genome.fa.s2.2.7.7.80.10.50.1000.13.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: CP032246.1 Gossypioides kirkii chromosome KI_03
Parameters: 2 7 7 80 10 50 1000
Length:  42061019

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   

This is table  13  of  135  ( 16151 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)
3556513--3556574	16	3.8	16	71	4	52	51	0	0	48	1.00
3556663--3556694	11	2.8	11	95	4	55	78	3	0	18	0.89
3558744--3558776	10	3.3	10	91	0	57	51	9	9	30	1.64
3564632--3565041	59	6.9	59	82	6	474	36	2	28	32	1.72
3564642--3565041	176	2.3	177	84	4	529	35	3	28	32	1.73
3564872--3565035	31	5.5	31	66	11	92	34	2	31	32	1.71
3564632--3565041	118	3.5	118	85	5	551	36	2	28	32	1.72
3564722--3565046	29	11.1	29	64	25	114	35	2	30	31	1.71
3566272--3566305	6	5.7	6	96	0	59	17	2	0	79	0.86
3570037--3570086	25	2.1	24	82	17	61	38	2	2	58	1.21
3575140--3575191	14	3.5	15	76	10	54	59	7	11	21	1.56
3575314--3575547	30	7.9	29	78	7	147	36	2	26	35	1.69
3575333--3575547	60	3.6	57	75	7	182	34	2	26	35	1.70
3575333--3575539	89	2.3	88	82	7	249	35	2	26	35	1.70
3576479--3576513	18	1.9	18	88	0	52	2	11	5	80	1.00
3576688--3576727	21	1.9	21	89	0	62	32	2	2	62	1.22
3577539--3577611	37	2.0	37	88	0	110	27	20	15	36	1.92
3577543--3578073	209	2.6	201	82	5	656	23	21	17	37	1.94
3579683--3579726	23	2.0	22	90	4	70	45	22	20	11	1.83
3585820--3586050	29	7.9	28	82	7	216	38	1	23	35	1.66
3585842--3586047	59	3.5	59	86	6	276	38	1	23	35	1.66
3587177--3587216	21	1.9	21	89	0	62	32	2	2	62	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3591101--3591165	27	2.4	27	92	0	103	15	15	13	55	1.70
3593758--3593816	29	2.0	29	81	12	68	49	5	6	38	1.52
3605853--3605896	16	2.6	17	78	7	63	34	0	0	65	0.93
3615377--3615416	2	20.0	2	100	0	80	50	0	0	50	1.00
3615612--3615659	22	2.2	22	100	0	96	27	22	22	27	1.99
3619865--3619970	55	2.0	53	89	7	162	33	14	3	48	1.61
3629525--3629561	2	18.5	2	100	0	74	48	0	0	51	1.00
3631742--3631803	22	2.8	23	82	7	74	8	6	17	67	1.37
3631798--3631839	21	1.9	23	85	9	61	9	7	16	66	1.42
3631833--3631928	12	7.9	12	73	15	72	9	6	16	67	1.38
3631827--3631875	24	2.0	24	96	0	89	10	8	14	67	1.42
3632056--3632106	26	1.9	26	84	11	68	27	0	5	66	1.14
3635261--3635285	4	6.2	4	100	0	50	76	0	0	24	0.80
3639005--3639031	14	1.9	14	100	0	54	48	0	0	51	1.00
3639625--3639706	34	2.4	34	78	13	80	59	8	0	31	1.27
3649146--3649212	28	2.4	28	78	9	82	65	2	0	31	1.07
3652163--3652223	32	1.9	32	100	0	122	37	13	11	37	1.80
3655287--3655337	3	17.0	3	100	0	102	66	0	33	0	0.92
3656705--3656806	28	3.7	27	79	10	102	23	14	25	36	1.93
3656761--3656846	28	3.1	28	85	8	104	19	16	22	41	1.90
3658866--3658909	14	2.8	16	80	16	56	52	0	0	47	1.00
3661661--3661729	33	2.1	33	100	0	138	49	11	14	24	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3664254--3664303	23	2.2	23	82	13	59	66	2	0	32	1.03
3667512--3667563	15	3.6	14	72	12	52	61	13	1	23	1.42
3667521--3667577	28	2.0	28	89	0	87	57	12	5	24	1.55
3667765--3667795	2	15.5	2	100	0	62	48	0	0	51	1.00
3669342--3669367	4	6.5	4	100	0	52	23	0	26	50	1.50
3669526--3669718	76	2.5	76	88	0	278	36	12	17	33	1.87
3683944--3683974	16	1.9	16	93	0	53	45	16	22	16	1.85
3686686--3686729	22	2.0	22	100	0	88	31	22	13	31	1.93
3687326--3687380	21	2.7	21	80	2	67	34	0	1	63	1.05
3687331--3687398	20	3.4	19	76	13	57	35	1	1	61	1.14
3694792--3694827	18	2.1	18	90	10	58	58	5	0	36	1.22
3705806--3705852	24	2.0	24	83	8	60	40	8	23	27	1.83
3713061--3713085	6	4.2	6	100	0	50	0	52	0	48	1.00
3714748--3714931	30	6.2	30	81	7	180	38	20	7	34	1.81
3714745--3714901	59	2.7	58	85	5	190	38	20	7	33	1.80
3714748--3714931	88	2.1	89	85	3	246	38	20	7	34	1.81
3714817--3714988	30	5.8	28	76	11	130	38	21	6	33	1.80
3714980--3715031	26	1.9	27	84	7	70	23	23	0	53	1.46
3715035--3715087	26	1.9	29	85	11	76	24	13	0	62	1.31
3716337--3716752	59	7.1	59	83	6	495	35	2	28	33	1.71
3717663--3717717	28	2.0	28	85	7	76	23	16	23	36	1.94
3718935--3719061	28	4.4	29	68	13	82	33	6	29	29	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3718935--3719460	59	9.0	59	83	5	552	34	3	28	33	1.75
3719560--3720067	162	3.1	163	87	2	704	43	12	17	26	1.83
3720725--3720794	6	11.8	6	71	19	58	52	1	1	44	1.18
3720763--3720794	11	2.9	11	95	0	55	59	0	0	40	0.97
3720725--3720788	17	3.6	17	78	6	65	53	1	1	43	1.19
3720740--3720794	17	3.2	17	76	5	58	52	1	0	45	1.11
3721064--3721297	40	5.6	44	69	26	145	33	15	17	33	1.91
3721056--3721229	91	1.9	91	96	0	321	31	16	17	34	1.93
3721195--3721398	38	5.4	38	68	15	152	32	16	15	34	1.91
3721147--3721501	76	4.7	76	89	4	542	32	18	14	34	1.92
3726349--3726382	14	2.3	15	90	5	52	2	23	2	70	1.15
3727758--3727801	22	2.0	22	95	0	79	13	29	22	34	1.93
3733665--3734036	59	6.4	59	84	6	456	36	2	27	33	1.72
3733665--3734036	117	3.2	116	87	6	484	36	2	27	33	1.72
3734138--3734629	162	3.0	161	88	3	688	43	13	16	26	1.85
3735361--3735398	13	2.9	13	92	0	58	42	0	2	55	1.14
3736198--3736241	17	2.6	17	92	0	70	56	2	0	40	1.11
3736603--3736684	6	12.8	6	75	16	76	52	0	4	42	1.23
3736604--3736674	20	3.7	20	94	5	121	52	0	5	42	1.25
3743837--3743936	46	2.2	45	78	10	105	59	4	2	35	1.28
3744505--3744537	15	2.1	16	88	5	50	45	30	6	18	1.73
3746042--3746072	15	2.1	15	93	0	53	70	0	0	29	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3750269--3750332	6	10.0	6	78	18	67	76	3	0	20	0.92
3750261--3750333	34	2.2	34	82	2	85	76	2	0	20	0.90
3760350--3760396	20	2.2	21	79	17	53	38	0	4	57	1.18
3761206--3761706	45	10.9	44	73	15	327	12	16	29	40	1.86
3761305--3761706	90	4.5	90	89	0	493	12	16	29	41	1.86
3761306--3761706	135	3.0	135	88	1	554	12	16	29	41	1.86
3761690--3761718	12	2.4	12	100	0	58	13	17	34	34	1.89
3762461--3762512	22	2.3	22	77	12	52	53	3	0	42	1.19
3764292--3764338	16	3.1	15	79	8	51	65	0	0	34	0.93
3765050--3765313	144	1.8	144	86	2	386	41	9	7	41	1.66
3766960--3767258	90	3.0	101	80	12	265	12	14	31	42	1.83
3767067--3767366	135	2.2	136	80	7	315	13	16	29	42	1.85
3767067--3767367	45	6.7	45	78	4	275	13	15	28	41	1.85
3767068--3767366	90	3.3	90	87	0	382	13	16	29	41	1.85
3767758--3767824	30	2.1	31	83	8	82	40	0	7	52	1.30
3770135--3770192	13	4.7	13	79	14	61	56	10	32	0	1.33
3770121--3770195	3	25.7	3	73	24	54	58	8	33	0	1.27
3770125--3770185	24	2.6	24	97	2	115	55	9	34	0	1.33
3770596--3770670	3	25.7	3	83	15	95	62	4	33	0	1.14
3770044--3770969	475	1.9	475	96	0	1721	44	13	18	23	1.85
3771004--3771049	24	2.0	23	86	4	65	2	19	8	69	1.25
3771818--3771923	6	17.2	6	78	14	101	47	0	3	49	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3771847--3771923	31	2.6	29	90	8	127	51	0	3	44	1.19
3771865--3771915	11	4.8	11	76	9	52	52	0	5	41	1.25
3771844--3771921	17	4.7	17	82	10	99	51	0	3	44	1.19
3771859--3771934	17	4.6	17	82	12	61	53	1	3	40	1.27
3774612--3774898	45	6.4	45	85	1	326	12	15	28	43	1.83
3779578--3779814	57	4.1	58	80	7	248	39	3	28	28	1.73
3779600--3779757	29	5.5	28	66	15	81	39	3	27	28	1.74
3779739--3780172	30	14.6	30	74	17	286	39	2	22	36	1.66
3779824--3780172	60	5.8	60	90	2	524	38	2	21	37	1.65
3781282--3781333	15	3.6	15	79	10	54	32	5	5	55	1.47

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