genome.fa.s9.2.7.7.80.10.50.1000.136.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  136  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)
42547466--42547548	38	2.2	38	78	6	89	30	10	22	36	1.89
42547481--42547561	38	2.2	38	81	2	92	29	11	23	35	1.89
42550163--42550230	33	2.1	33	94	0	118	41	19	14	25	1.89
42555281--42555313	16	2.0	17	88	5	50	69	6	3	21	1.24
42568022--42568095	25	3.0	25	75	16	82	36	9	12	41	1.75
42568325--42568355	13	2.4	13	94	0	53	32	0	3	64	1.09
42568295--42568366	37	1.9	37	83	10	94	26	2	4	66	1.23
42580312--42580385	33	2.3	33	92	2	132	41	18	14	24	1.89
42584592--42584645	24	2.4	22	77	14	56	53	9	0	37	1.33
42590992--42591018	8	3.4	8	100	0	54	25	0	22	51	1.48
42591527--42591579	16	3.2	16	76	10	54	28	5	3	62	1.35
42592611--42592646	2	18.5	2	94	5	65	47	0	0	52	1.00
42597487--42597517	15	2.1	15	100	0	62	41	32	12	12	1.81
42603458--42603491	1	34.0	1	93	0	59	0	0	2	97	0.19
42603459--42603496	18	2.1	18	95	0	67	0	2	5	92	0.47
42607841--42608080	41	5.9	41	80	4	200	22	25	16	34	1.95
42613979--42614037	3	19.7	3	100	0	118	0	32	0	67	0.91
42615194--42615341	75	2.0	75	95	0	269	19	20	18	41	1.91
42623304--42623376	38	1.9	37	83	8	94	24	2	6	65	1.30
42623304--42623490	98	1.8	98	81	10	225	21	8	6	63	1.46
42632317--42632361	18	2.5	18	96	0	81	28	4	26	40	1.75
42634091--42634148	20	2.9	20	78	0	62	18	12	15	53	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42634944--42635367	45	9.4	45	83	2	404	35	26	12	25	1.92
42636300--42636333	13	2.7	12	86	13	50	20	0	5	73	1.04
42636317--42636372	21	2.7	22	76	20	66	16	5	5	73	1.21
42636401--42636478	40	2.0	40	82	10	97	20	5	5	69	1.28
42648501--42648569	33	2.1	33	83	5	86	39	2	8	49	1.49
42648558--42648637	34	2.4	34	89	4	119	47	7	0	45	1.31
42649568--42649621	27	2.0	27	96	3	101	31	11	7	50	1.66
42649641--42649706	35	1.9	35	85	11	93	43	0	10	45	1.38
42649602--42649999	136	3.0	134	84	5	511	45	5	6	41	1.54
42649834--42649921	42	2.1	42	85	4	115	47	9	2	40	1.48
42649913--42649975	32	1.9	33	83	3	83	42	0	7	49	1.32
42651457--42651668	110	1.9	110	87	0	307	35	18	18	26	1.94
42652609--42652635	2	13.5	2	100	0	54	51	0	48	0	1.00
42653564--42653644	35	2.3	35	84	0	108	38	17	6	38	1.75
42657598--42657703	17	6.4	17	82	10	130	39	0	1	57	1.16
42657637--42657703	35	1.9	35	93	0	116	40	0	0	59	0.97
42657645--42657706	11	5.5	11	78	3	61	45	0	0	54	0.99
42657608--42657703	6	16.3	6	78	8	99	39	0	2	58	1.10
42659361--42659664	29	10.5	29	71	14	159	38	24	2	33	1.71
42659323--42659536	86	2.5	85	84	6	268	39	23	2	34	1.69
42659501--42659809	58	5.3	58	76	8	243	33	28	5	32	1.81
42659531--42659886	29	12.3	29	71	8	199	32	28	7	31	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42664119--42664387	24	11.1	24	86	1	322	25	26	15	32	1.96
42664108--42664387	48	5.8	48	86	1	371	25	25	15	33	1.95
42664819--42665301	41	11.7	41	81	3	502	32	19	29	18	1.96
42665016--42665086	24	3.1	23	69	22	69	32	22	30	14	1.93
42665015--42665079	20	3.0	22	71	13	62	32	21	32	13	1.93
42669220--42669434	43	5.0	43	81	0	223	26	16	27	29	1.97
42670983--42671211	113	2.0	112	92	2	379	42	7	18	31	1.78
42671220--42671260	21	2.0	21	100	0	82	56	0	39	4	1.21
42671466--42671539	29	2.5	30	86	8	98	48	12	13	25	1.77
42673073--42673111	19	2.0	20	90	5	62	51	23	12	12	1.74
42673102--42673147	21	2.2	21	84	0	56	39	23	15	21	1.92
42673182--42673230	22	2.3	20	76	10	53	12	2	40	44	1.53
42673193--42673233	21	1.9	22	90	5	66	9	0	39	51	1.35
42677325--42677356	3	10.3	3	93	6	55	31	0	0	68	0.90
42679803--42679848	22	2.1	22	88	4	67	10	0	36	52	1.37
42681980--42682095	57	2.0	58	96	1	216	36	11	10	42	1.75
42684596--42686001	738	1.9	729	84	5	1881	42	15	13	28	1.85
42693350--42694708	732	1.9	728	85	4	1887	42	15	14	28	1.85
42708404--42708455	24	2.2	24	86	3	70	7	3	17	71	1.25
42708421--42708463	21	2.0	21	82	8	52	11	2	13	72	1.22
42708460--42708579	12	10.3	12	72	13	81	10	5	15	68	1.37
42708451--42708583	68	2.0	68	81	0	158	12	5	14	68	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42708472--42708600	56	2.3	56	78	7	154	11	4	15	68	1.36
42708708--42708802	49	2.0	47	81	8	111	27	1	8	63	1.30
42712226--42712265	20	2.0	20	85	0	53	15	2	12	70	1.28
42712941--42712973	17	1.9	18	88	11	52	39	3	3	54	1.31
42715345--42715386	22	1.9	22	85	9	59	61	21	11	4	1.48
42715844--42715894	11	4.4	12	80	5	52	9	1	13	74	1.15
42716513--42716537	13	1.9	13	100	0	50	80	4	8	8	1.03
42718555--42718588	6	5.7	6	92	0	59	82	2	0	14	0.79
42720539--42720952	206	2.0	207	92	1	697	39	12	19	28	1.89
42729430--42729582	78	2.0	78	83	5	193	40	18	14	26	1.89
42729436--42729656	78	2.8	78	77	5	178	38	20	15	25	1.92
42729638--42729712	39	1.9	39	81	5	89	33	17	20	29	1.95
42758192--42758252	24	2.5	24	86	0	77	32	9	3	54	1.50
42761023--42761049	2	13.5	2	100	0	54	51	0	0	48	1.00
42762297--42762328	14	2.3	14	94	0	55	40	12	28	18	1.87
42765152--42765193	19	2.2	19	91	8	68	35	9	9	45	1.69
42767955--42767995	13	3.1	14	83	13	52	68	2	4	24	1.22
42779180--42779226	12	4.2	12	73	15	55	76	0	23	0	0.78
42779640--42779680	17	2.4	18	80	12	50	17	19	14	48	1.81
42782455--42782481	8	3.4	8	100	0	54	22	22	0	55	1.44
42786159--42786217	13	4.7	13	79	6	59	69	1	3	25	1.13
42786497--42786557	31	2.0	31	87	3	88	37	9	8	44	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42793555--42793589	3	11.3	3	87	6	52	31	0	0	68	0.90
42795412--42795468	28	2.0	28	96	0	105	43	0	8	47	1.34
42795500--42795583	44	1.9	44	95	0	150	48	4	7	39	1.52
42796360--42796440	29	2.8	29	96	0	144	49	14	11	24	1.76
42810322--42810381	22	2.8	21	80	7	75	33	18	16	31	1.93
42810781--42810830	13	3.8	13	83	0	64	44	2	16	38	1.59
42818794--42819080	64	4.5	64	98	0	547	29	3	14	51	1.58
42820038--42820062	7	3.6	7	100	0	50	28	24	0	48	1.52
42826593--42826647	28	2.0	28	100	0	110	21	32	18	27	1.96
42833329--42833413	11	7.2	12	79	11	95	41	1	1	56	1.14
42833329--42833413	6	14.3	6	78	11	95	41	1	1	56	1.14
42833329--42833413	17	5.1	17	83	15	106	41	1	1	56	1.14
42833319--42833416	17	5.6	17	79	11	81	42	1	2	54	1.19
42834945--42835408	161	2.9	162	94	1	815	25	15	13	45	1.82
42835519--42835809	30	9.9	30	80	8	269	37	21	3	37	1.70
42835514--42835817	87	3.4	88	80	7	280	37	22	3	36	1.71
42847460--42848624	76	15.8	76	87	5	1422	33	16	18	31	1.93
42847470--42848624	303	3.9	302	85	6	1402	33	16	18	31	1.93
42848192--42848394	38	5.3	38	64	18	116	32	17	19	30	1.95
42848348--42848542	64	3.0	64	93	0	327	32	16	17	32	1.93
42848476--42848601	38	3.3	37	68	14	103	35	16	15	32	1.90
42848929--42849002	6	12.3	6	78	16	64	45	4	0	50	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42848919--42848991	17	4.6	16	80	11	78	39	4	0	56	1.19
42848919--42848999	11	7.1	11	73	12	56	43	3	0	53	1.18
42848931--42849000	17	4.3	17	75	10	65	45	4	0	50	1.21
42849705--42849736	9	3.6	9	95	0	55	59	6	0	34	1.23
42850532--42851031	161	3.1	162	92	1	808	25	15	13	45	1.82
42851105--42851478	30	12.6	30	81	5	302	38	21	2	37	1.69
42851100--42851467	60	6.2	59	78	8	334	38	20	3	37	1.69
42851100--42851426	90	3.6	90	83	4	401	38	21	3	37	1.69
42851461--42851597	58	2.3	58	88	1	202	30	35	1	32	1.67
42857806--42857835	1	30.0	1	100	0	60	0	0	0	100	0.00

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