genome.fa.s3.2.7.7.80.10.50.1000.149.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  149  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)
44929465--44929685	58	3.8	58	80	5	254	28	19	6	46	1.74
44934219--44934444	40	5.7	40	86	1	283	23	24	20	31	1.98
44936630--44936669	9	4.4	9	83	0	53	47	5	7	40	1.54
44936756--44936819	19	3.3	19	78	12	76	53	4	0	42	1.22
44936929--44936956	14	2.0	14	100	0	56	57	7	0	35	1.26
44937079--44937117	20	2.0	20	84	0	51	30	17	5	46	1.70
44937072--44937123	20	2.5	20	71	3	50	28	17	7	46	1.75
44938153--44938268	44	2.8	40	81	5	133	21	22	21	34	1.97
44939469--44939507	18	2.1	19	86	13	55	43	0	0	56	0.99
44943739--44943780	20	2.1	19	86	8	57	52	14	7	26	1.67
44949511--44949552	20	2.1	19	86	8	57	52	14	7	26	1.67
44951093--44951148	3	18.7	3	100	0	112	33	0	0	66	0.92
44955599--44955629	15	2.1	15	93	0	53	32	29	12	25	1.93
44961837--44961862	12	2.2	12	100	0	52	38	0	23	38	1.55
44967649--44967689	21	1.9	22	85	14	59	75	2	21	0	0.92
44971379--44971417	20	1.9	21	89	5	62	25	30	0	43	1.55
44982701--44982730	15	1.9	16	93	6	53	63	0	0	36	0.95
44991830--44991942	6	17.8	6	77	10	84	73	0	7	17	1.12
44991830--44991942	13	8.9	11	78	14	64	73	0	7	17	1.12
44991854--44991942	6	14.3	6	82	8	90	76	0	7	15	1.00
44995858--44995891	13	2.6	13	85	0	50	58	11	0	29	1.33
45001413--45001465	26	2.0	28	88	7	83	47	11	20	20	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45002441--45002613	88	2.0	89	97	1	330	43	5	8	42	1.57
45004855--45004941	40	2.2	40	83	6	104	39	16	11	33	1.84
45005762--45005858	40	2.5	39	85	9	135	41	15	11	31	1.83
45006037--45006090	20	2.6	22	86	11	71	42	7	9	40	1.65
45014520--45014573	20	2.7	20	77	13	58	48	11	7	33	1.67
45014812--45014865	20	2.6	22	86	11	71	42	3	11	42	1.58
45027697--45027770	10	7.3	10	71	8	60	63	1	4	31	1.21
45027696--45027759	19	3.3	19	79	14	69	60	1	4	32	1.26
45027726--45027796	31	2.4	31	88	4	101	57	2	7	32	1.40
45028050--45028138	47	1.9	46	81	6	108	42	2	0	55	1.12
45028095--45028144	26	1.9	26	83	0	64	38	4	0	58	1.17
45033323--45033361	4	9.8	4	100	0	78	76	0	0	23	0.78
45037340--45037392	17	2.9	17	73	15	52	43	0	3	52	1.19
45037368--45037409	15	2.8	16	78	7	52	38	0	4	57	1.20
45038938--45039002	29	2.2	29	80	0	76	44	15	12	27	1.82
45038983--45039060	29	2.7	29	87	0	93	42	12	17	26	1.86
45039799--45039936	53	2.6	53	83	4	181	31	34	15	18	1.92
45039898--45039989	43	2.2	41	84	7	123	28	33	16	21	1.95
45042081--45042154	35	2.1	35	97	0	139	58	8	1	32	1.36
45042092--45042150	17	3.4	17	71	13	57	62	8	1	27	1.33
45043450--45043487	19	2.0	19	89	0	58	34	7	26	31	1.85
45044351--45044417	35	2.0	33	91	5	107	47	4	0	47	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45044348--45044428	35	2.5	34	82	11	89	50	4	0	44	1.23
45045202--45045247	24	1.9	24	100	0	92	50	17	17	15	1.79
45047747--45047847	7	14.3	7	67	13	55	25	2	29	41	1.70
45047823--45047863	14	2.9	15	85	10	59	19	0	31	48	1.49
45047820--45047863	21	2.1	21	87	8	63	22	0	29	47	1.51
45048297--45048345	6	8.2	6	97	0	89	0	46	2	51	1.12
45048823--45048858	19	1.9	19	88	5	56	50	8	13	27	1.71
45050339--45050376	11	3.5	11	82	10	51	68	2	0	28	1.03
45050343--45050380	12	3.2	12	82	17	53	68	2	0	28	1.03
45050621--45050666	20	2.3	19	82	10	56	0	34	0	65	0.93
45050631--45050698	25	2.8	24	76	10	75	1	29	0	69	0.98
45052875--45052913	20	1.9	21	89	5	62	58	0	2	38	1.12
45056414--45056816	195	2.1	195	85	1	547	31	24	14	29	1.95
45058145--45058199	23	2.4	22	82	8	65	43	3	1	50	1.30
45058128--45058200	6	12.7	6	72	18	57	42	4	1	52	1.29
45058148--45058194	17	2.8	17	84	9	60	44	4	2	48	1.34
45058128--45058200	11	6.3	12	74	16	57	42	4	1	52	1.29
45058125--45058201	12	6.8	11	76	10	75	44	3	1	50	1.28
45059669--45059982	162	1.9	162	85	3	436	26	15	11	46	1.80
45060060--45060233	30	5.7	30	88	3	251	35	22	5	35	1.79
45060065--45060233	90	1.9	91	91	3	279	36	22	5	36	1.77
45060065--45060461	59	6.7	57	84	7	224	33	24	5	36	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45060065--45060272	90	2.3	89	82	8	235	35	23	5	35	1.78
45060224--45060498	59	4.7	59	88	1	401	30	27	5	35	1.81
45060214--45060441	30	7.7	30	70	10	157	32	27	6	34	1.82
45060224--45060497	117	2.3	117	88	1	406	31	27	5	35	1.80
45060244--45060529	117	2.4	116	82	5	333	30	27	6	35	1.83
45068564--45068630	33	2.0	33	94	0	116	17	8	23	49	1.75
45070012--45070107	44	2.2	44	81	3	113	13	35	22	28	1.92
45070137--45070232	30	3.2	30	92	1	149	15	28	19	36	1.93
45070238--45070296	16	3.4	16	70	17	55	15	30	20	33	1.93
45073627--45073659	17	1.9	17	93	0	57	36	24	0	39	1.56
45078200--45078232	12	2.6	13	90	4	50	6	24	0	69	1.10
45079127--45079508	165	2.3	165	90	0	595	45	11	18	25	1.82
45080125--45080161	11	3.4	11	92	0	56	5	8	5	81	0.99
45080671--45080709	15	2.6	15	83	0	51	46	33	10	10	1.72
45081822--45081865	3	15.3	3	90	9	74	29	0	0	70	0.88
45087869--45087907	15	2.6	15	83	0	51	46	33	10	10	1.72
45087950--45088001	11	4.7	11	82	0	68	13	26	30	28	1.94
45087938--45088001	22	2.9	22	92	0	110	14	26	31	28	1.95
45087940--45088012	22	3.3	21	85	9	74	12	24	32	30	1.92
45089686--45089723	19	2.0	19	94	0	67	21	28	21	28	1.98
45090035--45090108	39	1.9	38	91	2	121	45	6	31	16	1.73
45090512--45090538	14	1.9	14	100	0	54	7	0	33	59	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45091217--45091245	11	2.5	12	94	5	51	24	10	0	65	1.23
45093706--45093733	9	3.1	9	100	0	56	35	0	32	32	1.58
45103444--45103471	14	2.0	14	100	0	56	28	7	14	50	1.69
45104181--45104214	16	2.1	16	88	0	50	55	2	8	32	1.45
45113064--45113095	17	1.9	16	93	6	55	43	18	6	31	1.75
45118666--45118695	15	1.9	15	93	6	51	63	0	0	36	0.95
45118862--45118927	35	1.9	34	82	14	82	10	37	0	51	1.37
45120235--45120392	78	2.0	78	100	0	316	30	17	24	27	1.97
45122696--45122726	14	2.1	14	94	5	53	12	12	0	74	1.08
45128281--45128328	24	2.0	24	91	0	78	27	10	6	56	1.57
45130240--45130290	24	2.1	25	85	3	68	25	9	7	56	1.58
45131788--45131905	58	2.0	58	95	0	209	36	11	7	44	1.70
45131812--45131933	58	2.1	57	80	6	129	33	16	8	41	1.78
45133321--45133360	16	2.5	16	83	0	53	40	5	25	30	1.77
45140384--45140409	11	2.4	11	100	0	52	19	7	7	65	1.43
45153701--45153742	22	1.9	22	90	0	66	21	16	42	19	1.89
45154122--45154191	31	2.2	31	89	2	104	7	12	48	31	1.68
45157768--45157805	20	1.9	20	100	0	76	21	21	15	42	1.89
45158818--45158854	18	2.1	18	100	0	74	62	10	10	16	1.55
45161836--45161860	11	2.3	11	100	0	50	28	0	0	72	0.86
45162234--45162271	17	2.4	16	91	8	60	65	15	0	18	1.27
45174541--45174849	50	6.2	50	83	2	343	37	21	22	19	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45174541--45174849	150	2.1	150	86	2	433	37	21	22	19	1.95
45174872--45175126	80	3.2	80	90	0	413	31	24	18	25	1.97
45174872--45175125	39	6.4	40	76	10	261	31	24	18	25	1.97
45175121--45175249	50	2.6	50	84	0	159	42	18	17	20	1.89
45180077--45180166	44	2.1	42	91	4	144	2	22	12	63	1.39
45187701--45187791	21	4.5	21	67	20	59	63	8	23	4	1.41
45187684--45187797	60	1.9	60	90	3	185	63	9	21	5	1.45
45194773--45194799	14	1.9	14	100	0	54	22	0	14	62	1.31
45197368--45197400	17	1.9	17	100	0	66	42	15	12	30	1.83
45209405--45209619	30	7.3	29	72	14	122	37	26	2	33	1.69

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