genome.fa.s4.2.7.7.80.10.50.1000.176.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  176  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)
54879460--54879507	17	2.8	17	81	6	53	18	2	6	72	1.15
54879485--54879534	24	2.1	24	84	0	64	18	0	10	72	1.12
54880046--54880085	21	1.9	21	84	0	53	47	12	17	22	1.81
54883315--54883342	2	14.0	2	100	0	56	50	0	50	0	1.00
54890246--54890302	6	9.7	6	94	3	98	50	0	49	0	1.00
54890967--54890995	3	9.7	3	100	0	58	0	34	31	34	1.58
54891308--54891348	12	3.4	12	86	0	55	36	36	0	26	1.57
54892218--54892280	2	31.5	2	100	0	126	0	50	0	49	1.00
54896794--54896893	48	2.1	48	100	0	200	20	12	31	37	1.89
54897186--54897211	8	3.2	8	100	0	52	0	0	11	88	0.52
54899131--54899173	16	2.7	16	82	7	52	41	0	4	53	1.21
54911107--54911146	14	2.6	16	88	7	57	62	5	30	2	1.29
54913070--54913115	22	2.3	19	88	11	65	26	0	4	69	1.07
54915040--54915093	28	1.9	28	88	7	83	55	9	1	33	1.42
54918063--54918099	19	1.9	19	88	0	56	51	5	0	43	1.24
54934954--54935080	62	2.0	63	98	1	247	28	9	7	54	1.60
54938195--54938241	15	3.2	15	71	17	53	36	8	2	53	1.44
54938388--54938450	24	2.4	25	87	12	83	6	9	3	80	0.98
54938417--54938448	15	2.2	14	94	5	55	3	6	0	90	0.53
54938413--54938465	11	4.6	11	80	4	52	1	13	1	83	0.82
54938413--54938461	24	2.0	24	84	7	64	2	12	2	83	0.82
54942611--54942686	35	2.2	35	81	9	84	39	0	14	46	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54944658--54944688	4	7.8	4	100	0	62	51	22	0	25	1.48
54949290--54949386	44	2.2	44	96	1	178	47	6	12	34	1.66
54950413--54950485	10	7.2	10	72	20	62	57	2	1	38	1.22
54950637--54950678	14	2.9	15	82	7	59	71	0	0	28	0.86
54952977--54953010	18	1.9	18	94	5	61	44	0	38	17	1.49
54953885--54954137	57	4.3	58	81	8	282	32	2	30	34	1.72
54954014--54954109	29	3.2	29	72	21	99	31	3	31	34	1.73
54953885--54954137	60	4.3	59	81	8	277	32	2	30	34	1.72
54954028--54954126	29	3.3	29	67	19	69	31	2	34	32	1.69
54955983--54956039	6	9.8	6	77	7	55	50	5	0	43	1.24
54955983--54956038	17	3.2	17	82	9	69	50	5	0	44	1.25
54955981--54956039	23	2.6	23	83	5	66	52	5	0	42	1.23
54956008--54956058	17	2.8	18	88	5	68	56	5	3	33	1.42
54956261--54956303	2	21.5	2	100	0	86	48	0	0	51	1.00
54957853--54957918	29	2.2	29	83	5	78	37	12	13	36	1.82
54957871--54957959	29	3.0	29	79	11	99	33	12	13	40	1.82
54957871--54957959	31	3.0	27	75	19	79	33	12	13	40	1.82
54958296--54958470	41	4.3	40	84	1	179	23	24	17	34	1.96
54958322--54958470	81	1.8	81	86	0	217	23	26	16	32	1.96
54958322--54958511	41	4.7	41	78	5	179	22	26	16	34	1.95
54958463--54958559	40	2.4	40	82	3	106	21	23	19	35	1.96
54958486--54958583	40	2.4	41	79	5	119	21	21	18	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54961051--54961079	3	9.7	3	100	0	58	68	0	0	31	0.89
54961365--54961424	2	30.0	2	100	0	120	50	0	50	0	1.00
54961885--54961942	30	1.9	31	89	3	91	41	15	1	41	1.57
54961886--54961965	29	2.7	31	81	11	96	45	18	1	35	1.58
54961930--54962119	29	6.5	28	71	12	91	35	26	1	36	1.66
54961939--54962181	118	2.1	117	86	4	348	32	29	2	35	1.72
54962077--54962215	28	4.8	29	69	22	78	33	30	3	32	1.75
54961956--54962206	59	4.3	59	76	8	244	33	28	2	35	1.72
54972811--54972840	15	2.0	15	100	0	60	33	26	0	40	1.57
54975272--54975311	19	2.1	19	90	9	64	37	5	0	57	1.21
54975382--54975423	3	14.0	3	100	0	84	66	0	0	33	0.92
54975804--54975855	21	2.5	20	76	11	52	40	3	0	55	1.18
54978024--54978075	21	2.5	21	78	6	61	30	26	13	28	1.94
54987252--54987359	51	2.1	53	81	13	127	29	14	8	47	1.74
54989279--54989367	28	3.2	27	77	16	76	44	3	0	51	1.18
54991889--54991919	16	1.9	16	100	0	62	45	6	0	48	1.28
54998625--54998715	43	2.1	43	85	4	121	24	10	18	46	1.81
55003231--55003273	22	1.9	23	85	4	61	51	20	2	25	1.60
55005083--55005162	39	2.1	39	95	0	142	37	13	16	32	1.88
55010605--55010645	21	1.9	21	85	14	57	29	0	0	70	0.87
55030836--55030873	6	6.3	6	90	0	58	18	71	0	10	1.14
55030829--55030858	15	2.0	15	93	0	51	23	66	0	10	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55030836--55030879	12	3.6	12	87	3	61	20	70	0	9	1.14
55030836--55030879	18	2.4	18	84	3	61	20	70	0	9	1.14
55030965--55030999	6	5.8	6	93	0	61	11	68	2	17	1.31
55030965--55030999	18	1.9	18	100	0	70	11	68	2	17	1.31
55031298--55031338	6	6.8	6	97	0	73	19	68	0	12	1.21
55038743--55038788	23	2.0	23	86	0	65	21	10	15	52	1.73
55046810--55046851	21	2.0	21	81	9	50	33	28	23	14	1.94
55053686--55053784	46	2.2	45	85	8	130	54	9	2	34	1.43
55084351--55084403	22	2.4	22	80	0	61	16	11	11	60	1.59
55087093--55087119	13	2.1	13	100	0	54	29	14	14	40	1.86
55091649--55091698	21	2.4	21	83	3	57	0	46	0	54	1.00
55091668--55091702	7	5.0	7	100	0	70	0	42	0	57	0.99
55091755--55091795	14	2.9	14	77	0	55	2	39	2	56	1.26
55094286--55094330	20	2.2	21	84	11	58	51	6	4	37	1.49
55101426--55101463	19	2.0	20	84	5	51	18	5	0	76	0.97
55102574--55102636	28	2.2	29	78	16	69	47	4	9	38	1.57
55106441--55106569	65	2.0	64	92	1	213	43	7	12	36	1.71
55106828--55106865	19	2.0	19	100	0	76	68	5	0	26	1.11
55108522--55108563	17	2.4	17	88	4	57	21	23	2	52	1.59
55112572--55112932	180	2.0	180	97	0	677	30	15	19	34	1.93
55122411--55122724	154	2.0	154	99	0	619	32	14	14	39	1.85
55123406--55123469	31	2.1	31	88	5	94	34	9	10	45	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55138519--55138580	30	2.0	31	87	3	90	17	17	9	54	1.69
55139185--55139218	17	2.0	17	88	0	50	61	8	0	29	1.26
55139406--55139444	8	4.8	8	84	6	51	35	0	2	61	1.10
55139406--55139444	17	2.4	16	86	4	51	35	0	2	61	1.10
55139414--55139446	16	2.0	17	94	5	59	30	0	3	66	1.06
55139565--55139614	18	2.6	19	72	15	50	24	2	2	72	1.06
55140004--55140060	27	2.1	27	90	0	87	31	24	33	10	1.89
55140262--55140304	18	2.4	18	77	14	54	58	0	41	0	0.98
55140653--55141104	95	4.8	94	93	3	732	37	1	13	47	1.53
55140653--55141104	192	2.4	190	90	5	722	37	1	13	47	1.53
55143224--55143263	12	3.3	12	89	0	62	52	0	47	0	1.00
55143372--55143418	21	2.2	21	92	0	76	21	36	17	25	1.94
55145949--55146009	4	15.0	4	78	10	61	0	34	0	65	0.93
55145949--55146010	13	4.6	15	80	15	66	0	35	0	64	0.94
55145961--55146009	25	2.0	25	95	0	89	0	34	0	65	0.93
55146847--55146909	31	2.0	31	96	0	117	44	12	11	31	1.78
55147325--55147406	9	8.6	10	76	18	61	57	3	0	39	1.16
55162893--55163048	69	2.3	69	89	2	242	28	21	11	38	1.88
55171709--55171755	19	2.4	21	82	13	64	57	0	6	36	1.24
55173308--55173444	72	1.9	72	90	0	220	40	13	9	36	1.78
55193591--55193622	14	2.1	16	88	11	50	75	3	18	3	1.08
55210318--55210368	26	2.1	23	86	13	68	50	0	9	39	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55213507--55213557	2	25.5	2	100	0	102	50	0	0	49	1.00
55222419--55222496	18	4.2	19	76	12	65	69	1	1	28	1.04
55222445--55222496	9	5.9	8	75	20	50	73	0	0	26	0.84
55222419--55222566	10	15.6	10	66	18	59	64	1	3	31	1.18
55226214--55226284	37	1.9	37	91	5	117	39	8	16	35	1.79
55226394--55226442	24	2.0	24	84	4	62	53	4	0	42	1.20
55226420--55226457	19	2.0	19	89	0	58	52	2	2	42	1.29
55226556--55226580	3	8.3	3	100	0	50	32	0	0	68	0.90
55227175--55227233	29	2.0	29	84	12	77	57	1	0	40	1.09
55227193--55227241	24	2.0	25	84	11	66	55	4	0	40	1.19

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