genome.fa.s16.2.7.7.80.10.50.1000.130.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: D03
Parameters: 2 7 7 80 10 50 1000
Length:  53248092

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   

This is table  130  of  175  ( 20966 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)
40568341--40568781	104	4.3	104	83	1	483	28	24	19	28	1.98
40568337--40568781	206	2.1	208	83	2	547	28	23	19	28	1.98
40582490--40582571	42	2.0	42	92	0	137	37	14	10	36	1.82
40582586--40582612	14	1.9	14	100	0	54	37	25	14	22	1.93
40582733--40582776	18	2.4	17	82	14	52	27	2	6	63	1.31
40585323--40585348	2	13.0	2	100	0	52	50	0	0	50	1.00
40585348--40585373	2	13.0	2	100	0	52	50	0	50	0	1.00
40588136--40588174	6	6.3	6	88	5	60	15	20	0	64	1.30
40595622--40595657	7	4.9	7	87	12	54	11	0	0	88	0.50
40595621--40595660	16	2.5	16	100	0	80	12	0	0	87	0.54
40595620--40595658	8	5.0	8	82	17	55	12	0	0	87	0.55
40595661--40595730	30	2.3	31	80	5	88	38	1	1	58	1.16
40595661--40595730	31	2.2	32	80	7	90	38	1	1	58	1.16
40595682--40595743	31	2.0	30	81	9	72	37	1	3	58	1.24
40601761--40601797	18	2.1	18	89	0	56	72	0	10	16	1.10
40610516--40610553	15	2.4	16	86	8	60	0	26	0	73	0.83
40613594--40613657	9	6.7	9	73	19	58	25	1	0	73	0.92
40616671--40616713	13	3.2	13	75	12	50	39	2	9	48	1.48
40622110--40622153	22	2.0	22	82	8	54	56	4	0	38	1.20
40622598--40622821	24	9.5	24	78	7	192	42	17	11	28	1.84
40622598--40622801	47	4.3	47	84	5	252	42	17	11	29	1.84
40622609--40622825	92	2.3	94	91	3	339	41	17	11	29	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40622623--40622835	47	4.6	47	82	3	252	41	17	11	29	1.85
40623762--40623844	30	2.6	32	79	12	100	36	2	1	60	1.18
40623755--40623850	31	3.0	30	78	15	88	35	2	1	61	1.15
40628688--40628742	20	2.7	21	80	2	67	27	9	34	29	1.87
40629060--40629086	12	2.2	12	100	0	54	48	7	0	44	1.31
40635078--40635128	26	2.0	26	84	0	66	31	9	23	35	1.87
40635310--40635406	33	2.8	35	72	20	89	51	1	2	45	1.19
40635539--40635582	20	2.2	20	91	0	70	43	4	27	25	1.74
40644184--40644268	35	2.4	35	94	0	143	62	12	5	18	1.50
40653365--40653432	27	2.4	28	87	4	102	8	25	4	61	1.44
40655664--40655724	13	4.7	13	74	8	61	37	27	6	27	1.82
40658988--40659069	29	2.8	29	83	3	85	45	10	18	25	1.82
40661559--40661638	18	4.3	19	75	15	60	32	0	6	61	1.21
40662720--40662758	21	1.9	20	84	5	51	71	0	28	0	0.86
40662947--40663151	76	2.6	77	75	11	213	34	5	10	49	1.60
40668343--40668876	153	3.5	152	86	6	735	29	11	7	50	1.66
40669122--40669161	21	2.0	20	90	9	64	70	10	0	20	1.16
40669206--40669260	13	3.9	13	79	11	56	0	30	0	69	0.89
40669290--40669355	27	2.4	27	82	5	80	6	36	30	27	1.81
40669860--40669918	21	2.8	20	80	14	57	54	3	1	40	1.27
40669900--40669966	11	6.4	11	74	20	54	58	0	4	37	1.19
40669891--40669984	40	2.3	40	92	1	152	61	0	3	35	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40671450--40671509	31	2.0	31	87	6	88	65	3	5	26	1.29
40672833--40673083	125	2.0	122	90	2	394	38	19	12	29	1.88
40689132--40689167	16	2.2	16	90	0	54	41	2	0	55	1.14
40689907--40689944	3	12.7	3	100	0	76	34	0	0	65	0.93
40691396--40691434	20	2.0	20	85	10	53	30	5	2	61	1.31
40691574--40691626	20	2.7	19	80	11	63	43	1	0	54	1.11
40696490--40696527	18	2.1	18	85	9	51	63	10	15	10	1.52
40697712--40697812	3	33.3	3	68	9	53	37	4	2	54	1.37
40697754--40697785	6	5.3	6	100	0	64	50	0	0	50	1.00
40697752--40697794	18	2.4	18	88	0	68	48	0	0	51	1.00
40707127--40707188	30	2.1	30	81	0	70	43	0	35	20	1.53
40708275--40708544	124	2.2	123	87	4	391	28	15	24	32	1.95
40708883--40709472	28	22.4	28	79	14	562	33	0	21	44	1.58
40708968--40709020	23	2.3	21	100	0	70	37	0	18	43	1.51
40708890--40709472	51	11.2	51	77	15	456	32	0	21	44	1.58
40710734--40710800	34	1.9	35	87	3	100	31	8	14	44	1.76
40712220--40712266	23	2.0	25	87	8	71	61	6	0	31	1.21
40712466--40712507	22	1.9	22	90	0	66	33	0	33	33	1.58
40712479--40712537	30	2.0	30	96	0	109	32	0	35	32	1.58
40712457--40712559	52	2.0	51	84	5	136	33	0	32	33	1.65
40712508--40712578	22	3.2	22	90	7	108	36	1	28	33	1.66
40713776--40713800	12	2.1	12	100	0	50	24	0	0	76	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40713786--40713861	20	3.8	20	72	6	64	34	3	2	59	1.30
40719356--40719399	21	2.1	21	100	0	88	45	22	9	22	1.80
40730533--40730563	7	4.4	7	100	0	62	70	0	12	16	1.16
40730604--40731615	510	2.0	511	92	1	1670	31	16	24	27	1.96
40731862--40732175	134	2.3	134	85	1	414	37	13	16	32	1.87
40731948--40732392	233	1.9	232	85	0	620	39	13	15	31	1.86
40732160--40732809	134	4.9	134	80	3	653	37	13	16	32	1.88
40732181--40732809	268	2.4	268	83	1	758	37	13	16	32	1.88
40732794--40732925	71	1.9	71	85	3	185	37	16	16	28	1.91
40732662--40732979	170	1.9	170	85	0	447	37	14	17	30	1.90
40735133--40735277	74	2.0	74	80	5	168	31	19	15	33	1.93
40736911--40737023	55	2.1	55	91	0	181	18	20	17	43	1.88
40749530--40749559	15	2.0	15	93	0	51	60	3	0	36	1.14
40751397--40751702	84	3.6	84	79	1	310	22	11	34	31	1.89
40752207--40752231	13	1.9	13	100	0	50	40	4	0	56	1.18
40752318--40752391	37	2.0	37	86	0	103	56	4	6	32	1.44
40753894--40753944	24	2.0	26	88	7	79	45	1	0	52	1.12
40754049--40754139	37	2.5	37	88	0	137	21	21	10	45	1.83
40754326--40754417	34	2.7	34	77	12	100	31	1	1	66	1.06
40760895--40760954	13	4.5	13	85	2	84	36	21	1	40	1.64
40760895--40760978	39	2.1	41	82	10	102	36	22	2	38	1.67
40774403--40774465	32	2.0	32	87	0	90	36	3	14	46	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40777961--40778002	21	1.9	22	85	9	59	71	0	4	23	1.05
40781515--40781632	26	4.7	26	66	17	70	17	27	20	34	1.95
40781563--40781630	25	2.8	26	80	13	81	19	30	20	29	1.97
40781684--40781747	25	2.6	25	82	5	67	25	31	15	28	1.96
40788500--40788532	15	2.1	16	88	5	50	9	9	0	81	0.87
40796613--40796705	20	4.4	22	76	11	88	72	2	5	20	1.15
40796598--40796708	43	2.7	42	81	13	140	72	1	4	21	1.12
40796613--40796706	22	4.5	21	78	11	77	72	2	5	20	1.15
40796678--40796705	12	2.3	12	100	0	56	85	0	0	14	0.59
40796728--40796758	16	2.0	15	93	6	53	77	6	12	3	1.08
40803766--40803808	19	2.3	19	95	0	77	0	11	16	72	1.13
40804356--40804417	31	2.0	31	96	0	115	43	16	9	30	1.80
40813061--40813106	14	3.5	13	82	11	58	41	2	4	52	1.33
40813061--40813113	13	4.0	12	83	11	52	45	1	3	49	1.31
40813581--40813628	18	2.6	17	78	12	51	70	0	2	27	0.98
40817890--40817926	10	3.6	10	88	3	56	70	0	29	0	0.88
40823378--40823929	157	3.5	158	74	13	542	29	9	6	53	1.59
40824284--40824453	36	4.4	36	82	12	155	0	32	0	67	0.91
40824336--40824437	5	21.4	5	73	11	65	0	32	0	67	0.91
40824288--40824446	41	4.1	41	82	13	185	0	31	0	68	0.90
40824307--40824448	31	4.4	32	78	13	132	0	30	0	69	0.89
40824500--40824589	27	3.3	27	84	9	112	14	33	36	15	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40830746--40830910	73	2.3	72	83	1	204	30	22	22	24	1.99
40830817--40831487	114	5.9	114	89	0	948	26	20	25	27	1.99
40831273--40831655	187	2.0	186	88	2	561	26	21	25	26	2.00
40831396--40831560	73	2.3	73	88	0	240	29	20	24	26	1.99
40831990--40832020	15	2.1	15	93	0	53	19	0	45	35	1.51
40832293--40832345	21	2.5	22	81	9	65	20	0	39	39	1.53
40832328--40832366	7	5.4	7	81	6	51	17	0	46	35	1.49
40832324--40832366	15	2.9	15	86	3	61	18	0	46	34	1.50
40832311--40832374	22	3.0	22	79	4	60	20	0	45	34	1.51
40832328--40832374	14	3.3	14	80	14	51	21	0	44	34	1.52

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