genome.fa.s12.2.7.7.80.10.50.1000.125.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: CP032245.1 Gossypioides kirkii chromosome KI_2_4
Parameters: 2 7 7 80 10 50 1000
Length:  41238926

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   

This is table  125  of  132  ( 15769 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)
38471356--38471401	23	2.0	23	95	0	83	41	6	13	39	1.70
38473013--38473041	2	14.5	2	100	0	58	48	0	51	0	1.00
38476289--38476313	13	1.9	13	100	0	50	44	16	24	16	1.86
38478384--38478416	16	2.0	17	94	5	59	42	0	0	57	0.98
38480353--38480377	6	4.2	6	100	0	50	16	36	32	16	1.90
38480810--38480892	6	13.8	6	92	5	141	16	1	15	66	1.32
38482557--38484028	733	2.0	733	99	0	2926	26	25	19	29	1.98
38484584--38484633	25	2.0	25	100	0	100	28	20	4	48	1.67
38484668--38484728	27	2.3	27	94	0	104	21	39	24	14	1.91
38485287--38485328	14	2.9	15	85	7	59	30	0	2	66	1.04
38487106--38487140	18	1.9	18	88	0	52	11	45	0	42	1.40
38490774--38490807	14	2.4	14	85	0	50	47	17	11	23	1.81
38492666--38492714	23	2.2	22	82	7	62	53	6	0	40	1.26
38492672--38492715	23	1.9	23	90	0	70	50	6	0	43	1.29
38492698--38492767	18	4.0	16	76	18	68	61	1	4	32	1.24
38493813--38493857	21	2.2	20	84	8	54	37	2	8	51	1.46
38495842--38495907	29	2.4	28	82	9	82	39	0	1	59	1.07
38499226--38499277	2	26.0	2	100	0	104	50	0	0	50	1.00
38502891--38502928	2	19.0	2	94	0	67	50	2	0	47	1.15
38504806--38504847	18	2.3	19	80	8	52	40	2	4	52	1.35
38529148--38529178	15	2.1	15	100	0	62	41	0	25	32	1.56
38540811--38540845	18	1.9	18	88	0	52	42	5	22	28	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38544672--38544716	21	2.1	22	87	4	65	55	11	8	24	1.63
38546088--38546200	30	3.5	31	77	14	104	55	4	0	38	1.26
38546114--38546186	36	2.1	36	89	7	114	47	4	1	46	1.30
38546123--38546200	36	2.2	36	81	4	86	56	2	1	39	1.21
38549430--38549472	14	2.9	15	79	6	52	30	0	16	53	1.43
38549520--38549564	13	3.2	14	81	9	56	26	0	28	44	1.55
38549827--38549915	45	2.0	45	90	0	142	20	19	28	32	1.96
38551704--38551798	30	3.2	30	69	8	95	46	12	5	35	1.65
38552551--38552606	14	4.2	13	80	11	51	0	32	0	67	0.91
38552546--38552589	20	2.2	20	88	8	63	0	38	0	61	0.96
38553657--38553690	13	2.8	12	87	12	52	14	2	0	82	0.79
38553657--38553690	6	5.7	6	90	10	52	14	2	0	82	0.79
38554271--38554298	8	3.5	8	100	0	56	53	35	10	0	1.36
38554470--38554544	24	3.1	24	96	0	132	54	9	12	24	1.66
38558637--38558672	17	2.1	18	89	5	56	44	2	0	52	1.15
38559329--38559393	13	5.0	13	83	3	78	36	21	6	35	1.79
38603755--38603823	31	2.2	31	86	0	93	36	11	11	40	1.78
38609713--38609750	16	2.4	16	95	0	67	39	5	26	28	1.78
38609732--38609836	46	2.5	43	82	13	112	32	5	24	37	1.79
38609913--38610013	26	3.7	26	74	14	94	51	0	0	47	1.07
38609906--38610066	58	2.8	57	85	10	204	51	0	1	46	1.11
38609911--38610052	32	5.0	28	72	20	109	50	0	0	48	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38610040--38610090	24	2.1	24	82	10	59	56	0	5	37	1.23
38619893--38619990	49	2.0	49	95	0	178	34	21	13	30	1.92
38621958--38622003	22	2.1	22	83	0	56	73	13	4	8	1.21
38630140--38630192	25	2.1	25	82	6	63	22	15	1	60	1.44
38630896--38630975	30	2.5	31	78	15	76	53	7	1	37	1.37
38634246--38634276	15	2.0	16	93	6	55	48	0	6	45	1.28
38638252--38638318	30	2.2	30	89	5	100	29	7	40	22	1.81
38638282--38638503	108	2.1	108	89	0	336	28	10	31	29	1.91
38638963--38639033	30	2.3	32	79	18	87	36	5	14	43	1.68
38640247--38640306	29	2.1	29	87	0	84	36	18	10	35	1.84
38643370--38643764	152	2.6	150	78	6	384	30	10	22	36	1.87
38659522--38659565	3	14.7	3	100	0	88	31	0	0	68	0.90
38665035--38665108	19	3.8	19	75	8	69	36	1	4	58	1.26
38665103--38665150	20	2.3	21	85	3	62	37	4	8	50	1.52
38665219--38665260	20	2.1	20	86	0	57	33	2	2	61	1.21
38671046--38671083	19	2.0	19	89	0	58	36	2	13	47	1.56
38671080--38671148	36	2.0	34	88	8	104	30	10	7	52	1.62
38678298--38678371	11	6.8	11	71	9	53	43	0	0	56	0.99
38678298--38678372	32	2.3	31	80	8	78	42	0	0	57	0.98
38696019--38696077	31	1.9	31	86	6	84	45	11	8	33	1.71
38701487--38701568	30	2.7	32	80	12	84	62	2	0	35	1.09
38702646--38702720	21	3.6	21	75	7	71	45	14	4	36	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38702820--38702886	34	1.9	34	82	11	82	56	5	4	32	1.43
38707430--38707475	20	2.2	21	84	3	58	63	0	0	36	0.95
38714691--38714733	3	14.3	3	100	0	86	67	0	0	32	0.91
38715328--38715728	203	2.0	202	93	0	694	38	8	11	41	1.72
38715695--38715753	30	1.9	31	82	3	75	38	5	3	52	1.40
38716314--38716338	9	2.8	9	100	0	50	48	0	0	52	1.00
38721408--38721609	50	4.1	50	89	3	293	29	26	17	26	1.98
38727858--38728140	133	2.1	134	94	0	487	39	17	13	29	1.88
38730685--38730763	34	2.3	34	86	0	122	50	5	24	20	1.68
38734703--38734767	22	2.8	24	81	11	80	21	1	12	64	1.35
38734711--38734762	11	4.7	11	75	0	50	23	1	11	63	1.37
38735598--38735631	16	2.0	17	88	11	52	23	0	5	70	1.09
38740098--38740137	20	2.0	20	90	5	62	67	7	20	5	1.34
38740954--38740997	12	3.8	12	82	17	58	61	0	9	29	1.27
38740965--38740997	12	2.6	13	95	4	59	60	0	9	30	1.27
38741039--38741067	13	2.1	14	93	6	51	34	0	0	65	0.93
38743334--38743387	26	2.1	26	96	0	99	35	9	27	27	1.87
38747169--38747198	11	2.7	11	100	0	60	0	30	0	70	0.88
38748414--38748468	27	2.0	27	82	0	65	49	3	9	38	1.52
38748548--38748615	26	2.6	26	100	0	136	55	14	4	25	1.57
38753325--38753349	13	1.9	13	100	0	50	32	0	4	64	1.12
38758687--38758750	31	2.1	30	82	5	76	46	3	0	50	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38773257--38773321	2	32.5	2	100	0	130	0	49	0	50	1.00
38782034--38782078	6	7.5	6	97	0	81	15	48	2	33	1.57
38783743--38783777	18	1.9	18	88	0	52	34	8	8	48	1.64
38788992--38789034	2	21.5	2	100	0	86	51	0	0	48	1.00
38794133--38794192	23	2.7	23	78	2	59	53	3	3	40	1.34
38798881--38798928	6	8.5	6	97	2	75	0	35	18	45	1.50
38805640--38805684	23	1.9	24	90	4	74	48	4	15	31	1.65
38818859--38818893	2	17.5	2	100	0	70	48	0	0	51	1.00
38827523--38827587	31	2.1	31	83	13	82	44	3	13	38	1.60
38827416--38827684	122	2.2	118	78	15	271	46	3	12	37	1.59
38832463--38832573	21	5.7	18	71	24	50	65	3	2	27	1.23
38832471--38832565	18	4.9	19	75	19	83	63	3	3	30	1.26
38832470--38832573	9	10.8	9	69	18	59	64	2	2	29	1.22
38832484--38832573	28	3.2	28	69	15	78	65	2	3	28	1.20
38832471--38832573	19	5.3	19	77	12	86	65	2	2	29	1.22
38833623--38833665	18	2.5	17	80	3	59	32	0	2	65	1.06
38840817--38840895	32	2.5	32	79	8	90	48	13	8	29	1.73
38845652--38845721	31	2.3	31	82	5	88	37	12	11	38	1.80
38854426--38854580	77	2.0	77	89	0	238	38	18	7	36	1.79
38855354--38855491	45	3.1	45	97	0	258	41	20	15	22	1.90
38855411--38855481	21	3.2	21	64	24	56	43	16	15	23	1.87
38868374--38868398	6	4.2	6	100	0	50	16	0	68	16	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38871356--38871400	20	2.3	20	92	3	74	31	26	2	40	1.68
38878512--38878634	61	2.0	61	100	0	246	43	13	21	22	1.87
38879761--38879796	18	2.0	18	88	0	54	44	5	5	44	1.50
38892919--38892997	29	2.6	31	77	13	85	46	6	12	34	1.67
38899983--38900029	22	2.1	22	88	7	69	55	8	2	34	1.42
38908507--38908565	20	2.9	21	73	14	59	49	0	0	50	1.00
38908505--38908550	20	2.2	22	88	7	69	54	0	0	45	0.99
38908582--38908615	6	5.7	6	96	0	50	38	61	0	0	0.96
38908582--38908619	12	3.2	12	92	0	58	42	57	0	0	0.98
38908584--38908617	17	2.0	17	88	0	50	41	58	0	0	0.98

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