genome.fa.s3.2.7.7.80.10.50.1000.131.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: CP032247.1 Gossypioides kirkii chromosome KI_05
Parameters: 2 7 7 80 10 50 1000
Length:  50980411

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   

This is table  131  of  171  ( 20472 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)
40978446--40978692	40	5.6	41	64	24	110	34	17	15	32	1.91
40990444--40990621	60	3.0	60	86	6	220	39	3	24	32	1.72
40990571--40990675	29	3.7	27	75	14	77	43	3	22	29	1.71
40990648--40990810	31	5.4	31	76	17	112	40	3	19	36	1.69
40990657--40990870	30	7.2	30	79	7	152	39	3	19	37	1.69
40990511--40990858	30	11.8	28	71	15	134	39	3	21	35	1.70
40990719--40990868	58	2.6	58	82	12	173	38	3	20	38	1.69
40993085--40993251	90	1.9	89	83	5	221	38	20	9	31	1.85
40993483--40993514	16	2.0	16	93	0	55	71	0	0	28	0.86
40993441--40993514	9	8.4	9	70	16	57	64	0	2	32	1.07
40993692--40993830	42	3.3	43	86	6	176	31	29	13	25	1.94
40998836--40999013	41	4.4	40	76	8	108	15	26	22	35	1.93
40998863--40999038	41	4.3	41	82	1	183	16	27	22	34	1.95
40999019--40999058	21	1.9	21	89	0	62	22	30	22	25	1.99
40998976--40999098	62	2.0	62	86	0	174	18	30	22	28	1.98
40999038--40999150	41	2.8	42	81	7	119	17	28	22	31	1.96
40999351--40999422	32	2.3	31	85	4	90	44	1	11	43	1.48
41002869--41002903	17	2.1	18	89	10	56	42	0	0	57	0.99
41002956--41002991	15	2.3	16	90	4	56	63	0	0	36	0.94
41005577--41005646	9	8.4	9	74	15	53	68	0	1	30	0.98
41005619--41005657	16	2.3	16	86	8	51	76	2	2	17	1.01
41005584--41005656	33	2.2	33	80	0	83	67	1	2	28	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41006979--41007050	17	4.2	17	72	0	63	36	5	5	52	1.48
41006973--41007041	34	2.0	34	88	0	102	31	5	8	53	1.55
41008902--41008975	29	2.5	30	78	10	89	32	13	6	47	1.69
41008901--41009151	59	4.3	59	74	8	151	31	21	6	40	1.79
41009046--41009324	59	4.8	60	84	4	311	31	24	7	36	1.83
41009016--41009325	117	2.6	117	80	5	358	32	25	6	36	1.81
41009013--41009300	29	9.8	30	68	20	119	31	25	6	36	1.82
41025454--41025492	20	1.9	21	89	5	62	33	28	20	17	1.96
41025454--41025497	20	2.2	20	84	8	54	36	27	18	18	1.94
41026564--41026596	5	6.8	5	89	6	50	21	0	3	75	0.93
41026563--41026596	14	2.4	14	95	5	59	23	0	2	73	0.97
41034803--41034841	6	6.5	6	87	0	51	23	30	0	46	1.53
41036597--41036642	22	2.1	22	91	0	74	30	26	23	19	1.98
41048221--41048273	22	2.4	22	87	0	70	39	20	30	9	1.84
41052781--41052830	25	2.0	25	92	0	82	42	14	4	40	1.64
41053017--41053054	15	2.4	17	86	8	53	34	5	0	60	1.19
41055369--41055429	31	2.0	30	84	6	79	40	13	9	36	1.77
41063906--41064075	30	5.7	30	90	1	234	38	17	13	30	1.88
41064412--41064436	2	12.5	2	100	0	50	52	0	0	48	1.00
41067327--41067369	21	2.2	20	83	8	52	32	13	2	51	1.54
41071944--41072005	31	2.1	29	85	11	81	32	8	14	45	1.74
41072264--41072290	2	13.5	2	100	0	54	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41074093--41074152	13	4.6	12	76	15	57	6	1	35	56	1.35
41074093--41074154	27	2.3	27	84	10	83	6	1	35	56	1.35
41074093--41074154	14	4.7	13	82	9	65	6	1	35	56	1.35
41077370--41077441	32	2.2	32	95	0	126	36	2	4	56	1.33
41080148--41080297	75	2.0	75	97	0	282	34	17	18	30	1.93
41080551--41080629	41	1.9	41	86	0	113	63	12	3	20	1.44
41085812--41085863	23	2.2	24	86	3	70	30	13	15	40	1.86
41087841--41087879	8	5.0	8	88	11	55	23	2	0	74	0.94
41087846--41087903	17	3.2	18	87	7	73	18	8	0	72	1.10
41089993--41090085	21	4.3	21	82	8	98	43	21	18	17	1.89
41096757--41096794	20	1.9	20	88	0	58	26	10	15	47	1.78
41112002--41112173	86	2.0	86	95	0	308	36	15	12	35	1.85
41118326--41118371	22	2.1	22	95	0	83	63	0	2	34	1.07
41134987--41135046	28	2.1	29	84	6	79	53	10	0	36	1.35
41138617--41138658	17	2.4	18	84	11	61	38	0	7	54	1.28
41138629--41138692	17	3.8	17	71	17	53	46	3	3	46	1.34
41139101--41139176	26	2.9	26	74	3	73	38	26	9	26	1.86
41139447--41139579	9	13.8	9	66	18	54	48	2	4	44	1.35
41139473--41139558	21	4.2	21	76	4	77	47	2	5	44	1.39
41139492--41139577	20	4.3	21	77	4	72	50	2	5	41	1.39
41139492--41139577	41	2.2	39	81	8	93	50	2	5	41	1.39
41141045--41141181	59	2.3	59	87	5	188	36	4	27	31	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41141163--41141479	30	10.6	30	92	2	496	35	2	24	38	1.68
41141276--41141332	19	3.4	19	65	34	58	31	3	26	38	1.73
41143191--41143825	38	17.6	37	75	13	429	28	20	17	33	1.95
41143115--41143394	69	4.0	68	81	10	237	28	19	16	34	1.94
41143374--41143783	69	5.9	68	88	4	561	28	20	17	33	1.96
41143374--41143783	137	2.9	137	88	5	576	28	20	17	33	1.96
41152861--41153074	23	9.5	23	71	16	144	42	21	25	11	1.86
41152915--41152989	39	1.9	39	91	0	123	44	21	22	12	1.85
41152954--41153074	48	2.6	46	87	7	172	39	23	25	11	1.88
41159308--41159521	23	9.5	23	71	16	144	42	21	25	11	1.86
41159362--41159436	39	1.9	39	91	0	123	44	21	22	12	1.85
41159401--41159521	48	2.6	46	87	7	172	39	23	25	11	1.88
41165051--41165151	29	3.5	29	72	8	98	37	3	26	31	1.75
41165013--41165153	59	2.4	59	89	4	205	34	4	29	31	1.77
41165133--41165626	30	16.6	30	90	2	739	35	2	24	37	1.69
41165145--41165626	89	5.4	90	90	2	758	35	2	23	38	1.69
41167139--41167178	20	2.0	21	90	5	64	17	17	45	20	1.86
41167337--41167438	6	17.0	6	74	14	77	48	1	0	50	1.12
41167374--41167423	25	2.0	25	88	0	73	54	4	0	42	1.19
41167348--41167438	42	2.2	42	82	5	105	50	2	0	47	1.13
41167367--41167430	31	2.1	31	91	5	103	53	3	0	43	1.16
41167368--41167438	17	4.4	16	79	16	85	54	2	0	42	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41169320--41169446	23	5.5	22	85	5	128	11	22	22	44	1.84
41169321--41169445	46	2.7	47	83	6	155	11	23	21	44	1.84
41169344--41169493	69	2.1	69	87	11	209	12	22	20	44	1.84
41169341--41169490	23	6.4	23	80	10	146	12	22	22	43	1.86
41170250--41170337	30	3.0	28	81	9	95	39	27	1	31	1.64
41170250--41170364	29	3.9	29	79	13	103	38	26	1	33	1.67
41170260--41170380	29	4.2	29	73	14	72	37	26	2	33	1.70
41170288--41170519	59	3.9	59	80	9	269	33	28	2	35	1.71
41170286--41170520	117	2.0	117	89	3	364	33	28	2	35	1.71
41170286--41170571	118	2.4	116	82	5	317	32	28	3	35	1.75
41172947--41172974	14	2.0	14	100	0	56	57	0	0	42	0.99
41173056--41173096	7	5.9	7	78	21	50	73	2	0	24	0.96
41173056--41173105	23	2.2	22	83	16	59	72	4	0	24	1.02
41174749--41174781	15	2.2	15	100	0	66	69	6	6	18	1.30
41178619--41178643	2	12.5	2	100	0	50	52	0	0	48	1.00
41180508--41180541	16	2.1	16	100	0	68	26	26	11	35	1.91
41187946--41187975	16	1.9	16	93	6	53	40	0	3	56	1.16
41188633--41188702	37	2.0	34	83	13	88	51	1	0	47	1.09
41189034--41189067	11	3.1	11	95	0	59	17	23	26	32	1.97
41189409--41189457	23	2.2	22	85	3	62	40	20	18	20	1.91
41197913--41197941	11	2.7	11	94	5	51	72	0	0	27	0.85
41200540--41200938	60	6.7	59	76	11	281	32	15	14	37	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41204716--41204778	31	2.1	29	82	11	74	41	3	4	50	1.39
41204774--41205244	83	5.6	84	90	5	706	43	5	4	46	1.44
41205337--41205397	22	2.8	22	84	0	77	40	29	8	21	1.82
41206533--41206592	22	2.7	22	68	0	66	40	8	3	48	1.50
41206584--41206634	22	2.3	22	100	0	102	45	3	3	47	1.40
41207179--41207225	24	2.0	24	87	8	69	25	29	34	10	1.90
41207192--41207225	12	2.8	12	81	0	50	23	32	35	8	1.86
41207753--41207809	17	3.6	18	71	28	65	24	12	3	59	1.48
41207712--41207817	30	3.5	30	89	1	122	27	7	2	62	1.36
41208643--41209134	59	8.2	58	80	7	436	40	15	16	28	1.89

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