genome.fa.s9.2.7.7.80.10.50.1000.8.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  8  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)
2938592--2938623	3	10.7	3	100	0	64	0	65	0	34	0.93
2940432--2940472	21	1.9	22	85	5	57	43	0	7	48	1.30
2940907--2940960	20	2.7	19	83	8	63	62	1	3	31	1.23
2946915--2946981	33	2.0	33	100	0	134	46	8	5	38	1.60
2947632--2947671	12	3.3	12	85	0	53	57	0	2	40	1.12
2953977--2954001	6	4.2	6	100	0	50	84	0	0	16	0.63
2970974--2971010	18	2.0	19	89	5	58	40	0	0	59	0.97
2982736--2982779	19	2.4	17	88	11	61	68	4	0	27	1.09
2982833--2982885	27	2.0	27	89	7	83	43	3	7	45	1.50
2982796--2982959	80	2.0	81	96	1	303	48	3	8	39	1.51
2985703--2985756	15	3.3	15	74	18	54	44	0	1	53	1.11
2985795--2985824	16	1.9	16	93	6	53	40	0	0	60	0.97
2990718--2990772	22	2.4	24	79	11	62	56	10	0	32	1.34
3010160--3010208	23	2.2	23	82	17	68	57	0	0	42	0.99
3011297--3011343	16	2.7	18	87	12	64	57	6	0	36	1.24
3018801--3018839	17	2.4	17	87	8	55	58	0	0	41	0.98
3042317--3042402	30	2.9	29	82	8	93	48	3	1	46	1.26
3043059--3043083	12	2.1	12	100	0	50	64	0	0	36	0.94
3046158--3046254	11	8.5	11	69	13	61	62	3	5	28	1.31
3046158--3046186	12	2.5	12	94	5	51	68	0	0	31	0.89
3046161--3046239	14	5.2	14	70	26	54	62	2	3	31	1.27
3050463--3050496	14	2.5	14	90	4	52	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3064718--3064785	29	2.3	29	97	0	127	26	11	14	47	1.79
3066211--3066242	15	2.2	15	94	5	57	37	3	0	59	1.13
3073931--3073972	21	2.0	21	82	17	52	30	0	2	66	1.04
3075680--3075741	31	2.0	31	93	0	106	46	8	8	37	1.63
3076430--3076454	5	5.0	5	100	0	50	60	0	0	40	0.97
3089256--3089283	2	14.0	2	100	0	56	50	0	0	50	1.00
3093206--3093268	20	3.3	18	78	6	63	60	4	1	33	1.27
3093213--3093269	19	2.9	19	79	7	62	57	3	1	36	1.26
3108885--3108911	6	4.5	6	100	0	54	14	18	51	14	1.76
3117977--3118020	20	2.2	20	84	8	54	22	11	4	61	1.48
3124118--3124142	6	4.2	6	100	0	50	0	16	0	84	0.63
3125613--3125650	5	7.6	5	96	0	67	2	0	60	36	1.11
3125786--3125821	6	6.0	6	96	0	63	33	36	16	13	1.89
3135099--3135143	22	2.0	22	83	8	56	42	4	0	53	1.21
3135875--3135920	22	2.0	24	83	8	60	50	2	2	45	1.26
3136354--3136413	23	2.7	23	78	14	65	35	0	1	63	1.05
3136343--3136427	27	3.2	29	72	26	80	38	0	1	60	1.05
3138041--3138270	113	2.0	113	89	5	349	42	7	18	31	1.78
3138513--3138583	29	2.4	29	83	9	81	49	14	12	23	1.77
3149875--3149931	30	1.9	30	82	7	71	45	1	1	50	1.22
3150950--3150983	14	2.2	16	90	10	54	55	2	0	41	1.15
3150953--3150983	16	1.9	16	93	0	53	54	3	0	41	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3158049--3158158	55	2.0	55	98	0	211	37	25	6	30	1.81
3166797--3166836	3	13.3	3	100	0	80	0	32	0	67	0.91
3171900--3171939	19	2.2	19	86	13	57	55	0	0	45	0.99
3172088--3172141	22	2.5	22	68	0	54	62	12	7	16	1.51
3181377--3181406	16	1.9	15	93	6	51	60	6	0	33	1.23
3181377--3181410	17	2.1	16	88	5	50	58	8	0	32	1.29
3181630--3181695	27	2.4	28	82	2	80	51	3	0	45	1.16
3182235--3182272	16	2.3	16	90	4	58	55	2	0	42	1.14
3200469--3200502	16	2.2	16	89	5	52	64	0	5	29	1.17
3203036--3203150	58	2.0	58	89	3	178	34	0	19	46	1.50
3204659--3204703	23	1.9	24	90	4	74	26	20	15	37	1.92
3205386--3205533	11	13.1	11	70	15	97	64	4	4	26	1.31
3205405--3205473	36	1.9	36	82	5	86	60	5	4	28	1.39
3205595--3205650	17	3.2	17	75	5	58	33	7	3	55	1.45
3207977--3208094	42	2.8	42	98	0	227	18	16	13	50	1.77
3217570--3217629	29	2.1	29	81	12	70	48	8	1	41	1.43
3217629--3217670	22	1.9	22	85	0	57	47	0	2	50	1.14
3219134--3219167	2	17.0	2	100	0	68	50	0	0	50	1.00
3228454--3228506	26	2.0	28	85	10	76	47	1	0	50	1.12
3230590--3230628	15	2.4	16	87	8	53	35	0	0	64	0.94
3230561--3230629	24	3.0	23	76	8	68	42	0	0	57	0.98
3230618--3230689	31	2.3	31	83	4	83	43	0	4	52	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3231898--3231964	26	2.6	26	92	0	116	43	23	25	7	1.80
3260357--3260391	12	2.9	12	91	0	52	40	0	51	8	1.33
3268652--3268718	30	2.2	30	84	5	82	47	5	0	46	1.27
3277853--3277888	18	2.0	18	94	0	63	38	30	5	25	1.78
3285679--3285732	24	2.2	24	80	3	63	33	5	9	51	1.57
3290863--3290897	6	5.8	6	100	0	70	31	34	17	17	1.93
3291423--3291466	22	2.0	22	100	0	88	50	27	9	13	1.72
3305785--3305823	20	2.0	20	85	10	53	20	5	38	35	1.75
3313687--3313739	22	2.4	23	74	25	60	35	0	5	58	1.22
3324372--3324398	6	4.5	6	100	0	54	48	0	33	18	1.49
3325508--3325556	22	2.2	22	85	7	64	57	0	0	42	0.99
3327257--3327302	16	2.8	17	81	15	60	78	0	2	19	0.86
3327256--3327295	20	1.9	22	85	10	57	80	0	2	17	0.83
3350286--3350319	16	2.1	16	94	0	59	55	8	0	35	1.31
3351998--3352028	2	15.0	2	93	6	53	48	0	3	48	1.17
3353923--3353977	23	2.5	22	85	11	69	41	3	5	49	1.43
3367890--3367921	6	5.3	6	92	0	55	31	15	3	50	1.60
3369774--3369824	11	4.9	10	78	21	52	33	0	0	66	0.92
3369784--3369839	23	2.5	23	80	5	62	41	0	0	58	0.98
3369791--3369839	21	2.2	23	82	7	57	40	0	0	59	0.98
3370771--3370837	20	3.2	21	80	6	82	5	5	16	71	1.26
3371416--3371444	10	2.9	10	100	0	58	0	0	17	82	0.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3371685--3371754	29	2.5	26	77	18	70	42	1	1	54	1.18
3371703--3371752	13	3.2	16	70	18	52	48	0	0	52	1.00
3371695--3371752	29	2.0	30	83	10	75	44	1	1	51	1.21
3372421--3372451	14	2.2	14	94	0	53	51	0	0	48	1.00
3372728--3372786	29	2.0	30	83	3	75	30	6	11	50	1.65
3374553--3374991	219	2.0	219	96	0	806	35	17	13	33	1.89
3384677--3384711	17	2.0	18	88	5	54	17	34	0	48	1.47
3386748--3386781	16	2.2	15	89	5	50	14	50	5	29	1.67
3389229--3389253	11	2.3	11	100	0	50	20	0	8	72	1.10
3398998--3399029	15	2.1	15	100	0	64	31	12	25	31	1.92
3430801--3430842	21	2.0	21	85	0	57	33	11	47	7	1.68
3430807--3430847	21	2.0	21	90	0	64	29	12	53	4	1.58
3431896--3431926	14	2.2	14	94	0	53	48	0	3	48	1.17
3431896--3431953	18	3.3	18	77	13	52	46	0	1	51	1.11
3431909--3431953	18	2.4	18	85	10	56	44	0	2	53	1.13
3432378--3432414	16	2.3	16	86	13	58	40	0	0	59	0.97
3444935--3444978	14	2.8	16	80	16	56	47	0	0	52	1.00
3445918--3446304	60	6.3	59	79	13	346	26	19	17	36	1.94
3445958--3446303	60	5.7	57	81	12	372	28	19	16	35	1.94
3445958--3446299	185	1.9	180	89	6	528	28	19	16	35	1.94
3447177--3447268	30	3.1	30	84	6	98	61	5	6	26	1.42
3455117--3455150	6	5.7	6	100	0	68	52	14	17	14	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3459138--3459199	21	2.9	22	70	4	63	41	6	3	48	1.45
3463448--3463485	3	12.7	3	100	0	76	34	0	0	65	0.93
3466784--3466834	19	2.6	20	76	17	54	21	7	7	62	1.48
3467958--3468033	35	2.2	34	81	9	82	68	13	6	11	1.38
3480002--3480026	2	12.5	2	100	0	50	52	0	0	48	1.00
3489133--3489198	30	2.2	30	86	2	98	43	0	6	50	1.27
3489597--3489640	21	2.2	20	81	14	56	63	2	6	27	1.31
3493188--3493235	2	24.0	2	100	0	96	50	0	50	0	1.00
3496399--3496434	3	12.0	3	100	0	72	33	0	0	66	0.92
3497518--3497554	2	18.5	2	100	0	74	51	0	0	48	1.00

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