genome.fa.s9.2.7.7.80.10.50.1000.121.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: CP032253.1 Gossypioides kirkii chromosome KI_11
Parameters: 2 7 7 80 10 50 1000
Length:  55708359

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   

This is table  121  of  182  ( 21729 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)
39037799--39037840	21	2.0	20	86	13	59	0	16	0	83	0.65
39037799--39037840	20	2.1	21	86	8	61	0	16	0	83	0.65
39042117--39042521	59	6.8	59	79	5	401	33	6	25	34	1.82
39042121--39042624	29	17.1	29	73	13	320	33	5	25	34	1.79
39042149--39042680	30	18.0	30	71	13	223	34	5	25	34	1.78
39042401--39042708	59	5.2	58	74	11	173	34	3	26	35	1.75
39044511--39044574	17	3.8	17	74	0	65	53	4	4	37	1.43
39047695--39047742	24	2.0	24	84	8	62	22	18	0	58	1.39
39047694--39047737	12	3.8	11	82	8	52	22	18	0	59	1.38
39054583--39054638	21	2.8	19	73	24	53	33	1	23	41	1.65
39060647--39060734	38	2.3	40	84	11	114	47	1	3	47	1.26
39060902--39060941	16	2.5	16	91	0	71	32	30	0	37	1.58
39067829--39067853	4	6.2	4	100	0	50	76	0	24	0	0.80
39067821--39067883	17	3.7	16	77	12	63	68	0	30	1	0.99
39067844--39067889	21	2.1	22	84	4	58	71	0	23	4	1.03
39069927--39069976	8	6.2	8	86	6	66	50	8	10	32	1.65
39069927--39069976	24	2.1	24	88	7	75	50	8	10	32	1.65
39070787--39070840	27	2.0	27	92	0	90	29	7	44	18	1.77
39074337--39074402	21	3.2	21	66	20	57	57	18	3	21	1.53
39075475--39075541	36	1.9	36	87	6	102	26	4	0	68	1.08
39083454--39083993	295	1.8	297	96	0	1012	36	14	13	35	1.85
39087123--39087173	16	3.2	16	82	0	66	29	25	1	43	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39094123--39094193	35	2.0	35	86	0	97	45	5	1	47	1.35
39097555--39097599	20	2.2	20	84	0	54	46	4	11	37	1.60
39100343--39100606	73	3.7	72	77	7	263	26	20	14	39	1.90
39101822--39101882	28	2.2	28	85	5	79	27	13	24	34	1.93
39102043--39102279	29	8.1	29	75	10	139	36	2	27	33	1.71
39102043--39102279	30	8.1	30	75	10	170	36	2	27	33	1.71
39102080--39102420	58	5.8	58	79	9	268	35	2	24	37	1.70
39102158--39102420	30	9.0	29	81	7	246	36	1	22	38	1.65
39102159--39102420	29	9.0	28	79	10	215	36	1	22	38	1.65
39103581--39103645	15	4.4	15	78	16	57	44	3	3	49	1.33
39103601--39103641	19	2.2	18	91	4	64	41	0	4	53	1.22
39104308--39104339	12	2.7	12	90	0	55	25	9	25	40	1.85
39104349--39104410	17	3.7	17	81	10	58	54	1	1	41	1.19
39104367--39104410	11	4.0	11	84	0	61	56	0	2	40	1.11
39104678--39105088	92	4.5	92	94	0	732	34	18	15	31	1.92
39109936--39109970	18	2.0	17	88	5	52	5	34	0	60	1.21
39116984--39117043	28	2.1	28	84	6	77	30	11	25	33	1.91
39117071--39117131	28	2.1	29	82	11	81	27	6	27	37	1.82
39117249--39117568	29	11.0	29	77	10	237	35	3	24	36	1.73
39117265--39117522	58	4.4	58	81	9	267	34	3	24	37	1.71
39117252--39117568	88	3.6	87	77	11	251	35	3	23	36	1.72
39117277--39117568	117	2.5	116	82	6	313	34	3	24	37	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39117370--39117572	59	3.5	58	79	6	205	33	2	24	38	1.69
39118534--39118639	29	3.6	29	79	12	108	38	20	3	36	1.71
39120664--39120886	31	7.6	29	67	13	80	37	3	27	31	1.73
39120660--39120885	59	3.8	59	84	4	296	37	3	28	31	1.73
39120601--39120885	117	2.4	118	84	5	355	36	3	28	31	1.74
39120695--39120962	30	9.5	27	69	23	110	36	2	27	33	1.72
39120900--39121144	30	8.1	30	81	7	228	37	2	20	39	1.66
39120885--39121144	60	4.3	60	86	4	339	37	2	21	38	1.67
39120772--39120968	109	1.8	109	83	10	260	35	3	27	33	1.74
39120897--39121144	90	2.8	90	80	3	311	37	2	20	39	1.66
39122324--39122382	12	5.5	11	80	12	54	35	3	1	59	1.24
39122984--39123113	17	7.5	17	83	7	163	54	2	1	41	1.22
39122979--39123049	29	2.5	28	77	9	72	50	1	2	45	1.25
39122984--39123113	35	3.7	34	85	8	163	54	2	1	41	1.22
39122979--39123081	6	17.7	6	75	13	90	52	0	1	44	1.18
39123701--39125218	92	16.5	92	96	0	2561	34	17	14	33	1.90
39126592--39126632	7	5.5	8	80	13	52	2	14	0	82	0.76
39126586--39126631	15	3.4	14	85	11	60	2	17	0	80	0.81
39126587--39126638	16	3.5	15	84	10	63	3	13	0	82	0.80
39127420--39127460	9	4.2	10	79	14	50	4	4	9	80	1.00
39127420--39127470	20	2.6	19	84	9	68	5	3	7	82	0.94
39132094--39132384	29	9.9	29	70	19	167	37	3	27	30	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39132077--39132435	59	6.1	59	82	8	373	36	3	26	33	1.73
39132080--39132382	117	2.6	117	86	6	400	37	3	27	31	1.73
39132343--39132553	29	7.2	29	81	6	212	36	0	21	40	1.60
39132276--39132583	30	10.4	30	77	13	266	37	2	23	37	1.67
39132329--39132583	60	4.3	59	86	6	315	37	1	22	38	1.64
39133675--39133726	3	17.3	3	78	7	52	34	5	1	57	1.33
39133680--39133752	12	6.7	11	77	16	57	35	6	1	56	1.35
39134350--39134434	6	14.7	6	71	20	65	49	1	2	47	1.22
39134355--39134467	17	6.5	17	79	12	122	52	2	1	43	1.25
39134375--39134433	11	5.2	11	74	13	57	52	1	1	44	1.21
39134355--39134467	53	2.2	52	88	4	165	52	2	1	43	1.25
39138643--39138697	27	2.1	27	96	3	103	43	0	36	20	1.52
39138775--39138847	30	2.4	31	84	6	87	20	12	16	50	1.77
39141364--39141426	28	2.3	26	74	15	65	30	7	15	46	1.75
39143484--39143525	16	2.6	16	88	0	66	30	2	0	66	1.04
39156258--39156364	50	2.1	50	89	0	160	36	18	16	28	1.93
39156364--39156471	51	2.1	51	86	3	146	34	17	21	26	1.96
39156374--39156484	51	2.2	51	81	3	125	34	19	18	27	1.96
39157371--39157416	11	4.5	10	78	21	51	28	2	0	69	1.00
39157374--39157422	16	3.1	16	85	2	64	26	2	0	71	0.97
39160277--39160347	21	3.4	21	76	7	72	28	12	30	28	1.93
39161012--39161055	22	2.0	22	82	8	54	25	4	11	59	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39169923--39169952	14	2.2	14	94	5	53	36	10	23	30	1.87
39172107--39172141	17	2.1	17	94	5	63	60	11	11	17	1.59
39174235--39174273	21	1.9	21	89	5	62	66	7	12	12	1.43
39192643--39192695	24	2.2	24	86	0	79	39	13	24	22	1.90
39195194--39195251	24	2.4	24	85	0	71	20	37	3	37	1.70
39195215--39195275	24	2.5	25	84	10	74	14	39	4	40	1.68
39201149--39201190	16	2.9	14	80	13	50	61	0	0	38	0.96
39201505--39201552	15	3.3	14	83	16	62	35	2	0	62	1.07
39201681--39201723	18	2.4	18	88	7	61	53	0	0	46	1.00
39202730--39202791	31	2.0	32	87	9	92	48	3	0	48	1.17
39203573--39203628	22	2.6	21	81	18	55	28	7	5	58	1.46
39207635--39207725	47	1.9	47	97	0	173	43	10	15	29	1.81
39208529--39208554	13	2.0	13	100	0	52	38	0	15	46	1.46
39216714--39216791	24	3.2	24	85	0	102	39	14	25	20	1.90
39222764--39222811	15	3.3	15	77	8	55	60	0	2	37	1.09
39223148--39223195	15	3.3	14	80	16	53	35	4	0	60	1.16
39223147--39223192	14	3.2	14	81	6	56	36	4	0	58	1.18
39223325--39223367	18	2.4	18	88	7	61	53	0	0	46	1.00
39225211--39225266	22	2.6	21	81	18	55	28	7	5	58	1.46
39230209--39230251	18	2.4	19	88	7	63	55	2	11	30	1.48
39247745--39247788	18	2.4	18	100	0	88	9	31	0	59	1.29
39248588--39248689	51	2.0	51	92	3	170	34	20	12	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39251907--39251945	18	2.2	18	100	0	78	41	10	10	38	1.73
39254178--39254225	23	2.2	22	85	14	64	60	2	0	37	1.09
39256788--39256948	55	2.9	54	82	3	171	50	12	8	27	1.69
39257195--39257224	6	5.2	6	92	8	53	16	30	0	53	1.44
39257195--39257248	17	3.1	17	79	12	65	18	27	0	53	1.45
39257195--39257250	11	4.9	11	79	16	60	19	26	0	53	1.45
39257195--39257252	23	2.5	23	81	13	66	20	25	0	53	1.46
39257197--39257255	17	3.4	16	80	13	64	22	25	0	52	1.47
39258107--39258158	26	2.0	26	85	7	70	32	5	3	57	1.40
39268576--39268689	30	3.8	30	72	7	97	35	14	6	43	1.71

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