genome.fa.s2.2.7.7.80.10.50.1000.21.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  21  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)
5773364--5773397	12	2.8	12	86	0	50	17	23	0	58	1.38
5776749--5776787	7	5.6	7	96	0	60	28	20	30	20	1.98
5776745--5776787	14	3.1	14	93	0	68	27	20	30	20	1.98
5790081--5790113	6	5.5	6	86	13	50	33	36	30	0	1.58
5792302--5792372	31	2.3	31	95	2	126	36	8	0	54	1.31
5796478--5796531	25	2.2	26	83	6	67	24	9	1	64	1.32
5801505--5801746	123	2.0	124	84	3	317	41	12	9	36	1.76
5803367--5803416	20	2.5	20	78	15	59	36	12	6	46	1.66
5813924--5813956	13	2.5	14	90	9	52	18	0	6	75	1.00
5815173--5815218	20	2.2	21	78	21	53	34	0	6	58	1.24
5817102--5817126	12	2.1	12	100	0	50	24	24	0	52	1.48
5821521--5821594	31	2.5	29	87	10	98	56	5	1	36	1.31
5821542--5821607	31	2.1	32	86	8	91	53	7	0	39	1.30
5830714--5830824	58	1.9	59	86	1	161	50	12	13	23	1.76
5838656--5838685	15	1.9	16	93	6	53	53	0	20	26	1.46
5841107--5841142	5	7.2	5	87	0	54	0	2	36	61	1.11
5852268--5852452	85	2.2	84	91	4	291	31	3	7	57	1.43
5858068--5858121	15	3.3	15	74	18	54	44	0	1	53	1.11
5858298--5858326	13	2.1	14	93	6	51	48	0	0	51	1.00
5858299--5858341	21	2.2	19	84	16	52	44	0	0	55	0.99
5859363--5859417	27	2.0	27	86	6	76	52	1	7	38	1.40
5873393--5873421	15	1.9	15	100	0	58	48	0	13	37	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5875998--5876068	28	2.5	30	88	9	112	15	18	18	47	1.82
5877081--5877112	17	1.9	17	93	6	57	56	6	0	37	1.25
5877907--5877971	34	1.9	34	100	0	130	24	20	9	46	1.79
5883353--5883517	57	2.9	57	74	14	162	29	21	15	32	1.95
5883541--5883888	61	5.7	61	80	8	370	27	20	16	34	1.94
5883541--5883887	122	2.8	122	84	6	438	27	20	16	34	1.95
5883541--5883887	62	5.7	61	83	7	402	27	20	16	34	1.95
5884788--5884869	30	2.6	32	79	11	98	65	6	3	24	1.31
5884985--5885038	24	2.2	24	100	0	108	3	25	35	35	1.74
5885277--5885410	64	2.1	62	90	8	209	44	14	19	21	1.87
5885415--5885553	57	2.4	56	87	5	190	35	13	19	31	1.91
5885450--5885584	59	2.3	57	82	7	157	35	19	17	28	1.94
5886707--5886744	15	2.4	16	82	4	51	65	0	0	34	0.93
5886680--5886770	31	3.1	28	74	20	80	65	1	0	32	1.00
5887597--5887630	14	2.4	14	95	5	59	0	20	0	79	0.73
5902893--5902950	26	2.1	27	90	6	91	24	32	22	20	1.98
5903456--5903521	31	2.1	31	85	0	87	42	12	13	31	1.81
5904674--5904715	16	2.6	16	100	0	84	64	0	4	30	1.14
5904813--5905162	30	11.8	30	78	11	228	41	0	22	35	1.60
5904860--5905152	60	5.0	58	82	7	351	39	0	23	36	1.58
5907960--5907999	18	2.2	19	86	8	57	20	17	0	62	1.33
5913219--5913258	6	6.7	6	88	0	62	30	35	2	32	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5919232--5919350	58	2.1	57	90	1	184	33	0	18	47	1.55
5919246--5919365	57	2.1	58	84	1	152	34	0	18	46	1.55
5920505--5920559	26	2.1	26	93	0	92	32	12	21	32	1.91
5925227--5925286	21	2.7	23	73	17	63	35	0	1	63	1.05
5925978--5926045	34	2.0	34	97	0	127	29	7	29	33	1.84
5926437--5926469	16	2.0	17	88	5	50	30	0	0	69	0.88
5937285--5937330	23	2.0	23	86	0	65	32	19	10	36	1.87
5942313--5942341	14	2.1	14	100	0	58	27	34	0	37	1.57
5942027--5943157	378	3.0	377	84	3	1358	32	14	15	36	1.88
5943272--5943319	6	7.8	6	79	11	53	47	0	6	45	1.27
5943273--5943308	18	2.0	18	100	0	72	50	0	5	44	1.25
5943959--5944001	19	2.3	18	88	4	59	51	0	2	46	1.13
5945261--5945434	29	6.1	28	83	6	201	39	25	1	33	1.64
5945235--5945436	29	7.0	28	79	8	183	39	26	1	32	1.65
5947735--5950160	320	7.7	316	80	6	2305	35	14	15	33	1.89
5949545--5950164	317	2.0	315	87	3	879	36	15	14	33	1.88
5953829--5953878	20	2.6	18	81	18	57	62	2	2	34	1.18
5953829--5953888	19	3.1	19	76	11	59	63	1	1	33	1.14
5953877--5953920	20	2.2	20	84	8	54	72	0	9	18	1.10
5954126--5954235	9	12.0	9	69	21	68	28	3	3	64	1.27
5954126--5954208	10	9.0	10	71	18	56	30	3	2	63	1.24
5954126--5954208	36	2.3	38	81	8	109	30	3	2	63	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5954150--5954235	28	3.1	27	77	11	75	25	4	3	66	1.27
5956076--5956122	23	2.0	23	100	0	94	42	8	8	40	1.66
5960820--5960856	18	2.1	18	89	0	56	48	0	27	24	1.51
5965030--5965133	53	2.0	53	90	0	163	43	14	14	27	1.84
5973838--5973876	6	6.5	6	87	0	51	23	30	0	46	1.53
5973871--5973919	21	2.3	21	96	0	89	34	20	4	40	1.71
5977070--5977129	16	3.6	16	78	12	75	61	1	3	33	1.22
5977080--5977144	19	3.6	19	74	14	66	61	3	1	33	1.21
5977068--5977144	35	2.2	34	93	4	136	62	2	2	32	1.23
5978814--5978855	19	2.3	19	91	4	68	38	4	0	57	1.20
5979158--5979217	5	11.6	5	78	7	57	30	0	0	70	0.88
5979159--5979226	21	3.0	23	71	28	65	30	0	0	69	0.89
5979169--5979214	18	2.5	19	89	6	69	34	0	0	65	0.93
5987602--5987657	20	2.8	21	76	13	64	35	0	7	57	1.26
5990567--5990615	3	16.3	3	100	0	98	32	0	0	67	0.91
5994234--5994290	7	8.7	7	75	14	50	38	0	3	57	1.16
5994245--5994290	19	2.4	19	82	7	58	36	0	2	60	1.09
5996610--5996673	21	3.0	21	81	4	76	43	15	12	28	1.83
6008561--6008627	35	1.9	35	96	0	125	32	2	14	49	1.59
6021215--6021255	20	2.0	20	95	0	73	34	14	7	43	1.73
6028952--6028982	7	4.4	7	100	0	62	38	12	32	16	1.86
6030355--6030444	44	2.0	44	100	0	180	30	4	13	52	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6033894--6033980	42	2.1	42	100	0	174	36	18	9	35	1.83
6034203--6034252	10	4.6	11	80	14	52	26	0	0	74	0.83
6034204--6034252	15	3.1	17	71	14	50	24	0	0	75	0.80
6034667--6034700	17	1.9	18	88	5	52	58	0	0	41	0.98
6034794--6034850	30	1.9	29	82	10	71	63	3	1	31	1.22
6038218--6038277	21	2.8	21	76	18	61	61	5	0	33	1.17
6038217--6038275	24	2.6	22	79	15	59	62	5	0	32	1.17
6040999--6041045	21	2.3	21	85	3	60	34	0	2	63	1.06
6041103--6041180	31	2.5	31	82	0	93	50	17	5	26	1.67
6052203--6052288	43	2.0	43	97	0	163	27	12	20	38	1.90
6054983--6055034	26	2.0	26	100	0	104	38	7	7	46	1.61
6060124--6060566	29	15.2	28	65	20	180	32	3	30	33	1.74
6060113--6060595	59	8.3	59	87	3	685	32	3	30	33	1.74
6060113--6060592	117	4.1	117	88	3	693	32	3	30	33	1.74
6060635--6061000	162	2.3	162	87	3	506	40	14	20	24	1.89
6060678--6060998	162	2.0	162	93	1	545	42	12	19	26	1.86
6061889--6061934	18	2.5	19	89	3	67	41	2	4	52	1.33
6061870--6061934	19	3.3	18	80	10	67	43	1	3	52	1.26
6062751--6062827	6	12.8	6	73	14	52	59	1	1	37	1.14
6062752--6062828	17	4.7	16	78	14	77	61	1	1	36	1.13
6062758--6062820	11	5.9	11	73	14	60	63	0	1	34	1.04
6066135--6066193	31	1.9	31	85	0	82	40	20	11	27	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6068011--6068054	19	2.3	19	84	0	52	45	2	6	45	1.42
6070575--6070613	6	6.5	6	87	0	51	23	30	0	46	1.53
6076309--6076346	14	2.6	14	91	4	58	31	7	7	52	1.59
6085221--6085298	28	2.9	28	75	21	76	66	0	6	26	1.15
6085232--6085298	28	2.5	27	83	7	82	65	0	5	28	1.16
6085222--6085265	18	2.4	18	81	7	54	72	0	2	25	0.96
6085232--6085299	9	7.6	9	71	12	59	66	0	5	27	1.15
6085587--6085701	34	3.3	33	66	18	81	21	10	26	40	1.86
6085572--6085707	70	1.9	70	89	2	211	25	12	23	38	1.90
6085657--6085730	20	3.7	19	71	15	60	18	5	33	41	1.74

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