genome.fa.s2.2.7.7.80.10.50.1000.129.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  129  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)
39296370--39296415	18	2.8	17	84	15	62	45	0	0	54	0.99
39297525--39297570	15	3.1	15	70	17	51	23	8	13	54	1.66
39297697--39297727	14	2.2	14	94	0	53	48	0	0	51	1.00
39300313--39300388	24	3.2	24	61	17	59	35	5	27	31	1.79
39300297--39300390	47	2.0	47	100	0	188	34	6	25	34	1.81
39303079--39303180	53	2.0	50	82	5	123	45	0	0	53	1.06
39312848--39312909	31	2.0	31	87	0	88	45	9	11	33	1.73
39313068--39313108	9	4.4	9	81	6	55	65	4	0	29	1.13
39313067--39313108	19	2.2	19	86	0	57	66	4	0	28	1.12
39314544--39314586	22	2.0	22	86	9	61	69	0	0	30	0.88
39314541--39314602	31	2.2	29	81	16	76	69	0	0	30	0.89
39317774--39317803	8	3.6	8	95	4	51	76	0	0	23	0.78
39319397--39319422	13	2.0	13	100	0	52	46	7	0	46	1.31
39324933--39324983	26	2.0	26	84	0	66	41	15	5	37	1.72
39325932--39325973	22	2.0	22	85	4	59	80	4	11	2	0.95
39334099--39334434	168	2.0	168	94	0	591	27	18	11	42	1.85
39336056--39336136	36	2.3	35	80	4	90	60	11	14	13	1.59
39341065--39341103	18	2.2	18	86	9	53	25	0	2	71	0.98
39344167--39344215	25	2.0	24	84	7	64	38	2	4	55	1.31
39346826--39346882	29	1.9	30	82	10	73	40	19	3	36	1.69
39352304--39352340	18	2.2	18	90	9	60	51	8	0	40	1.32
39354441--39354488	3	15.7	3	95	4	87	31	2	0	66	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39354785--39354851	31	2.3	27	78	14	71	49	11	2	35	1.55
39355522--39355546	10	2.5	10	100	0	50	60	0	0	40	0.97
39362854--39362891	20	1.9	20	94	0	67	39	21	0	39	1.53
39363905--39363992	28	3.1	28	80	11	74	28	4	2	64	1.25
39363894--39363966	9	8.0	9	74	18	53	30	2	2	64	1.21
39363933--39363966	17	1.9	18	88	5	52	29	2	0	67	1.05
39364310--39364616	97	3.2	93	86	6	429	39	4	14	42	1.66
39364524--39364586	28	2.2	28	88	5	92	38	1	7	52	1.40
39370572--39370606	15	2.3	15	90	0	52	42	2	5	48	1.41
39390997--39391034	16	2.3	16	95	4	67	44	10	5	39	1.61
39402414--39402581	78	2.2	76	81	4	194	30	17	24	27	1.97
39402427--39402591	75	2.2	76	81	5	181	32	16	23	26	1.96
39403450--39403694	123	2.0	123	96	0	454	35	13	27	23	1.92
39404798--39405159	126	2.9	126	95	0	638	22	17	16	43	1.87
39409843--39409867	4	6.2	4	100	0	50	76	0	0	24	0.80
39412650--39412687	3	12.7	3	100	0	76	65	0	0	34	0.93
39420314--39420399	33	2.7	31	76	15	86	55	4	0	39	1.20
39427818--39427857	21	1.9	21	89	0	62	12	35	7	45	1.70
39427828--39427856	15	1.9	15	100	0	58	13	34	6	44	1.71
39428813--39428937	63	2.0	63	93	0	214	22	36	7	34	1.82
39430807--39430840	14	2.3	15	90	5	52	29	0	2	67	1.05
39440002--39440036	17	2.1	17	100	0	70	34	25	22	17	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39440077--39440129	25	2.1	25	85	0	70	24	9	11	54	1.65
39440087--39440137	25	2.1	25	85	3	68	21	7	13	56	1.62
39441209--39441266	30	1.9	30	92	0	98	27	20	8	43	1.81
39441663--39441711	24	2.0	24	100	0	98	30	8	16	44	1.76
39443231--39443320	47	1.9	47	93	4	155	47	10	7	34	1.66
39452075--39452102	10	2.8	10	100	0	56	10	21	0	67	1.20
39460450--39460671	92	2.4	94	87	3	315	52	16	5	25	1.66
39461385--39461423	3	13.0	3	100	0	78	33	0	0	66	0.92
39461599--39461628	7	4.3	7	100	0	60	43	0	0	56	0.99
39462943--39463022	31	2.6	30	78	9	74	42	15	6	36	1.72
39463232--39463293	31	2.0	31	84	3	81	41	6	9	41	1.63
39468303--39468327	13	1.9	13	100	0	50	32	16	16	36	1.90
39470334--39470424	43	2.1	43	83	4	112	38	20	15	25	1.92
39470890--39470915	2	13.0	2	100	0	52	50	0	0	50	1.00
39470946--39470977	2	16.0	2	100	0	64	50	0	0	50	1.00
39471079--39471109	2	15.5	2	100	0	62	51	0	0	48	1.00
39471917--39472016	38	2.5	40	73	11	107	22	18	29	31	1.97
39471919--39472021	37	2.7	38	78	6	100	22	18	27	32	1.97
39477686--39477721	16	2.2	17	95	5	65	50	0	0	50	1.00
39477694--39477729	16	2.3	16	90	4	56	58	0	0	41	0.98
39477765--39477822	27	2.1	29	90	6	93	22	32	0	44	1.53
39477757--39477831	29	2.5	32	77	20	97	24	32	0	44	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39478548--39478603	29	2.0	28	86	13	80	48	0	0	51	1.00
39490255--39490397	53	2.7	53	91	4	216	43	9	3	43	1.54
39491393--39491467	38	2.0	38	100	0	150	48	14	8	29	1.72
39496305--39496358	15	3.9	14	80	14	58	25	29	16	27	1.97
39497047--39497079	15	2.2	15	100	0	66	51	6	18	24	1.68
39497259--39497317	29	2.0	29	100	0	118	16	22	23	37	1.94
39497887--39497920	17	1.9	18	88	5	52	76	2	0	20	0.92
39500249--39500291	18	2.5	17	76	3	50	34	0	2	62	1.08
39503952--39503989	15	2.5	16	79	12	53	44	15	31	7	1.75
39504011--39504051	21	2.0	21	85	0	55	34	21	29	14	1.93
39504286--39504376	30	3.1	30	72	1	76	21	30	16	30	1.96
39511959--39512004	19	2.4	20	82	10	60	41	0	26	32	1.56
39511971--39512008	19	2.0	19	100	0	76	36	0	26	36	1.57
39518185--39518224	11	3.9	10	87	12	55	57	2	2	37	1.26
39518702--39518756	27	2.0	28	82	7	67	43	5	1	49	1.36
39554190--39554223	2	17.5	2	87	6	52	50	0	0	50	1.00
39554574--39554599	13	2.0	13	100	0	52	46	0	0	53	1.00
39554576--39554645	20	3.7	19	75	9	72	40	1	1	57	1.17
39556637--39556714	31	2.6	30	78	11	88	53	7	14	24	1.66
39562730--39562754	12	2.1	12	100	0	50	24	16	24	36	1.94
39570289--39570335	24	1.9	25	82	4	60	59	6	6	27	1.46
39571368--39571414	20	2.4	20	85	3	60	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39571361--39571468	50	2.2	48	81	6	119	62	1	0	35	1.13
39571733--39571781	20	2.4	21	75	3	55	28	4	2	65	1.22
39571744--39571785	21	2.2	19	87	12	59	23	2	2	71	1.10
39571775--39571825	19	2.7	18	82	11	57	37	1	1	58	1.20
39571765--39571844	29	2.8	29	73	16	69	33	2	2	61	1.23
39582754--39582814	30	2.1	29	81	6	70	49	8	8	34	1.62
39587304--39587329	12	2.2	12	100	0	52	19	34	15	30	1.93
39587589--39587656	31	2.2	31	81	5	84	33	2	13	50	1.56
39590218--39590261	19	2.3	20	85	14	58	59	6	0	34	1.24
39591479--39591518	21	1.9	21	100	0	80	47	5	0	47	1.24
39595172--39595210	13	3.0	13	85	10	53	30	0	5	64	1.15
39595178--39595232	18	2.8	20	84	13	71	29	3	7	60	1.41
39595738--39595771	18	1.9	18	88	5	52	50	0	0	50	1.00
39598400--39598507	38	3.0	36	77	16	109	50	0	1	48	1.11
39600168--39600205	12	3.2	12	85	11	51	26	5	0	68	1.11
39600168--39600201	11	3.0	11	91	4	50	29	2	0	67	1.05
39603579--39603684	45	2.4	45	91	3	169	29	15	19	35	1.92
39607369--39607521	79	1.9	82	81	6	188	49	1	4	44	1.34
39609608--39609658	7	7.3	7	83	16	70	27	0	27	45	1.54
39613832--39613923	31	3.0	31	75	9	89	41	5	13	40	1.67
39615984--39616020	18	2.2	17	90	9	58	32	2	0	64	1.07
39616381--39616421	20	2.0	20	90	0	64	48	9	14	26	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39616298--39616519	103	2.1	105	91	4	358	36	12	16	34	1.86
39627383--39627862	210	2.3	211	83	6	636	41	22	11	25	1.87
39629551--39629649	29	3.2	29	74	7	90	47	6	11	35	1.64
39633349--39633407	26	2.3	27	80	14	70	47	27	3	22	1.67
39633543--39633587	22	2.0	22	100	0	90	55	17	17	8	1.67
39635030--39635122	38	2.3	38	85	10	116	51	5	2	40	1.37
39635042--39635122	38	2.1	40	90	4	130	54	6	1	38	1.33
39648595--39649638	213	4.9	213	90	3	1539	34	17	14	33	1.91
39648595--39649638	419	2.4	421	89	4	1533	34	17	14	33	1.91
39670968--39671007	19	2.1	19	95	0	71	27	0	35	37	1.57

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