genome.fa.s4.2.7.7.80.10.50.1000.182.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  182  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)
56726127--56726184	30	1.9	30	83	13	75	13	8	18	58	1.61
56726255--56726337	23	3.6	22	75	14	69	38	18	10	32	1.85
56726302--56726364	12	5.2	12	77	12	67	41	12	14	31	1.83
56728565--56728798	30	7.8	30	88	1	328	36	3	23	35	1.74
56730654--56730697	17	2.6	17	82	7	54	56	2	2	38	1.24
56736999--56737037	10	4.1	10	80	12	55	41	2	0	56	1.13
56736999--56737040	18	2.3	18	95	0	75	45	2	0	52	1.13
56737694--56737756	3	21.3	3	96	3	119	65	0	0	34	0.93
56737755--56737801	3	16.0	3	95	4	87	34	0	0	65	0.93
56738143--56738210	27	2.5	27	83	11	77	36	1	1	60	1.15
56738173--56738215	11	3.8	11	80	17	52	32	2	0	65	1.06
56747637--56747741	52	2.0	51	83	7	131	40	3	7	48	1.50
56749071--56749111	20	2.0	20	95	0	73	75	2	14	7	1.12
56749664--56750020	182	2.0	182	94	0	624	37	8	18	35	1.81
56750697--56750729	2	16.5	2	100	0	66	51	0	0	48	1.00
56755866--56755945	17	4.9	16	76	11	65	37	5	2	55	1.35
56757893--56757989	30	3.2	30	86	2	133	42	27	5	24	1.76
56757893--56758074	30	6.2	30	73	9	108	37	28	3	30	1.75
56757909--56758273	117	3.1	117	84	4	459	35	27	2	35	1.69
56757964--56758273	59	5.3	59	87	4	448	33	28	1	36	1.67
56757967--56758273	29	10.4	30	67	21	129	33	28	1	36	1.67
56757964--56758279	117	2.7	117	88	3	465	32	29	1	35	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56759757--56759815	31	2.0	30	87	12	86	40	10	1	47	1.47
56766708--56766753	18	2.6	18	76	10	51	65	6	0	28	1.17
56769315--56769340	11	2.4	11	100	0	52	15	11	19	53	1.71
56774296--56774337	22	1.9	22	85	9	59	33	4	7	54	1.49
56775663--56775725	23	2.8	23	87	2	83	58	6	11	23	1.55
56775938--56775973	18	2.1	18	89	5	56	27	11	2	58	1.46
56780278--56780363	18	4.6	18	78	7	82	39	0	3	56	1.16
56790060--56790104	22	2.1	21	87	4	63	15	6	8	68	1.36
56818100--56818195	27	3.5	28	72	14	85	50	3	2	44	1.29
56824951--56825052	22	4.5	22	85	3	114	13	23	26	36	1.92
56834906--56835027	3	42.3	3	70	18	73	65	4	1	28	1.20
56834903--56835027	11	10.9	11	73	18	80	65	4	1	28	1.20
56836121--56836301	56	3.2	55	80	7	204	34	17	14	33	1.90
56839325--56839363	16	2.4	16	87	8	53	46	2	0	51	1.14
56849453--56849482	15	2.0	15	93	0	51	36	0	6	56	1.26
56851759--56851951	87	2.2	87	93	2	327	27	21	27	23	1.99
56853840--56853881	19	2.2	20	80	16	54	64	0	16	19	1.30
56861065--56861108	14	2.8	16	80	16	56	52	0	0	47	1.00
56861200--56861330	68	1.9	68	90	3	210	37	19	6	37	1.76
56861573--56861615	20	2.2	20	91	8	70	41	4	23	30	1.74
56864850--56864888	5	8.6	5	78	21	50	38	0	0	61	0.96
56879793--56879827	4	8.8	4	100	0	70	51	0	22	25	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56880555--56880587	3	11.0	3	100	0	66	33	0	0	66	0.92
56884571--56884611	22	1.9	21	85	5	55	34	0	0	65	0.93
56886116--56886353	129	1.9	125	82	11	303	38	7	9	45	1.64
56888545--56888585	15	2.5	17	88	7	59	48	7	12	31	1.68
56890688--56890744	19	2.9	19	76	12	62	59	5	0	35	1.20
56890688--56890744	20	2.9	20	79	12	73	59	5	0	35	1.20
56890682--56890749	20	3.6	18	70	18	57	60	5	0	33	1.21
56896887--56896938	26	2.0	26	84	0	68	65	0	1	32	1.04
56901253--56901314	21	3.0	20	72	23	65	62	1	20	14	1.39
56901262--56901303	6	7.5	6	84	10	54	64	2	19	14	1.39
56903097--56903135	19	2.0	20	85	14	55	71	0	2	25	0.98
56903097--56903150	15	3.7	15	72	16	51	72	0	1	25	0.95
56912308--56912347	2	20.0	2	100	0	80	50	0	0	50	1.00
56920618--56920657	20	2.0	21	90	5	64	35	5	2	57	1.34
56920902--56920937	18	2.0	18	88	0	54	27	13	5	52	1.63
56923452--56923681	80	2.9	79	80	3	219	21	18	26	33	1.96
56924242--56924285	23	1.9	23	85	0	61	36	0	20	43	1.52
56938219--56938259	9	4.7	9	80	17	50	24	2	0	73	0.96
56938219--56938259	16	2.4	16	88	12	55	24	2	0	73	0.96
56943198--56943249	17	3.1	16	81	8	68	40	0	1	57	1.10
56944016--56944071	25	2.4	24	77	17	64	57	10	1	30	1.43
56944112--56944174	30	2.1	31	87	3	92	58	12	4	23	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56949876--56949918	2	21.5	2	100	0	86	51	0	0	48	1.00
56950801--56950844	19	2.4	18	81	11	54	45	0	2	52	1.13
56956680--56956719	21	1.9	21	85	10	55	65	2	5	27	1.27
56958898--56958968	20	3.5	21	79	9	76	39	4	2	53	1.35
56958899--56959052	10	15.5	10	64	16	61	33	5	2	58	1.34
56958909--56959054	21	7.3	20	74	13	108	33	6	2	58	1.35
56958886--56959014	21	6.4	19	71	20	84	33	6	3	57	1.39
56959616--56959659	21	2.1	21	83	8	54	50	0	4	45	1.22
56959673--56959728	15	3.6	16	73	11	53	44	7	3	44	1.48
56960431--56960523	31	3.0	30	81	9	98	38	8	8	44	1.66
56960441--56960529	31	2.9	31	83	9	110	38	8	7	44	1.65
56962702--56962743	21	2.0	22	85	4	59	52	4	0	42	1.22
56963433--56963492	24	2.5	24	81	2	68	41	20	11	26	1.86
56963508--56963533	4	6.5	4	100	0	52	76	23	0	0	0.78
56968800--56968900	48	2.2	46	83	7	132	40	21	26	10	1.86
56968750--56968900	23	6.4	23	76	13	121	41	20	27	11	1.86
56969552--56969579	14	2.0	14	100	0	56	28	28	14	28	1.95
56971253--56971309	26	2.1	27	84	9	73	24	3	3	68	1.21
56971252--56971309	27	2.1	27	84	12	75	24	3	3	68	1.20
56971766--56971807	15	2.8	16	86	10	54	61	0	0	38	0.96
56972119--56972154	15	2.4	15	100	0	72	36	0	5	58	1.22
56980722--56980752	16	1.9	16	93	0	53	22	0	0	77	0.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56981525--56981554	14	2.1	14	100	0	60	23	6	13	56	1.60
56982328--56982625	148	2.0	148	95	0	533	31	33	10	24	1.89
56991173--56991212	16	2.5	17	88	8	57	52	7	0	40	1.30
56997958--56997987	15	1.9	16	93	6	53	30	0	0	70	0.88
56999140--56999177	2	19.0	2	100	0	76	0	50	0	50	1.00
57012437--57012486	24	2.0	26	88	7	77	42	6	0	52	1.26
57012443--57012514	31	2.4	31	83	4	94	38	4	1	55	1.28
57014986--57015023	17	2.2	17	100	0	76	42	13	13	31	1.82
57019799--57019848	15	3.4	16	82	17	56	34	2	0	64	1.05
57021377--57021422	19	2.4	20	82	7	60	67	4	0	28	1.10
57021378--57021441	22	3.2	20	77	14	60	65	3	1	29	1.17
57024241--57024280	20	2.0	21	85	5	55	17	7	2	72	1.19
57025527--57025601	37	2.0	37	100	0	150	26	21	26	25	1.99
57026425--57026466	10	4.3	10	81	3	50	42	2	7	47	1.43
57035611--57035644	6	5.7	6	92	0	50	23	0	23	52	1.47
57042891--57043060	39	4.4	39	93	0	259	12	10	50	27	1.73
57044874--57044899	5	5.2	5	100	0	52	19	0	0	80	0.71
57048327--57048391	22	2.9	23	76	19	66	63	3	0	33	1.10
57050899--57050938	21	1.9	21	90	10	64	60	5	0	35	1.19
57054434--57054467	17	2.1	17	88	5	52	41	5	0	52	1.25
57054440--57054492	25	2.1	25	82	0	61	43	1	0	54	1.11
57054677--57054989	115	2.7	115	92	0	518	40	24	9	25	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57057997--57058026	15	2.0	15	100	0	60	46	6	13	33	1.69
57068981--57069041	31	2.0	31	96	0	113	45	11	3	39	1.57
57079123--57079153	15	2.0	16	93	6	55	70	9	0	19	1.14
57104464--57104512	24	2.0	24	100	0	98	42	4	16	36	1.67
57106624--57106667	14	2.8	16	80	16	56	52	0	0	47	1.00
57110107--57110146	19	2.2	18	86	4	53	37	2	0	60	1.11
57114108--57114146	2	20.0	2	84	5	53	0	51	0	48	1.00
57117350--57117382	14	2.3	15	89	5	50	45	0	0	54	0.99
57117538--57117599	32	1.9	32	86	0	88	45	8	4	41	1.55
57118682--57118902	107	2.1	107	97	0	415	46	15	14	23	1.82

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