genome.fa.s8.2.7.7.80.10.50.1000.3.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: Chr9
Parameters: 2 7 7 80 10 50 1000
Length:  48574783

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  3  of  135  ( 16172 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)
683931--683972	11	3.9	11	85	14	61	52	0	2	45	1.13
692917--693011	31	3.2	28	71	11	75	47	5	2	45	1.37
693008--693446	219	2.0	220	99	0	871	44	10	10	33	1.74
694425--694593	85	2.0	87	85	3	234	33	22	8	35	1.85
699179--699203	2	12.5	2	100	0	50	52	48	0	0	1.00
703011--703041	6	5.2	6	100	0	62	32	51	0	16	1.44
713228--713513	154	1.9	154	94	1	511	53	9	8	28	1.62
714691--714726	3	12.0	3	100	0	72	33	0	0	66	0.92
732705--732743	3	13.0	3	89	10	62	66	0	33	0	0.92
732875--732908	16	2.1	17	88	5	52	23	0	70	5	1.09
734613--734770	78	2.0	79	98	1	309	44	6	5	43	1.51
756150--756193	19	2.3	19	80	0	52	56	2	2	38	1.24
762502--762556	4	13.8	4	100	0	110	49	25	0	25	1.51
775129--775200	29	2.4	30	73	11	76	31	5	19	43	1.74
797995--798020	4	6.5	4	100	0	52	50	0	26	23	1.50
803446--803544	42	2.4	42	92	0	162	38	17	26	18	1.92
808252--808287	16	2.2	16	90	9	56	83	0	16	0	0.65
818805--818912	40	2.8	37	77	15	119	51	2	4	40	1.37
818845--818903	20	3.0	20	73	16	68	55	0	3	40	1.16
820149--820182	3	11.3	3	100	0	68	32	0	0	67	0.91
830728--830765	20	1.9	20	89	10	60	65	5	10	18	1.41
851191--851338	72	2.1	72	90	0	233	30	26	13	29	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
851225--851376	72	2.1	72	81	4	173	32	23	17	26	1.96
858261--858290	15	1.9	16	93	6	53	40	0	0	60	0.97
858634--858703	25	2.8	25	91	4	115	18	21	21	38	1.93
858657--858762	22	4.5	22	75	5	77	16	23	19	40	1.91
865014--865038	13	1.9	13	100	0	50	40	0	4	56	1.18
873232--873263	15	2.1	15	94	0	55	68	0	6	25	1.12
877572--877601	13	2.3	13	100	0	60	60	0	13	26	1.34
882996--883020	2	12.5	2	100	0	50	52	0	48	0	1.00
887008--887080	21	3.4	21	84	5	94	34	26	24	15	1.94
887006--887114	23	5.0	23	80	10	104	35	22	22	18	1.95
888165--888197	16	2.1	16	88	5	50	6	27	0	66	1.15
888241--888292	17	2.9	18	80	11	63	7	13	3	75	1.17
888448--888497	7	7.0	7	90	4	82	44	40	0	16	1.47
888495--888534	5	7.6	5	89	10	62	60	0	0	40	0.97
890631--890677	24	2.0	24	86	0	67	38	17	25	19	1.92
890723--890788	26	2.6	25	78	7	69	37	21	22	18	1.94
900419--900469	18	2.8	18	79	11	50	39	19	19	21	1.93
900735--900811	9	8.6	9	81	5	75	24	6	23	45	1.76
900743--900810	18	3.8	18	84	7	93	25	7	23	44	1.79
901618--901643	12	2.2	12	100	0	52	42	0	0	57	0.98
910275--910315	8	5.0	8	94	5	73	60	0	0	39	0.96
919801--919855	28	1.9	29	81	3	67	41	1	3	52	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
926080--926107	7	4.0	7	100	0	56	42	0	0	57	0.99
927810--927899	44	2.0	44	93	0	153	44	8	6	40	1.62
930215--930257	23	1.9	22	90	4	68	55	0	0	44	0.99
946890--947419	123	4.3	123	84	7	657	49	8	12	29	1.70
946917--947481	123	4.6	122	82	9	620	48	8	12	30	1.70
963002--963028	6	4.5	6	100	0	54	18	51	14	14	1.76
963837--964066	75	3.1	75	99	0	451	44	4	7	43	1.53
965989--966243	51	5.0	51	88	1	361	41	27	15	15	1.87
968083--968185	51	2.0	51	100	0	206	17	13	13	55	1.69
968093--968174	25	3.1	27	62	28	68	19	14	12	53	1.72
971722--971762	3	13.7	3	100	0	82	31	0	0	68	0.90
974869--974906	3	12.7	3	100	0	76	34	0	0	65	0.93
980123--980196	34	2.2	35	95	4	134	21	22	13	41	1.88
993161--993199	20	1.9	21	85	15	55	41	5	0	53	1.23
994631--994732	33	3.2	33	87	5	145	39	7	1	50	1.42
994644--994737	31	3.0	31	88	3	134	41	8	0	50	1.33
1000647--1000705	25	2.4	25	85	2	84	18	32	18	30	1.95
1003021--1003058	18	2.1	18	100	0	76	44	28	0	26	1.54
1008609--1008662	19	2.9	18	72	8	54	66	0	33	0	0.92
1009420--1009460	13	2.9	14	85	7	57	60	0	9	29	1.28
1019085--1019137	26	2.0	26	88	0	79	22	26	24	26	2.00
1027825--1027892	34	2.0	34	100	0	136	29	26	5	38	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1032323--1032523	72	2.7	73	84	3	260	38	13	5	42	1.68
1033009--1033037	2	15.0	2	92	7	51	51	0	0	48	1.00
1045286--1045312	2	13.5	2	100	0	54	48	0	51	0	1.00
1045911--1045953	19	2.3	19	88	8	61	39	9	2	48	1.48
1048345--1048407	30	2.0	32	87	6	94	52	1	1	44	1.20
1049098--1049151	24	2.2	25	86	3	74	66	14	1	16	1.34
1052040--1052066	3	9.0	3	100	0	54	33	33	0	33	1.58
1053928--1053968	14	2.9	14	85	7	57	39	0	0	60	0.96
1054634--1054670	16	2.3	16	90	9	58	56	5	27	10	1.55
1058538--1058565	3	9.3	3	100	0	56	35	32	0	32	1.58
1069705--1069847	75	1.9	75	88	2	216	23	41	17	16	1.89
1069826--1069871	24	1.9	24	90	0	74	26	41	13	19	1.88
1069751--1069933	99	1.8	99	84	2	251	24	40	16	18	1.91
1069917--1070151	90	2.6	90	77	8	226	25	40	16	18	1.91
1071635--1071688	27	2.0	27	92	3	92	5	22	20	51	1.67
1088056--1088217	82	2.0	82	93	0	279	32	16	15	35	1.90
1089340--1089393	27	2.0	27	100	0	108	37	7	11	44	1.68
1089544--1089604	17	3.5	17	73	8	68	47	16	11	24	1.79
1089544--1089616	36	2.0	36	97	0	137	47	15	15	21	1.81
1094428--1094471	23	1.9	23	90	0	70	59	13	20	6	1.57
1099651--1099828	81	2.2	80	82	7	191	39	11	23	26	1.88
1101580--1101703	42	3.0	42	82	3	124	43	17	22	16	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1101577--1101715	21	6.6	21	71	3	82	44	17	20	16	1.87
1106665--1106775	21	5.3	21	70	8	64	17	21	17	44	1.87
1106647--1106779	42	3.2	42	71	6	117	18	20	15	45	1.85
1107795--1107842	20	2.4	20	89	0	78	39	2	18	39	1.63
1109082--1109157	28	2.8	28	80	11	70	63	2	1	32	1.17
1115794--1115819	5	5.2	5	100	0	52	42	19	19	19	1.90
1116565--1116601	9	4.1	9	92	0	65	29	10	13	45	1.77
1121544--1121579	18	2.0	18	100	0	72	33	22	5	38	1.77
1121546--1121584	18	2.2	18	90	4	62	33	23	5	38	1.77
1124057--1124125	33	2.1	32	82	12	79	44	2	2	49	1.32
1132109--1132172	19	3.4	18	79	16	60	62	3	4	29	1.31
1132124--1132175	27	2.0	27	85	11	72	65	1	1	30	1.14
1132084--1132177	10	10.1	9	69	21	52	60	2	4	32	1.28
1132804--1132860	19	2.9	19	86	5	69	33	3	1	61	1.23
1141240--1141282	21	2.0	21	95	0	77	48	4	9	37	1.56
1148092--1148145	14	3.6	14	82	7	54	51	7	0	40	1.30
1148094--1148290	98	2.0	99	98	1	387	46	5	4	44	1.44
1150275--1150320	17	2.7	17	81	15	51	50	4	2	43	1.34
1150286--1150320	18	2.0	17	88	5	52	51	5	0	42	1.25
1151144--1151181	18	2.1	18	85	9	51	57	7	2	31	1.41
1156835--1157115	69	4.1	69	99	0	553	21	25	18	33	1.97
1169951--1170135	91	2.0	91	100	0	370	20	14	19	45	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1170797--1170861	3	21.7	3	77	0	58	32	4	40	23	1.75
1170797--1170851	15	3.5	15	79	13	65	32	5	38	23	1.78
1170854--1170888	15	2.3	15	90	0	52	45	2	45	5	1.41
1180233--1180272	18	2.2	18	86	8	55	57	7	5	30	1.48
1193738--1193767	15	1.9	16	93	6	53	60	3	0	36	1.14
1198539--1198597	27	2.2	27	90	0	91	47	20	6	25	1.74
1198540--1198597	18	3.2	18	85	4	73	46	20	6	25	1.75
1198540--1198597	9	6.4	9	76	7	64	46	20	6	25	1.75
1198743--1198785	18	2.4	18	84	7	52	9	2	46	41	1.48
1199101--1199148	14	3.2	14	75	16	51	31	0	2	66	1.03

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