genome.fa.s4.2.7.7.80.10.50.1000.35.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: CP032248.1 Gossypioides kirkii chromosome KI_06
Parameters: 2 7 7 80 10 50 1000
Length:  60359545

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   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   

This is table  35  of  193  ( 23090 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)
10772591--10772700	29	3.8	29	73	16	95	36	18	1	43	1.61
10776315--10776364	21	2.5	20	77	6	57	50	6	0	44	1.26
10779631--10779657	3	9.0	3	100	0	54	0	33	0	66	0.92
10780692--10780734	22	2.0	22	90	0	68	67	0	2	30	1.03
10782756--10783127	186	2.0	186	98	0	726	38	20	12	28	1.88
10784543--10784613	32	2.2	32	90	5	108	45	7	15	32	1.73
10785835--10785943	28	3.9	28	78	2	103	21	16	33	28	1.95
10785932--10786023	13	6.9	13	68	15	55	19	21	29	29	1.98
10785924--10786046	40	3.0	41	78	8	126	19	21	30	28	1.97
10786864--10787036	91	1.9	91	91	2	285	24	8	12	54	1.66
10791719--10791798	28	2.9	28	94	0	133	56	7	3	32	1.45
10796828--10796860	17	2.0	17	88	5	50	39	0	0	60	0.97
10805794--10805873	26	3.1	26	73	7	81	31	22	18	27	1.97
10806060--10806105	17	2.6	18	76	13	51	60	2	0	36	1.09
10806768--10806986	30	7.4	29	64	19	105	36	30	1	32	1.66
10806776--10807148	117	3.2	118	87	6	542	34	29	2	34	1.71
10807039--10807132	29	3.2	29	64	24	70	36	26	3	34	1.73
10806776--10807152	59	6.4	59	87	2	528	34	29	2	33	1.72
10819291--10820023	195	3.8	195	93	0	1200	36	21	23	18	1.95
10819887--10820139	116	2.2	116	89	2	393	38	21	20	19	1.94
10821313--10821839	30	18.1	28	65	22	146	34	26	2	36	1.70
10821325--10821812	58	8.4	59	83	5	530	34	26	2	36	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10821325--10821812	117	4.2	118	85	3	580	34	26	2	36	1.69
10823863--10823917	17	3.2	17	81	0	65	49	10	20	20	1.78
10830033--10830067	18	1.9	18	94	0	61	11	20	25	42	1.85
10832972--10833041	26	2.7	26	78	8	88	30	21	18	30	1.97
10836053--10836104	2	26.0	2	96	0	95	51	0	0	48	1.00
10836841--10836875	18	2.0	17	88	5	52	37	5	8	48	1.58
10837649--10837701	20	2.7	20	81	0	61	45	1	11	41	1.51
10837870--10837902	6	5.5	6	100	0	66	36	15	0	48	1.45
10844723--10844788	29	2.3	29	83	0	87	18	28	28	24	1.98
10862481--10862521	15	2.6	16	88	7	57	36	0	0	63	0.95
10865548--10865610	30	2.1	30	96	0	117	60	4	4	30	1.38
10865548--10865620	30	2.5	30	90	2	103	64	4	4	27	1.30
10866626--10866680	21	2.6	21	88	5	85	58	1	9	30	1.40
10866736--10866782	12	3.5	13	85	11	60	65	0	2	31	1.04
10870728--10870886	54	2.9	55	72	9	135	36	15	22	26	1.93
10870914--10871152	57	4.2	56	75	5	180	35	15	14	33	1.88
10870948--10871168	113	1.9	114	88	6	333	33	15	14	35	1.89
10870948--10871208	113	2.3	113	83	5	305	33	15	15	34	1.90
10871375--10871495	61	2.0	61	91	3	199	20	11	33	34	1.89
10872198--10872243	24	1.9	24	90	0	74	39	8	17	34	1.80
10875458--10875503	24	1.9	24	82	8	58	69	0	4	26	1.07
10878823--10878884	13	4.8	13	79	0	70	41	4	17	35	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10878830--10878886	26	2.1	27	90	3	89	43	3	17	35	1.66
10878837--10878901	26	2.5	26	82	2	76	43	3	18	35	1.66
10898496--10898535	20	2.0	21	85	5	55	37	10	7	45	1.66
10907363--10907415	17	3.2	17	75	24	60	62	0	5	32	1.19
10908145--10908178	17	2.0	17	88	0	50	47	0	0	52	1.00
10909605--10909643	20	2.0	20	84	0	51	43	2	2	51	1.29
10910916--10910957	17	2.5	17	100	0	84	47	16	0	35	1.47
10914092--10914136	19	2.1	21	84	15	58	62	6	2	28	1.33
10923941--10923988	14	3.4	14	72	16	53	39	18	0	41	1.51
10923931--10923988	29	2.0	29	100	0	116	41	20	0	37	1.53
10927391--10927421	16	1.9	16	93	0	53	45	22	12	19	1.84
10930401--10930462	13	4.8	13	77	0	70	37	16	6	40	1.74
10935918--10936146	116	2.0	116	92	1	379	27	10	29	32	1.89
10936192--10936268	21	3.7	21	71	13	68	33	12	23	29	1.92
10936683--10936720	17	2.3	18	86	13	55	42	13	0	44	1.43
10942377--10942436	6	10.3	6	75	13	54	38	1	1	58	1.18
10942377--10942409	17	1.9	17	93	0	57	36	0	3	60	1.12
10942377--10942436	23	2.6	23	89	0	93	38	1	1	58	1.18
10942980--10943033	15	3.6	15	76	14	58	40	0	1	57	1.09
10943972--10944295	28	11.2	29	75	10	179	33	25	3	36	1.74
10943980--10944295	29	11.0	28	76	13	184	33	26	3	36	1.73
10944366--10944410	14	3.1	14	84	6	54	15	13	0	71	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10944364--10944411	15	3.5	14	81	10	55	16	14	0	68	1.21
10944546--10944827	97	2.9	97	90	0	438	27	18	17	37	1.93
10956154--10956191	6	6.3	6	96	0	58	0	44	5	50	1.24
10956579--10956612	6	5.7	6	96	0	59	14	55	0	29	1.40
10958730--10958773	20	2.3	18	85	11	61	31	0	2	65	1.05
10958732--10958800	27	2.5	26	77	15	68	31	1	2	63	1.18
10962945--10963021	36	2.1	36	90	0	118	24	19	27	28	1.99
10968018--10968075	29	2.0	29	83	6	73	65	3	1	29	1.19
10969095--10969285	96	2.0	95	81	7	226	39	13	16	29	1.87
10969595--10969805	29	7.1	30	73	15	147	35	5	27	31	1.79
10969654--10969783	59	2.2	59	79	14	144	36	4	25	33	1.77
10969654--10969805	29	5.1	30	81	5	157	34	5	28	31	1.79
10971791--10971845	16	3.4	16	82	5	74	54	3	0	41	1.18
10972295--10972332	10	3.5	11	89	10	60	0	15	0	84	0.63
10976636--10976816	96	1.9	96	82	4	231	40	14	16	29	1.87
10977023--10977084	28	2.2	28	88	5	90	25	9	30	33	1.88
10977202--10977354	30	5.2	30	74	10	122	34	4	27	33	1.77
10977215--10977323	29	3.8	28	74	8	103	38	3	26	31	1.74
10977272--10977358	31	2.9	30	72	21	76	34	3	26	35	1.74
10979315--10979369	16	3.4	16	82	5	74	54	3	0	41	1.18
10983989--10984048	18	3.3	17	79	11	66	31	1	1	65	1.13
10996350--10996393	17	2.6	17	100	0	88	38	29	4	27	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11003489--11003528	12	3.3	12	82	0	53	25	40	20	15	1.90
11008905--11008932	6	4.7	6	100	0	56	28	0	0	71	0.86
11009284--11009454	60	2.9	57	74	10	161	23	21	6	48	1.73
11009936--11009991	28	2.0	28	100	0	112	53	10	10	25	1.67
11013723--11013792	36	1.9	36	94	5	124	50	0	15	34	1.45
11013805--11013849	22	2.0	23	87	8	67	57	4	0	37	1.19
11014213--11014274	26	2.3	26	83	8	72	45	1	4	48	1.33
11015195--11015235	16	2.5	16	84	4	55	48	0	7	43	1.30
11015238--11015270	17	1.9	17	93	0	57	45	0	9	45	1.35
11017703--11017758	29	2.0	27	86	6	76	26	5	3	64	1.32
11018173--11018206	12	2.7	13	90	4	52	73	0	5	20	1.04
11025572--11025607	18	1.9	19	88	5	56	58	0	5	36	1.22
11025713--11025754	17	2.5	17	81	11	59	52	0	2	45	1.13
11025816--11025842	6	4.5	6	100	0	54	14	0	29	55	1.40
11026176--11026255	29	2.8	29	90	3	117	42	2	36	18	1.64
11026231--11026273	21	2.0	21	86	8	61	39	0	37	23	1.55
11027676--11027810	29	4.6	30	75	5	114	37	2	25	34	1.69
11027697--11027816	29	4.1	29	81	4	143	33	3	25	37	1.73
11027697--11027816	59	2.0	59	90	3	188	33	3	25	37	1.73
11029889--11029962	11	6.5	11	74	11	60	54	4	4	37	1.39
11029890--11029957	23	3.0	22	77	12	66	52	4	2	39	1.36
11033414--11033570	30	5.4	28	69	19	106	38	3	25	32	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11033370--11033565	58	3.4	58	84	4	236	36	4	27	31	1.77
11033377--11033477	29	3.5	28	72	11	87	38	3	23	33	1.74
11033398--11033578	28	6.2	28	70	15	100	36	4	27	32	1.77
11033569--11033683	30	3.8	30	95	0	203	37	3	21	37	1.71
11034903--11034964	19	3.3	19	73	13	56	37	1	3	58	1.24
11035705--11035792	17	5.2	17	81	14	85	52	1	2	44	1.21
11035723--11035777	6	9.7	6	80	11	71	52	0	1	45	1.11
11035722--11035784	11	5.5	11	86	5	90	53	0	3	42	1.16
11035705--11035791	34	2.6	34	82	8	99	52	1	2	43	1.21
11036072--11036692	145	4.3	143	85	7	782	30	19	16	33	1.94

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   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193