genome.fa.s2.2.7.7.80.10.50.1000.35.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  35  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)
9018826--9018918	9	10.1	9	81	2	96	49	17	3	30	1.62
9024307--9024373	29	2.4	28	82	2	71	23	11	11	52	1.71
9032651--9032857	91	2.3	91	94	0	360	22	12	19	45	1.83
9038311--9038343	8	3.7	9	92	8	50	18	9	0	72	1.10
9046277--9046619	29	11.6	30	76	6	288	36	3	25	34	1.74
9046277--9046617	88	3.8	87	78	8	278	36	3	25	34	1.74
9046412--9046617	59	3.5	60	80	7	206	41	3	20	33	1.69
9046275--9046619	30	11.7	28	75	9	228	36	3	25	33	1.74
9049840--9049876	17	2.2	17	90	0	56	51	0	29	18	1.47
9049849--9049896	24	2.0	24	84	8	62	47	2	31	18	1.60
9054432--9054479	24	2.0	24	84	8	62	47	2	31	18	1.60
9065072--9065117	22	2.0	23	84	12	60	52	0	8	39	1.33
9065080--9065124	23	2.0	22	91	4	72	51	0	6	42	1.28
9070368--9070620	126	2.0	126	97	0	479	23	20	22	33	1.97
9071824--9071892	12	5.7	12	87	3	102	68	15	5	10	1.37
9071917--9072008	21	4.4	20	81	9	105	69	18	4	7	1.29
9071928--9072008	43	1.9	42	87	5	119	71	18	3	6	1.22
9072779--9072845	26	2.6	27	76	7	75	65	4	19	10	1.40
9089872--9090209	42	8.3	41	75	10	221	27	22	26	23	2.00
9092495--9093266	49	15.3	49	79	11	729	47	2	5	45	1.37
9092516--9093284	18	45.3	18	64	20	173	46	2	4	46	1.36
9092495--9093266	161	5.1	146	78	10	735	47	2	5	45	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9092883--9092945	30	2.1	30	81	0	72	52	0	4	42	1.22
9092496--9093266	355	2.2	355	95	1	1384	47	2	5	45	1.37
9093174--9093275	8	12.2	8	68	22	59	46	0	2	50	1.16
9093313--9093406	8	11.8	8	71	22	65	43	1	3	52	1.24
9092806--9093293	258	1.9	257	86	2	660	46	2	4	46	1.36
9098924--9099071	66	2.2	66	89	2	217	45	14	22	16	1.84
9099398--9099536	43	3.2	43	89	0	215	25	23	32	17	1.97
9102487--9102571	28	3.0	28	75	3	91	38	16	18	25	1.92
9105143--9105176	9	3.4	10	88	12	52	35	5	8	50	1.58
9105172--9105242	21	3.5	21	68	14	67	39	11	4	45	1.60
9107106--9107160	25	2.2	26	81	12	71	63	3	5	27	1.33
9109360--9109441	22	3.4	22	67	20	65	20	30	3	45	1.69
9109352--9109453	51	2.0	51	100	0	204	21	31	3	43	1.71
9111369--9111428	21	2.9	21	89	0	93	33	26	15	25	1.95
9111369--9111444	21	3.6	21	80	7	84	32	25	13	28	1.93
9112163--9112348	52	3.6	52	75	5	180	36	25	12	26	1.91
9112117--9112350	104	2.2	106	78	10	250	35	24	14	25	1.93
9114090--9114128	6	6.5	6	87	0	51	23	30	0	46	1.53
9121211--9121263	21	2.5	20	88	11	72	33	28	15	22	1.94
9121861--9122100	52	4.6	51	85	3	275	36	22	14	26	1.93
9128394--9128440	22	2.1	23	84	4	60	27	2	21	48	1.61
9128824--9128880	15	3.7	15	73	17	62	52	1	0	45	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9132410--9132436	7	3.9	7	100	0	54	59	0	14	25	1.36
9133012--9133046	17	2.1	17	88	0	52	40	22	11	25	1.88
9133053--9133126	29	2.6	29	93	0	121	41	17	20	20	1.90
9133209--9133319	40	2.8	40	76	5	116	25	18	20	36	1.95
9133727--9133816	41	2.2	41	85	0	126	32	35	13	18	1.90
9133893--9133997	55	1.9	55	92	0	174	25	39	16	19	1.91
9136937--9136998	31	2.1	29	88	11	90	32	14	0	53	1.41
9137302--9137331	15	1.9	15	93	6	51	40	0	40	20	1.52
9137302--9137331	8	3.9	8	95	4	53	40	0	40	20	1.52
9140926--9140971	2	23.0	2	100	0	92	50	0	0	50	1.00
9146738--9147171	224	1.9	222	82	4	534	39	13	10	36	1.78
9152708--9152827	58	2.1	58	92	3	197	47	19	0	33	1.50
9158259--9158318	17	3.3	18	79	11	54	36	0	0	63	0.95
9158281--9158315	17	2.2	17	90	10	56	28	0	0	71	0.86
9160315--9160350	17	2.1	17	100	0	72	44	16	5	33	1.71
9178732--9178787	11	5.0	11	84	4	76	42	1	1	53	1.21
9178732--9178786	23	2.4	23	87	3	76	43	1	1	52	1.22
9178729--9178803	17	4.5	16	83	11	80	46	1	1	50	1.18
9178732--9178786	6	9.7	6	78	11	62	43	1	1	52	1.22
9180403--9180741	162	2.1	162	93	0	570	25	16	13	44	1.84
9180857--9180972	30	4.0	29	75	13	105	33	28	3	34	1.74
9180865--9181126	59	4.5	58	87	5	284	31	28	5	34	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9180872--9181098	29	7.8	29	69	13	135	32	27	5	35	1.79
9180872--9181126	118	2.2	116	83	8	313	31	28	5	34	1.80
9180931--9181126	29	6.7	29	70	18	131	31	28	5	34	1.80
9192749--9193249	38	13.4	38	63	18	183	33	14	20	31	1.93
9192728--9193398	76	9.0	75	85	7	827	32	15	20	31	1.94
9192749--9193326	38	15.4	37	63	22	165	32	14	20	31	1.93
9193715--9193790	11	6.8	11	77	8	82	43	2	1	52	1.23
9193715--9193806	17	5.5	16	76	14	80	44	2	1	52	1.20
9193718--9193789	6	12.7	6	75	16	64	41	2	1	54	1.23
9194181--9194216	17	2.1	17	89	5	54	47	25	2	25	1.65
9195398--9195736	162	2.1	162	92	1	554	27	16	12	43	1.84
9195865--9196185	59	5.4	58	80	8	344	31	28	4	35	1.78
9195862--9196205	29	11.6	28	65	23	120	31	27	4	35	1.78
9196110--9196205	28	3.4	27	79	12	95	29	32	6	32	1.82
9198014--9198057	11	3.9	11	81	3	52	22	43	18	15	1.88
9198501--9198537	2	18.5	2	100	0	74	51	0	0	48	1.00
9208244--9208412	29	5.9	28	69	13	83	31	5	31	30	1.82
9208275--9208415	58	2.4	59	88	4	198	31	4	31	32	1.77
9208592--9208912	162	2.0	160	81	7	375	44	12	17	24	1.84
9210427--9210512	17	5.7	14	72	24	52	51	1	1	46	1.16
9210423--9210503	6	14.2	6	71	18	57	49	1	1	48	1.17
9210437--9210501	17	3.9	17	80	9	80	50	1	1	46	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9210438--9210512	17	4.3	18	76	17	70	52	1	1	45	1.17
9210780--9211249	38	12.4	37	67	13	161	32	19	13	34	1.91
9210817--9211484	76	8.9	76	87	4	932	31	19	14	34	1.92
9210817--9211484	227	3.0	226	87	5	957	31	19	14	34	1.92
9211374--9211484	36	3.0	37	67	15	111	30	19	15	34	1.93
9215461--9215902	221	2.0	218	95	1	803	15	26	20	38	1.92
9223847--9223939	29	3.2	29	69	22	86	32	3	29	35	1.73
9223865--9223967	30	3.5	31	71	18	101	36	2	26	33	1.71
9223808--9224288	59	8.3	59	89	2	634	34	3	28	33	1.73
9223865--9224026	30	5.4	30	65	12	100	37	2	25	34	1.70
9224130--9224315	30	6.4	30	71	16	135	33	3	28	33	1.75
9223808--9224288	116	4.1	117	85	4	623	34	3	28	33	1.73
9224280--9224346	29	2.3	30	89	5	102	29	7	20	41	1.80
9224442--9224754	163	1.9	162	92	0	518	42	13	18	25	1.87
9225570--9225604	3	11.7	3	100	0	70	34	0	0	65	0.93
9226317--9226402	17	5.7	14	72	24	52	51	1	1	46	1.16
9226313--9226393	6	14.2	6	71	18	57	49	1	1	48	1.17
9226327--9226391	17	3.9	17	80	9	80	50	1	1	46	1.20
9226328--9226402	17	4.3	18	76	17	70	52	1	1	45	1.17
9227579--9227608	5	6.0	5	100	0	60	20	0	0	80	0.72
9227748--9227817	2	35.0	2	97	0	131	0	51	0	48	1.00
9227817--9227855	2	19.5	2	100	0	78	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)
9228635--9228682	19	2.6	18	86	3	60	64	0	0	35	0.94
9234561--9234613	23	2.3	24	75	12	58	52	1	5	39	1.36
9235318--9235344	7	3.9	7	100	0	54	70	0	0	29	0.88
9237329--9237437	39	2.9	36	76	10	101	37	22	16	23	1.93
9240036--9240094	21	2.8	21	84	0	73	35	25	15	23	1.94
9239919--9240166	113	2.2	111	91	2	388	37	22	13	25	1.92
9244553--9244581	9	3.0	10	90	10	51	10	0	0	89	0.48
9244603--9244647	19	2.4	19	81	7	56	37	0	4	57	1.19
9246831--9246880	21	2.4	21	82	0	55	44	16	14	26	1.85
9246842--9246881	21	1.9	21	89	0	62	42	15	17	25	1.88

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