genome.fa.s4.2.7.7.80.10.50.1000.141.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  141  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)
44078176--44078215	19	2.2	18	86	4	53	40	17	0	42	1.49
44082838--44082888	21	2.5	20	80	3	66	45	27	3	23	1.70
44082908--44082953	20	2.3	20	92	0	74	15	8	36	39	1.78
44086772--44086824	25	2.2	24	83	10	63	60	3	1	33	1.26
44087218--44087256	18	2.2	18	86	9	53	20	23	0	56	1.42
44088284--44088329	18	2.6	18	80	13	58	43	2	0	54	1.12
44089794--44089908	29	3.9	29	80	6	126	34	4	23	37	1.75
44089755--44089908	30	5.2	29	75	9	125	35	5	22	37	1.76
44089754--44089916	59	2.8	60	80	8	167	36	4	20	38	1.75
44091561--44092256	79	8.7	79	83	2	675	28	17	22	32	1.96
44091601--44092256	40	16.3	42	74	8	365	28	17	22	32	1.96
44092013--44092256	126	2.0	124	83	3	310	26	20	25	28	1.99
44093379--44093590	112	1.9	112	87	3	311	39	10	22	27	1.87
44098456--44098517	30	2.1	30	90	0	97	27	3	27	41	1.71
44098465--44098552	30	2.9	30	79	0	86	31	2	25	40	1.68
44099474--44099511	20	1.9	20	88	0	58	18	0	18	63	1.32
44099541--44099570	11	2.6	12	94	5	53	13	0	0	86	0.57
44103311--44103376	29	2.2	30	91	2	107	56	4	6	33	1.44
44103700--44103740	12	3.3	13	80	10	50	0	34	0	65	0.93
44105177--44105603	114	3.7	114	87	0	602	23	25	17	34	1.96
44105517--44105891	96	3.9	96	85	0	491	24	24	16	34	1.95
44106249--44106689	97	4.5	99	80	2	451	21	29	14	34	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44109471--44109565	6	16.2	6	71	16	74	44	1	2	52	1.19
44109471--44109565	17	5.4	17	81	7	118	44	1	2	52	1.19
44109471--44109565	36	2.7	35	81	4	120	44	1	2	52	1.19
44110185--44110234	9	5.6	9	85	0	64	58	4	0	38	1.17
44111277--44111604	29	11.3	29	70	15	108	36	22	3	36	1.73
44111345--44111617	30	9.3	30	72	14	178	36	26	2	35	1.70
44111333--44111616	117	2.4	117	82	10	348	36	25	2	35	1.69
44111330--44111616	58	4.9	58	80	5	303	36	25	2	35	1.69
44117176--44117218	7	6.3	7	79	15	54	83	2	13	0	0.74
44118372--44118715	100	3.4	99	86	3	422	39	22	23	13	1.91
44118462--44118742	50	5.6	50	65	14	148	39	22	24	13	1.90
44118681--44118833	49	3.1	46	76	11	144	39	20	28	12	1.88
44119213--44119879	206	3.3	206	85	3	945	35	18	22	22	1.95
44120205--44120316	17	6.4	18	81	11	117	43	2	1	51	1.26
44120205--44120316	6	19.2	6	69	18	76	43	2	1	51	1.26
44120205--44120317	53	2.2	52	85	4	147	44	2	1	51	1.26
44120944--44120985	18	2.3	18	91	0	66	64	4	0	30	1.14
44122022--44122394	29	12.7	29	76	4	291	37	24	2	35	1.68
44122034--44122394	59	6.2	59	84	1	386	37	24	2	35	1.68
44137809--44137833	2	12.5	2	100	0	50	48	0	52	0	1.00
44138135--44138218	31	2.8	31	82	7	93	60	2	5	30	1.33
44139603--44139653	13	3.9	13	80	10	59	43	7	0	49	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44139601--44139656	12	4.3	13	76	17	62	41	7	0	51	1.29
44140224--44140273	25	1.9	27	88	8	77	52	4	12	32	1.57
44141963--44141992	14	2.1	14	100	0	60	13	6	0	80	0.91
44142383--44142428	20	2.3	20	82	10	51	6	19	2	71	1.18
44145674--44146044	193	1.9	193	97	0	697	39	7	8	43	1.64
44147174--44147213	15	2.5	16	84	8	55	35	2	0	62	1.09
44155125--44155188	2	32.0	2	100	0	128	0	50	0	50	1.00
44155490--44155564	29	2.5	30	82	10	91	49	1	0	49	1.09
44157274--44157315	14	2.9	14	76	16	50	64	2	2	30	1.19
44166857--44166902	22	2.1	22	91	0	74	28	10	26	34	1.90
44171180--44171292	33	3.4	33	76	10	124	26	26	11	35	1.91
44171168--44171292	66	1.9	66	86	6	182	27	28	11	33	1.91
44173002--44173081	41	2.0	40	90	7	128	42	16	7	33	1.76
44179865--44179893	6	4.8	6	100	0	58	13	0	0	86	0.58
44179909--44179951	22	2.0	21	86	9	59	60	2	0	37	1.10
44180541--44180597	16	3.4	16	73	21	53	45	19	8	26	1.79
44191413--44191446	18	1.9	18	88	5	52	29	0	5	64	1.17
44192122--44192192	31	2.3	31	81	11	85	45	21	11	22	1.83
44193391--44193439	26	2.0	24	84	8	62	67	0	2	30	1.02
44193612--44193705	47	2.0	47	97	0	179	28	12	11	46	1.77
44202232--44202281	23	2.2	22	80	19	59	42	2	2	54	1.23
44204763--44205194	212	2.0	212	100	0	864	51	5	7	34	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44209367--44209399	9	3.8	9	88	4	50	42	9	0	48	1.35
44210903--44210956	22	2.5	22	84	0	72	42	16	25	14	1.87
44216489--44216557	29	2.3	30	82	9	79	49	0	0	50	1.00
44216506--44216558	22	2.4	21	79	14	63	50	0	0	49	1.00
44229102--44229394	59	5.0	60	79	7	280	27	17	16	37	1.92
44229394--44229544	60	2.5	60	76	7	148	27	17	13	42	1.86
44229172--44229579	223	1.8	222	85	6	583	26	17	15	40	1.89
44230287--44230579	58	4.9	59	77	11	235	41	15	16	26	1.88
44231194--44231231	20	1.9	19	89	5	58	15	10	0	73	1.09
44234950--44235181	116	2.0	116	90	2	369	54	22	3	18	1.58
44235669--44235731	32	2.0	31	87	12	92	68	0	25	6	1.13
44236307--44236384	35	2.2	35	82	8	97	32	37	8	21	1.85
44238600--44238690	40	2.2	40	75	9	96	31	5	8	53	1.55
44242704--44242746	22	2.0	22	86	9	61	32	6	32	27	1.84
44253180--44253233	24	2.2	24	80	6	56	61	5	3	29	1.36
44255243--44255274	5	6.4	5	92	0	55	0	37	18	43	1.51
44263819--44263843	5	5.0	5	100	0	50	20	0	0	80	0.72
44264525--44264571	16	2.8	16	87	6	58	23	2	0	74	0.93
44264525--44264571	14	3.3	14	79	11	51	23	2	0	74	0.93
44269003--44269054	20	2.7	19	80	11	61	73	1	3	21	1.10
44270499--44270543	19	2.4	19	81	7	56	37	0	4	57	1.19
44271356--44271402	21	2.2	22	88	3	69	19	10	0	70	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44271347--44271403	22	2.5	23	77	13	64	17	12	0	70	1.17
44272952--44272991	21	1.9	21	89	0	62	42	15	17	25	1.88
44277026--44277058	6	5.3	6	92	7	57	15	0	0	84	0.61
44277026--44277091	13	5.0	13	76	12	64	18	4	0	77	0.94
44277777--44277968	105	1.9	102	83	7	253	35	13	25	25	1.92
44278519--44278563	19	2.4	19	81	7	56	37	0	4	57	1.19
44279362--44279408	21	2.2	22	88	3	69	19	10	0	70	1.16
44279353--44279408	22	2.4	23	77	14	62	17	12	0	69	1.18
44289528--44289571	2	22.0	2	100	0	88	50	0	0	50	1.00
44290675--44290717	3	14.3	3	100	0	86	67	0	0	32	0.91
44291587--44291613	3	9.0	3	100	0	54	33	0	33	33	1.58
44310916--44310985	25	2.7	26	82	10	90	47	2	4	45	1.37
44311198--44311241	21	2.2	20	87	4	61	75	4	2	18	1.09
44311500--44311534	17	2.1	17	88	0	52	45	2	0	51	1.16
44313395--44313527	29	4.5	30	76	7	123	37	26	2	33	1.69
44313395--44313539	57	2.5	59	76	8	154	35	26	2	35	1.69
44313581--44313700	28	4.1	28	67	16	66	35	25	5	35	1.78
44314983--44315066	43	2.0	43	95	0	150	21	7	7	64	1.43
44317547--44317641	47	2.0	47	97	0	181	44	20	4	31	1.70
44319390--44319516	6	20.2	6	69	18	53	25	2	11	61	1.41
44319394--44319512	32	3.5	32	76	16	114	26	2	10	61	1.41
44319390--44319517	38	3.6	36	80	12	147	25	2	11	60	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44319679--44319794	6	18.3	6	70	16	56	62	12	1	23	1.40
44319686--44319794	32	3.4	32	93	0	182	62	12	1	22	1.40
44332137--44332164	2	14.0	2	100	0	56	50	0	0	50	1.00
44337172--44337198	2	13.5	2	100	0	54	48	0	0	51	1.00
44359596--44359623	6	4.7	6	100	0	56	0	32	0	67	0.91
44361052--44361093	3	14.0	3	100	0	84	66	0	0	33	0.92
44361092--44361134	3	14.3	3	100	0	86	67	0	32	0	0.91
44363344--44363451	38	2.8	38	87	1	153	24	15	23	37	1.93
44370334--44370374	21	2.0	21	90	9	66	60	2	2	34	1.23
44372266--44372308	17	2.5	17	76	3	50	23	4	6	65	1.37

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