genome.fa.s1.2.7.7.80.10.50.1000.11.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: CP032244.1 Gossypioides kirkii chromosome KI_01
Parameters: 2 7 7 80 10 50 1000
Length:  38174113

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   

This is table  11  of  126  ( 15035 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)
3747548--3747627	41	2.0	41	87	0	115	63	11	3	21	1.42
3748283--3748328	24	2.0	23	86	4	65	65	0	2	32	1.05
3757186--3757383	29	6.8	28	71	17	138	36	3	30	30	1.73
3757186--3757674	59	8.3	58	79	8	340	38	2	26	31	1.71
3757184--3757472	29	9.9	30	71	14	124	38	4	27	29	1.75
3757186--3757688	30	17.1	29	72	13	264	37	2	27	32	1.71
3759486--3759560	17	4.4	17	87	0	114	54	1	0	44	1.08
3759506--3759562	11	5.1	11	85	8	71	57	1	0	40	1.09
3761759--3761796	2	19.0	2	100	0	76	50	0	0	50	1.00
3764435--3764501	6	12.0	6	72	20	56	41	2	1	53	1.25
3764435--3764490	17	3.3	17	76	16	53	39	3	1	55	1.28
3764419--3764498	28	2.9	29	81	9	96	38	2	2	56	1.26
3764445--3764501	11	5.1	11	76	18	55	43	3	1	50	1.29
3764464--3764501	16	2.3	17	90	4	60	47	2	0	50	1.15
3766045--3766413	162	2.3	162	88	3	530	24	19	15	40	1.90
3766442--3766653	29	7.2	30	77	14	201	33	33	2	30	1.72
3766448--3766653	59	3.5	57	89	5	279	33	33	2	31	1.71
3766455--3766687	118	2.0	117	84	6	310	32	32	3	30	1.76
3766455--3766687	59	3.9	57	87	7	274	32	32	3	30	1.76
3770134--3770181	25	1.9	25	86	0	69	62	0	4	33	1.14
3770210--3770259	26	1.9	26	87	0	73	56	4	6	34	1.43
3770606--3770655	25	2.0	25	84	4	64	32	2	4	62	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3790635--3790678	23	2.0	22	90	4	70	54	2	0	43	1.12
3795859--3795909	19	2.7	20	75	9	61	58	0	3	37	1.16
3797221--3797310	6	15.0	6	76	16	89	44	3	0	52	1.17
3797221--3797310	17	5.4	16	80	15	94	44	3	0	52	1.17
3797239--3797289	11	4.8	11	76	9	52	41	5	0	52	1.25
3797229--3797307	37	2.1	38	86	6	108	43	3	0	53	1.19
3797389--3797455	30	2.3	29	92	2	107	44	23	5	25	1.76
3799184--3799556	58	6.4	59	82	8	433	32	26	2	37	1.72
3799331--3799468	29	4.7	28	70	18	86	33	27	2	36	1.69
3799159--3799410	29	8.6	28	67	19	115	32	25	3	38	1.72
3799448--3799552	30	3.5	31	69	21	89	34	26	1	37	1.68
3799184--3799558	118	3.2	116	83	6	456	32	27	2	37	1.72
3799184--3799558	59	6.4	59	82	6	354	32	27	2	37	1.72
3811646--3811773	38	3.4	37	70	16	109	34	15	19	30	1.93
3811683--3811882	106	1.9	107	89	1	312	34	16	20	28	1.94
3811790--3812705	76	12.2	76	83	7	1024	34	16	18	30	1.93
3812019--3812174	31	4.6	32	70	21	113	37	17	21	24	1.94
3812042--3812281	38	6.6	36	67	23	119	34	17	18	30	1.94
3811941--3812249	106	2.9	106	94	0	519	34	17	20	27	1.95
3811638--3812553	258	3.6	257	76	11	934	33	16	18	30	1.94
3811681--3812777	364	2.9	368	84	7	1286	33	16	18	30	1.94
3812192--3812706	38	13.5	37	66	16	239	34	14	18	32	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3813073--3813162	6	15.0	6	74	16	80	43	3	0	53	1.17
3813073--3813162	17	5.4	16	78	15	85	43	3	0	53	1.17
3813081--3813159	37	2.1	38	83	6	99	41	3	0	54	1.18
3815050--3815358	59	5.3	58	83	3	370	33	26	2	36	1.70
3815050--3815358	117	2.6	119	85	2	401	33	26	2	36	1.70
3815045--3815335	30	9.8	29	68	20	131	32	27	2	36	1.70
3817052--3817088	19	2.0	19	89	5	58	45	0	8	45	1.32
3823013--3823053	14	2.6	16	81	14	50	12	0	24	63	1.28
3831345--3831434	31	2.8	32	77	15	82	64	5	6	23	1.39
3831509--3831851	29	11.7	29	71	17	171	34	4	25	35	1.76
3831511--3831787	58	4.7	58	85	7	310	34	3	25	36	1.75
3831540--3831867	30	11.2	30	68	18	140	35	4	25	35	1.76
3831536--3831867	116	2.8	114	81	8	314	34	4	25	35	1.77
3833658--3833746	17	5.2	17	81	0	97	52	4	4	38	1.42
3840095--3840360	89	3.0	89	91	1	410	28	12	16	42	1.85
3848616--3848648	15	2.2	16	89	10	52	12	9	24	54	1.66
3850251--3850301	23	2.3	23	82	3	59	31	5	1	60	1.31
3850416--3850474	22	2.6	23	84	13	77	27	3	13	55	1.54
3853069--3853102	17	1.9	18	88	5	52	50	0	0	50	1.00
3855778--3855825	15	3.3	15	70	5	53	18	0	10	70	1.15
3855771--3855840	29	2.4	28	88	6	104	25	0	10	64	1.25
3863904--3863932	3	9.7	3	100	0	58	31	0	0	68	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3865429--3865500	13	5.6	13	78	17	55	44	2	1	51	1.24
3865448--3865503	5	11.6	5	77	7	62	41	1	1	55	1.21
3865655--3865696	21	2.0	21	85	4	57	28	0	9	61	1.27
3866537--3866566	15	2.0	15	93	0	51	26	13	10	50	1.73
3870673--3870723	13	3.3	16	71	18	54	56	0	1	41	1.10
3870655--3870723	29	2.3	30	95	2	122	53	0	1	44	1.09
3871951--3871994	16	2.9	16	71	28	51	61	0	4	34	1.16
3889616--3889742	45	2.8	45	86	0	182	23	14	10	51	1.72
3891359--3891730	183	2.0	182	93	0	627	27	24	16	31	1.96
3899492--3899526	15	2.4	15	90	4	54	62	5	5	25	1.40
3899493--3899574	42	2.0	41	85	9	112	58	7	4	29	1.46
3912682--3912850	60	2.9	58	85	8	225	25	13	13	47	1.80
3915786--3915860	14	5.6	13	72	23	50	38	1	0	60	1.06
3915789--3915860	25	2.7	26	79	16	76	38	1	0	59	1.06
3916404--3916460	30	2.0	28	89	6	87	28	8	3	59	1.44
3924132--3924254	60	2.0	60	100	0	246	21	19	18	39	1.92
3930490--3930529	20	2.0	21	90	5	64	50	5	5	40	1.46
3935219--3935258	20	2.0	20	100	0	80	30	20	15	35	1.93
3941785--3941813	15	1.9	15	100	0	58	62	3	20	13	1.46
3942632--3942694	25	2.5	26	92	5	110	28	19	7	44	1.78
3952434--3952477	23	1.9	23	90	0	70	52	2	0	45	1.13
3954245--3954289	16	2.8	16	77	12	56	40	8	2	48	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3959600--3959795	99	2.0	99	97	0	374	16	7	25	50	1.71
3966152--3966185	17	2.1	17	88	5	52	47	2	0	50	1.16
3966254--3966318	27	2.6	25	75	17	62	41	3	1	53	1.25
3966810--3966873	23	2.7	23	80	2	65	45	18	26	9	1.80
3967270--3967323	18	2.9	18	81	13	56	50	5	0	44	1.25
3967464--3967520	29	1.9	29	82	10	71	63	1	0	35	1.05
3971064--3971088	2	12.5	2	100	0	50	0	48	0	52	1.00
3972816--3972843	3	9.3	3	100	0	56	67	0	32	0	0.91
3979945--3979969	12	2.1	12	100	0	50	0	24	40	36	1.55
3983195--3983271	34	2.2	35	86	9	104	53	5	1	40	1.32
3983197--3983270	35	2.2	34	83	11	98	52	5	1	40	1.33
3984795--3985199	137	3.0	136	79	8	455	49	17	12	21	1.79
3988804--3988851	21	2.3	19	77	19	51	33	27	0	39	1.57
3991767--3991950	91	2.0	91	100	0	368	32	10	8	47	1.69
4006463--4006528	24	2.7	26	73	17	70	48	1	0	50	1.10
4007584--4007610	13	2.1	13	100	0	54	29	22	29	18	1.97
4010843--4010867	7	3.6	7	100	0	50	68	0	0	32	0.90
4014414--4014452	20	2.1	18	90	9	60	51	5	0	43	1.24
4017626--4017660	18	1.9	18	88	11	54	20	5	5	68	1.31
4023644--4023768	44	2.8	44	79	7	128	28	20	24	27	1.99
4028502--4028535	18	1.9	18	88	5	52	55	2	2	38	1.30
4030198--4030361	75	2.2	74	80	3	175	33	15	14	36	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4032988--4033033	22	2.1	22	100	0	92	21	15	17	45	1.85
4032918--4033104	92	2.0	92	96	0	347	32	25	11	31	1.91
4036472--4036496	12	2.1	12	100	0	50	36	0	16	48	1.46
4041959--4042021	24	2.6	24	84	0	81	25	12	7	53	1.65
4043607--4043649	19	2.3	19	84	8	52	58	4	0	37	1.19
4048570--4048609	21	1.9	21	94	0	71	27	17	12	42	1.85
4048577--4048628	21	2.5	21	81	3	52	34	13	11	40	1.81
4049932--4049991	22	2.8	22	82	7	61	71	1	10	16	1.21
4050484--4050537	6	9.5	6	75	17	53	48	3	0	48	1.19
4052338--4052769	29	14.9	28	68	19	171	33	23	4	39	1.74

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