1.9	21	89	5	62	30	12	10	46	1.75
31300719--31300761	21	2.0	21	90	4	68	72	2	9	16	1.21
31303046--31303524	58	8.4	58	78	5	413	31	22	14	31	1.94
31303094--31303197	29	3.6	30	72	11	81	32	20	17	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31303266--31303475	29	7.2	29	64	7	86	33	25	12	29	1.92
31306186--31306242	30	1.9	30	96	0	105	22	26	26	24	2.00
31307146--31307203	30	1.9	31	86	10	84	36	1	1	60	1.17
31307146--31307217	8	7.6	10	76	19	50	33	2	1	62	1.18
31307358--31307431	19	3.8	19	77	15	71	31	2	0	66	1.06
31307359--31307430	10	7.5	10	72	7	51	30	2	0	66	1.06
31307378--31307432	19	2.9	19	83	8	76	32	1	0	65	1.03
31308412--31308436	13	1.9	13	100	0	50	56	12	0	32	1.36
31310118--31310148	14	2.1	15	94	5	55	61	3	12	22	1.46
31311130--31311170	21	2.0	21	85	9	57	75	7	0	17	1.02
31313093--31313132	19	2.1	19	95	0	71	22	27	17	32	1.96
31318130--31318168	18	2.2	18	100	0	78	28	5	10	56	1.54
31319328--31319622	58	5.1	57	80	10	296	34	25	3	36	1.74
31319360--31319622	87	3.0	89	85	5	358	34	24	4	36	1.75
31319329--31319621	29	10.1	29	77	8	260	34	25	3	36	1.74
31319961--31320157	97	2.0	98	89	4	301	27	19	16	36	1.93
31331920--31331979	6	10.3	6	75	13	54	38	3	1	56	1.26
31331908--31331958	23	2.2	23	89	3	75	41	0	1	56	1.10
31331912--31331988	40	1.9	40	81	5	93	38	2	5	53	1.37
31333724--31333971	29	8.6	28	80	11	220	34	27	2	35	1.69
31333724--31333943	57	3.8	56	80	7	239	35	26	1	36	1.67
31333724--31333943	29	7.6	28	81	8	230	35	26	1	36	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31333724--31333954	86	2.7	85	78	8	245	35	27	1	35	1.67
31337327--31337378	13	3.9	13	72	22	54	32	1	5	59	1.32
31337318--31337371	27	2.2	25	81	18	76	29	1	3	64	1.21
31337318--31337416	30	3.4	31	79	16	88	28	5	5	61	1.38
31339634--31339678	23	1.9	24	86	4	65	51	4	4	40	1.42
31339707--31339854	74	2.0	74	100	0	296	45	6	10	36	1.66
31345342--31345397	29	1.9	29	85	7	78	33	5	10	50	1.60
31348160--31355248	591	12.0	591	97	0	13238	32	20	15	32	1.94
31364009--31364060	21	2.5	21	83	0	68	28	11	28	30	1.92
31369120--31369159	21	1.9	21	85	10	55	37	2	22	37	1.68
31371605--31371650	24	1.9	24	82	8	58	45	13	10	30	1.77
31371847--31371879	17	1.9	18	88	11	52	66	12	9	12	1.44
31383243--31383283	21	2.0	21	85	9	57	29	12	29	29	1.93
31386222--31386270	19	2.5	20	87	12	75	71	4	0	24	1.03
31405548--31405599	20	2.5	20	87	3	68	28	28	11	30	1.92
31421755--31421800	24	1.9	24	86	8	67	13	15	8	63	1.52
31422012--31422041	15	2.0	15	100	0	60	26	26	6	40	1.81
31422852--31422898	24	2.0	24	95	0	85	17	10	8	63	1.49
31423900--31423960	24	2.5	24	81	0	68	18	9	14	57	1.64
31424002--31424063	32	1.9	32	93	0	106	29	22	17	30	1.97
31424756--31424796	21	1.9	22	90	5	66	17	19	29	34	1.94
31427941--31427985	17	2.5	19	85	7	58	60	11	13	15	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31437948--31437983	18	2.0	18	89	10	56	72	2	8	16	1.21
31443585--31443610	4	6.5	4	100	0	52	76	0	0	23	0.78
31449702--31449749	25	1.9	25	86	0	69	47	2	2	47	1.25
31450823--31450857	19	1.9	19	88	11	56	34	31	0	34	1.58
31458854--31458917	32	2.0	32	87	0	92	56	10	4	28	1.54
31462976--31463049	11	6.8	11	70	14	55	43	2	20	33	1.66
31462948--31463022	32	2.3	32	84	4	89	44	6	20	29	1.77
31463919--31464060	73	1.9	73	95	0	257	23	30	13	33	1.93
31465127--31465172	23	2.1	21	84	8	56	71	8	4	15	1.26
31466011--31466045	16	2.2	16	100	0	70	42	5	17	34	1.73
31468010--31468115	53	2.0	53	94	0	185	26	25	10	37	1.88
31469695--31469720	5	5.2	5	100	0	52	61	0	38	0	0.96
31473026--31473058	2	16.5	2	100	0	66	51	0	0	48	1.00
31483800--31483832	17	1.9	17	93	0	57	33	15	3	48	1.60
31491182--31491215	17	2.0	17	94	0	59	32	17	2	47	1.63
31495693--31495717	12	2.1	12	100	0	50	40	16	8	36	1.77
31507784--31508071	37	8.1	37	78	8	294	14	18	32	34	1.92
31507952--31508006	27	2.0	27	85	0	74	10	14	36	38	1.81
31514186--31514223	20	1.9	19	85	15	51	63	2	2	31	1.22
31521946--31522002	2	28.5	2	92	7	98	49	1	0	49	1.11
31524696--31524750	17	3.4	17	76	14	53	50	0	3	45	1.19
31525793--31525817	2	12.5	2	100	0	50	52	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31526024--31526057	13	2.6	13	80	0	50	64	0	0	35	0.94
31526028--31526073	18	2.5	18	82	3	56	60	0	0	39	0.97
31526021--31526136	44	2.7	44	76	9	112	57	4	1	36	1.28
31530832--31531076	59	4.2	58	85	5	291	25	13	10	50	1.73
31530832--31531076	117	2.1	117	85	4	325	25	13	10	50	1.73
31531217--31531479	31	8.8	31	68	10	154	47	12	15	24	1.81
31531424--31531482	28	2.1	27	90	3	91	55	6	13	23	1.62
31531217--31531462	90	2.7	90	90	0	366	45	13	16	24	1.83
31533720--31533765	17	2.8	17	75	15	51	67	0	2	30	1.03
31533986--31534040	26	2.1	26	93	0	92	45	1	20	32	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   
          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