genome.fa.s12.2.7.7.80.10.50.1000.13.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: CP032245.1 Gossypioides kirkii chromosome KI_2_4
Parameters: 2 7 7 80 10 50 1000
Length:  41238926

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   

This is table  13  of  132  ( 15769 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)
3699039--3699359	30	10.7	30	89	3	470	38	24	3	33	1.72
3699096--3699585	60	8.3	57	82	8	261	35	26	4	33	1.76
3699372--3699584	29	7.2	30	64	16	97	31	28	4	35	1.78
3699374--3699584	58	3.6	59	88	3	320	31	27	4	35	1.78
3711438--3712058	69	9.0	69	88	1	919	33	16	20	29	1.94
3711438--3712058	137	4.5	137	91	1	915	33	16	20	29	1.94
3711438--3712058	206	3.0	206	93	0	1019	33	16	20	29	1.94
3712404--3712466	11	5.5	11	83	5	81	41	3	1	53	1.26
3712414--3712482	17	4.1	16	83	12	77	43	1	2	52	1.25
3712411--3712465	6	9.7	6	78	11	62	43	1	1	52	1.22
3712661--3712719	20	2.9	20	94	2	100	20	44	16	18	1.87
3713229--3713270	15	2.7	16	81	7	50	59	4	0	35	1.19
3714440--3714700	30	8.7	30	90	2	393	38	25	4	31	1.75
3714557--3714610	15	3.3	19	62	37	52	38	27	3	29	1.74
3714678--3714906	59	3.9	57	78	10	214	31	28	4	34	1.78
3714713--3714866	29	5.2	29	67	14	100	31	28	4	35	1.77
3718711--3718751	21	1.9	22	85	5	57	24	2	7	65	1.30
3719101--3719134	17	2.1	16	88	5	50	32	0	0	67	0.91
3726596--3726638	21	2.0	22	86	13	63	62	0	6	30	1.21
3728572--3728641	34	2.1	34	100	0	140	67	5	17	10	1.39
3728572--3728666	34	2.8	33	87	7	104	65	7	15	11	1.46
3730136--3730166	2	15.5	2	100	0	62	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3732932--3732981	22	2.2	23	85	7	66	48	2	2	48	1.24
3740195--3740232	13	3.0	13	80	7	51	36	0	15	47	1.46
3740576--3740619	12	3.8	11	83	16	54	34	0	2	63	1.07
3740566--3740643	17	4.1	18	69	23	52	34	0	2	62	1.09
3756271--3756306	18	2.0	18	88	0	54	61	5	5	27	1.41
3757718--3757759	14	3.0	14	79	10	50	30	11	7	50	1.66
3757891--3757919	14	2.0	15	93	6	51	44	0	6	48	1.29
3760042--3760103	30	2.1	30	82	11	74	38	6	4	50	1.50
3768291--3768425	72	1.9	72	92	0	225	31	24	16	27	1.96
3771636--3772059	207	2.0	208	95	0	760	34	17	14	33	1.90
3773113--3773162	22	2.3	22	86	3	75	50	2	0	48	1.12
3773113--3773161	21	2.3	22	86	10	66	48	2	0	48	1.12
3777041--3777080	2	21.5	2	85	14	59	50	0	0	50	1.00
3781162--3781196	1	35.0	1	100	0	70	0	0	100	0	0.00
3789666--3789724	30	2.0	31	90	6	95	52	0	1	45	1.10
3789709--3789755	21	2.3	21	85	10	62	63	0	2	34	1.06
3789709--3789773	20	3.1	21	73	18	55	58	0	1	40	1.07
3791011--3791101	17	5.1	17	69	18	69	36	0	1	62	1.02
3791032--3791120	39	2.3	39	80	7	101	35	0	1	62	1.02
3795118--3795186	34	2.1	34	84	10	90	62	11	14	11	1.55
3798896--3798935	21	1.9	21	94	0	71	47	22	0	30	1.52
3805473--3805897	81	5.2	81	86	2	566	29	15	18	36	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3808287--3808328	22	1.9	22	85	0	57	42	2	9	45	1.49
3817570--3817595	2	13.0	2	100	0	52	50	0	50	0	1.00
3827181--3827214	15	2.2	15	89	5	50	61	2	0	35	1.11
3827931--3827965	16	2.2	16	89	0	52	60	11	0	28	1.32
3829262--3829294	2	16.5	2	93	0	57	51	3	0	45	1.16
3829294--3829345	2	26.0	2	100	0	104	50	0	50	0	1.00
3838843--3838899	25	2.3	25	84	0	69	22	43	8	24	1.81
3839387--3839419	13	2.6	13	90	4	50	63	0	0	36	0.95
3844203--3844245	22	2.0	22	81	9	52	51	4	0	44	1.22
3844212--3844257	22	2.2	23	85	14	64	47	0	0	52	1.00
3846571--3846610	20	1.9	22	85	10	57	50	7	10	32	1.64
3867857--3867890	16	2.1	16	88	0	50	26	20	14	38	1.91
3884939--3884986	22	2.3	20	78	7	51	25	8	12	54	1.65
3887708--3887778	27	2.6	26	75	14	72	22	2	2	71	1.12
3887810--3887852	19	2.3	19	88	4	61	46	0	11	41	1.40
3887844--3887885	21	2.0	21	90	0	66	38	4	0	57	1.20
3896722--3896976	126	2.0	126	93	0	438	34	22	20	23	1.97
3909761--3909798	20	1.9	20	88	0	58	42	0	0	57	0.98
3909882--3909942	18	3.7	17	74	22	51	55	0	0	44	0.99
3909834--3909950	31	3.6	31	73	18	98	52	0	0	46	1.12
3909917--3909973	22	2.6	22	78	8	64	56	0	1	42	1.10
3911564--3911610	21	2.2	21	88	0	67	44	25	0	29	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3911557--3911612	14	4.0	14	83	0	67	44	25	0	30	1.54
3911564--3911612	7	7.0	7	83	0	53	42	24	0	32	1.55
3911572--3911649	14	5.7	14	74	6	52	43	29	3	23	1.71
3911681--3911710	13	2.3	13	94	0	51	33	3	20	43	1.68
3917981--3918067	23	3.7	23	78	4	86	39	13	12	34	1.83
3918104--3918140	4	9.2	4	100	0	74	51	24	0	24	1.49
3923078--3923217	59	2.4	57	82	7	156	32	2	30	33	1.73
3923193--3923393	30	6.7	30	89	1	305	35	1	23	39	1.66
3923165--3923393	89	2.6	89	87	1	305	34	1	24	38	1.66
3924450--3924482	3	11.0	3	93	0	57	36	0	0	63	0.95
3925143--3925222	17	4.7	16	79	11	79	52	1	3	42	1.27
3925144--3925222	6	13.7	6	75	14	69	51	1	3	43	1.27
3925151--3925225	11	6.7	11	76	13	73	50	1	4	44	1.29
3925515--3925884	68	5.4	68	93	0	623	28	19	17	34	1.94
3925555--3925877	37	9.4	36	65	15	182	28	19	16	35	1.94
3930114--3930149	18	2.0	18	100	0	72	22	27	16	33	1.95
3937892--3938030	58	2.4	58	81	10	160	32	4	30	32	1.77
3938006--3938079	19	4.3	19	73	25	83	29	2	27	40	1.70
3938025--3938137	30	3.8	30	96	0	208	32	2	24	39	1.69
3939207--3939242	3	12.0	3	93	0	63	36	0	0	63	0.94
3939905--3939981	17	4.6	16	75	16	66	50	1	3	44	1.28
3939906--3939978	6	12.7	6	73	15	57	52	1	4	42	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3939905--3939981	11	6.8	11	76	10	75	50	1	3	44	1.28
3945252--3945296	14	2.9	15	87	9	56	28	0	2	68	1.01
3945245--3945300	17	3.6	16	80	11	62	30	0	1	67	1.01
3948511--3948575	28	2.3	29	92	7	116	36	30	9	23	1.86
3952187--3952214	7	4.0	7	100	0	56	0	14	0	85	0.59
3952886--3952959	31	2.4	31	82	11	89	37	6	2	52	1.42
3953432--3953487	19	2.8	20	81	2	51	42	1	7	48	1.41
3956901--3956994	37	2.5	37	80	0	116	39	19	12	28	1.88
3959143--3959181	21	1.9	21	89	5	62	46	2	0	51	1.14
3959143--3959181	20	1.9	21	89	5	62	46	2	0	51	1.14
3964513--3964543	9	3.3	9	91	8	53	22	0	29	48	1.51
3966532--3966574	12	3.4	12	81	12	59	41	9	6	41	1.64
3966534--3966574	14	3.1	14	79	13	59	41	9	7	41	1.66
3967109--3967165	27	2.1	27	86	0	78	31	19	36	12	1.89
3967335--3967371	12	3.0	12	92	4	56	62	0	37	0	0.96
3970667--3970713	21	2.2	21	92	0	76	25	17	36	21	1.94
3972948--3973214	93	2.9	94	88	2	398	47	12	2	37	1.57
3973178--3973220	21	2.1	21	86	4	61	58	9	2	30	1.42
3973580--3973633	13	4.2	12	82	13	56	0	25	0	74	0.83
3973579--3973629	17	3.0	18	86	8	63	0	27	0	72	0.85
3975078--3975138	32	1.9	31	86	3	86	39	0	0	60	0.97
3978001--3978094	6	15.8	6	75	14	79	47	1	2	48	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3977991--3978072	31	2.8	30	82	14	100	42	1	3	52	1.26
3978010--3978094	25	3.5	23	79	9	80	49	1	2	47	1.22
3978005--3978069	17	4.1	16	73	15	64	43	1	3	52	1.26
3978002--3978094	42	2.2	42	81	7	109	48	1	2	48	1.20
3978178--3978214	13	2.7	15	80	20	53	37	27	16	18	1.92
3979933--3980165	30	7.8	30	90	0	340	39	22	2	36	1.66
3980183--3980334	30	5.1	30	66	15	100	31	26	4	37	1.77
3980174--3980341	59	2.8	59	84	1	230	30	28	5	35	1.80
3980175--3980361	59	3.2	59	73	8	166	29	28	6	35	1.83
3992221--3992685	38	12.6	38	76	13	452	33	18	20	27	1.96

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