genome.fa.s4.2.7.7.80.10.50.1000.99.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  99  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)
31914587--31915030	192	2.3	194	83	3	556	28	18	26	25	1.98
31915830--31915873	21	2.1	21	83	8	54	40	25	9	25	1.84
31917210--31917250	13	3.2	13	85	0	55	46	9	9	34	1.70
31918534--31918575	22	1.9	22	85	0	57	38	0	0	61	0.96
31920445--31920491	23	2.0	23	84	8	60	14	2	8	74	1.15
31926792--31926957	62	2.7	61	81	8	183	45	31	0	22	1.57
31926921--31927019	32	3.2	32	75	4	96	45	25	2	27	1.64
31928452--31928544	40	2.3	40	92	0	150	25	24	7	41	1.81
31928573--31928676	41	2.5	41	95	3	183	27	24	9	38	1.86
31932301--31932329	2	15.0	2	92	7	51	51	0	0	48	1.00
31942925--31942969	21	2.1	21	87	0	63	26	8	2	62	1.37
31944623--31944678	22	2.5	22	82	0	67	60	0	0	39	0.97
31949868--31949909	19	2.2	19	91	8	68	45	0	0	54	0.99
31949900--31949941	17	2.5	17	81	11	50	40	0	7	52	1.29
31949913--31949967	18	3.0	19	82	12	71	36	0	5	58	1.21
31953357--31953670	59	5.4	57	76	14	252	37	2	23	35	1.68
31953360--31953682	89	3.7	87	79	9	334	38	2	23	35	1.68
31953332--31953682	117	3.0	116	80	8	340	37	3	23	35	1.71
31953357--31953670	29	10.7	28	74	14	251	37	2	23	35	1.68
31953398--31953681	59	4.8	58	81	9	301	38	2	23	35	1.70
31955563--31955626	17	3.8	17	81	4	85	54	3	3	39	1.32
31960919--31960966	22	2.2	21	77	3	51	50	0	14	35	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31961809--31962020	41	5.1	41	84	6	259	38	8	25	27	1.85
31961809--31962032	82	2.7	82	86	3	290	38	8	25	27	1.85
31964495--31964520	9	2.9	9	100	0	52	69	0	11	19	1.18
31964516--31964557	9	4.8	9	82	2	50	73	7	0	19	1.05
31968966--31969122	28	5.5	28	78	3	152	24	22	7	45	1.77
31969017--31969145	28	4.5	29	80	5	104	27	23	6	42	1.78
31968954--31969163	57	3.7	57	81	2	199	28	21	6	44	1.76
31969007--31969164	29	5.5	29	74	8	126	29	22	5	42	1.75
31969534--31969695	28	5.6	28	78	5	171	25	21	8	44	1.80
31969534--31969695	58	2.8	57	90	1	252	25	21	8	44	1.80
31973038--31973437	199	2.0	199	94	2	707	40	9	12	38	1.74
31975750--31975799	19	2.7	18	72	27	50	26	2	4	68	1.18
31975752--31975802	18	2.9	17	78	18	52	23	1	3	70	1.14
31977105--31977148	19	2.2	19	84	15	54	65	2	4	27	1.23
31982995--31983057	31	2.0	32	84	3	83	42	0	4	52	1.22
31983561--31983654	46	2.0	46	83	4	118	30	9	22	37	1.86
31986370--31986398	10	2.9	10	100	0	58	41	17	0	41	1.49
31997011--31997108	30	3.3	30	86	2	117	38	22	3	35	1.70
31997016--31997138	30	4.1	30	82	10	110	38	22	4	34	1.76
32000838--32000871	10	3.4	10	95	0	59	88	0	11	0	0.52
32000841--32000872	16	2.0	16	93	0	55	84	0	15	0	0.63
32001467--32001513	21	2.3	21	86	13	71	80	0	19	0	0.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32002907--32003104	40	5.0	40	84	1	272	32	21	16	29	1.95
32003114--32003375	40	6.6	39	75	8	235	33	27	14	25	1.94
32002975--32003253	139	2.0	138	82	6	341	33	24	14	27	1.94
32003114--32003375	79	3.3	79	87	0	380	33	27	14	25	1.94
32005207--32005318	30	3.8	29	80	7	109	39	16	3	40	1.66
32011442--32011480	20	2.0	19	85	5	51	38	7	7	46	1.61
32012195--32012219	13	1.9	13	100	0	50	68	8	0	24	1.16
32017482--32017739	128	2.0	126	96	1	471	44	8	21	24	1.81
32023264--32023338	24	3.2	24	82	1	98	29	28	18	24	1.98
32025523--32025603	28	2.8	28	81	7	83	49	8	7	34	1.62
32026006--32026123	13	9.0	13	69	22	61	36	0	4	59	1.17
32033181--32033336	34	4.4	35	68	10	102	31	25	21	21	1.98
32033285--32033385	34	2.9	35	76	4	98	30	24	24	19	1.98
32036493--32036561	29	2.4	29	88	4	97	24	34	14	26	1.94
32049149--32049181	13	2.5	13	85	14	50	75	0	24	0	0.80
32051801--32051855	24	2.2	24	83	3	65	29	14	9	47	1.75
32053264--32053310	24	2.0	23	84	12	60	27	12	8	51	1.69
32055568--32055625	17	3.4	17	80	0	62	17	18	13	50	1.79
32060422--32060447	13	2.0	13	100	0	52	92	0	0	7	0.39
32061015--32061395	69	5.5	68	82	3	381	20	20	25	33	1.97
32061015--32061395	138	2.7	138	82	5	423	20	20	25	33	1.97
32061003--32061427	69	6.1	68	80	6	352	20	20	25	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32062499--32062568	36	2.0	36	97	2	133	50	8	15	25	1.73
32064713--32064760	24	1.9	26	87	8	73	20	0	4	75	0.97
32070232--32070272	10	4.0	10	83	3	55	65	2	4	26	1.25
32070290--32070330	6	7.0	6	88	8	50	19	0	2	78	0.87
32071257--32071299	12	3.6	12	81	9	52	79	0	16	4	0.90
32088476--32088571	47	2.0	47	100	0	192	20	14	18	45	1.85
32089669--32089719	24	2.1	24	82	10	59	37	5	0	56	1.23
32089684--32089853	58	2.9	58	82	6	193	42	1	2	52	1.26
32089712--32089798	26	3.2	26	71	15	75	47	0	3	49	1.18
32090009--32090044	16	2.2	16	90	0	54	27	22	5	44	1.75
32109827--32109893	13	5.1	13	80	3	71	38	11	4	44	1.62
32110058--32110091	17	1.9	18	88	5	52	61	0	0	38	0.96
32115324--32115374	11	4.6	11	73	7	50	31	0	5	62	1.19
32116687--32116769	30	2.6	31	74	12	80	31	0	0	68	0.90
32124279--32124341	31	2.1	31	93	3	110	47	7	12	31	1.70
32127507--32127600	24	3.9	24	84	0	134	22	25	14	37	1.93
32128185--32128223	18	2.2	18	85	0	51	43	17	0	38	1.50
32128672--32128697	7	3.7	7	100	0	52	30	11	26	30	1.92
32129678--32129737	21	2.9	21	87	0	75	30	26	13	30	1.94
32130405--32130508	36	2.9	36	88	0	145	23	25	15	36	1.93
32139304--32139374	21	3.4	21	80	0	88	30	23	11	33	1.90
32140039--32140177	36	3.9	36	83	0	179	21	24	16	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32142755--32142784	9	3.4	9	95	4	53	26	0	10	63	1.26
32143249--32143488	28	8.3	28	72	9	142	42	7	22	27	1.80
32143243--32143458	56	3.7	55	77	12	193	41	7	22	27	1.81
32143450--32143576	40	3.2	40	85	4	161	50	6	24	18	1.70
32143467--32143576	40	2.8	40	92	1	177	52	6	25	15	1.66
32149896--32149939	20	2.2	20	95	0	79	22	15	0	61	1.34
32150148--32150206	22	2.6	23	70	5	66	50	1	0	47	1.11
32159915--32159970	28	2.0	28	96	0	103	33	21	0	44	1.52
32169931--32170073	52	2.8	52	87	0	196	24	13	26	34	1.93
32174166--32174221	28	2.0	28	100	0	112	25	32	14	28	1.94
32180919--32180977	9	6.2	9	76	23	59	52	0	1	45	1.10
32180911--32181009	20	5.0	20	74	24	102	51	0	2	46	1.12
32180918--32181006	40	2.3	39	88	11	137	51	0	1	47	1.08
32180948--32181008	31	1.9	33	86	6	90	50	0	1	47	1.10
32181817--32181859	11	3.9	11	79	8	52	55	0	0	44	0.99
32181820--32181848	12	2.4	12	100	0	58	55	0	0	44	0.99
32182399--32182455	21	2.7	21	76	13	55	33	26	14	26	1.94
32182639--32182689	25	2.0	26	88	3	77	35	21	23	19	1.96
32183171--32183253	28	3.0	28	92	0	130	24	30	14	31	1.94
32183603--32183632	10	3.0	10	90	0	51	36	13	20	30	1.90
32184159--32184189	15	2.1	15	100	0	62	70	12	0	16	1.16
32184929--32184988	30	2.0	30	96	0	111	30	11	26	31	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32189761--32189802	21	2.0	21	81	9	50	71	11	4	11	1.29
32196185--32196227	15	2.9	14	82	3	50	72	6	9	11	1.29
32198787--32199403	308	2.0	309	93	1	1060	26	22	17	33	1.96
32214509--32214539	5	6.2	5	100	0	62	19	0	61	19	1.35
32219411--32219470	23	2.6	23	86	2	84	35	16	11	36	1.85
32224905--32224931	3	9.0	3	100	0	54	33	0	0	66	0.92
32228436--32228479	17	2.6	17	79	10	54	34	0	2	63	1.07
32229456--32229492	2	18.5	2	100	0	74	51	0	0	48	1.00
32229492--32229527	2	18.5	2	94	5	65	52	0	47	0	1.00
32234668--32234705	19	2.0	19	94	0	67	34	21	7	36	1.82

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