genome.fa.s1.2.7.7.80.10.50.1000.10.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: CP032244.1 Gossypioides kirkii chromosome KI_01
Parameters: 2 7 7 80 10 50 1000
Length:  38174113

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   

This is table  10  of  126  ( 15035 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)
3331458--3331498	19	2.2	20	86	8	59	53	0	4	41	1.22
3342217--3342280	31	2.1	31	100	0	128	21	29	26	21	1.99
3359818--3359844	2	13.5	2	100	0	54	48	0	51	0	1.00
3360018--3360052	17	2.0	18	88	5	54	71	0	2	25	1.00
3360724--3361187	229	2.0	229	99	0	910	33	23	10	32	1.89
3362519--3362562	3	14.7	3	85	0	61	27	0	6	65	1.17
3368907--3368945	13	3.1	13	79	20	55	46	5	7	41	1.55
3369301--3369369	2	35.0	2	97	2	131	49	0	0	50	1.00
3383389--3383427	19	2.1	18	85	4	51	33	5	0	61	1.18
3384250--3384306	22	2.6	23	77	8	64	56	15	3	24	1.56
3387768--3387960	97	2.0	96	84	7	248	23	24	10	40	1.86
3388715--3389440	91	8.0	91	93	0	1184	32	16	18	31	1.94
3389703--3389795	11	7.9	12	76	18	90	45	2	1	51	1.20
3389703--3389795	6	15.8	6	76	19	90	45	2	1	51	1.20
3389725--3389783	31	1.9	31	93	6	102	42	3	0	54	1.17
3389698--3389795	17	6.0	16	80	16	112	44	2	1	52	1.19
3389702--3389811	17	6.6	17	75	16	97	47	2	0	49	1.22
3390636--3390718	44	1.9	45	82	7	109	45	1	6	46	1.35
3391794--3392058	29	8.9	30	77	12	185	37	23	3	35	1.73
3391833--3392060	87	2.5	90	83	8	270	37	23	3	36	1.71
3391981--3392046	33	2.0	33	88	5	98	37	22	1	37	1.64
3409012--3409055	18	2.6	17	85	7	54	52	2	2	43	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3410262--3410307	15	3.1	15	83	0	65	36	0	4	58	1.18
3424208--3424275	30	2.2	31	81	2	84	55	10	8	25	1.62
3431849--3431913	30	2.2	30	94	0	112	58	16	3	21	1.52
3440468--3440511	19	2.3	19	80	11	54	36	2	0	61	1.09
3441266--3441506	124	2.0	123	88	0	365	40	4	7	46	1.54
3450016--3450059	21	2.1	21	100	0	88	20	31	0	47	1.50
3455914--3455943	16	1.9	16	93	6	53	13	13	3	70	1.30
3455909--3455969	21	2.8	22	85	7	72	14	11	3	70	1.28
3457366--3457405	21	1.9	21	85	10	55	45	15	15	25	1.84
3458453--3458577	23	5.5	22	76	7	92	40	25	22	12	1.88
3458448--3458581	46	2.9	45	76	8	112	41	23	23	11	1.88
3458526--3458639	23	4.9	23	76	16	101	42	22	25	9	1.84
3464300--3464355	4	13.8	4	78	17	62	19	3	0	76	0.93
3465797--3465841	19	2.4	19	81	7	56	37	0	4	57	1.19
3465816--3465864	25	2.0	25	84	4	64	30	2	6	61	1.32
3466645--3466674	16	1.9	16	93	6	53	13	13	3	70	1.30
3466640--3466700	21	2.8	22	85	7	72	14	11	3	70	1.28
3470096--3470140	13	3.0	16	71	18	51	53	6	4	35	1.47
3473960--3474060	31	3.7	27	76	16	75	55	11	8	23	1.64
3479782--3479815	17	1.9	18	94	5	61	47	5	17	29	1.71
3483372--3483400	13	2.1	14	93	6	51	55	0	0	44	0.99
3483625--3483666	19	2.3	18	84	12	50	57	7	0	35	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3484654--3484745	50	1.9	48	82	8	116	64	7	1	27	1.28
3484896--3485018	37	3.5	34	73	17	99	65	14	7	12	1.45
3484956--3485012	20	3.1	17	74	16	60	66	12	8	12	1.44
3484953--3485007	17	3.1	17	75	14	65	69	10	7	12	1.37
3484953--3485024	37	1.9	37	88	2	108	66	13	6	12	1.43
3490793--3490830	3	12.7	3	100	0	76	31	34	0	34	1.58
3494637--3494663	14	1.9	14	100	0	54	48	0	14	37	1.45
3515542--3515571	9	3.3	9	95	0	51	33	26	0	40	1.57
3515546--3515575	3	10.0	3	92	0	51	33	30	0	36	1.58
3517512--3517555	22	2.0	22	86	0	61	34	4	4	56	1.40
3519065--3519097	15	2.2	15	100	0	66	21	18	0	60	1.36
3523445--3523472	3	9.3	3	100	0	56	67	0	0	32	0.91
3523998--3524040	15	3.2	15	69	30	51	34	9	20	34	1.85
3523998--3524053	25	2.2	25	90	0	85	33	8	21	35	1.85
3526919--3526964	18	2.6	18	86	3	67	10	10	4	73	1.22
3541260--3541595	29	11.5	28	66	13	124	35	6	27	30	1.83
3541223--3541597	59	6.4	59	90	0	556	34	6	28	30	1.83
3541223--3541595	176	2.1	176	89	1	568	34	6	28	30	1.83
3541225--3541597	117	3.2	118	91	1	579	34	6	28	30	1.83
3541577--3541658	30	2.7	30	85	7	96	35	3	25	35	1.74
3542467--3542522	15	3.8	15	77	20	64	12	10	55	21	1.67
3542672--3542762	6	15.8	6	68	22	54	51	1	3	43	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3542673--3542765	17	5.5	16	76	17	73	50	1	3	45	1.25
3542689--3542765	11	6.8	11	76	10	75	50	1	3	44	1.28
3557476--3557518	20	2.2	20	87	8	61	46	2	11	39	1.53
3557851--3557883	16	2.0	17	88	5	50	45	0	6	48	1.27
3572026--3572098	29	2.4	30	81	4	76	45	16	4	34	1.66
3572963--3572994	4	8.5	4	86	13	50	46	0	0	53	1.00
3585978--3586019	17	2.6	16	81	14	50	38	2	0	59	1.10
3585977--3586017	16	2.5	17	76	11	50	36	2	0	60	1.10
3600218--3600251	8	4.0	8	88	11	50	50	2	0	47	1.16
3631389--3631445	19	3.1	19	82	7	64	54	3	0	42	1.17
3631449--3631520	18	3.8	18	74	16	65	63	1	5	29	1.25
3631644--3631688	22	2.0	22	82	0	54	37	6	0	55	1.26
3632634--3632681	20	2.4	20	76	13	53	35	4	0	60	1.16
3632902--3633890	328	3.0	328	99	0	1969	33	10	10	44	1.74
3634532--3634587	26	2.1	27	90	3	87	35	32	12	19	1.89
3635272--3635307	17	2.1	18	89	5	56	55	0	2	41	1.14
3636822--3636893	29	2.5	30	84	4	85	47	1	9	41	1.45
3638016--3638063	21	2.3	21	88	0	69	62	8	0	29	1.24
3643404--3643530	63	2.0	64	96	1	238	28	14	14	42	1.85
3649328--3649352	1	25.0	1	100	0	50	0	0	100	0	0.00
3652213--3652304	28	3.3	27	74	14	87	26	10	33	29	1.90
3652325--3652477	30	5.2	28	68	24	75	36	2	27	33	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3652254--3652627	59	6.4	58	82	5	387	35	4	28	32	1.76
3652254--3652585	117	2.8	116	85	5	434	35	3	28	31	1.76
3652255--3652627	176	2.1	176	84	3	473	35	4	28	32	1.76
3652259--3652627	117	3.1	116	82	6	429	36	3	27	32	1.75
3654417--3654475	6	9.8	6	71	14	50	52	0	6	40	1.28
3669577--3669639	24	2.6	24	82	0	72	53	7	11	26	1.63
3671568--3671626	24	2.5	24	82	0	73	50	10	11	27	1.71
3671580--3671630	24	2.1	24	88	0	75	58	7	9	23	1.56
3676761--3676820	26	2.2	27	82	14	79	26	0	0	73	0.84
3676766--3676820	24	2.2	25	84	9	69	27	0	0	72	0.85
3685138--3685265	64	2.0	64	93	3	222	40	13	17	28	1.87
3686620--3686644	6	4.2	6	100	0	50	48	0	36	16	1.46
3688144--3688180	7	5.6	7	87	9	51	70	0	2	27	1.01
3690878--3690916	16	2.3	17	86	8	53	74	10	0	15	1.07
3691665--3691689	6	4.2	6	100	0	50	48	0	36	16	1.46
3692249--3692391	60	2.4	58	76	7	135	44	15	16	24	1.86
3696142--3696210	18	3.7	18	72	18	61	55	7	2	34	1.43
3703315--3703386	21	3.7	21	70	24	75	40	30	18	11	1.85
3704118--3704155	19	2.0	19	89	0	58	47	7	0	44	1.32
3705584--3705623	6	7.0	6	81	18	50	62	0	0	37	0.95
3705567--3705630	17	3.8	16	80	19	60	60	0	0	39	0.97
3709652--3709761	57	1.9	57	83	7	143	57	7	6	29	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3710317--3710355	14	2.7	14	84	4	51	48	0	0	51	1.00
3714848--3714883	12	2.9	12	91	4	54	55	2	33	8	1.44
3717144--3718854	855	2.0	855	96	0	3179	31	21	17	29	1.96
3726230--3726287	31	1.9	30	86	6	82	50	12	0	37	1.40
3728767--3728865	50	2.0	50	91	0	162	52	3	1	43	1.23
3728983--3729046	30	2.1	30	82	0	74	67	1	10	20	1.30
3729031--3729060	14	2.1	14	93	0	51	70	0	10	20	1.16
3739330--3739377	17	2.8	18	78	9	55	52	0	8	39	1.32
3743489--3743535	19	2.3	20	89	7	69	36	0	0	63	0.94
3747452--3747476	5	5.0	5	100	0	50	0	60	40	0	0.97

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