genome.fa.s7.2.7.7.80.10.50.1000.13.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: CP032251.1 Gossypioides kirkii chromosome KI_09
Parameters: 2 7 7 80 10 50 1000
Length:  38743931

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   

This is table  13  of  144  ( 17169 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)
3212287--3212341	24	2.2	25	81	15	69	40	1	0	58	1.09
3222639--3222739	23	4.3	24	83	5	118	11	21	21	44	1.84
3222640--3222789	69	2.1	67	85	11	196	12	22	20	45	1.84
3222650--3222786	23	6.0	23	76	11	129	13	21	20	43	1.86
3227168--3227205	20	1.9	19	85	15	51	23	0	26	50	1.50
3227197--3227299	27	3.2	33	74	19	101	19	8	33	38	1.82
3227236--3227302	27	2.5	27	97	0	125	22	13	29	34	1.92
3227325--3227409	34	2.5	33	80	3	89	22	4	29	43	1.73
3227335--3227403	33	2.1	34	83	2	86	23	5	30	40	1.78
3228782--3228808	2	13.5	2	100	0	54	51	0	0	48	1.00
3228983--3229026	12	3.6	12	81	6	52	29	0	0	70	0.88
3250144--3250213	34	2.0	34	97	2	131	67	15	0	17	1.24
3253575--3253602	2	14.0	2	100	0	56	0	50	0	50	1.00
3259996--3260033	6	6.3	6	93	0	67	2	68	13	15	1.32
3260411--3260445	8	4.4	8	100	0	70	54	0	0	45	0.99
3267341--3267444	51	2.0	52	98	1	201	56	7	3	31	1.45
3280746--3280891	72	2.0	72	98	0	283	40	0	21	37	1.54
3280991--3281029	6	6.5	6	87	0	51	46	0	30	23	1.53
3284440--3284526	20	4.3	20	76	11	97	33	25	19	21	1.97
3284436--3284526	40	2.3	40	86	7	123	32	26	19	20	1.97
3288540--3288573	13	2.6	13	80	0	50	35	5	17	41	1.74
3291241--3291277	3	11.7	3	88	11	56	0	32	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3291414--3291441	11	2.5	11	100	0	56	7	0	0	92	0.37
3295413--3295445	8	4.2	8	96	3	59	36	0	0	63	0.95
3297626--3297674	18	2.5	20	74	16	57	63	2	4	30	1.24
3297999--3298048	18	2.8	18	85	11	59	64	0	2	34	1.05
3299384--3299421	2	19.0	2	100	0	76	0	50	0	50	1.00
3303006--3303037	11	2.9	11	100	0	64	28	0	34	37	1.57
3307869--3307948	22	3.6	23	66	17	60	35	12	8	43	1.73
3307851--3307939	45	2.0	45	93	0	151	35	11	10	42	1.74
3310220--3310417	39	5.1	39	83	0	198	25	18	21	34	1.96
3311234--3311264	14	2.1	15	94	5	55	77	0	0	22	0.77
3317161--3317186	13	2.0	13	100	0	52	38	15	15	30	1.88
3324248--3324273	6	4.3	6	100	0	52	61	0	0	38	0.96
3333046--3333102	23	2.5	23	94	0	96	28	26	22	22	1.99
3339610--3339659	23	2.1	23	85	3	64	26	2	2	70	1.09
3343608--3343647	21	1.9	21	84	0	53	15	27	15	42	1.86
3346154--3346403	125	2.0	125	97	0	473	25	18	22	33	1.97
3353040--3353083	9	4.8	9	80	2	52	81	0	18	0	0.68
3353035--3353066	12	2.8	12	95	4	57	84	0	15	0	0.63
3353034--3353083	21	2.4	21	83	3	66	82	0	18	0	0.68
3353775--3353831	23	2.5	23	85	0	69	29	24	19	26	1.98
3363344--3363401	22	2.6	22	100	0	116	43	10	20	25	1.84
3368137--3368178	21	2.0	21	86	9	59	38	21	0	40	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3386691--3386721	7	4.3	7	92	8	53	61	0	0	38	0.96
3388108--3388242	31	4.4	31	83	1	146	37	1	20	40	1.62
3388132--3388180	24	2.1	23	88	3	71	38	0	16	44	1.48
3394207--3394240	12	2.8	12	86	0	50	17	20	0	61	1.34
3396190--3396274	23	3.7	22	83	9	107	48	11	3	36	1.57
3398616--3398649	15	2.3	15	89	0	50	35	14	8	41	1.77
3402766--3402827	6	11.0	6	75	19	62	41	0	3	54	1.16
3402768--3402827	17	3.6	17	88	2	95	40	0	3	56	1.16
3404551--3404758	29	7.1	28	80	8	202	36	25	2	35	1.70
3404550--3404752	58	3.5	58	82	7	225	35	25	2	35	1.70
3405030--3405212	97	1.9	97	90	2	296	28	19	15	36	1.93
3416803--3417103	39	7.7	39	76	7	227	23	26	21	28	1.99
3416802--3417767	78	12.2	78	73	9	474	25	27	18	27	1.98
3416842--3417183	117	2.9	115	76	7	278	24	28	20	27	1.99
3417227--3417306	39	2.1	39	83	4	99	25	26	18	30	1.98
3417301--3417334	17	2.0	17	94	0	59	29	26	5	38	1.80
3417314--3417390	39	2.0	40	81	2	93	27	25	14	32	1.94
3417319--3417692	117	3.2	117	80	0	426	26	28	17	27	1.98
3417367--3417731	117	3.1	114	77	9	344	25	29	18	26	1.98
3417406--3417767	39	9.3	39	69	8	162	25	29	17	26	1.98
3418196--3418238	17	2.6	17	88	3	70	39	0	2	58	1.11
3418862--3418888	14	1.9	14	100	0	54	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3419980--3420267	29	9.9	30	76	10	251	33	23	5	37	1.77
3419980--3420267	28	9.9	29	76	8	237	33	23	5	37	1.77
3419984--3420238	57	4.4	57	82	7	273	33	23	5	37	1.77
3420255--3420295	19	2.2	19	90	0	64	43	21	2	31	1.66
3420562--3420752	97	2.0	97	94	0	337	27	19	17	36	1.94
3422361--3422416	28	2.2	25	81	15	69	23	14	10	51	1.73
3422341--3422453	59	1.9	59	90	1	181	23	15	11	48	1.78
3422625--3422754	31	4.3	31	70	20	98	43	13	16	26	1.86
3422625--3422813	89	2.1	90	86	6	260	46	12	14	26	1.81
3424242--3424376	40	3.4	38	73	12	96	30	28	20	21	1.98
3424274--3424377	37	2.7	38	76	5	93	31	26	19	22	1.97
3427064--3427547	245	2.0	245	90	1	756	30	20	18	30	1.96
3435573--3435612	20	2.0	20	100	0	80	35	25	15	25	1.94
3439126--3439181	18	3.3	18	69	20	57	16	3	17	62	1.46
3448129--3448154	4	6.5	4	100	0	52	23	0	0	76	0.78
3448203--3448287	18	4.9	17	73	15	66	37	3	1	57	1.23
3448342--3448395	16	3.4	16	87	5	56	38	1	3	55	1.28
3448367--3448401	2	17.5	2	87	0	52	45	2	2	48	1.32
3448356--3448396	16	2.5	17	92	7	68	43	0	4	51	1.23
3453673--3453712	19	2.0	20	85	4	55	52	0	42	5	1.23
3461294--3461330	12	3.2	12	96	3	67	51	43	0	5	1.24
3461820--3461892	17	4.4	16	78	13	76	41	0	4	54	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3463809--3463953	29	4.9	30	71	13	97	32	20	4	43	1.70
3463806--3464029	58	3.8	59	79	7	222	32	22	3	41	1.70
3463840--3464033	30	6.6	29	75	9	144	32	23	2	40	1.68
3463985--3464152	59	2.9	58	76	7	169	34	26	3	35	1.74
3463994--3464144	59	2.6	59	81	3	171	34	25	3	35	1.75
3463984--3464166	58	3.1	59	76	7	178	34	25	4	34	1.78
3468657--3468691	5	6.8	5	93	6	61	80	0	20	0	0.72
3468657--3468691	16	2.3	15	95	5	61	80	0	20	0	0.72
3468656--3468698	11	4.0	11	84	6	61	76	0	23	0	0.78
3469372--3469423	6	8.3	6	78	16	52	78	0	19	1	0.84
3469380--3469424	13	3.6	12	83	16	56	80	0	17	2	0.82
3469353--3469424	19	3.8	18	77	13	72	79	0	16	4	0.89
3469353--3469424	25	2.7	27	75	18	71	79	0	16	4	0.89
3470367--3470468	49	2.1	48	83	7	125	35	18	29	16	1.93
3470461--3470611	50	3.0	50	75	12	175	29	19	30	19	1.97
3470457--3470653	99	2.0	99	88	0	295	32	18	29	18	1.95
3470629--3471448	49	16.8	49	72	7	623	37	19	25	18	1.94
3470629--3471448	98	8.4	98	87	2	1064	37	19	25	18	1.94
3471876--3471933	17	3.4	16	84	13	71	41	0	3	55	1.17
3471874--3471937	18	3.6	18	77	12	78	40	0	3	56	1.15
3473916--3474335	30	14.2	29	71	15	231	33	23	3	40	1.70
3473916--3474333	59	7.1	59	81	4	434	33	23	3	40	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3473916--3474292	119	3.2	117	82	9	478	32	23	2	40	1.69
3474242--3474396	59	2.7	58	83	5	195	35	25	4	34	1.77
3478735--3478800	33	2.0	33	91	5	107	16	3	19	60	1.48
3478734--3478794	18	3.6	18	68	20	58	18	3	18	60	1.49
3488680--3488721	18	2.3	19	83	4	59	9	14	0	76	1.02
3488680--3488721	19	2.3	18	84	11	59	9	14	0	76	1.02
3488680--3488772	20	4.7	20	71	17	61	10	12	3	73	1.22
3489692--3489720	11	2.5	12	94	5	51	79	0	3	17	0.87
3494745--3494810	33	2.0	33	91	5	107	60	19	3	16	1.48
3498808--3498864	21	2.9	21	79	7	57	24	1	1	71	1.04

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