genome.fa.s2.2.7.7.80.10.50.1000.22.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  22  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)
6087110--6087175	23	2.9	23	93	0	114	46	15	27	10	1.78
6091939--6091966	2	14.0	2	100	0	56	50	0	0	50	1.00
6098390--6098424	19	1.9	18	88	11	54	65	0	28	5	1.15
6110409--6110436	14	2.0	14	100	0	56	21	21	50	7	1.72
6111932--6111971	3	13.3	3	100	0	80	67	0	0	32	0.91
6117427--6117471	23	1.9	23	86	4	63	31	17	13	37	1.89
6122409--6122548	70	2.0	70	97	0	262	25	19	13	42	1.87
6128009--6128051	21	2.0	22	95	4	79	74	13	2	9	1.16
6128596--6128629	14	2.3	15	90	10	52	61	8	0	29	1.26
6128596--6128630	15	2.2	16	90	5	54	62	8	0	28	1.24
6133438--6133489	26	2.0	27	81	11	63	42	11	11	34	1.77
6134262--6134295	15	2.2	16	89	5	52	64	0	2	32	1.08
6136300--6136347	25	2.0	23	84	15	62	35	6	2	56	1.36
6139443--6139469	11	2.5	11	100	0	54	74	11	7	7	1.23
6142744--6142787	20	2.3	19	80	4	52	43	4	2	50	1.35
6143970--6144043	30	2.3	33	82	17	95	62	6	5	25	1.42
6144504--6144529	11	2.4	11	100	0	52	38	15	7	38	1.76
6145378--6145465	42	2.1	42	85	8	117	50	18	0	31	1.47
6146016--6146044	5	5.8	5	100	0	58	20	20	17	41	1.90
6155821--6155894	30	2.3	33	82	17	95	62	6	5	25	1.42
6159792--6159821	6	4.8	6	92	8	51	33	0	0	66	0.92
6159922--6160013	39	2.3	39	85	7	114	39	2	6	52	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6160071--6160117	16	3.1	15	77	14	51	59	4	2	34	1.29
6163090--6163194	52	2.0	52	96	0	192	37	13	7	41	1.73
6170396--6170574	90	2.0	91	93	1	306	43	11	15	30	1.82
6170693--6170758	28	2.3	29	84	7	91	34	1	1	62	1.14
6171873--6171906	18	1.9	18	94	5	61	52	0	5	41	1.25
6172059--6172124	31	2.2	29	81	10	71	33	9	13	43	1.76
6172058--6172125	29	2.3	30	80	10	77	32	8	13	45	1.74
6174444--6174495	27	2.0	27	84	3	70	61	1	7	28	1.34
6175378--6175587	105	2.0	105	93	1	359	42	9	10	38	1.71
6182189--6182265	39	2.0	39	84	5	102	40	9	23	27	1.84
6188704--6188747	16	2.5	17	85	14	63	31	29	13	25	1.94
6192044--6192108	31	2.1	31	82	2	78	38	7	12	41	1.71
6193482--6193565	19	4.4	19	73	15	66	42	4	1	51	1.30
6193482--6193572	9	9.7	9	68	17	51	40	5	1	52	1.32
6207654--6207701	25	1.9	25	91	0	78	41	10	12	35	1.77
6215237--6215286	24	2.1	24	100	0	100	34	20	8	38	1.82
6215821--6215853	15	2.2	15	94	0	57	15	6	33	45	1.70
6221740--6221789	12	4.0	13	80	19	54	72	0	0	28	0.86
6222884--6222934	11	4.6	11	90	0	84	21	25	33	19	1.97
6222961--6222994	15	2.3	15	94	0	59	14	5	35	44	1.70
6235519--6235562	19	2.3	19	88	7	63	47	2	0	50	1.13
6237523--6237579	16	3.2	17	73	22	55	68	5	0	26	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6237513--6237584	36	2.1	34	89	10	110	69	4	0	26	1.06
6237511--6237581	18	3.9	18	72	20	58	67	4	0	28	1.09
6242056--6242314	137	1.9	137	90	2	412	45	6	6	41	1.57
6242972--6243061	17	5.3	17	87	0	117	42	1	3	53	1.24
6242987--6243040	11	4.8	11	84	8	65	40	0	1	57	1.09
6244904--6245220	29	10.8	28	77	10	210	36	26	3	32	1.75
6244904--6245220	59	5.4	58	75	10	218	36	26	3	32	1.75
6244910--6245089	89	2.0	89	85	6	240	37	27	2	32	1.69
6244904--6245220	30	10.8	28	74	10	151	36	26	3	32	1.75
6256929--6257863	78	12.0	78	81	2	903	23	30	20	25	1.99
6256938--6257858	39	23.7	39	68	9	403	23	30	20	25	1.98
6258276--6258399	17	7.3	17	86	0	158	41	0	4	54	1.25
6258276--6258399	34	3.6	34	90	0	185	41	0	4	54	1.25
6258291--6258378	11	7.8	11	73	12	63	39	0	3	56	1.16
6258291--6258399	6	19.2	6	70	14	79	41	0	2	55	1.21
6260226--6260421	30	6.7	29	75	9	116	37	23	3	35	1.73
6260274--6260389	59	1.9	61	80	3	137	40	25	1	31	1.66
6260343--6260473	29	4.4	29	80	5	122	35	25	5	34	1.79
6260457--6260552	29	3.2	29	79	5	86	38	20	2	38	1.65
6260459--6260553	30	3.2	29	79	5	86	38	20	2	38	1.64
6260500--6260563	30	2.1	30	82	0	74	37	17	1	43	1.58
6265267--6265353	20	4.4	18	74	16	75	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6265276--6265329	28	2.0	27	92	3	90	55	0	0	44	0.99
6265271--6265358	40	2.3	37	92	7	142	53	0	0	46	1.00
6271070--6271111	21	1.9	23	90	9	70	50	0	0	50	1.00
6273566--6273606	17	2.3	19	80	20	52	43	4	0	51	1.23
6273853--6273878	5	5.2	5	100	0	52	80	0	0	19	0.71
6273884--6273921	15	2.6	15	87	4	51	65	0	2	31	1.06
6273994--6274032	16	2.4	16	82	4	51	51	7	2	38	1.44
6274436--6274520	42	2.0	42	97	0	161	23	22	18	35	1.96
6278538--6278584	24	1.9	25	82	4	60	46	0	4	48	1.21
6283627--6283698	33	2.2	33	82	5	83	44	18	2	34	1.64
6298531--6298566	17	2.1	17	89	0	54	19	11	30	38	1.86
6298536--6298574	17	2.3	17	86	0	51	15	15	25	43	1.86
6299458--6299505	22	2.2	22	84	0	60	68	8	12	10	1.39
6302366--6302395	7	4.4	7	91	8	53	13	0	0	86	0.57
6302366--6302395	13	2.2	13	94	5	51	13	0	0	86	0.57
6304494--6304729	30	7.9	30	89	2	332	33	2	27	36	1.70
6305718--6305763	3	15.0	3	95	4	83	32	2	0	65	1.05
6306543--6306642	6	16.8	6	74	13	82	50	1	2	47	1.19
6306569--6306647	17	4.9	16	81	10	90	56	2	1	39	1.21
6306568--6306647	31	2.5	32	85	4	108	56	2	1	40	1.21
6306606--6306660	27	2.0	27	89	0	83	54	5	0	40	1.23
6306997--6307491	68	7.1	68	88	4	720	28	20	16	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6306956--6307491	145	3.8	142	88	4	734	29	19	16	34	1.94
6319369--6319626	29	8.8	28	76	13	87	36	1	25	36	1.67
6319215--6319412	59	3.4	59	72	8	188	38	4	28	28	1.77
6319388--6319628	30	8.1	30	85	5	296	35	2	24	38	1.67
6319397--6319628	59	3.9	58	85	3	304	36	2	23	37	1.67
6320635--6320671	3	12.0	3	94	5	65	32	2	0	64	1.07
6321451--6321550	6	16.8	6	74	13	82	50	1	2	47	1.19
6321477--6321555	17	4.9	16	81	10	90	56	2	1	39	1.21
6321476--6321555	31	2.5	32	85	4	108	56	2	1	40	1.21
6321514--6321568	27	2.0	27	89	0	83	54	5	0	40	1.23
6322230--6322298	29	2.3	29	80	14	70	36	4	8	50	1.53
6322416--6322502	43	2.0	42	88	2	129	49	3	6	40	1.46
6328612--6328737	66	1.9	66	93	0	216	36	11	24	27	1.89
6334479--6334542	30	2.1	30	82	0	74	59	1	1	37	1.16
6336851--6336899	19	2.6	19	83	6	55	69	6	8	16	1.33
6338156--6338206	21	2.4	21	83	0	66	25	3	15	54	1.58
6339650--6339976	164	2.0	164	96	1	604	40	6	12	40	1.67
6341793--6341826	2	17.0	2	100	0	68	50	0	0	50	1.00
6342630--6342703	30	2.5	30	78	6	80	44	9	4	41	1.55
6346857--6346885	14	2.0	15	93	6	51	62	0	13	24	1.32
6354410--6354435	5	5.2	5	100	0	52	57	0	42	0	0.98
6355866--6356302	30	14.8	30	78	9	371	37	2	24	36	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6357219--6357254	19	1.9	18	94	5	63	52	0	0	47	1.00
6359650--6359928	58	4.7	58	81	10	273	38	2	27	31	1.69
6359650--6359929	117	2.4	116	84	9	345	38	2	27	32	1.69
6359765--6359937	29	6.0	28	71	19	108	37	0	26	35	1.61
6359887--6359985	29	3.4	29	78	10	87	34	2	22	41	1.65
6361886--6361936	6	8.3	6	79	12	59	50	0	3	45	1.20
6367429--6367465	17	2.1	18	90	5	58	27	0	5	67	1.12
6368256--6368330	37	2.0	37	87	5	107	49	1	1	48	1.18
6368607--6368656	17	2.9	17	71	17	50	70	2	0	28	0.99
6374466--6374571	53	2.0	53	100	0	212	22	0	47	30	1.52

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