genome.fa.s26.2.7.7.80.10.50.1000.13.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: D13
Parameters: 2 7 7 80 10 50 1000
Length:  64892201

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   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   

This is table  13  of  221  ( 26413 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)
4140587--4140611	4	6.2	4	100	0	50	24	24	0	52	1.48
4146303--4146336	16	2.1	16	89	10	52	88	8	2	0	0.62
4146301--4146337	19	1.9	19	88	0	56	86	10	2	0	0.67
4147174--4147963	81	10.1	79	83	6	936	28	17	19	34	1.94
4148579--4148657	3	27.0	3	85	10	94	68	0	31	0	0.90
4148632--4148669	17	2.2	18	95	4	69	81	0	18	0	0.69
4148579--4148669	9	10.0	9	80	13	71	70	0	29	0	0.88
4148945--4149196	18	13.9	18	76	8	228	31	11	10	46	1.74
4148964--4149005	20	2.1	20	86	8	59	42	9	9	38	1.70
4149071--4149114	21	2.1	21	91	4	72	47	4	9	38	1.56
4149016--4149227	53	4.0	52	73	11	135	31	12	11	45	1.77
4149171--4149243	36	2.0	37	87	10	107	32	10	10	45	1.74
4155199--4155229	14	2.2	14	100	0	62	45	0	25	29	1.54
4169023--4169074	16	3.0	16	83	13	59	44	0	32	23	1.54
4169355--4169396	21	2.0	20	86	4	57	47	0	30	21	1.51
4170329--4170372	22	2.1	22	87	8	65	68	4	2	25	1.20
4171167--4171217	19	2.7	20	84	9	79	47	3	33	15	1.64
4172026--4172140	23	4.9	24	76	10	103	32	6	3	57	1.42
4172028--4172161	70	1.9	68	83	5	171	32	5	3	57	1.41
4171980--4172158	24	7.7	23	72	7	123	34	5	3	55	1.41
4172028--4172180	70	2.2	70	81	9	170	33	7	3	55	1.46
4173186--4173384	97	2.1	94	80	10	217	56	3	11	28	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4173591--4173631	14	3.0	14	79	13	50	60	0	4	34	1.18
4173590--4173631	17	2.5	17	88	0	66	59	0	4	35	1.19
4175075--4175330	50	5.1	49	70	3	163	23	20	23	32	1.98
4175075--4175345	100	2.7	100	87	1	382	24	20	23	31	1.98
4175190--4175342	50	3.1	50	71	3	164	23	20	24	32	1.98
4176635--4176687	7	7.4	7	82	16	65	15	15	0	69	1.19
4176644--4176684	8	5.5	8	88	11	61	12	12	0	75	1.05
4176635--4176687	21	2.5	21	93	3	88	15	15	0	69	1.19
4176648--4176698	21	2.4	21	87	6	59	19	11	0	68	1.20
4190557--4190590	18	1.9	17	94	5	59	35	11	11	41	1.78
4191535--4191586	6	8.7	6	97	0	95	36	0	13	50	1.42
4191620--4191753	61	2.2	61	83	2	171	53	0	13	32	1.45
4191711--4191757	24	2.0	24	87	8	69	53	0	10	36	1.36
4193570--4193675	45	2.4	45	79	1	115	29	24	17	28	1.98
4193638--4193944	136	2.3	134	85	3	395	30	18	18	32	1.95
4194112--4194219	44	2.5	44	84	0	135	29	18	18	33	1.95
4194140--4194234	44	2.2	44	82	0	118	28	18	16	35	1.93
4194695--4195012	89	3.6	89	87	2	426	22	22	23	32	1.98
4195881--4196101	108	2.1	108	86	4	304	49	7	16	26	1.73
4196367--4196422	5	11.4	5	78	12	55	1	14	0	83	0.72
4196370--4196422	9	5.4	9	79	18	54	1	13	0	84	0.69
4196370--4196422	10	5.3	10	80	17	65	1	13	0	84	0.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4200991--4201056	28	2.4	28	79	5	71	51	1	12	34	1.48
4201138--4201187	3	17.3	3	75	8	50	58	0	4	38	1.17
4202809--4203047	72	3.3	72	90	1	383	23	6	15	54	1.63
4203452--4203558	41	2.6	40	77	10	101	21	14	28	35	1.93
4203917--4203966	14	3.5	15	78	8	59	28	0	34	38	1.57
4203958--4204053	44	2.2	43	81	9	115	22	1	41	34	1.61
4204215--4204284	22	3.2	22	72	8	61	30	1	31	37	1.66
4204251--4204318	22	3.1	22	75	10	68	25	1	39	33	1.65
4204282--4204315	14	2.4	14	90	9	52	23	2	44	29	1.68
4208622--4208653	14	2.3	14	100	0	64	43	6	9	40	1.62
4214623--4214849	43	5.3	43	79	3	217	24	16	25	33	1.96
4216462--4216516	19	2.6	22	75	21	64	43	1	1	52	1.22
4216476--4216522	19	2.5	19	80	10	60	42	2	2	53	1.25
4221955--4222000	22	2.0	23	87	4	67	56	4	0	39	1.19
4231249--4231286	9	4.0	9	87	12	58	63	2	2	31	1.22
4231240--4231291	20	2.5	20	84	3	68	61	5	3	28	1.37
4234236--4234359	30	4.1	30	91	1	194	26	23	6	43	1.78
4234246--4234353	15	7.2	15	69	12	78	26	21	7	44	1.78
4238927--4239050	30	4.1	30	92	1	194	26	23	6	43	1.78
4238937--4239044	15	7.2	15	66	12	69	26	21	7	44	1.78
4243629--4243680	20	2.5	20	81	3	59	61	5	5	26	1.42
4244315--4244345	6	5.2	6	100	0	62	0	16	64	19	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4249164--4249192	14	2.1	14	100	0	58	58	34	6	0	1.25
4252442--4252476	15	2.3	15	85	0	52	31	2	0	65	1.07
4253035--4253065	16	1.9	16	93	0	53	35	0	22	41	1.54
4259069--4259224	41	3.8	41	89	6	235	28	20	22	28	1.98
4259442--4259504	33	1.9	32	90	3	99	23	9	25	41	1.85
4265150--4265174	13	1.9	13	100	0	50	8	0	24	68	1.16
4266710--4266906	41	4.8	41	92	5	317	28	20	22	27	1.99
4267122--4267184	33	1.9	32	87	3	90	23	7	25	42	1.81
4269343--4269386	16	2.6	16	89	7	61	52	20	0	27	1.47
4279103--4279167	17	4.0	17	74	9	64	15	23	4	56	1.57
4279695--4279735	21	1.9	22	90	5	66	34	2	2	60	1.23
4279716--4279755	18	2.2	18	86	8	55	30	0	5	65	1.14
4283443--4283469	12	2.2	12	100	0	54	51	7	7	33	1.58
4304074--4304130	29	2.0	29	83	13	73	50	3	3	42	1.36
4305466--4305508	14	2.9	15	80	12	54	65	0	0	34	0.93
4309979--4310043	16	4.1	16	83	0	76	40	3	32	24	1.71
4310257--4310298	15	2.7	16	82	14	52	52	2	0	45	1.13
4310266--4310307	15	2.9	15	82	10	52	52	0	0	47	1.00
4310260--4310662	120	3.4	120	98	0	763	50	4	1	42	1.34
4310376--4310547	15	11.6	15	66	20	60	51	4	1	42	1.31
4310260--4310656	39	9.9	40	66	16	180	51	4	2	42	1.34
4310615--4310660	15	3.0	16	81	9	60	52	2	0	45	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4310654--4310692	12	3.3	12	96	3	71	28	0	5	66	1.12
4314957--4315006	25	2.0	25	88	0	73	36	18	18	28	1.94
4315082--4315131	25	2.0	25	84	0	64	36	20	18	26	1.95
4315457--4315506	25	2.0	25	84	0	64	36	20	18	26	1.95
4314928--4315594	125	5.3	125	95	0	1190	35	19	18	26	1.95
4318322--4318371	25	2.0	25	84	0	64	36	20	18	26	1.95
4318697--4318746	25	2.0	25	88	0	73	36	18	18	28	1.94
4318947--4318996	25	2.0	25	84	0	64	36	20	18	26	1.95
4318197--4319084	125	7.1	125	95	0	1560	35	19	18	26	1.95
4321556--4321679	30	4.1	30	93	1	203	25	24	6	43	1.78
4321566--4321673	15	7.2	15	67	12	78	25	22	7	44	1.79
4321937--4322220	110	2.7	105	87	7	377	30	16	20	32	1.95
4327550--4327767	116	1.9	116	96	0	400	43	8	9	38	1.68
4327776--4328508	23	29.7	23	73	22	504	28	0	24	46	1.54
4327981--4328478	29	20.0	27	71	22	261	29	0	23	46	1.54
4327854--4328477	124	5.0	121	79	13	444	28	0	24	46	1.54
4328394--4328423	15	2.0	15	93	0	51	20	0	30	50	1.49
4328415--4328488	29	2.5	30	91	4	132	27	0	27	45	1.54
4327851--4328508	147	4.4	147	76	18	639	28	0	24	46	1.54
4328504--4328597	25	3.7	25	94	1	161	41	12	0	45	1.42
4328565--4328651	44	2.0	45	93	2	149	50	11	0	37	1.39
4329073--4329107	18	1.9	18	88	0	52	34	11	28	25	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4330940--4331013	22	3.4	22	87	7	98	43	0	33	22	1.54
4330956--4331012	10	5.2	11	78	21	66	45	0	35	19	1.50
4331301--4331345	18	2.5	19	85	10	67	42	0	2	55	1.12
4331833--4331865	4	8.2	4	100	0	66	24	0	24	51	1.48
4335388--4335412	13	1.9	13	100	0	50	36	0	0	64	0.94
4336011--4336051	15	2.7	15	84	3	55	51	0	2	46	1.14
4339459--4339510	14	3.5	15	75	19	56	55	30	0	13	1.38
4339468--4339527	28	2.1	29	87	3	86	55	33	0	11	1.36
4348250--4348281	16	2.0	16	100	0	64	37	12	37	12	1.81
4360908--4360950	16	2.8	16	82	13	54	48	0	0	51	1.00

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   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221