genome.fa.s8.2.7.7.80.10.50.1000.144.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: CP032252.1 Gossypioides kirkii chromosome KI_10
Parameters: 2 7 7 80 10 50 1000
Length:  47257441

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   

This is table  144  of  163  ( 19493 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)
39134117--39134485	37	10.0	37	74	8	241	42	5	35	17	1.72
39134136--39134485	74	4.7	73	76	6	276	41	5	35	18	1.72
39134133--39134485	111	3.2	108	80	7	329	41	5	35	17	1.73
39135495--39135758	74	3.6	73	72	10	189	38	5	35	20	1.76
39135511--39135766	37	6.9	36	72	4	156	38	5	36	20	1.75
39142660--39142850	95	2.0	95	100	0	382	33	21	16	27	1.95
39145517--39145552	16	2.2	16	95	0	63	72	2	0	25	0.98
39154304--39154339	14	2.6	14	90	0	54	41	5	22	30	1.76
39154326--39154371	20	2.4	19	85	10	58	30	6	17	45	1.73
39154471--39154530	22	2.6	23	75	14	61	31	1	3	63	1.20
39154707--39154813	46	2.2	48	81	6	119	43	16	9	29	1.79
39167360--39167393	14	2.4	14	95	5	59	67	5	2	23	1.26
39171508--39171553	24	1.9	24	86	8	67	34	17	23	23	1.96
39186872--39186901	2	15.0	2	92	0	51	53	0	0	46	1.00
39194910--39194952	17	2.6	17	82	10	54	41	4	0	53	1.21
39195209--39195250	22	1.9	22	85	0	57	23	16	21	38	1.93
39199214--39199273	12	5.1	12	77	2	59	68	23	1	6	1.22
39199221--39199271	24	2.1	24	88	0	75	70	21	1	5	1.18
39199289--39199360	22	3.5	22	73	19	64	69	18	4	8	1.30
39199300--39199354	22	2.8	19	80	17	67	72	18	1	7	1.16
39201538--39201588	14	3.5	14	73	17	50	66	1	1	29	1.13
39201540--39201577	20	1.9	20	88	0	58	63	2	2	31	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39203878--39203915	3	12.7	3	100	0	76	34	0	0	65	0.93
39207583--39207621	18	2.2	18	85	0	51	30	0	2	66	1.05
39209838--39209870	16	2.1	16	88	11	50	33	18	0	48	1.48
39218614--39218661	2	25.0	2	91	8	82	47	0	0	52	1.00
39225600--39225680	28	2.8	29	78	16	78	39	1	2	56	1.20
39231492--39231635	73	2.0	74	92	1	245	35	9	7	47	1.65
39237214--39238124	453	2.0	453	91	0	1453	31	23	14	31	1.94
39238602--39238656	22	2.5	22	97	2	103	40	0	12	47	1.42
39239017--39239092	6	12.8	6	72	13	59	39	3	1	55	1.27
39239017--39239091	17	4.6	17	81	9	93	38	4	1	56	1.27
39241167--39241616	30	15.3	29	68	24	155	31	28	3	36	1.75
39241128--39241616	59	8.3	58	83	6	558	32	27	3	36	1.74
39241128--39241619	118	4.2	117	86	4	616	31	27	3	36	1.75
39241540--39241617	29	2.7	29	75	20	81	32	21	3	42	1.71
39241722--39241767	15	3.0	16	75	12	51	23	13	6	56	1.60
39253818--39254258	76	5.9	76	91	2	669	35	14	17	32	1.91
39253818--39254258	151	2.9	152	90	3	687	35	14	17	32	1.91
39256638--39257010	59	6.4	59	84	3	423	30	25	5	38	1.80
39256735--39256953	30	7.4	29	65	24	93	30	25	5	38	1.78
39260095--39260281	52	3.6	52	86	4	261	24	14	23	36	1.93
39261804--39261900	29	3.3	30	88	5	128	41	1	19	38	1.59
39261805--39261938	29	4.6	28	80	5	124	40	1	20	38	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39261805--39261938	59	2.3	59	82	6	148	40	1	20	38	1.62
39261828--39261971	30	4.9	29	75	8	96	38	2	22	36	1.69
39262233--39262277	17	2.6	17	83	10	56	55	0	6	37	1.26
39263679--39263739	6	10.7	6	73	16	58	55	0	0	44	0.99
39263677--39263755	17	4.6	17	87	4	106	56	3	0	39	1.17
39264180--39264971	78	10.2	78	74	7	403	26	18	29	25	1.98
39264242--39264931	39	17.7	39	65	12	139	26	18	28	26	1.98
39264215--39264658	156	2.8	156	79	1	496	27	18	28	25	1.98
39264476--39264775	117	2.6	116	80	5	291	27	19	28	25	1.98
39264627--39264931	117	2.6	117	79	5	330	24	19	29	26	1.98
39264437--39264972	39	13.8	38	71	10	253	25	20	28	25	1.99
39276977--39277291	29	10.8	28	73	11	170	34	1	23	39	1.66
39276948--39277195	58	4.3	58	76	8	243	33	2	25	38	1.69
39276948--39277221	29	9.5	28	73	10	187	33	2	24	39	1.69
39277244--39277332	30	3.0	30	83	6	117	35	4	21	38	1.74
39278434--39278498	12	6.1	10	79	15	53	26	0	1	72	0.94
39278446--39278498	3	17.7	3	96	0	97	30	0	1	67	1.01
39279128--39279227	16	6.3	16	71	10	71	53	2	3	42	1.28
39279146--39279216	28	2.5	27	80	13	81	54	1	1	42	1.17
39279126--39279188	34	1.9	32	83	6	81	50	0	4	44	1.23
39279174--39279227	17	3.2	17	89	0	72	59	3	0	37	1.15
39279167--39279227	28	2.2	28	84	0	77	59	3	0	37	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39279858--39279908	21	2.4	21	80	6	59	27	15	27	29	1.96
39281700--39281760	23	2.7	23	78	9	63	27	11	0	60	1.31
39289085--39289198	57	2.0	57	100	0	228	33	3	12	50	1.57
39290361--39290429	31	2.3	30	87	12	97	44	18	14	21	1.85
39290761--39290841	35	2.3	35	82	2	110	19	1	19	59	1.45
39292046--39292083	16	2.4	16	82	4	51	60	0	10	28	1.30
39311774--39311811	4	9.5	4	100	0	76	23	0	26	50	1.50
39313208--39313240	2	16.5	2	100	0	66	51	0	0	48	1.00
39345561--39345585	7	3.6	7	100	0	50	60	40	0	0	0.97
39345565--39345688	67	1.9	63	94	0	185	58	27	4	10	1.50
39346613--39346684	35	2.1	35	100	0	144	36	8	16	38	1.79
39351219--39351258	17	2.4	17	91	4	64	77	2	0	20	0.88
39352731--39352782	22	2.3	23	83	6	70	40	3	5	50	1.45
39359403--39359467	33	2.0	33	96	0	121	55	1	4	38	1.30
39363161--39363192	2	16.0	2	100	0	64	0	0	50	50	1.00
39364866--39364939	31	2.4	32	82	8	91	45	6	0	47	1.29
39369361--39369414	28	1.9	28	84	0	72	55	14	3	25	1.56
39369659--39369699	19	2.2	19	86	8	57	60	2	9	26	1.40
39375143--39375191	3	16.3	3	91	0	80	28	0	4	67	1.09
39377503--39377836	41	8.2	40	78	3	267	19	28	19	32	1.96
39377504--39377843	82	4.2	82	77	1	308	18	28	19	32	1.96
39377503--39377836	123	2.7	122	78	3	375	19	28	19	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39398801--39398835	4	8.8	4	87	12	54	77	0	0	22	0.78
39399824--39399915	30	3.1	29	81	6	105	38	20	5	35	1.76
39399833--39400027	60	3.3	59	74	14	186	38	21	3	35	1.71
39399867--39400020	30	5.1	30	75	9	116	40	21	2	35	1.67
39400857--39400886	15	2.0	15	93	0	51	6	16	33	43	1.74
39401224--39401436	105	2.0	105	98	0	408	39	8	30	20	1.83
39410145--39410288	50	2.9	50	90	0	207	33	19	25	22	1.97
39410143--39410306	50	3.3	50	85	1	186	35	19	23	21	1.96
39410333--39410522	79	2.4	79	89	0	283	32	24	17	25	1.97
39410324--39410522	39	5.0	40	72	6	154	32	25	17	25	1.97
39410928--39410959	16	1.9	17	93	6	57	12	3	3	81	0.93
39411382--39411423	13	3.3	13	80	3	50	23	4	0	71	1.05
39412092--39412343	90	2.8	89	80	5	242	36	15	7	40	1.76
39412082--39412329	30	8.3	29	72	10	123	35	16	6	41	1.75
39412280--39412345	30	2.2	30	83	0	78	30	13	10	45	1.77
39414145--39414223	6	14.2	6	79	15	89	69	0	11	18	1.18
39414140--39414219	15	5.3	15	78	13	83	70	0	10	20	1.16
39414140--39414223	21	3.8	22	84	10	109	69	0	10	20	1.18
39414149--39414210	9	6.9	9	79	0	61	72	0	9	17	1.10
39414231--39414482	124	2.0	124	98	0	488	28	17	21	33	1.95
39416900--39416960	22	2.6	22	82	12	61	70	3	3	22	1.17
39424590--39424618	14	2.1	14	100	0	58	58	13	13	13	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39434193--39434261	3	23.0	3	84	0	84	60	0	31	7	1.24
39434820--39435005	60	3.1	60	79	6	180	25	13	11	48	1.77
39435151--39435346	92	2.1	91	83	4	234	46	11	15	26	1.80
39435226--39435287	32	1.9	33	90	9	101	48	9	16	25	1.76
39435880--39435926	20	2.4	19	83	16	60	65	0	0	34	0.93
39441906--39442051	71	2.1	71	82	2	177	36	19	13	30	1.90
39445116--39445140	13	1.9	13	100	0	50	48	0	0	52	1.00
39445601--39445643	18	2.4	18	76	0	50	30	2	4	62	1.28
39446709--39446743	15	2.2	16	90	5	54	28	0	5	65	1.15
39447732--39447773	14	3.2	13	83	10	50	40	0	2	57	1.12

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