genome.fa.s8.2.7.7.80.10.50.1000.11.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  11  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)
3232926--3232963	18	2.1	18	85	9	51	71	2	0	26	1.00
3234115--3234152	20	1.9	19	89	5	58	42	0	7	50	1.31
3244821--3244855	12	2.9	12	95	0	61	8	42	25	22	1.82
3249106--3249140	16	2.2	16	90	5	54	42	8	8	40	1.66
3250492--3250552	30	2.0	30	96	0	113	27	21	13	37	1.90
3258752--3258890	53	2.6	56	82	17	174	56	5	10	27	1.56
3258763--3258890	55	2.4	53	86	13	158	56	5	10	28	1.55
3270275--3270307	2	16.5	2	100	0	66	51	0	0	48	1.00
3272775--3272812	19	2.0	20	89	5	60	47	23	5	23	1.72
3274655--3274703	24	2.0	24	100	0	98	20	28	16	34	1.94
3274797--3274849	27	1.9	28	88	3	81	35	3	3	56	1.35
3277587--3277611	13	1.9	13	100	0	50	32	40	8	20	1.81
3278248--3278444	101	2.0	101	95	0	358	29	16	12	41	1.85
3278634--3278773	43	3.3	43	82	7	178	32	24	13	30	1.93
3280879--3280903	2	12.5	2	100	0	50	48	0	0	52	1.00
3281704--3281752	25	2.0	25	84	4	64	48	2	6	42	1.39
3281822--3281855	17	2.0	17	88	0	50	55	0	5	38	1.24
3282008--3282032	3	8.3	3	100	0	50	32	0	0	68	0.90
3284310--3284351	20	2.1	20	95	0	75	28	7	16	47	1.73
3288071--3288103	16	2.1	16	94	0	57	54	3	18	24	1.57
3288518--3288550	18	1.9	17	88	11	50	54	3	18	24	1.57
3289091--3289382	52	5.6	52	90	0	440	27	14	21	36	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3289091--3289382	156	1.9	156	91	0	485	27	14	21	36	1.92
3289298--3289379	26	3.2	26	60	13	60	21	14	28	35	1.93
3293492--3293540	23	2.1	23	85	7	64	75	4	8	12	1.16
3294356--3294398	19	2.3	19	84	8	52	58	4	0	37	1.19
3294420--3294451	5	6.8	5	86	13	50	84	0	0	15	0.63
3294986--3295203	103	2.1	103	81	4	249	26	24	12	36	1.91
3295851--3295905	4	13.8	4	81	14	69	78	0	3	18	0.90
3295849--3295910	21	3.0	21	74	6	65	79	0	3	17	0.87
3298743--3298782	21	1.9	21	84	0	53	25	20	15	40	1.90
3300332--3300380	23	2.1	23	88	3	71	73	4	8	14	1.21
3300360--3300389	15	1.9	16	93	6	53	63	3	20	13	1.43
3301197--3301239	19	2.3	19	84	8	52	58	4	0	37	1.19
3304410--3304434	10	2.5	10	100	0	50	32	0	0	68	0.90
3314299--3314785	59	8.3	60	87	5	635	36	3	27	32	1.75
3314304--3314639	29	11.5	29	70	23	133	35	3	27	33	1.74
3315852--3315889	15	2.5	15	91	0	58	28	7	2	60	1.38
3315856--3315911	24	2.3	24	87	6	78	32	7	5	55	1.50
3316573--3316650	6	13.0	6	76	10	79	51	1	1	46	1.17
3316586--3316659	17	4.6	16	81	11	89	58	1	1	39	1.15
3316585--3316644	31	1.9	31	93	0	102	55	1	1	41	1.20
3316623--3316678	28	2.0	27	82	3	67	55	5	1	37	1.33
3319190--3319242	15	3.5	14	76	16	52	62	1	1	33	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3320372--3320403	3	10.7	3	100	0	64	65	0	0	34	0.93
3320652--3320686	18	2.0	18	88	5	54	20	14	25	40	1.90
3323076--3323124	17	2.8	16	82	14	53	26	6	2	65	1.27
3323439--3323478	3	13.3	3	100	0	80	65	0	0	35	0.93
3323477--3323519	3	14.7	3	90	4	70	37	0	27	34	1.57
3323480--3323520	20	2.0	20	95	0	73	39	0	26	34	1.57
3323474--3323522	9	5.6	9	90	4	64	40	0	24	34	1.55
3336804--3336967	58	2.8	58	78	12	142	40	4	25	29	1.76
3336862--3337076	29	7.3	28	70	17	118	40	2	25	30	1.70
3336862--3337058	87	2.2	89	82	7	242	40	3	25	31	1.71
3336898--3337100	30	6.9	29	71	11	110	39	1	25	33	1.67
3336897--3337088	89	2.2	87	85	5	253	41	2	23	32	1.66
3338110--3338152	3	14.0	3	85	4	59	34	2	0	62	1.08
3338534--3338590	25	2.3	25	87	0	78	22	10	47	19	1.80
3339287--3339325	17	2.3	17	100	0	78	35	20	25	17	1.95
3339304--3339939	201	3.1	201	86	3	846	23	24	18	33	1.97
3339991--3340218	39	5.8	39	81	3	208	25	21	30	23	1.99
3339990--3340218	78	2.9	81	81	9	274	24	20	31	23	1.98
3340476--3340687	48	4.3	49	83	4	257	13	26	22	37	1.91
3340488--3340687	98	2.0	98	89	0	301	12	26	23	37	1.90
3340488--3340780	98	3.0	98	82	4	295	13	25	22	37	1.91
3341715--3341780	22	3.1	21	80	16	66	0	18	6	75	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3347191--3347341	58	2.6	58	82	5	198	44	3	22	29	1.71
3347233--3347325	29	3.2	30	74	10	84	48	4	19	27	1.67
3347315--3347569	29	8.8	28	71	13	162	41	3	25	29	1.73
3347263--3347476	87	2.5	86	82	4	254	43	3	22	30	1.71
3347349--3347569	57	3.8	57	85	4	250	42	3	23	30	1.71
3348129--3348226	6	16.5	6	68	14	60	47	6	3	42	1.43
3348129--3348162	17	2.0	17	100	0	68	47	5	0	47	1.26
3349523--3349571	25	1.9	26	87	4	73	48	2	0	48	1.12
3349511--3349585	37	2.0	37	94	0	132	50	1	0	48	1.09
3349513--3349574	6	10.2	6	77	10	63	50	1	0	48	1.10
3360101--3360164	29	2.2	29	72	2	67	28	9	12	50	1.71
3360256--3360280	13	1.9	13	100	0	50	40	16	4	40	1.67
3362947--3363013	34	2.0	34	91	5	109	32	23	13	29	1.93
3369558--3369611	25	2.2	25	100	0	108	48	24	0	27	1.52
3378764--3378793	15	2.0	15	93	0	51	6	30	13	50	1.67
3383827--3383872	21	2.2	21	84	0	56	32	19	4	43	1.71
3384733--3385253	201	2.6	200	89	0	772	24	28	17	29	1.97
3387661--3387740	26	3.1	25	83	5	88	30	8	25	36	1.86
3389075--3389116	22	1.9	22	85	0	57	26	26	19	28	1.98
3392951--3392997	23	2.0	23	87	0	67	40	12	0	46	1.42
3401242--3401286	17	2.5	17	89	7	63	42	2	0	55	1.12
3401230--3401292	11	5.9	11	72	20	53	41	1	1	55	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3401241--3401297	6	9.5	6	77	7	62	42	1	0	56	1.10
3401231--3401313	30	2.8	29	85	3	94	40	1	4	53	1.30
3402088--3402135	18	2.9	17	84	9	55	50	2	0	47	1.12
3403038--3403290	29	8.7	29	69	12	153	34	30	0	34	1.64
3403021--3403433	58	7.1	58	83	7	464	32	30	1	35	1.69
3403032--3403433	59	6.9	59	83	6	466	33	29	1	34	1.68
3403021--3403408	29	13.3	28	67	18	152	32	30	1	34	1.67
3415582--3416188	201	3.0	201	89	0	883	37	20	22	19	1.94
3416589--3416645	6	9.5	6	74	14	55	42	3	0	54	1.17
3416579--3416645	30	2.3	29	84	2	80	41	2	1	53	1.25
3417437--3417484	18	2.9	17	84	9	55	50	2	0	47	1.12
3419523--3419676	43	3.5	43	84	6	184	27	16	26	28	1.97
3427531--3427593	27	2.3	28	81	13	78	50	1	0	47	1.10
3430342--3430410	22	3.0	23	80	8	77	30	8	5	55	1.54
3430345--3430417	24	3.1	23	82	7	85	27	8	6	57	1.53
3435255--3435326	29	2.5	28	82	8	81	58	2	1	37	1.21
3435286--3435325	19	2.2	18	90	4	62	62	0	0	37	0.95
3436390--3436461	18	4.0	18	77	13	60	66	0	4	29	1.10
3440175--3440362	52	3.6	52	87	1	252	36	20	13	29	1.91
3441824--3442090	29	9.1	29	74	15	192	35	4	27	32	1.76
3441770--3442091	59	5.5	57	78	7	290	35	5	27	32	1.80
3441824--3442144	118	2.7	118	82	5	391	36	4	25	33	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3441925--3442179	88	2.9	88	75	12	220	37	2	25	34	1.70
3441831--3442149	59	5.4	58	77	9	226	37	4	25	33	1.75
3441832--3442195	30	12.3	30	71	16	158	36	3	25	33	1.74
3442101--3442217	60	2.0	60	84	0	153	36	3	24	35	1.73
3443837--3443971	12	11.6	12	75	9	100	55	2	1	40	1.24
3443837--3443999	40	4.2	38	76	15	129	55	4	1	39	1.28
3443837--3443998	17	9.4	17	76	7	121	54	4	1	39	1.28
3443920--3443964	23	2.0	23	90	0	72	57	0	2	40	1.11
3443875--3444004	29	4.5	29	77	6	113	57	4	0	36	1.25
3444302--3444915	209	2.9	209	92	0	996	22	23	18	35	1.95

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