genome.fa.s9.2.7.7.80.10.50.1000.141.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: 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  141  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)
43813006--43813047	9	4.9	8	86	11	57	23	2	2	71	1.10
43813080--43813137	19	3.0	19	83	16	75	36	0	6	56	1.26
43813595--43813634	20	2.0	20	90	0	62	50	0	0	50	1.00
43821456--43821644	18	10.7	18	76	6	154	22	21	19	36	1.95
43821440--43821540	36	2.8	36	81	0	85	20	23	20	34	1.96
43821490--43821644	34	4.4	36	82	4	165	21	21	20	36	1.96
43821456--43821644	54	3.6	54	81	9	194	22	21	19	36	1.95
43825418--43825470	26	2.0	26	100	0	106	58	11	7	22	1.57
43826436--43826473	2	19.0	2	100	0	76	0	0	50	50	1.00
43828213--43828276	32	2.0	33	90	3	103	34	7	7	50	1.60
43830864--43830951	42	2.1	42	81	12	101	28	22	26	22	1.99
43832280--43832331	20	2.8	18	78	21	63	51	3	1	42	1.31
43832350--43832383	17	2.0	17	88	11	52	29	0	5	64	1.17
43841344--43841380	2	18.5	2	100	0	74	48	0	0	51	1.00
43843759--43843895	62	2.2	63	96	2	251	59	2	11	25	1.46
43847101--43847143	12	3.5	12	84	6	50	48	2	4	44	1.36
43848296--43848453	30	5.4	29	72	10	92	34	4	27	34	1.77
43849058--43849088	5	6.0	5	92	7	53	0	19	0	80	0.71
43849058--43849088	16	2.0	16	93	6	55	0	19	0	80	0.71
43849455--43849488	13	2.6	13	90	0	50	55	0	0	44	0.99
43850346--43850393	17	2.8	17	87	3	60	50	6	2	41	1.39
43850766--43851577	205	3.9	206	87	0	1115	22	21	19	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43853135--43853215	6	13.5	6	77	12	51	2	9	7	80	0.99
43858252--43858385	59	2.3	59	82	5	166	43	6	20	29	1.77
43858299--43858382	29	2.8	30	66	20	68	41	9	22	26	1.84
43858363--43858505	30	4.9	29	78	10	141	34	2	27	35	1.69
43858363--43858496	29	4.7	28	76	13	114	35	2	26	36	1.69
43858363--43858496	57	2.3	57	83	10	166	35	2	26	36	1.69
43858363--43858512	57	2.6	57	81	10	137	35	2	27	34	1.71
43865348--43865397	3	16.7	3	100	0	100	34	0	0	66	0.92
43873634--43873663	5	6.0	5	100	0	60	80	0	0	20	0.72
43880245--43880302	19	3.1	19	71	9	57	43	0	0	56	0.99
43880232--43880302	37	1.9	37	85	5	99	40	1	0	57	1.07
43880389--43880446	29	1.9	31	89	6	93	68	3	5	22	1.24
43885261--43886039	191	4.0	188	78	12	581	25	8	4	60	1.46
43885730--43885797	22	3.2	21	68	16	59	20	7	5	66	1.38
43885739--43885802	14	4.6	14	68	14	51	21	4	3	70	1.20
43885261--43886040	39	19.8	39	80	9	765	25	8	4	60	1.46
43885716--43885892	91	1.9	91	89	5	277	23	7	5	62	1.44
43885607--43885996	210	1.9	208	86	6	556	25	8	4	61	1.44
43885807--43886031	40	5.8	36	77	10	128	25	8	5	60	1.47
43886209--43886319	27	4.1	28	88	3	147	39	15	27	17	1.89
43886252--43886345	27	3.5	27	84	5	93	39	19	27	13	1.89
43886306--43886365	27	2.2	27	84	0	75	40	20	23	16	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43891707--43891743	16	2.2	18	85	9	51	48	0	8	43	1.32
43904499--43904536	17	2.2	17	95	0	67	47	2	13	36	1.56
43907503--43907566	26	2.5	26	76	5	67	43	4	14	37	1.66
43918182--43918238	23	2.5	24	81	10	68	40	17	3	38	1.67
43922859--43922897	16	2.3	17	86	8	53	64	0	17	17	1.30
43922866--43922899	16	2.1	17	94	5	61	61	0	23	14	1.33
43924581--43925032	245	1.8	245	83	0	600	27	19	20	33	1.96
43928634--43928670	2	18.5	2	100	0	74	51	0	0	48	1.00
43931144--43931197	16	3.4	16	87	10	83	40	3	27	27	1.73
43932446--43932475	14	2.1	14	93	0	51	56	13	6	23	1.60
43933358--43933478	43	2.8	43	88	0	179	30	26	19	23	1.98
43933550--43933585	14	2.6	14	91	4	56	52	11	0	36	1.37
43942116--43942166	25	2.1	25	81	3	59	58	17	0	23	1.38
43955367--43955412	22	2.0	22	87	4	65	60	0	4	34	1.16
43956705--43956886	51	3.5	50	83	5	204	30	23	15	30	1.95
43963877--43964114	51	4.6	51	85	4	291	29	23	14	32	1.94
43967708--43967745	19	2.0	19	94	0	67	47	13	0	39	1.42
43967728--43967808	36	2.2	38	82	12	107	40	6	6	46	1.54
43967847--43967922	18	4.3	18	72	12	77	36	11	0	51	1.39
43974176--43974217	16	2.6	16	85	7	50	50	4	9	35	1.56
43974775--43974818	21	2.1	21	87	8	63	40	2	0	56	1.11
43975279--43975307	14	2.1	14	100	0	58	20	6	6	65	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43975779--43975841	32	2.0	32	84	12	85	66	19	4	9	1.38
43975822--43975861	12	3.3	12	89	0	62	70	17	5	7	1.30
43975778--43975861	24	3.7	24	65	20	63	67	17	4	9	1.36
43975764--43975873	44	2.5	44	76	8	116	67	17	4	10	1.37
43975876--43975961	22	4.1	21	78	10	88	68	18	5	6	1.33
43981721--43981794	31	2.4	31	93	0	121	20	18	14	45	1.85
43983127--43983428	29	10.1	29	70	17	147	36	2	29	31	1.70
43983127--43983460	59	5.6	60	80	10	346	35	2	29	32	1.72
43983197--43983460	116	2.3	115	82	7	309	34	2	30	32	1.72
43983222--43983438	29	7.5	29	72	16	173	34	1	30	32	1.69
43983362--43983458	30	3.3	29	66	20	74	32	4	34	28	1.76
43985828--43986318	200	2.5	200	89	0	766	19	21	22	36	1.95
44001218--44001256	21	1.9	20	89	5	60	35	10	23	30	1.88
44001374--44001407	15	2.3	15	94	0	59	23	0	0	76	0.79
44001412--44001510	32	3.1	30	75	17	92	57	0	2	40	1.10
44001477--44001515	9	3.8	10	83	16	53	61	0	0	38	0.96
44001412--44001516	11	9.4	11	69	16	56	58	0	1	40	1.09
44001412--44001513	23	4.6	23	67	20	65	56	0	1	41	1.10
44001963--44001987	13	1.9	13	100	0	50	56	8	8	28	1.57
44012487--44012590	28	3.7	27	82	5	127	51	18	15	14	1.76
44012706--44012737	3	10.7	3	100	0	64	68	31	0	0	0.90
44012740--44012766	12	2.2	12	100	0	54	51	0	14	33	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44015146--44015277	23	5.8	23	90	2	178	13	21	26	37	1.91
44015146--44015277	45	2.9	45	89	3	185	13	21	26	37	1.91
44015139--44015284	68	2.2	67	89	1	220	12	21	26	40	1.88
44015299--44015346	21	2.3	21	96	0	87	22	14	16	45	1.84
44023036--44023173	73	1.9	72	98	1	267	36	6	13	43	1.69
44027902--44028029	27	4.4	29	70	16	79	32	6	28	32	1.82
44028327--44028396	6	12.0	6	73	11	56	55	2	2	38	1.29
44028364--44028396	17	1.9	17	93	0	57	60	3	3	33	1.27
44028724--44029247	206	2.6	205	84	1	647	25	22	17	34	1.96
44029069--44029403	157	2.1	156	89	3	512	24	20	19	35	1.96
44029726--44029997	92	3.0	93	90	2	399	31	19	16	31	1.94
44030014--44030312	49	6.0	50	73	6	250	13	25	21	38	1.91
44030015--44030310	99	3.0	99	80	3	308	13	25	21	39	1.90
44031539--44031599	28	2.2	27	85	8	86	1	14	6	77	1.05
44031539--44031591	15	3.6	15	70	14	56	1	13	5	79	0.99
44031539--44031591	14	3.7	15	75	7	56	1	13	5	79	0.99
44032392--44032437	16	2.7	17	77	16	51	6	23	0	69	1.11
44032475--44032506	12	2.7	12	95	0	55	0	18	0	81	0.70
44033911--44033948	19	2.0	19	100	0	76	47	21	15	15	1.82
44037109--44037351	59	4.2	58	79	7	212	34	0	25	39	1.62
44037107--44037367	29	9.0	30	75	12	158	34	1	24	39	1.63
44037199--44037377	88	2.0	89	83	3	227	37	2	24	35	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44037199--44037418	88	2.5	89	78	9	220	37	2	22	37	1.67
44037803--44037827	5	5.0	5	100	0	50	0	20	60	20	1.37
44038503--44038539	18	2.1	18	94	0	65	45	2	0	51	1.15
44039387--44039456	11	6.2	11	80	6	59	51	2	0	45	1.16
44039398--44039457	17	3.5	18	82	11	72	55	3	0	41	1.16
44039371--44039457	6	15.0	6	75	11	74	51	2	1	44	1.21
44041202--44041243	22	2.0	22	86	13	61	73	0	2	23	0.94
44041293--44041337	17	2.7	17	89	3	65	73	2	2	22	1.05
44041586--44041637	22	2.3	23	83	6	61	53	1	1	42	1.23
44048014--44048092	28	2.8	29	82	3	97	27	1	34	36	1.65

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