genome.fa.s1.2.7.7.80.10.50.1000.42.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  42  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)
12456439--12456583	58	2.5	58	81	7	152	41	2	4	51	1.35
12456498--12456617	58	2.1	58	80	9	129	42	2	4	50	1.34
12456652--12456764	44	2.5	44	86	2	145	43	19	4	32	1.71
12456638--12456745	44	2.5	43	86	1	117	40	20	2	36	1.67
12456758--12456813	16	3.5	15	80	4	58	28	25	8	37	1.86
12465315--12465417	50	2.1	50	100	0	206	46	7	5	39	1.57
12468719--12468789	31	2.2	31	77	5	79	39	5	7	47	1.54
12471155--12471189	18	1.9	18	88	0	52	31	17	17	34	1.93
12476892--12476941	24	2.1	24	92	0	82	22	4	12	62	1.46
12477106--12477163	26	2.2	25	80	14	64	22	0	5	72	1.04
12483822--12483972	70	2.2	70	95	0	266	43	8	9	38	1.67
12485333--12485609	30	9.4	29	76	6	211	34	4	28	32	1.78
12485333--12485530	59	3.4	59	78	6	215	32	4	29	33	1.76
12485330--12485609	59	4.7	57	74	9	195	34	4	27	33	1.78
12487902--12488498	39	15.3	38	69	14	353	26	19	30	23	1.98
12487867--12488615	78	9.6	78	83	2	815	26	19	30	24	1.98
12488761--12488905	50	2.9	49	78	7	139	17	31	17	34	1.93
12497697--12497984	51	5.6	51	92	1	443	30	23	12	32	1.92
12502344--12502738	57	6.8	58	81	9	421	33	2	30	33	1.72
12502429--12502518	28	3.2	29	68	24	75	32	3	28	35	1.74
12502329--12502725	29	13.7	29	64	19	98	33	3	29	33	1.73
12502344--12502738	117	3.4	114	83	6	449	33	2	30	33	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12503476--12503544	33	2.0	33	83	10	86	23	23	1	52	1.56
12503543--12503574	16	2.0	16	93	0	55	40	18	21	18	1.91
12503840--12503877	19	2.0	20	84	5	51	44	10	0	44	1.38
12504534--12504565	14	2.2	15	94	5	57	25	6	18	50	1.70
12504562--12504637	17	4.6	17	79	7	77	50	3	0	46	1.20
12504574--12504648	35	2.1	35	85	4	98	52	5	0	42	1.24
12504866--12505381	198	2.6	201	92	2	871	19	23	22	34	1.96
12517437--12517523	29	3.0	29	72	23	83	35	1	29	33	1.65
12517420--12517546	58	2.2	59	81	7	152	35	1	26	36	1.66
12519167--12519198	14	2.2	15	94	5	57	25	6	18	50	1.70
12519205--12519254	17	2.9	17	84	0	64	54	4	0	42	1.19
12519334--12519379	14	3.1	15	71	22	51	60	8	0	30	1.26
12519332--12519381	16	3.2	16	73	21	61	60	8	0	32	1.26
12519840--12520031	96	2.0	96	82	6	237	37	12	19	30	1.89
12520248--12520309	29	2.1	30	79	8	74	24	6	30	38	1.80
12520448--12520584	28	4.8	27	75	9	98	36	2	22	37	1.70
12520448--12520639	57	3.3	57	79	6	147	35	4	23	36	1.74
12520429--12520637	29	7.2	28	71	9	116	34	4	22	37	1.74
12522579--12522637	31	1.9	30	86	3	82	47	5	0	47	1.24
12522613--12522651	17	2.3	17	86	0	60	56	2	0	41	1.13
12522757--12522849	47	2.0	47	82	4	116	33	8	9	48	1.67
12523993--12524077	43	2.0	43	86	4	118	31	9	9	49	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12524643--12524776	45	3.0	45	86	8	195	32	27	17	21	1.96
12524768--12524812	21	2.1	21	95	0	81	24	40	13	22	1.90
12528339--12528363	12	2.1	12	100	0	50	28	16	16	40	1.89
12529078--12529138	4	15.0	4	85	10	79	1	27	0	70	0.97
12529069--12529108	20	2.0	20	95	0	71	2	37	0	60	1.11
12529078--12529138	17	3.7	17	86	8	81	1	27	0	70	0.97
12529226--12529264	19	2.1	19	100	0	78	64	20	0	15	1.30
12530513--12530544	14	2.3	14	94	0	55	56	3	6	34	1.40
12542171--12542228	24	2.4	24	85	0	71	55	1	3	39	1.27
12548549--12548592	23	1.9	23	90	9	72	56	0	6	36	1.26
12551406--12551462	30	1.9	29	82	10	71	45	3	10	40	1.56
12553452--12553686	120	2.0	120	89	1	364	26	22	19	31	1.98
12556413--12556460	22	2.2	21	85	3	69	72	2	4	20	1.11
12556414--12556470	20	2.8	21	84	10	73	71	1	5	21	1.14
12557257--12557330	29	2.6	30	80	6	91	62	8	0	29	1.24
12559357--12559411	21	2.4	24	82	8	71	41	32	9	16	1.80
12566423--12566499	6	13.7	6	76	13	74	40	0	1	58	1.06
12566423--12566510	17	5.7	16	76	16	87	42	1	1	55	1.14
12566411--12566508	27	3.5	27	82	9	108	39	2	2	56	1.23
12566411--12566492	11	7.4	11	76	14	62	37	1	2	58	1.19
12568235--12568384	30	5.0	30	84	5	196	37	22	3	36	1.71
12568240--12568405	30	5.6	28	83	7	161	36	24	2	36	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12568393--12568487	29	3.2	30	70	24	94	31	29	4	34	1.77
12568359--12568487	58	2.2	56	82	11	154	34	27	3	34	1.73
12568397--12568487	28	3.1	29	69	25	84	31	28	4	35	1.77
12568388--12568529	58	2.4	58	80	9	155	28	30	8	32	1.87
12579480--12579720	30	8.0	30	92	0	383	35	24	4	35	1.76
12579729--12579823	29	3.2	29	71	18	90	32	27	4	35	1.76
12579480--12579771	90	3.3	87	84	7	345	34	26	4	35	1.75
12583685--12583743	29	1.9	31	86	10	86	32	3	1	62	1.21
12583684--12583761	29	2.6	31	78	13	83	35	3	1	58	1.24
12588339--12588374	18	2.0	18	100	0	72	50	16	5	27	1.68
12598338--12598379	19	2.2	20	91	4	68	59	9	2	28	1.41
12604292--12604357	31	2.2	30	81	8	71	34	3	4	57	1.34
12606038--12606077	21	2.0	20	85	5	53	35	2	0	62	1.09
12606801--12606874	31	2.6	29	83	12	98	27	4	1	67	1.16
12606885--12606935	19	2.6	19	87	9	68	41	1	1	54	1.22
12606801--12606937	9	14.4	9	69	16	64	35	2	1	60	1.21
12611264--12611368	29	3.6	29	82	11	108	28	1	9	60	1.39
12611598--12611673	29	2.7	27	80	9	91	51	7	14	26	1.69
12616440--12616477	12	3.2	12	85	10	51	26	15	23	34	1.95
12620577--12620789	103	2.1	102	90	0	327	27	14	21	36	1.92
12620918--12621090	88	2.0	88	88	0	256	30	17	21	30	1.96
12625094--12625131	12	3.2	12	85	10	51	26	15	23	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12629237--12629449	103	2.1	102	90	0	327	27	14	21	36	1.92
12634832--12634899	31	2.2	32	81	7	77	54	4	2	38	1.36
12638837--12639011	30	5.9	30	82	4	203	41	2	21	35	1.66
12638795--12638982	60	3.1	61	79	8	183	39	3	22	35	1.70
12638789--12639011	90	2.5	90	80	9	226	39	2	21	35	1.68
12638837--12639033	30	6.6	30	82	5	177	42	2	20	34	1.66
12640428--12640545	41	2.9	41	89	0	173	27	16	22	33	1.96
12640832--12641006	48	3.6	48	75	12	151	20	32	13	34	1.91
12642387--12642422	19	1.9	18	88	5	54	22	16	22	38	1.93
12646472--12646716	57	4.2	58	81	6	264	41	1	19	37	1.61
12646476--12646712	30	8.1	30	84	5	272	41	1	19	37	1.62
12646462--12646716	86	2.9	87	82	6	302	41	2	19	36	1.64
12646607--12646711	29	3.6	30	82	7	92	45	0	17	37	1.48
12650959--12651008	22	2.3	22	96	0	91	24	18	12	46	1.82
12651695--12651881	38	4.9	38	79	2	178	33	16	17	32	1.93
12651755--12651902	38	3.9	38	80	1	118	33	15	18	32	1.92
12652517--12652589	36	2.0	36	89	0	110	39	13	4	42	1.64
12657904--12657948	3	15.0	3	100	0	90	66	0	0	33	0.92
12658173--12658214	3	13.7	3	95	5	75	69	0	0	30	0.89
12658394--12658427	17	2.0	17	100	0	68	35	11	5	47	1.65
12662381--12662422	21	2.0	21	95	0	75	35	9	16	38	1.81
12662564--12662598	17	2.0	18	94	5	63	31	11	28	28	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12662563--12662601	17	2.3	16	87	12	60	33	12	25	28	1.93
12664294--12664339	3	15.0	3	95	4	83	0	32	0	67	0.91
12667915--12667994	42	1.9	41	82	12	101	25	33	20	21	1.97
12673895--12673952	24	2.5	24	82	2	64	39	15	15	29	1.88
12674379--12674453	26	2.9	25	80	5	78	45	5	0	49	1.25
12679515--12679552	16	2.3	17	86	4	51	76	2	0	21	0.91
12689584--12689684	34	3.0	34	88	4	134	37	14	8	38	1.78
12690597--12690696	30	3.2	30	75	19	91	48	3	1	48	1.23
12691106--12691144	18	2.2	18	90	0	60	53	5	10	30	1.56
12698404--12698518	57	2.0	57	91	0	185	25	26	11	36	1.90

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