genome.fa.s4.2.7.7.80.10.50.1000.144.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: CP032248.1 Gossypioides kirkii chromosome KI_06
Parameters: 2 7 7 80 10 50 1000
Length:  60359545

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   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   

This is table  144  of  193  ( 23090 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)
44932629--44932790	89	1.8	89	88	4	247	35	12	15	35	1.86
44933274--44933316	22	2.0	22	85	0	59	6	9	13	69	1.35
44938254--44938296	12	3.6	12	75	12	52	53	2	6	37	1.41
44939472--44939530	17	3.6	16	81	6	73	38	1	1	57	1.19
44939469--44939532	11	5.8	11	76	7	67	42	1	1	54	1.19
44941488--44941925	59	7.4	59	88	4	598	33	28	4	34	1.76
44952110--44952210	49	2.1	49	98	0	193	36	9	29	23	1.87
44954178--44954606	38	11.4	37	65	21	178	32	14	19	32	1.92
44954157--44954695	76	7.1	76	92	1	769	32	15	19	32	1.93
44954556--44954686	38	3.4	38	71	16	115	35	15	18	30	1.92
44954615--44954828	92	2.3	92	92	3	344	34	19	16	29	1.94
44954755--44954852	50	2.0	50	81	4	117	36	19	17	26	1.94
44955111--44955161	11	4.5	11	82	2	66	39	1	1	56	1.22
44955101--44955158	17	3.5	17	79	9	66	37	1	3	56	1.26
44957114--44957401	59	4.9	59	86	1	400	32	29	3	33	1.76
44957114--44957401	118	2.4	118	91	2	454	32	29	3	33	1.76
44957410--44957471	28	2.2	29	78	18	69	33	29	9	27	1.88
44958763--44958800	3	12.7	3	94	0	67	31	0	0	68	0.90
44971094--44971137	15	2.9	15	79	0	52	63	6	15	13	1.49
44973073--44973118	24	1.9	25	86	8	69	30	2	8	58	1.40
44977963--44977987	12	2.1	12	100	0	50	0	60	0	40	0.97
44979351--44979416	17	3.8	17	77	2	69	43	1	3	51	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44979351--44979430	6	13.8	6	69	17	53	47	1	2	48	1.23
44980925--44981017	29	3.2	28	70	27	77	34	30	3	32	1.74
44980926--44981322	30	13.4	29	62	25	85	32	28	3	35	1.74
44980907--44981331	59	7.2	59	88	0	600	31	29	3	35	1.75
44980936--44981087	29	5.2	30	67	21	115	33	28	2	35	1.71
44983505--44983575	31	2.3	31	74	13	74	26	9	7	56	1.57
44985493--44985534	20	2.1	20	86	8	59	45	9	7	38	1.64
44991486--44991516	2	15.5	2	100	0	62	48	0	51	0	1.00
45005360--45005392	16	2.1	16	88	5	50	72	3	9	15	1.21
45016929--45016985	23	2.5	22	83	8	71	52	0	5	42	1.24
45024501--45024590	42	2.1	42	85	0	117	21	21	23	34	1.97
45024608--45024707	42	2.4	42	84	3	130	28	24	22	26	1.99
45025084--45025122	17	2.3	17	81	0	51	41	0	7	51	1.31
45028749--45028842	28	3.4	28	69	7	84	34	19	19	27	1.96
45028759--45028866	56	1.9	56	90	0	171	32	21	20	25	1.97
45028764--45028865	28	3.6	28	68	7	73	33	21	19	25	1.97
45028831--45028895	28	2.3	28	78	0	67	29	23	23	24	1.99
45028757--45028893	56	2.4	56	83	0	166	29	21	21	27	1.99
45028793--45028959	84	2.0	84	83	0	208	28	23	21	26	1.99
45029397--45029507	35	3.2	35	77	2	98	28	23	19	27	1.98
45044129--45044200	37	1.9	37	83	5	92	11	11	16	61	1.57
45051837--45051882	22	2.1	22	100	0	92	58	0	30	10	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45052166--45052198	16	2.1	16	100	0	66	33	12	18	36	1.88
45060593--45060650	31	1.9	30	82	10	73	27	10	6	55	1.59
45063186--45063227	22	1.9	22	100	0	84	9	28	4	57	1.51
45066418--45066450	16	2.0	17	88	5	50	48	0	6	45	1.27
45084215--45084283	29	2.4	29	85	4	88	63	1	4	30	1.22
45084214--45084265	18	2.8	19	74	5	54	63	0	1	34	1.06
45084257--45084321	21	3.4	18	74	20	53	64	4	4	26	1.32
45084590--45084621	16	2.0	16	100	0	64	25	0	0	75	0.81
45084583--45084620	9	4.4	9	87	12	62	26	0	0	73	0.83
45084594--45084629	16	2.3	16	90	4	56	25	0	2	72	0.98
45085387--45085427	15	2.6	16	88	7	66	68	2	0	29	1.03
45087639--45087872	113	2.1	113	91	0	380	43	9	17	29	1.80
45098384--45098413	8	3.6	8	95	4	51	10	0	0	90	0.47
45098380--45098413	9	3.9	9	92	7	61	11	0	0	88	0.52
45098662--45098697	13	2.8	13	86	0	54	19	19	0	61	1.35
45100253--45100333	24	3.4	24	98	0	153	32	27	18	22	1.97
45102206--45102282	38	2.0	38	100	0	154	36	25	16	20	1.94
45104190--45104237	27	1.9	24	84	16	62	35	0	2	62	1.07
45114318--45114354	12	2.9	13	88	11	51	16	5	0	78	0.93
45131777--45131812	18	1.9	19	88	5	56	58	0	0	41	0.98
45131772--45131815	19	2.3	20	80	11	56	52	0	0	47	1.00
45132141--45132189	16	2.9	16	77	16	55	44	0	4	51	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45137596--45137650	19	3.0	19	74	17	62	63	0	5	30	1.17
45137596--45137650	20	3.0	20	70	27	57	63	0	5	30	1.17
45146104--45146132	10	2.7	11	89	10	51	72	0	0	27	0.85
45146287--45146321	13	2.7	13	86	0	52	0	17	2	80	0.84
45147184--45147432	134	1.9	133	88	2	374	41	26	12	19	1.87
45149666--45149711	22	2.1	22	84	15	60	32	23	0	43	1.54
45150535--45150575	20	2.0	21	85	4	57	46	19	24	9	1.80
45153240--45153286	24	2.0	24	91	0	76	55	6	8	29	1.55
45160972--45161003	15	2.1	15	94	0	55	21	0	50	28	1.49
45161237--45161308	19	3.7	19	81	3	81	56	5	0	37	1.22
45161251--45161310	28	2.1	29	79	14	72	51	3	0	45	1.17
45162857--45162932	11	6.8	11	68	24	52	42	1	2	53	1.23
45170049--45170095	16	2.9	16	72	15	51	68	2	0	29	1.02
45171329--45171377	14	3.6	14	88	2	64	51	18	2	28	1.58
45171468--45171548	22	3.5	22	77	9	90	27	41	14	16	1.87
45171468--45171552	11	7.5	11	71	17	66	28	41	14	16	1.87
45171497--45171577	36	2.2	36	95	0	144	32	40	12	14	1.83
45173277--45173309	3	11.0	3	100	0	66	66	0	0	33	0.92
45184814--45185098	49	5.8	50	75	10	268	37	18	25	17	1.93
45184807--45185095	98	3.0	97	90	2	418	38	18	24	18	1.93
45185454--45185501	14	3.5	14	88	2	62	50	18	2	29	1.59
45186217--45186259	19	2.3	19	79	0	50	32	11	25	30	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45187357--45187393	3	12.3	3	100	0	74	67	0	0	32	0.91
45192803--45192871	29	2.3	30	80	11	72	47	8	7	36	1.62
45198559--45198611	2	27.0	2	96	3	99	49	0	0	50	1.00
45198529--45198615	10	9.7	9	82	13	92	47	0	2	50	1.13
45205756--45205795	21	1.9	21	84	0	53	45	10	20	25	1.81
45206720--45206752	16	2.0	17	94	5	59	30	18	12	39	1.87
45207540--45208529	287	3.5	286	92	2	1589	40	18	17	23	1.91
45209604--45209638	18	2.0	18	88	5	54	28	0	2	68	1.04
45209617--45209668	25	2.0	26	82	10	63	40	0	1	57	1.10
45209657--45209697	19	2.2	19	86	4	57	39	0	2	58	1.11
45212783--45212839	21	2.7	21	80	0	60	35	22	15	26	1.94
45212897--45212972	21	3.5	22	73	16	59	40	26	7	25	1.82
45222824--45222864	15	2.5	17	88	11	59	65	2	2	29	1.18
45223101--45223128	3	9.3	3	100	0	56	67	0	0	32	0.91
45226832--45226935	32	3.4	32	73	10	99	25	15	10	48	1.77
45226773--45226945	60	2.9	60	84	1	231	24	15	11	48	1.78
45227171--45227230	27	2.2	27	84	3	75	55	1	8	35	1.40
45230382--45230425	24	1.9	22	86	9	61	59	9	0	31	1.29
45237934--45238046	60	1.9	60	83	0	145	50	1	41	6	1.38
45238083--45238146	24	2.7	24	84	15	89	46	0	53	0	1.00
45238098--45238135	12	3.2	12	85	14	60	50	0	50	0	1.00
45238051--45238131	6	13.7	6	75	18	55	51	0	45	2	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45247477--45247547	2	35.5	2	100	0	142	50	0	0	49	1.00
45249207--45249258	21	2.5	20	71	3	50	7	3	13	75	1.17
45249229--45249264	17	2.1	17	100	0	72	5	5	16	72	1.23
45249257--45249314	23	2.5	24	82	2	73	6	5	18	68	1.31
45249264--45249314	12	4.3	12	87	2	59	7	5	17	68	1.34
45249186--45249284	50	1.9	51	81	4	119	8	4	17	70	1.27
45249278--45249324	24	2.0	24	83	8	60	10	4	17	68	1.35
45249282--45249371	43	2.1	43	83	8	112	8	5	18	66	1.39
45249345--45249383	20	1.9	21	89	5	62	10	0	20	69	1.17
45253800--45253882	39	2.1	39	86	0	112	25	16	14	43	1.86

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   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193