genome.fa.s2.2.7.7.80.10.50.1000.12.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  12  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)
3414338--3414364	5	5.4	5	100	0	54	81	0	0	18	0.69
3425374--3425425	15	3.5	15	81	5	61	30	0	7	61	1.24
3427015--3427056	21	1.9	23	85	9	61	33	11	19	35	1.88
3435239--3435308	32	2.2	32	100	0	140	14	5	28	51	1.65
3439291--3439350	31	2.0	31	83	3	77	38	0	5	56	1.21
3439311--3439394	6	13.8	6	72	12	55	46	2	2	48	1.28
3439311--3439369	31	1.9	31	86	6	84	38	1	3	55	1.26
3440910--3440976	33	2.0	32	82	5	80	17	17	8	55	1.67
3441006--3441485	162	3.0	162	94	1	811	26	15	12	46	1.81
3441585--3441722	30	4.6	30	87	1	188	35	25	2	36	1.71
3441697--3441892	59	3.4	57	81	6	223	32	30	2	34	1.71
3441736--3441882	29	5.0	29	67	14	104	34	27	2	36	1.71
3443212--3443243	12	2.7	12	90	0	55	50	34	3	12	1.56
3443718--3443792	38	1.9	40	84	10	102	34	12	6	46	1.67
3443718--3443792	40	1.9	38	82	15	91	34	12	6	46	1.67
3443826--3443859	2	17.0	2	93	0	50	44	0	5	50	1.26
3443916--3443948	8	4.1	8	92	0	57	84	0	3	12	0.72
3446537--3447013	30	16.1	29	80	9	326	35	25	2	35	1.71
3446541--3447015	90	5.3	88	79	8	387	35	25	2	36	1.71
3446844--3446971	29	4.3	29	82	11	161	33	28	3	34	1.76
3446820--3447029	29	7.1	30	75	12	121	34	26	4	34	1.77
3447222--3447262	19	2.2	19	86	8	57	24	14	9	51	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3447310--3447506	97	2.0	98	89	1	297	26	17	17	38	1.91
3463471--3463803	49	6.8	48	71	7	213	39	18	24	17	1.92
3463464--3463803	98	3.5	98	85	0	448	39	18	24	17	1.92
3465225--3466207	497	2.0	486	94	2	1741	29	17	22	31	1.96
3467377--3467411	16	2.3	15	90	9	54	80	0	5	14	0.89
3467377--3467454	25	3.1	25	75	7	77	79	1	10	8	0.99
3468407--3468602	50	3.9	50	79	4	189	36	18	29	15	1.92
3471779--3472114	49	6.9	47	71	14	157	36	17	26	19	1.94
3471861--3472140	49	5.7	49	76	5	280	36	17	26	19	1.94
3471861--3472159	98	3.1	98	89	2	449	38	17	25	19	1.93
3471953--3472225	147	1.9	147	81	1	332	37	17	26	19	1.93
3472479--3472619	40	3.5	40	80	2	149	31	32	13	22	1.93
3472592--3472697	46	2.3	46	85	7	153	34	26	16	21	1.95
3473691--3473733	2	21.5	2	85	0	59	46	4	2	46	1.36
3476570--3476603	16	2.1	16	89	10	52	23	5	8	61	1.47
3481630--3481706	9	7.8	9	70	18	55	33	2	2	61	1.24
3481629--3481704	10	7.5	10	73	14	57	32	2	2	61	1.23
3481890--3481948	20	2.8	21	79	5	57	59	1	3	35	1.24
3482098--3482333	9	25.0	9	68	19	101	35	2	4	58	1.29
3482098--3482161	28	2.3	26	86	7	83	35	3	1	59	1.23
3482204--3482275	10	7.3	10	73	14	60	29	1	4	65	1.20
3482716--3482788	20	3.9	18	79	13	60	28	5	4	61	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3482725--3482780	29	1.9	29	82	13	71	30	3	3	62	1.29
3485624--3485657	15	2.4	14	85	9	50	32	0	0	67	0.91
3491741--3492078	96	3.5	97	84	4	297	17	26	20	36	1.94
3491741--3492124	96	3.9	97	81	6	269	17	26	19	36	1.94
3491746--3492274	49	10.8	49	69	11	266	17	26	19	36	1.94
3491741--3492272	148	3.6	146	74	8	436	17	26	19	36	1.94
3492065--3492284	99	2.2	98	83	4	264	19	26	16	37	1.93
3496234--3496394	23	6.9	23	82	6	157	40	24	24	9	1.85
3506608--3506659	22	2.4	22	84	12	63	30	11	3	53	1.54
3506675--3506712	18	2.0	20	90	10	62	57	5	13	23	1.56
3507851--3507914	30	2.2	30	85	2	85	28	10	29	31	1.91
3507851--3508061	29	7.2	29	75	15	143	31	7	28	32	1.85
3507893--3508061	29	5.8	29	75	14	159	33	5	28	32	1.81
3507864--3508066	59	3.5	57	77	14	182	32	7	29	30	1.85
3509791--3509830	17	2.4	17	91	0	62	55	2	0	42	1.13
3510289--3510414	39	3.2	39	82	4	103	26	15	31	26	1.96
3510327--3510533	78	2.7	76	79	10	224	27	19	29	23	1.98
3510327--3510528	39	5.2	39	77	9	171	26	20	30	22	1.98
3510759--3511455	49	14.2	49	74	8	400	16	23	19	39	1.92
3510797--3511456	98	6.7	98	85	1	874	16	23	19	40	1.91
3510759--3511357	147	4.1	147	81	5	638	17	23	19	39	1.92
3510839--3511455	147	4.2	147	80	5	642	16	23	19	40	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3512512--3512589	22	3.5	21	84	7	75	1	21	1	75	0.94
3512508--3512589	7	11.3	7	77	11	76	1	20	1	76	0.92
3512530--3512586	8	7.5	8	94	2	84	0	24	0	75	0.80
3512508--3512589	15	5.5	15	80	8	80	1	20	1	76	0.92
3513451--3513483	15	2.1	16	88	5	50	3	21	0	75	0.93
3517470--3517584	29	3.9	29	73	12	99	34	6	28	29	1.83
3517531--3517593	30	2.2	28	86	11	83	36	6	25	31	1.81
3519565--3519650	17	4.9	17	75	2	64	53	3	2	40	1.31
3519565--3519650	34	2.5	34	73	7	84	53	3	2	40	1.31
3519795--3519837	19	2.2	20	87	4	61	16	6	6	69	1.32
3520312--3520347	3	12.0	3	100	0	72	33	0	0	66	0.92
3520580--3520618	20	1.9	21	84	5	53	43	20	5	30	1.73
3520865--3520906	22	1.9	22	90	0	66	38	16	11	33	1.86
3522412--3522450	20	2.0	20	94	0	69	20	30	5	43	1.73
3526695--3526724	3	10.0	3	100	0	60	0	33	0	66	0.92
3532814--3532975	29	5.5	30	69	10	118	35	4	27	32	1.78
3532814--3532915	30	3.5	29	71	14	84	36	3	26	33	1.75
3532807--3533005	59	3.4	59	86	0	283	35	5	28	30	1.80
3532835--3532995	29	5.5	29	70	12	105	36	5	28	29	1.80
3532835--3533308	60	8.0	58	80	10	304	35	4	26	34	1.75
3532990--3533361	30	12.4	30	86	2	507	34	3	25	36	1.72
3533395--3533772	161	2.3	162	80	9	389	44	14	17	23	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3533459--3533771	161	1.9	162	85	4	427	45	12	17	24	1.83
3534193--3534252	22	2.9	21	79	18	63	6	20	3	70	1.25
3534622--3534661	17	2.4	17	91	0	62	37	0	2	60	1.11
3534614--3534661	14	3.2	14	81	16	60	35	0	2	62	1.07
3535235--3535294	20	3.0	20	95	2	102	18	16	45	20	1.86
3535463--3535537	6	12.5	6	75	10	73	48	4	0	48	1.20
3535463--3535537	17	4.5	17	74	16	77	48	4	0	48	1.20
3535871--3536503	68	9.3	68	97	0	1149	26	20	19	33	1.97
3548438--3548695	59	4.4	59	88	1	340	35	6	28	29	1.82
3548495--3548654	30	5.4	30	71	8	130	31	7	31	29	1.85
3548445--3548665	29	7.5	30	66	10	125	35	6	27	30	1.82
3548445--3548664	30	7.4	29	66	21	109	35	6	27	30	1.82
3548470--3548816	59	5.9	56	80	10	152	35	4	26	33	1.77
3548680--3549114	30	14.5	30	83	4	531	35	2	24	37	1.71
3548645--3549109	89	5.2	89	82	6	489	35	3	24	36	1.71
3548696--3549114	150	2.8	149	89	3	610	35	3	24	37	1.71
3549218--3549519	162	1.9	163	85	2	430	45	12	17	24	1.83
3549940--3549999	22	2.9	21	79	18	63	6	20	3	70	1.25
3550367--3550406	17	2.4	17	91	0	62	37	0	2	60	1.11
3550359--3550406	14	3.2	14	81	16	60	35	0	2	62	1.07
3550980--3551019	20	2.0	21	90	5	64	17	17	45	20	1.86
3551189--3551280	17	5.5	17	72	12	84	48	4	1	45	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3551189--3551280	6	15.5	6	73	10	82	48	4	1	45	1.29
3551472--3551536	30	2.2	29	86	8	87	36	1	20	41	1.61
3551524--3551622	29	3.4	29	81	2	99	26	3	28	42	1.70
3551572--3551673	29	3.5	29	82	6	100	29	6	25	38	1.82
3551612--3551682	29	2.5	29	95	2	126	26	9	26	36	1.88
3551630--3551721	29	3.1	30	84	6	100	36	6	26	30	1.82
3551668--3551735	29	2.3	30	87	7	104	38	5	22	33	1.78
3554622--3554677	30	2.0	29	82	10	71	55	3	3	37	1.35
3554675--3554748	34	2.2	34	83	9	89	32	0	9	58	1.30
3555529--3555567	21	1.9	20	85	15	53	58	10	7	23	1.56

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