genome.fa.s10.2.7.7.80.10.50.1000.102.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: Chr10 ID=Chr10-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62175169

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   

This is table  102  of  202  ( 24201 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)
31119132--31119197	25	2.6	26	88	9	100	25	1	19	53	1.54
31121946--31122140	50	3.9	50	78	2	178	22	29	21	26	1.99
31123936--31123993	29	2.0	29	100	0	116	48	17	6	27	1.72
31124248--31124647	22	18.2	22	78	1	408	43	16	11	29	1.83
31124257--31124648	44	8.9	44	86	1	527	43	16	11	29	1.82
31125474--31125590	43	2.7	43	88	1	182	33	25	15	25	1.95
31127513--31127598	42	2.0	42	86	2	118	46	4	22	26	1.71
31128780--31128811	15	2.1	15	94	0	55	31	9	6	53	1.58
31130526--31130592	29	2.3	30	86	2	100	19	22	14	43	1.87
31130584--31130649	29	2.3	29	78	0	78	22	30	12	34	1.91
31138298--31138362	32	2.0	32	88	5	96	26	23	29	21	1.99
31139372--31139619	30	8.4	29	78	10	143	22	23	13	41	1.89
31139373--31139537	60	2.8	60	80	7	174	21	24	13	41	1.88
31139523--31139650	29	4.4	29	84	0	148	26	23	10	39	1.86
31142836--31143081	86	2.8	87	86	2	352	36	14	26	22	1.93
31142836--31143102	58	4.6	58	80	5	317	36	14	25	22	1.93
31142836--31143117	29	9.8	29	78	1	208	35	14	25	23	1.93
31147212--31147338	25	5.1	25	73	9	91	30	22	21	25	1.99
31157449--31157543	25	3.8	25	84	2	102	29	24	21	25	1.99
31162913--31163048	50	2.7	50	85	3	159	30	23	27	19	1.98
31163841--31163974	67	2.0	67	97	0	250	38	6	18	35	1.77
31173802--31173829	14	2.0	14	100	0	56	57	0	7	35	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31196657--31197080	223	1.9	222	85	2	580	25	6	25	42	1.79
31197888--31197922	15	2.2	16	90	5	54	40	0	5	54	1.24
31198785--31198818	14	2.3	15	90	5	52	17	26	2	52	1.58
31200534--31200626	17	5.9	17	71	14	83	38	5	5	50	1.48
31200527--31200644	30	3.9	30	71	14	107	37	5	5	50	1.51
31200527--31200579	13	3.8	13	77	18	52	33	7	3	54	1.46
31200575--31200614	16	2.6	15	88	7	62	42	2	5	50	1.37
31200545--31200692	61	2.4	61	87	0	215	41	4	4	49	1.45
31200861--31200937	21	3.7	21	79	10	68	44	20	2	32	1.66
31200919--31201379	9	53.7	9	66	18	182	45	19	2	31	1.65
31200928--31201373	16	26.1	17	64	22	86	45	19	2	31	1.65
31200925--31201037	25	4.5	26	77	14	105	46	19	0	32	1.56
31201132--31201173	20	2.1	20	90	0	66	42	23	2	30	1.67
31201152--31201365	34	6.3	34	73	11	170	44	20	4	31	1.70
31201153--31201353	69	2.9	69	89	1	305	43	20	4	31	1.72
31201309--31201390	25	3.3	25	85	0	110	47	14	2	35	1.58
31206868--31207037	66	2.6	66	85	1	207	38	18	27	14	1.90
31207008--31207078	21	3.4	21	82	0	88	33	16	43	5	1.72
31207416--31207668	43	5.9	42	78	3	229	24	18	28	28	1.98
31207426--31207668	129	1.9	129	83	5	321	22	18	28	30	1.97
31214814--31214880	34	1.9	35	87	3	100	46	11	8	32	1.72
31221034--31221075	19	2.4	18	84	11	52	71	2	21	4	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31223631--31223666	15	2.4	15	100	0	72	47	16	11	25	1.79
31249733--31249776	22	2.0	22	86	0	61	59	6	2	31	1.36
31253126--31253155	15	1.9	16	93	6	53	56	0	0	43	0.99
31253198--31253239	22	2.1	19	86	13	57	50	0	4	45	1.23
31260133--31260202	27	2.6	27	79	4	79	30	40	15	14	1.87
31260799--31260831	12	2.9	12	86	13	52	9	6	9	75	1.18
31267044--31267075	16	2.0	16	93	0	55	25	15	0	59	1.36
31267299--31267341	12	3.4	12	93	6	68	39	27	9	23	1.85
31267325--31267501	51	3.5	51	77	11	193	32	28	16	22	1.96
31270325--31270393	28	2.5	27	81	11	77	36	4	2	56	1.34
31275433--31275497	31	2.1	30	85	2	85	26	21	3	49	1.64
31278372--31278442	16	4.4	16	87	0	97	39	5	23	30	1.78
31278718--31278771	23	2.4	24	81	9	60	44	3	0	51	1.19
31281563--31281594	13	2.5	13	89	0	55	12	28	0	59	1.34
31286143--31286264	23	5.3	23	91	0	190	21	20	24	33	1.97
31295276--31295334	30	2.0	30	90	6	93	49	11	10	28	1.72
31306032--31306130	43	2.3	43	83	0	117	23	19	21	36	1.95
31324553--31324662	36	3.1	36	94	0	193	54	9	8	28	1.60
31325814--31325839	8	3.2	8	100	0	52	26	0	0	73	0.84
31337838--31337864	2	13.5	2	100	0	54	48	0	0	51	1.00
31338333--31338390	25	2.3	25	100	0	116	15	13	12	58	1.63
31340721--31340815	47	2.0	47	97	0	181	29	7	23	40	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31340727--31340825	47	2.1	47	92	0	162	29	9	24	37	1.86
31341165--31341208	23	1.9	23	95	0	79	22	0	31	45	1.53
31341898--31342013	61	2.0	60	86	5	164	48	3	4	43	1.39
31346060--31346088	9	3.0	10	90	10	51	20	20	0	58	1.39
31348256--31348465	29	7.2	29	83	2	251	36	14	24	23	1.93
31353271--31353387	39	3.0	39	82	2	128	37	9	11	41	1.73
31356199--31356247	14	3.4	14	81	10	62	51	6	2	40	1.38
31356745--31356796	26	2.0	27	92	3	88	42	1	0	55	1.10
31356772--31356809	11	3.5	11	92	0	67	44	0	0	55	0.99
31357454--31357483	2	15.0	2	92	0	51	46	3	50	0	1.18
31358623--31358654	16	1.9	16	93	6	55	81	0	18	0	0.70
31359836--31359898	24	2.6	23	78	9	63	55	4	6	33	1.46
31359836--31359903	23	2.9	23	74	8	66	55	4	7	32	1.47
31361368--31361530	44	3.8	44	73	13	151	29	20	18	31	1.96
31361846--31362369	88	6.0	88	91	2	806	22	26	23	27	2.00
31361846--31362369	263	2.0	264	91	3	851	22	26	23	27	2.00
31361846--31362369	175	3.0	175	92	1	845	22	26	23	27	2.00
31363603--31363650	22	2.2	20	86	13	69	14	10	0	75	1.06
31364160--31364208	22	2.2	22	85	7	64	2	12	4	81	0.91
31364150--31364198	9	5.2	9	83	11	55	2	10	4	83	0.85
31367519--31367595	39	2.0	40	82	7	95	58	2	7	31	1.40
31367580--31367642	24	2.6	23	78	9	63	55	4	6	33	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31369372--31369429	9	6.4	9	80	7	73	39	20	12	27	1.88
31369531--31369574	18	2.4	18	88	0	61	13	2	43	40	1.57
31370129--31370176	24	2.0	24	91	0	78	43	18	2	35	1.62
31373952--31374002	17	3.0	17	85	0	57	15	3	5	74	1.16
31376566--31376754	50	3.8	50	87	2	256	21	30	22	26	1.99
31384046--31384076	4	7.8	4	100	0	62	22	0	0	77	0.77
31392012--31392202	50	3.8	50	81	1	231	22	29	21	26	1.99
31396869--31396895	6	4.5	6	100	0	54	29	0	0	70	0.88
31403103--31403169	25	2.7	25	79	9	66	34	19	20	25	1.96
31404046--31404123	35	2.3	35	97	2	149	38	19	5	37	1.74
31416330--31416363	17	1.9	17	88	5	50	35	2	2	58	1.28
31416380--31416405	13	2.0	13	100	0	52	53	0	15	30	1.42
31425750--31425871	23	5.3	23	84	3	174	31	25	20	22	1.98
31425750--31425871	46	2.7	46	93	0	199	31	25	20	22	1.98
31440035--31440082	19	2.5	19	100	0	96	47	22	8	20	1.77
31441197--31441415	108	2.0	108	95	0	393	35	13	13	37	1.83
31443235--31443290	28	2.0	28	96	0	103	46	8	7	37	1.63
31443940--31443976	18	2.0	19	89	5	58	64	5	5	24	1.36
31449838--31449886	23	2.2	22	92	3	80	30	18	24	26	1.98
31450652--31450696	16	2.6	17	80	16	56	40	0	31	28	1.57
31451061--31451097	9	4.1	9	92	0	65	29	10	13	45	1.77
31455219--31455243	4	6.2	4	100	0	50	72	28	0	0	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31458913--31459033	60	2.0	60	93	0	206	52	14	11	21	1.74
31467812--31467981	43	4.0	42	78	6	164	31	25	15	27	1.95
31471765--31471789	13	1.9	13	100	0	50	20	8	0	72	1.10
31471802--31471883	23	3.6	23	76	15	89	40	0	2	57	1.12
31471886--31471929	22	1.9	22	86	9	61	38	2	0	59	1.10
31472006--31472050	21	2.2	21	92	4	74	42	0	0	57	0.98
31472172--31472224	13	3.7	13	75	22	52	58	1	3	35	1.27
31472172--31472233	31	2.1	31	84	6	83	59	1	3	35	1.23
31472197--31472224	13	2.2	13	100	0	56	60	0	0	39	0.97
31476515--31476615	30	3.4	29	84	5	123	22	23	24	28	1.99

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