genome.fa.s2.2.7.7.80.10.50.1000.47.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: CP032246.1 Gossypioides kirkii chromosome KI_03
Parameters: 2 7 7 80 10 50 1000
Length:  42061019

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   

This is table  47  of  135  ( 16151 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)
12176177--12176244	34	2.0	35	88	2	102	26	8	22	42	1.82
12181123--12181181	17	3.5	17	78	17	77	20	37	1	40	1.63
12181111--12181180	34	2.1	34	94	0	122	18	38	2	40	1.66
12185705--12185754	20	2.4	21	81	15	52	50	0	8	42	1.32
12189105--12189158	20	2.7	20	85	0	63	29	31	11	27	1.91
12206024--12206049	5	5.2	5	100	0	52	23	0	0	76	0.78
12209649--12209688	16	2.4	16	87	4	53	22	2	0	75	0.93
12209638--12209692	22	2.5	22	88	2	76	20	3	0	76	0.94
12211177--12211292	60	1.9	60	82	3	144	33	6	12	47	1.67
12229045--12229083	18	2.2	18	95	0	69	46	5	7	41	1.55
12230850--12231008	24	6.6	24	75	5	151	47	16	10	25	1.79
12230896--12230987	12	7.7	12	69	4	69	48	19	10	20	1.78
12230826--12231008	48	3.9	48	87	2	264	48	17	10	23	1.78
12238068--12238107	19	2.2	17	86	8	53	60	2	0	37	1.11
12241119--12241162	16	2.8	16	92	0	70	43	4	27	25	1.74
12241120--12241171	16	3.2	16	86	5	52	44	5	23	26	1.76
12241323--12241489	56	2.9	56	83	7	194	51	2	2	43	1.30
12241666--12241703	14	2.8	14	84	4	51	39	7	5	47	1.55
12243675--12244185	280	1.9	269	84	6	684	48	14	13	22	1.79
12244319--12244463	62	2.3	62	97	0	272	37	20	17	24	1.93
12244621--12244688	34	2.0	34	100	0	136	26	8	26	38	1.85
12259545--12259598	27	2.0	27	96	0	99	40	20	11	27	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12260056--12260127	35	2.1	35	100	0	144	19	20	19	40	1.92
12260063--12260137	35	2.1	35	90	4	116	21	21	18	38	1.93
12262393--12262491	21	4.7	21	88	0	135	27	16	38	18	1.91
12290057--12290098	22	2.0	22	85	4	59	50	14	0	35	1.43
12293945--12294010	29	2.3	28	76	10	71	60	6	6	27	1.44
12294444--12294511	15	4.3	16	73	15	61	69	10	1	19	1.25
12294337--12294521	100	1.8	99	82	11	234	65	9	5	19	1.42
12295438--12296139	49	14.4	49	76	1	458	18	22	17	41	1.90
12298807--12298868	11	5.5	11	76	16	56	0	17	0	82	0.67
12298801--12298867	19	3.7	18	75	14	66	0	17	0	82	0.68
12298801--12298866	28	2.4	27	85	9	89	0	18	0	81	0.68
12298802--12298868	18	3.7	18	76	9	73	0	17	0	82	0.68
12308071--12308108	18	2.1	18	90	0	58	42	23	18	15	1.89
12312511--12312570	25	2.4	25	91	0	102	26	20	20	33	1.97
12317459--12317500	16	2.7	16	85	3	50	69	4	7	19	1.31
12317492--12317531	16	2.6	15	80	4	53	77	7	2	12	1.07
12319803--12319880	21	3.7	21	83	6	95	28	21	37	12	1.90
12328453--12328520	11	5.8	12	75	19	63	36	0	0	63	0.95
12328452--12328518	15	3.6	20	71	22	65	37	0	0	62	0.95
12342069--12342126	17	3.4	17	75	0	53	20	17	13	48	1.81
12342062--12342126	34	1.9	33	84	9	87	20	18	13	47	1.82
12342650--12342716	34	2.0	34	90	0	107	26	26	20	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12344810--12344875	34	1.9	34	84	6	89	46	13	19	19	1.83
12352467--12352506	19	2.2	19	86	4	55	20	27	22	30	1.98
12357748--12357802	25	2.2	25	84	9	69	61	10	1	25	1.39
12358427--12358464	19	2.0	20	84	5	51	26	31	0	42	1.56
12359126--12359170	19	2.4	19	96	0	81	46	20	6	26	1.75
12362084--12362116	10	3.3	10	100	0	66	90	0	0	9	0.44
12362703--12362733	11	2.8	11	100	0	62	16	0	0	83	0.64
12362637--12362799	81	2.0	82	80	9	181	31	6	6	55	1.50
12368466--12368514	7	6.9	7	84	11	64	83	0	16	0	0.64
12368466--12368518	22	2.4	23	84	9	83	81	0	18	0	0.70
12369631--12370265	98	6.5	98	88	1	833	36	18	25	19	1.94
12369656--12370265	293	2.1	294	86	0	846	36	18	25	19	1.95
12369706--12370280	49	11.8	48	69	9	266	36	18	25	19	1.94
12370618--12370897	38	7.3	38	70	14	173	35	21	17	26	1.95
12371345--12371389	18	2.5	18	85	7	56	13	40	22	24	1.90
12371642--12371786	66	2.1	67	81	10	163	30	8	6	55	1.54
12379571--12379649	41	1.9	41	89	0	122	25	17	24	32	1.97
12380604--12380657	24	2.2	25	83	9	67	70	5	7	16	1.30
12380604--12380656	13	4.2	12	75	15	54	71	5	7	15	1.27
12391003--12391031	9	3.2	9	100	0	58	55	0	24	20	1.44
12396339--12396386	25	1.9	25	86	0	69	64	8	0	27	1.22
12396547--12396619	10	7.6	10	70	22	50	72	4	1	21	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12396546--12396612	24	2.6	27	77	15	79	73	4	1	20	1.09
12397663--12397710	21	2.2	22	82	17	57	18	10	4	66	1.37
12397926--12397963	17	2.2	18	85	4	51	18	5	15	60	1.53
12398858--12398888	15	2.1	15	93	0	53	41	25	19	12	1.87
12398907--12399128	43	5.2	43	81	3	261	30	27	17	24	1.97
12398911--12399128	86	2.6	85	85	2	296	30	27	16	24	1.97
12403048--12403264	41	5.3	41	89	0	308	17	31	19	31	1.95
12403239--12403289	25	2.0	25	88	0	75	15	25	19	39	1.91
12403190--12403330	66	2.2	66	87	3	196	17	29	21	31	1.96
12403255--12403606	41	8.6	41	88	0	481	17	31	21	30	1.96
12403157--12403349	107	1.8	107	90	0	314	17	30	20	32	1.95
12403157--12403371	107	2.0	107	87	0	313	16	30	20	32	1.95
12403591--12403628	19	2.0	19	89	0	58	10	26	13	50	1.73
12405404--12405445	21	2.0	22	85	4	59	64	2	21	11	1.38
12408726--12408757	12	2.7	12	95	0	55	75	0	9	15	1.05
12410978--12414772	739	5.1	739	99	0	7473	33	9	17	39	1.82
12415068--12415272	27	7.6	27	79	9	197	26	18	21	33	1.97
12415063--12415285	81	2.8	81	79	9	217	27	18	20	33	1.96
12417013--12417078	30	2.2	30	86	0	87	4	18	19	57	1.57
12425467--12425538	37	1.9	38	89	10	114	48	2	2	45	1.31
12428056--12428106	25	2.0	25	96	0	93	31	19	9	39	1.84
12440688--12440744	25	2.3	26	81	9	73	40	22	14	22	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12446467--12446515	20	2.5	20	86	0	71	30	4	16	48	1.64
12446467--12446528	20	3.1	20	83	0	61	30	6	14	48	1.69
12449048--12449144	24	4.0	24	73	13	74	32	24	17	24	1.97
12451295--12451398	26	4.0	26	80	7	104	26	16	17	39	1.90
12451295--12451398	52	2.0	52	83	3	129	26	16	17	39	1.90
12458277--12458315	3	13.0	3	100	0	78	0	66	0	33	0.92
12458314--12458345	3	10.7	3	93	0	55	28	34	3	34	1.73
12460111--12460201	20	4.6	20	72	4	58	31	8	13	46	1.73
12469014--12469074	31	2.1	27	80	16	77	62	19	6	11	1.50
12469002--12469136	66	2.0	69	91	5	222	60	17	5	16	1.53
12469001--12469137	35	4.0	35	87	7	219	59	17	5	17	1.54
12470986--12471017	16	2.0	16	100	0	64	50	6	31	12	1.65
12471096--12471124	2	14.5	2	100	0	58	48	0	51	0	1.00
12490015--12490079	32	2.0	32	87	0	94	53	6	15	24	1.64
12502334--12502385	21	2.4	21	90	3	77	36	13	30	19	1.90
12510359--12510658	43	7.0	43	79	2	284	27	24	19	28	1.99
12510359--12510633	129	2.1	128	82	5	324	28	23	20	28	1.99
12510725--12510752	14	2.0	14	100	0	56	50	28	0	21	1.49
12513045--12513243	58	3.4	58	73	20	214	45	1	7	46	1.37
12513093--12513128	8	4.5	8	89	0	54	63	2	0	33	1.08
12513036--12513255	119	1.8	119	95	1	397	45	0	7	46	1.38
12526805--12526830	12	2.2	12	100	0	52	42	15	7	34	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12532813--12532842	13	2.2	14	94	5	53	53	6	6	33	1.53
12555007--12555056	12	4.4	11	80	14	57	80	0	18	2	0.82
12555006--12555054	24	2.0	25	84	11	66	77	0	20	2	0.87
12557280--12557305	12	2.2	12	100	0	52	42	15	7	34	1.75
12560572--12560618	24	2.0	24	84	16	62	51	8	12	27	1.69
12562763--12562835	17	4.2	17	76	13	60	57	12	10	19	1.64
12562796--12562834	18	2.1	19	86	13	55	61	10	12	15	1.56
12577197--12577257	26	2.3	26	88	0	86	8	32	9	49	1.66
12577680--12577736	27	2.0	30	86	10	84	50	0	0	49	1.00
12577678--12577746	30	2.3	30	82	5	86	49	0	0	50	1.00

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