genome.fa.s13.2.7.7.80.10.50.1000.139.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: Chr13 ID=Chr13-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  58321163

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   

This is table  139  of  199  ( 23770 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)
42071789--42072231	9	52.3	9	64	19	141	36	1	17	44	1.60
42071761--42072106	25	13.5	25	71	14	215	37	2	16	43	1.61
42071915--42071984	16	4.9	15	68	21	60	38	4	14	42	1.65
42071890--42072051	41	3.9	41	90	1	234	37	2	16	43	1.62
42071956--42072226	16	17.1	16	65	19	88	35	1	18	45	1.57
42072055--42072098	21	2.1	21	91	0	70	40	0	11	47	1.39
42072139--42072225	25	3.5	24	80	12	97	29	0	22	47	1.52
42072180--42072243	25	2.6	25	90	2	94	37	0	21	40	1.54
42072951--42073012	17	3.5	17	71	16	63	58	6	6	29	1.48
42072953--42073016	21	3.3	21	67	24	68	59	6	6	28	1.46
42073404--42073507	45	2.3	43	82	11	120	40	19	7	32	1.80
42075088--42075139	26	2.0	25	82	10	61	44	5	1	48	1.38
42075536--42075577	15	2.9	15	85	3	59	42	38	0	19	1.51
42076108--42076883	114	6.8	114	91	1	1216	24	20	19	35	1.96
42087335--42087359	11	2.3	11	100	0	50	60	0	24	16	1.36
42088124--42088148	13	1.9	13	100	0	50	36	0	8	56	1.29
42088385--42088422	20	1.9	20	84	10	51	21	0	2	76	0.91
42099088--42099132	24	1.9	23	86	4	63	13	0	26	60	1.34
42102761--42102793	6	5.5	6	89	10	50	36	0	0	63	0.95
42102743--42102791	16	3.0	16	82	8	55	36	0	0	63	0.95
42103341--42103438	46	2.2	46	94	1	171	43	19	3	33	1.66
42108048--42108145	46	2.2	46	94	1	171	43	19	3	33	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42112720--42112751	15	2.1	15	94	0	55	68	9	6	15	1.36
42113768--42113836	29	2.4	29	87	2	95	43	0	37	18	1.51
42113768--42113851	29	2.9	28	81	8	89	41	1	38	19	1.59
42113889--42113925	18	2.1	18	94	0	65	27	5	13	54	1.61
42119072--42119110	15	2.6	15	88	8	53	28	35	15	20	1.93
42123434--42123482	20	2.7	18	77	22	57	51	4	2	42	1.32
42134065--42134109	18	2.5	18	85	7	56	28	46	11	13	1.77
42134272--42134316	18	2.5	18	88	0	63	33	17	13	35	1.89
42136166--42136347	91	2.0	91	91	2	294	28	12	19	40	1.87
42148420--42148478	25	2.4	25	97	0	109	45	6	20	27	1.76
42150151--42150176	3	8.7	3	100	0	52	69	0	30	0	0.89
42152199--42152227	1	29.0	1	100	0	58	100	0	0	0	0.00
42154815--42154891	36	2.3	32	82	8	82	11	11	9	67	1.42
42155767--42156313	45	12.3	45	79	3	444	30	16	22	30	1.96
42155767--42156313	90	6.1	90	84	3	633	30	16	22	30	1.96
42157800--42157846	3	15.7	3	79	16	53	31	4	0	63	1.13
42160314--42160348	18	2.0	17	88	5	52	54	0	0	45	0.99
42165746--42165780	2	18.0	2	94	5	63	51	0	0	48	1.00
42166484--42167138	328	2.0	328	95	0	1166	34	16	28	20	1.95
42167763--42167842	37	2.1	37	86	9	106	40	1	3	55	1.26
42169938--42170388	156	2.9	156	92	1	708	28	14	17	39	1.89
42176162--42176222	30	2.0	30	90	0	95	11	27	34	26	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42177918--42178015	43	2.3	44	76	5	110	36	28	14	20	1.92
42188716--42189243	44	12.1	45	72	10	359	29	24	17	28	1.97
42188716--42189243	133	4.0	133	85	4	752	29	24	17	28	1.97
42189019--42189162	79	1.8	77	86	2	207	31	24	15	27	1.96
42188958--42189207	123	2.0	123	93	0	428	30	25	16	28	1.97
42188716--42189243	256	2.0	262	88	3	780	29	24	17	28	1.97
42189433--42189470	3	12.7	3	100	0	76	31	0	0	68	0.90
42189941--42189993	26	2.0	27	85	10	74	62	7	13	16	1.53
42189950--42189998	26	1.9	26	84	12	66	65	8	10	16	1.46
42206307--42206346	11	3.5	11	86	3	53	72	0	2	25	0.97
42208278--42208308	10	3.0	10	95	4	53	19	3	0	77	0.90
42209724--42209975	24	10.8	24	68	13	132	54	4	6	34	1.46
42209746--42210007	69	3.8	69	76	8	185	53	4	6	34	1.49
42209813--42210018	70	3.0	68	75	10	184	55	4	6	33	1.45
42210807--42210855	22	2.2	21	75	10	53	36	16	6	40	1.73
42211530--42211589	21	2.9	21	85	9	86	26	0	3	70	1.03
42214387--42214444	24	2.3	25	88	8	91	24	8	15	51	1.71
42215397--42215527	66	2.0	66	96	0	244	32	9	22	35	1.87
42215838--42215989	26	6.0	26	68	17	88	41	0	3	54	1.21
42215833--42216051	102	2.2	102	94	0	377	41	1	4	52	1.29
42217234--42217272	14	2.9	14	84	3	53	30	0	0	69	0.89
42217239--42217287	3	16.3	3	80	16	57	30	0	2	67	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42220102--42221558	729	2.0	729	97	0	2761	33	14	28	23	1.94
42225754--42225819	28	2.4	27	76	19	64	18	18	1	62	1.41
42229320--42229361	3	14.0	3	100	0	84	66	0	0	33	0.92
42230525--42230904	44	8.6	44	83	3	467	30	16	23	29	1.96
42230525--42230904	89	4.3	88	86	3	449	30	16	23	29	1.96
42230525--42230936	133	3.1	133	88	3	544	30	16	24	28	1.97
42230525--42230936	222	1.9	222	94	0	725	30	16	24	28	1.97
42230944--42231064	44	2.9	42	85	7	156	32	16	23	28	1.96
42232268--42232320	14	3.9	14	82	2	54	24	1	0	73	0.93
42232287--42232335	3	16.3	3	80	16	57	28	0	2	69	1.00
42232270--42232338	12	6.5	11	75	20	58	26	1	1	71	1.03
42232635--42232688	27	2.0	27	100	0	108	37	25	7	29	1.83
42232695--42232732	16	2.4	16	95	0	67	26	34	2	36	1.71
42236504--42236560	29	1.9	29	89	3	87	35	21	15	28	1.94
42238451--42238535	42	2.0	42	97	0	161	38	10	21	29	1.87
42243733--42243779	2	23.5	2	100	0	94	51	0	0	48	1.00
42244287--42244328	17	2.4	18	80	11	52	23	2	7	66	1.28
42245212--42245282	30	2.4	29	80	15	83	38	5	7	49	1.54
42252509--42252542	17	2.0	17	100	0	68	41	23	5	29	1.78
42256608--42256676	18	3.8	18	82	0	93	13	42	2	42	1.58
42257393--42257417	12	2.1	12	100	0	50	32	8	16	44	1.76
42260013--42260052	20	2.0	20	90	0	62	50	12	10	27	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42260001--42260067	34	1.9	35	87	3	100	46	11	8	32	1.72
42260036--42260075	14	2.9	14	84	0	53	42	17	7	32	1.77
42266469--42266498	14	2.1	14	100	0	60	33	16	13	36	1.88
42269532--42269637	20	5.3	20	71	8	81	23	26	16	33	1.96
42269529--42269672	40	3.6	40	85	0	180	23	24	16	35	1.95
42274480--42274530	20	2.4	21	80	9	59	23	25	35	15	1.94
42278091--42278124	15	2.3	15	89	0	50	29	0	2	67	1.05
42283352--42283395	24	1.9	22	100	0	70	43	20	9	27	1.82
42288199--42288255	28	2.0	29	96	3	107	61	0	17	21	1.35
42297874--42297973	33	3.0	33	91	0	146	32	21	19	28	1.97
42312543--42312573	15	2.1	15	94	5	55	45	25	16	12	1.83
42313727--42313771	18	2.5	18	85	7	56	22	2	6	68	1.24
42316085--42316148	27	2.4	27	97	0	119	42	10	0	46	1.39
42318771--42318808	17	2.3	17	86	4	51	65	5	5	23	1.34
42323579--42323613	3	11.7	3	100	0	70	0	0	31	68	0.90
42326053--42326118	23	2.7	25	69	9	73	28	24	30	16	1.97
42326111--42326160	26	1.9	26	88	8	75	36	22	20	22	1.96
42326100--42326170	26	2.8	26	75	14	67	33	22	23	19	1.97
42326276--42326337	24	2.6	24	75	14	65	35	19	29	16	1.93
42326636--42326699	32	2.0	32	100	0	128	40	12	6	40	1.68
42326688--42326719	10	3.0	11	90	9	57	37	18	0	43	1.51
42327717--42327764	19	2.5	19	90	6	71	54	0	2	43	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42333944--42333986	3	14.7	3	90	4	70	34	0	0	65	0.93
42338068--42338113	13	3.8	12	83	13	58	82	8	8	0	0.84
42338070--42338121	16	3.3	15	78	10	50	84	5	7	1	0.84
42338069--42338105	15	2.4	16	82	13	51	83	8	8	0	0.80
42338582--42338634	18	3.0	17	86	10	63	81	3	15	0	0.83
42338582--42338622	17	2.3	18	88	12	59	80	2	17	0	0.82
42338585--42338634	23	2.2	23	88	0	73	82	4	14	0	0.82
42338582--42338634	17	3.0	18	81	15	58	81	3	15	0	0.83
42339541--42340325	44	17.8	44	67	13	267	29	19	24	26	1.98
42339674--42340047	175	2.1	176	89	3	549	29	18	24	27	1.98

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