genome.fa.s3.2.7.7.80.10.50.1000.22.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  22  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)
10076331--10076437	18	5.8	18	68	6	79	13	25	27	34	1.93
10076319--10076398	36	2.2	36	86	0	106	15	23	27	33	1.94
10076336--10076455	36	3.2	36	89	6	186	10	25	28	35	1.88
10087096--10087309	23	9.5	23	73	14	160	42	21	24	11	1.86
10087097--10087309	48	4.8	44	76	13	168	41	21	24	11	1.87
10087150--10087224	39	1.9	39	91	0	123	44	21	22	12	1.85
10104292--10104327	19	1.9	19	94	5	65	52	16	11	19	1.73
10104644--10104756	58	1.9	58	87	3	165	31	1	22	44	1.63
10124353--10124395	4	10.8	4	89	0	68	25	4	23	46	1.71
10124354--10124395	16	2.6	16	100	0	84	26	4	23	45	1.73
10137228--10137265	19	2.0	20	89	5	60	18	10	23	47	1.79
10145367--10145404	2	19.5	2	94	5	69	50	0	0	50	1.00
10145688--10145740	14	3.7	14	80	12	63	60	11	0	28	1.31
10145688--10145740	15	3.7	14	75	12	54	60	11	0	28	1.31
10153269--10153317	24	2.0	24	84	7	64	59	0	4	36	1.17
10155021--10155081	23	2.7	22	72	5	59	44	3	3	49	1.35
10172342--10172379	16	2.4	16	90	0	58	28	2	18	50	1.61
10174449--10174491	21	2.0	21	82	8	52	69	4	0	25	1.07
10178848--10178880	17	1.9	17	93	0	57	45	15	6	33	1.70
10179146--10179196	18	2.8	19	77	14	63	62	7	0	29	1.23
10180465--10180531	35	2.0	33	82	5	80	22	2	4	70	1.19
10184249--10184279	2	16.0	2	93	6	55	0	51	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10187988--10188013	6	4.3	6	100	0	52	0	15	84	0	0.62
10193106--10193163	29	2.0	29	83	6	73	55	3	6	34	1.44
10193374--10193398	13	1.9	13	100	0	50	32	4	8	56	1.47
10198447--10198482	16	2.2	17	95	5	65	75	19	5	0	1.00
10201056--10201108	18	3.1	18	84	10	58	54	0	1	43	1.11
10201284--10201322	16	2.5	15	84	8	51	71	0	0	28	0.86
10201284--10201323	20	2.0	20	85	9	55	70	0	0	30	0.88
10201576--10201629	2	27.0	2	100	0	108	50	0	50	0	1.00
10216962--10216986	3	8.3	3	100	0	50	68	0	32	0	0.90
10217893--10217936	22	2.0	21	83	12	54	59	0	2	38	1.10
10226881--10227069	41	4.6	41	83	2	218	32	17	27	22	1.97
10226881--10227104	123	1.8	123	82	5	292	32	19	25	22	1.98
10228565--10228674	41	2.7	41	84	1	159	34	16	28	20	1.94
10248844--10248884	19	2.1	20	90	4	66	31	0	0	68	0.90
10267598--10267635	18	2.1	19	85	5	51	50	0	0	50	1.00
10267883--10267913	2	15.5	2	100	0	62	51	0	0	48	1.00
10268200--10268253	20	2.6	21	79	8	56	42	0	7	50	1.30
10280144--10280168	2	12.5	2	100	0	50	0	0	48	52	1.00
10283473--10283541	29	2.4	30	85	9	90	50	0	0	49	1.00
10283558--10283619	30	2.0	31	87	6	90	51	3	0	45	1.17
10286726--10286796	29	2.4	30	84	13	94	38	5	1	54	1.33
10288476--10288516	18	2.2	19	87	12	59	14	2	0	82	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10288476--10288508	6	5.7	6	92	7	59	15	0	0	84	0.61
10295789--10295845	23	2.5	23	77	11	71	54	0	0	45	0.99
10295800--10295838	17	2.5	17	84	16	57	64	0	0	35	0.94
10307020--10307059	16	2.5	16	87	0	62	37	5	30	27	1.78
10310903--10311964	324	3.3	325	95	1	1898	38	20	12	27	1.89
10322056--10322131	25	2.7	29	76	19	81	50	0	1	48	1.09
10322570--10322605	4	8.8	4	93	6	63	25	0	22	52	1.47
10324246--10324309	29	2.2	29	83	2	76	56	7	6	29	1.52
10337584--10337633	14	3.8	13	79	20	52	68	8	0	24	1.16
10337591--10337625	15	2.4	15	90	4	54	71	5	0	22	1.07
10337750--10337819	19	3.9	19	69	14	58	70	20	2	7	1.24
10337763--10337817	23	2.4	23	74	14	60	70	20	3	5	1.22
10338129--10338175	20	2.3	20	89	7	69	29	12	25	31	1.93
10349573--10349631	25	2.3	26	86	11	79	30	3	0	66	1.08
10356752--10356776	2	12.5	2	100	0	50	0	48	0	52	1.00
10359182--10359230	25	2.0	25	84	8	64	30	2	8	59	1.38
10359893--10359940	21	2.3	21	96	0	87	56	16	4	22	1.58
10386187--10386232	19	2.5	20	79	13	53	23	0	6	69	1.11
10386186--10386226	19	2.2	19	86	8	57	21	0	4	73	1.02
10387727--10387757	6	5.2	6	100	0	62	16	0	32	51	1.44
10396247--10396341	47	2.0	47	100	0	190	45	14	14	25	1.83
10398010--10398183	95	1.8	95	87	2	260	38	22	13	25	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10399390--10399417	14	2.0	14	100	0	56	57	0	0	42	0.99
10400241--10400304	30	2.1	31	82	8	78	39	7	4	48	1.53
10421380--10421437	18	3.2	18	78	9	73	56	17	0	25	1.40
10421383--10421438	17	3.2	17	79	18	69	55	16	0	28	1.41
10427220--10427260	2	22.0	2	85	14	61	46	0	0	53	1.00
10427829--10427854	13	2.0	13	100	0	52	46	15	7	30	1.74
10433389--10433429	20	2.0	20	85	0	55	51	2	0	46	1.14
10433981--10434016	17	2.1	18	89	5	56	41	2	13	41	1.59
10444299--10444355	28	2.0	28	82	0	69	31	19	29	19	1.96
10444863--10444909	12	3.9	12	82	0	67	46	21	19	12	1.82
10444864--10444913	24	2.1	24	96	0	91	44	20	18	18	1.88
10446109--10446201	45	2.1	45	95	0	168	54	2	7	35	1.41
10458512--10458698	23	8.4	23	67	14	106	44	20	22	12	1.85
10461361--10461389	9	3.3	9	90	9	51	89	10	0	0	0.48
10462716--10462760	23	2.0	23	91	8	74	68	2	0	28	1.01
10485033--10485241	114	1.8	114	91	2	348	39	22	12	25	1.89
10487941--10487974	16	2.1	16	94	0	59	41	0	0	58	0.98
10489275--10489327	27	1.9	28	85	11	74	54	1	0	43	1.11
10508350--10508400	25	2.0	25	100	0	102	37	7	15	39	1.77
10514365--10514550	93	2.0	93	97	0	354	20	18	19	41	1.90
10528004--10528068	19	3.3	19	64	16	51	40	9	21	29	1.84
10527996--10528077	40	2.0	40	100	0	164	39	9	19	31	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10528300--10528427	28	4.6	27	76	18	95	52	0	1	45	1.15
10528351--10528485	58	2.3	59	84	6	186	48	0	1	48	1.15
10528561--10528669	44	2.4	45	84	6	132	34	21	5	38	1.76
10528652--10528705	16	3.4	16	75	10	56	33	24	1	40	1.66
10544193--10544228	2	18.0	2	100	0	72	50	0	50	0	1.00
10566330--10566398	33	2.1	33	100	0	138	60	5	0	33	1.20
10577940--10577981	21	2.0	21	100	0	84	38	9	28	23	1.86
10593990--10594015	8	3.2	8	100	0	52	11	0	38	50	1.39
10597406--10597437	1	32.0	1	93	0	55	0	3	96	0	0.20
10601972--10602014	20	2.2	19	87	4	59	41	0	2	55	1.12
10624927--10624972	3	15.3	3	100	0	92	67	0	0	32	0.91
10631219--10631294	37	2.1	36	92	7	127	50	2	0	47	1.15
10636052--10636077	6	4.3	6	100	0	52	50	0	34	15	1.45
10637539--10637740	103	2.0	103	92	0	341	29	26	14	29	1.95
10637844--10638002	80	2.0	79	86	3	221	36	13	23	27	1.92
10645227--10645288	23	2.6	24	80	14	74	48	6	4	40	1.50
10662898--10662937	21	1.9	21	94	0	71	45	7	15	32	1.74
10664729--10664760	16	2.0	17	88	11	50	50	6	18	25	1.70
10665479--10665512	17	2.0	17	88	11	52	38	0	2	58	1.13
10665690--10665725	5	7.2	5	93	0	63	38	19	0	41	1.52
10674003--10674034	2	16.0	2	93	0	55	46	0	0	53	1.00
10680655--10680720	23	2.8	24	88	9	100	39	1	7	51	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10682545--10682569	2	12.5	2	100	0	50	48	0	52	0	1.00
10692286--10692312	5	5.4	5	100	0	54	44	0	55	0	0.99
10692286--10692320	15	2.3	15	90	0	52	40	0	57	2	1.14
10702955--10703005	15	3.3	15	74	15	50	23	0	3	72	1.01
10705578--10705613	16	2.2	18	85	14	51	50	22	5	22	1.70
10706522--10706559	20	1.9	20	84	10	51	60	2	0	36	1.11
10716947--10716976	3	10.0	3	92	0	51	63	0	33	3	1.11
10720073--10720098	7	3.7	7	100	0	52	0	0	15	84	0.62
10723794--10723854	25	2.4	25	81	10	79	62	0	27	9	1.27
10723640--10724315	249	2.7	246	78	14	754	44	4	32	17	1.70

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