genome.fa.s7.2.7.7.80.10.50.1000.14.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  14  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)
3504425--3504475	24	2.1	24	92	0	84	58	9	9	21	1.58
3509972--3510422	224	2.0	224	99	0	893	27	15	19	36	1.93
3510750--3510779	7	4.3	7	95	0	51	76	10	13	0	1.01
3517470--3517518	16	3.1	16	77	8	55	69	4	2	24	1.17
3518708--3518885	30	6.0	30	75	12	145	41	20	3	34	1.69
3518704--3518886	60	3.1	60	82	7	187	39	22	3	33	1.71
3527754--3527887	50	2.7	50	76	0	133	38	20	23	18	1.94
3527935--3528228	40	7.4	39	76	7	279	32	24	16	26	1.96
3527935--3528229	119	2.5	120	86	1	423	32	24	16	26	1.96
3529365--3529393	2	14.5	2	100	0	58	51	0	0	48	1.00
3530009--3530198	30	6.3	30	78	5	179	38	22	3	34	1.72
3555310--3555548	98	2.4	98	99	0	469	37	10	15	35	1.82
3560789--3560839	27	2.0	25	81	14	59	41	3	3	50	1.39
3562292--3562330	15	2.7	15	84	4	53	0	15	7	76	0.99
3568374--3568429	29	1.9	29	89	7	87	33	17	17	30	1.94
3568384--3568441	29	2.0	29	83	3	73	39	17	12	31	1.86
3574624--3574682	11	4.9	12	76	13	50	52	1	0	45	1.10
3577072--3577308	23	10.5	23	75	13	163	40	21	26	11	1.87
3577176--3577308	71	1.9	69	87	6	196	38	21	27	12	1.90
3577890--3580015	429	5.0	429	99	0	4180	35	19	8	36	1.83
3581291--3581520	127	1.8	126	84	7	313	36	10	11	41	1.75
3581952--3582001	26	1.9	26	84	15	68	44	2	34	20	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3582991--3583026	19	1.9	19	88	5	56	25	13	8	52	1.68
3592187--3592218	3	10.7	3	100	0	64	34	31	34	0	1.58
3592365--3592438	23	2.7	30	66	27	81	45	16	6	31	1.73
3602370--3602425	23	2.4	23	87	0	76	23	23	25	28	1.99
3604205--3604242	5	7.8	5	94	5	69	84	0	0	15	0.63
3604180--3604242	14	4.2	14	79	15	72	77	3	1	17	0.97
3605479--3605523	23	2.0	23	90	0	72	22	11	28	37	1.88
3605942--3607241	649	2.0	650	95	0	2327	37	11	11	39	1.78
3617904--3618257	176	2.0	176	99	0	699	31	16	21	30	1.95
3619047--3619333	30	9.7	29	75	9	170	33	5	25	35	1.78
3619028--3619333	59	5.2	58	79	7	262	34	5	24	35	1.78
3619110--3619333	30	7.6	29	78	6	218	33	4	25	36	1.77
3619072--3619329	118	2.2	119	81	5	319	34	5	25	35	1.78
3619112--3619366	30	8.6	29	74	11	182	34	4	23	37	1.75
3621159--3621219	27	2.3	27	85	5	79	50	3	1	44	1.28
3621182--3621235	27	2.0	27	85	7	74	55	7	0	37	1.28
3621575--3622072	206	2.4	206	90	0	764	21	22	19	36	1.95
3622140--3622234	39	2.4	39	100	0	190	26	28	27	17	1.98
3622387--3622616	93	2.5	92	96	0	415	32	20	15	31	1.94
3622650--3623023	50	7.4	51	72	7	262	12	26	22	38	1.90
3622621--3623044	101	4.2	101	87	0	571	12	25	21	40	1.88
3623532--3623737	106	1.9	106	89	0	313	40	9	25	24	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3624268--3624318	8	6.4	8	75	8	50	1	11	3	82	0.89
3641946--3642563	208	3.0	208	87	1	862	38	17	21	22	1.94
3642501--3642574	37	2.0	37	83	0	94	41	21	13	22	1.88
3642377--3642697	160	2.0	161	83	6	402	40	18	18	22	1.92
3642551--3642809	125	2.1	123	82	8	312	42	17	19	20	1.89
3642660--3643449	210	3.8	209	86	3	1041	36	17	22	23	1.95
3643160--3643328	86	2.0	85	83	3	214	34	15	24	24	1.94
3642606--3643449	420	2.0	420	86	2	1160	36	17	22	23	1.94
3644614--3644662	24	2.0	26	88	8	75	65	10	6	18	1.43
3645487--3645832	59	5.8	57	76	9	309	34	27	2	35	1.72
3645508--3645832	30	10.9	30	80	5	313	34	27	2	36	1.70
3647925--3648015	29	3.2	28	75	16	87	31	6	24	37	1.81
3647894--3648015	29	4.3	29	75	14	83	31	9	25	33	1.87
3647971--3648133	59	2.8	59	83	1	211	36	5	21	36	1.77
3647937--3648161	29	7.7	28	69	10	119	35	5	24	35	1.79
3647963--3648231	118	2.3	119	81	9	311	35	6	22	35	1.80
3648029--3648192	30	5.6	30	70	13	81	35	5	23	35	1.78
3649902--3649944	14	3.1	14	80	3	52	18	11	18	51	1.76
3649946--3650016	17	4.2	17	77	0	79	52	4	4	39	1.41
3649956--3650022	34	2.0	34	90	0	107	55	7	4	32	1.48
3650455--3650625	78	2.2	78	82	0	216	25	21	29	23	1.99
3650566--3650829	78	3.4	77	84	6	259	28	21	27	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3650566--3650809	39	6.3	39	72	14	189	28	22	26	22	1.99
3650488--3650748	117	2.2	117	84	1	353	28	22	26	22	1.99
3650605--3650831	78	2.9	78	88	1	321	27	21	27	23	1.99
3650893--3651087	101	1.9	101	88	0	291	30	17	16	34	1.93
3651173--3651650	48	9.8	49	78	8	359	14	26	21	37	1.92
3651173--3651648	49	9.8	48	78	8	329	14	26	21	37	1.92
3651180--3651551	194	1.9	194	81	6	457	14	26	21	37	1.92
3651408--3651606	99	2.0	99	93	0	335	12	27	22	38	1.89
3651300--3651599	147	2.1	143	85	3	402	12	27	22	38	1.89
3653535--3653561	13	2.1	13	100	0	54	14	0	0	85	0.61
3657975--3658224	29	8.5	29	73	15	160	34	5	24	36	1.78
3657956--3658225	59	4.6	58	79	9	244	33	5	24	36	1.80
3658000--3658257	59	4.4	58	81	5	205	34	4	24	36	1.76
3660116--3660165	17	2.9	17	75	0	55	56	8	4	32	1.47
3664053--3664103	23	2.3	21	81	15	59	50	0	3	45	1.20
3665283--3665317	18	1.9	18	94	0	61	42	14	14	28	1.84
3665489--3665571	44	1.9	43	85	11	116	50	13	2	33	1.54
3667092--3667196	28	3.7	28	77	15	99	37	3	27	31	1.75
3667092--3667404	30	10.6	27	76	13	144	34	4	25	35	1.76
3667089--3667226	58	2.3	60	87	3	192	36	5	26	31	1.78
3667143--3667404	30	8.8	29	81	8	262	33	3	25	36	1.74
3667092--3667404	60	5.3	60	84	4	354	34	4	25	35	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3667130--3667404	119	2.3	118	83	5	358	34	4	25	36	1.75
3669431--3671027	49	32.6	49	75	10	1311	17	25	19	38	1.93
3669403--3671027	98	16.6	97	82	6	1484	17	25	19	38	1.93
3669487--3671027	196	7.9	197	85	3	1848	17	25	19	38	1.93
3670997--3671571	49	11.7	48	68	13	283	20	30	16	32	1.95
3671038--3671566	99	5.4	99	76	8	488	19	30	17	32	1.95
3671017--3671467	148	3.0	147	88	0	650	19	30	17	32	1.95
3671045--3671577	247	2.2	247	81	5	623	19	30	16	32	1.95
3672475--3672525	14	3.8	13	75	17	50	1	9	7	80	0.98
3672461--3672553	33	2.8	33	79	8	91	2	17	5	75	1.09
3672483--3672538	27	2.0	28	89	3	87	0	12	8	78	0.96
3673372--3673402	15	2.0	16	93	6	55	0	16	0	83	0.64
3676170--3676363	23	8.3	23	80	8	180	42	21	24	11	1.86
3676170--3676363	69	2.8	68	81	10	205	42	21	24	11	1.86
3680367--3680653	30	9.8	29	74	12	155	36	3	25	34	1.73
3680340--3680542	58	3.5	58	85	2	273	36	2	27	33	1.70
3680343--3680677	29	11.4	29	74	11	222	35	3	25	35	1.74
3680487--3680677	59	3.2	60	80	6	228	35	5	23	36	1.77
3682343--3682410	17	4.0	17	78	0	73	57	2	2	36	1.29
3683589--3683630	20	2.1	20	100	0	84	14	9	9	66	1.44
3684804--3684861	30	2.0	30	86	3	82	39	5	15	39	1.70
3684864--3684966	29	3.6	29	82	5	120	28	4	33	33	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3684849--3685058	58	3.6	59	77	5	153	32	4	27	35	1.78
3684897--3685090	29	6.6	29	73	5	131	35	5	24	34	1.78
3685092--3685188	30	3.3	29	75	11	90	37	5	20	37	1.75
3684971--3685146	88	2.0	89	80	7	198	37	5	21	35	1.77
3687284--3688075	208	3.8	209	88	1	1077	22	23	18	35	1.95
3687911--3688198	123	2.3	123	86	0	396	22	21	19	36	1.95
3688014--3688238	123	1.8	123	84	1	308	23	21	16	38	1.93
3688857--3689266	50	8.5	50	75	10	345	17	33	16	32	1.93
3688741--3689158	188	2.2	188	90	0	676	18	32	16	32	1.94
3688905--3689181	138	2.0	138	83	3	351	17	33	17	32	1.93

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