genome.fa.s3.2.7.7.80.10.50.1000.102.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: CP032247.1 Gossypioides kirkii chromosome KI_05
Parameters: 2 7 7 80 10 50 1000
Length:  50980411

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   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   

This is table  102  of  171  ( 20472 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)
32861864--32861892	3	9.7	3	100	0	58	34	0	0	65	0.93
32862274--32862351	30	2.7	27	74	12	75	48	1	3	46	1.28
32862274--32862351	27	2.7	28	75	16	79	48	1	3	46	1.28
32863145--32863224	30	2.7	28	85	11	106	48	1	0	50	1.08
32863185--32863227	20	2.0	22	91	8	72	53	0	0	46	1.00
32863152--32863224	29	2.4	31	88	4	114	46	1	0	52	1.09
32863176--32863233	20	3.0	20	75	22	61	48	1	0	50	1.11
32869507--32869655	42	3.5	42	80	3	156	40	11	23	24	1.88
32892588--32892628	18	2.6	16	85	14	50	56	2	4	36	1.34
32893753--32893823	35	2.0	35	100	0	142	38	25	14	22	1.92
32899310--32899343	16	2.1	16	88	0	50	2	0	44	52	1.16
32899310--32899351	22	2.0	21	85	4	57	7	0	42	50	1.30
32906385--32906430	2	23.0	2	95	0	83	47	0	2	50	1.13
32909137--32909216	40	2.0	40	92	0	133	27	13	16	42	1.86
32913601--32913649	18	2.8	18	79	14	57	40	12	14	32	1.83
32914106--32914231	41	3.3	40	64	27	103	23	4	15	57	1.57
32914092--32914226	71	1.9	71	93	3	236	24	5	14	55	1.60
32914177--32914326	49	2.9	52	72	13	175	19	6	18	56	1.63
32914267--32914447	74	2.4	74	89	7	269	22	4	16	56	1.59
32916164--32916244	21	3.9	21	71	18	53	48	1	1	49	1.17
32916464--32916527	13	4.9	13	77	7	67	37	23	6	32	1.80
32919145--32919200	22	2.5	22	85	0	76	17	19	17	44	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32920076--32920132	26	2.2	26	93	0	96	24	0	49	26	1.51
32920705--32920784	37	2.2	37	88	0	115	38	12	1	47	1.49
32920717--32920788	37	1.9	37	94	0	126	34	13	1	50	1.51
32921466--32921509	21	2.1	20	83	8	52	54	13	9	22	1.67
32923246--32923283	15	2.4	16	86	8	51	73	10	15	0	1.09
32925753--32925888	24	5.7	24	83	0	146	36	21	23	19	1.95
32925751--32925889	72	1.9	72	85	0	188	35	20	23	19	1.95
32927477--32927624	40	3.7	40	83	3	190	27	26	18	28	1.98
32927457--32927628	80	2.1	81	89	2	256	26	25	18	29	1.98
32932752--32932776	8	3.1	8	100	0	50	48	0	0	52	1.00
32933260--32933297	17	2.0	20	85	14	55	47	10	7	34	1.67
32935471--32935639	86	2.0	84	97	1	239	49	6	4	39	1.50
32936252--32936280	9	3.2	9	100	0	58	41	0	0	58	0.98
32936392--32936432	15	2.5	17	80	11	59	63	0	2	34	1.08
32939336--32939367	16	2.1	16	94	5	57	15	0	37	46	1.46
32939329--32939452	47	2.6	47	87	1	167	27	3	25	44	1.69
32941477--32941531	27	2.0	27	100	0	110	10	14	34	40	1.81
32941732--32941782	22	2.4	22	93	6	88	7	21	0	70	1.12
32943958--32944128	23	7.5	23	84	7	172	11	22	22	43	1.84
32944047--32944115	21	3.2	20	80	15	66	13	23	27	36	1.92
32944838--32944942	49	2.1	49	78	3	113	26	20	30	22	1.98
32944964--32945017	26	2.1	26	89	0	81	18	27	33	20	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32945129--32945182	13	4.2	13	72	9	56	29	5	29	35	1.80
32945454--32945495	14	3.1	14	77	16	52	50	2	0	47	1.14
32947187--32947370	72	2.6	72	91	0	289	55	14	4	25	1.59
32948986--32949027	4	10.5	4	100	0	84	23	0	26	50	1.50
32955450--32955500	20	2.5	20	81	6	59	39	19	15	25	1.91
32957596--32957624	10	3.0	10	95	5	51	68	0	0	31	0.89
32962914--32963017	42	2.5	41	83	6	129	26	15	25	31	1.96
32962903--32963157	45	5.8	43	76	14	193	27	17	22	32	1.97
32962965--32963161	45	4.5	44	81	6	213	28	15	24	31	1.96
32963273--32963415	49	2.9	49	81	4	128	16	26	18	38	1.92
32963417--32963905	49	10.0	49	78	2	453	19	25	17	36	1.94
32963300--32963530	128	1.8	128	82	0	300	16	24	20	38	1.93
32963417--32963853	98	4.5	98	85	1	545	19	25	18	36	1.94
32963417--32963905	98	5.0	97	82	4	525	19	25	17	36	1.94
32963417--32963905	196	2.5	195	83	4	615	19	25	17	36	1.94
32963417--32963905	147	3.3	148	78	1	520	19	25	17	36	1.94
32969291--32969334	15	2.8	16	77	16	56	6	13	0	79	0.92
32969881--32969938	17	3.4	17	73	0	53	50	12	18	18	1.78
32976510--32976564	27	2.0	28	85	3	76	63	12	1	21	1.38
32978924--32979042	59	2.0	59	95	0	211	26	26	8	39	1.84
32979360--32979393	16	2.1	16	100	0	68	20	5	0	73	1.04
32980710--32980751	12	3.6	12	77	6	50	69	16	7	7	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32980754--32980819	23	3.0	22	80	4	87	65	16	7	10	1.46
32982691--32982754	20	3.3	19	70	10	58	59	6	3	31	1.38
32984086--32984176	29	3.1	30	82	10	107	31	10	9	47	1.72
32984102--32984187	29	3.0	29	80	10	95	29	11	11	47	1.75
32984829--32984864	2	18.0	2	100	0	72	50	0	0	50	1.00
32991286--32991356	2	36.5	2	94	5	128	47	0	0	52	1.00
32991260--32991357	12	9.5	10	82	14	71	45	1	0	53	1.07
32992276--32992327	26	1.9	28	84	7	72	40	0	3	55	1.18
32996536--32996575	2	20.0	2	100	0	80	50	0	50	0	1.00
32997076--32997138	20	3.1	21	77	8	60	55	0	3	41	1.16
32997169--32997229	21	2.9	21	77	2	68	34	1	16	47	1.56
33003288--33003317	14	2.2	14	94	5	53	36	10	23	30	1.87
33004821--33004851	14	2.1	15	94	5	55	0	16	0	83	0.64
33010306--33010355	21	2.2	24	89	10	79	46	16	4	34	1.65
33025741--33025800	24	2.5	24	91	0	102	25	16	25	33	1.96
33028250--33028287	16	2.2	18	86	9	53	42	0	0	57	0.98
33028751--33029098	23	15.2	23	87	0	455	46	12	6	33	1.68
33032274--33032412	36	3.9	36	91	0	215	34	22	13	29	1.92
33032493--33032800	23	13.3	23	85	1	393	45	13	7	33	1.72
33032497--33032802	46	6.6	46	88	1	443	45	14	7	32	1.72
33033572--33033704	70	1.9	67	86	4	185	42	12	12	32	1.80
33034688--33034731	23	1.9	23	82	17	56	22	0	29	47	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33035202--33035260	23	2.5	25	74	20	63	71	6	6	15	1.29
33044890--33044914	13	1.9	13	100	0	50	32	16	24	28	1.96
33047433--33047472	16	2.7	15	85	11	55	67	0	12	20	1.22
33048144--33048171	2	14.0	2	100	0	56	50	0	0	50	1.00
33051645--33051678	10	3.2	10	88	12	50	11	0	14	73	1.10
33053897--33053968	26	2.8	26	93	0	126	30	22	20	26	1.98
33057482--33057515	18	1.9	18	88	5	52	50	5	17	26	1.69
33081984--33082708	364	2.0	364	97	0	1378	35	13	24	26	1.93
33084145--33084178	12	2.8	12	86	0	50	0	47	0	52	1.00
33090116--33091471	452	3.0	452	99	0	2705	32	9	22	35	1.86
33093795--33093834	16	2.7	15	85	11	55	67	0	12	20	1.22
33097004--33097033	15	1.9	16	93	6	53	3	23	0	73	0.98
33097002--33097048	18	2.8	16	79	17	51	4	21	0	74	0.99
33097630--33097669	19	2.1	19	90	4	62	60	12	10	17	1.59
33113344--33113386	18	2.4	18	81	11	52	65	0	34	0	0.93
33136598--33136652	26	2.1	26	86	6	76	34	23	18	23	1.96
33167746--33167786	21	2.0	21	90	0	64	12	19	4	63	1.46
33178798--33178842	22	2.2	20	84	8	54	71	4	22	2	1.15
33178943--33178976	17	2.0	17	88	0	50	17	11	17	52	1.73
33184850--33184893	3	14.7	3	100	0	88	68	0	0	31	0.90
33186086--33186127	18	2.4	18	84	11	52	0	28	2	69	1.01
33189459--33189510	21	2.5	21	84	3	70	55	0	36	7	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33189439--33189486	15	3.2	14	77	11	51	58	2	37	2	1.22
33192115--33192161	24	2.0	24	84	12	62	25	10	12	51	1.72
33195244--33195290	24	2.0	24	100	0	94	29	6	8	55	1.55
33195653--33195694	12	3.5	12	75	12	50	33	2	9	54	1.46
33195645--33195693	24	2.0	24	100	0	98	32	4	8	55	1.48
33230826--33230856	8	3.9	8	95	0	53	61	12	0	25	1.32
33241373--33241405	16	2.0	17	88	5	50	45	0	0	54	0.99
33243113--33243174	32	1.9	32	83	6	81	54	6	6	32	1.51
33246696--33246735	20	2.1	19	90	4	62	42	42	0	15	1.46
33247165--33247204	20	2.1	19	90	4	62	42	42	0	15	1.46

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   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171