genome.fa.s5.2.7.7.80.10.50.1000.67.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: Chr4
Parameters: 2 7 7 80 10 50 1000
Length:  30015117

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   

This is table  67  of  85  ( 10117 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)
23385413--23385442	4	7.8	4	92	7	53	23	0	0	76	0.78
23386154--23386234	33	2.5	33	83	4	92	48	11	11	29	1.73
23392348--23392386	19	2.2	18	86	9	53	35	43	0	20	1.52
23398260--23398305	23	2.0	23	95	0	83	6	4	36	52	1.47
23398289--23398348	13	4.3	15	71	16	56	18	0	30	51	1.46
23398539--23399080	127	4.3	127	92	2	887	35	19	19	25	1.96
23398534--23399080	252	2.2	252	92	2	904	35	19	19	25	1.95
23402138--23402223	18	4.8	18	88	0	127	25	9	23	41	1.84
23402137--23402223	9	9.7	9	85	5	113	25	9	22	42	1.83
23402385--23402409	12	2.1	12	100	0	50	16	24	36	24	1.94
23404310--23404364	9	6.1	9	93	0	92	14	41	9	34	1.77
23406772--23407021	13	19.1	13	70	14	147	52	5	5	36	1.47
23406772--23407021	40	6.4	39	77	14	237	52	5	5	36	1.47
23409673--23409704	7	4.6	7	100	0	64	56	15	0	28	1.40
23413560--23413663	54	1.9	54	98	0	199	20	11	18	50	1.77
23418518--23418566	18	2.6	19	87	12	75	81	10	2	6	0.94
23418518--23418560	17	2.4	18	92	3	70	86	6	2	4	0.79
23418591--23418670	27	3.0	27	88	0	115	27	23	37	11	1.89
23418625--23418692	27	2.5	27	85	4	84	20	29	33	16	1.94
23418982--23419043	3	20.7	3	96	0	115	32	1	0	66	1.02
23421902--23421938	17	2.2	17	100	0	74	45	8	16	29	1.76
23423222--23423280	28	2.1	28	96	3	111	35	13	0	50	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23423969--23424042	28	2.7	29	89	8	111	44	2	9	43	1.51
23424948--23424987	16	2.4	16	91	4	62	5	2	7	85	0.83
23424985--23425043	27	2.2	26	94	5	109	49	0	6	44	1.29
23424987--23425055	27	2.6	27	90	4	95	49	1	7	42	1.39
23426624--23426680	20	3.0	20	82	5	73	22	3	1	71	1.10
23427406--23427444	20	2.0	20	100	0	78	30	7	5	56	1.49
23427410--23427455	20	2.2	20	84	7	56	30	10	4	54	1.55
23428357--23428440	25	3.6	25	78	15	115	41	3	0	54	1.17
23428349--23428411	20	3.2	20	81	4	74	44	3	0	52	1.17
23428357--23428443	45	2.0	43	93	4	147	42	3	0	54	1.17
23431395--23431421	6	4.5	6	100	0	54	70	0	0	29	0.88
23432807--23432841	15	2.4	15	90	4	54	48	0	8	42	1.33
23436781--23436841	4	14.5	4	77	19	54	21	3	0	75	0.94
23436781--23436841	21	2.8	22	81	16	74	21	3	0	75	0.94
23436779--23436842	26	2.5	25	81	16	78	21	3	0	75	0.95
23436785--23436838	18	3.1	16	86	7	63	20	3	0	75	0.95
23436996--23437044	22	2.2	22	85	7	64	22	46	10	20	1.80
23438172--23438199	6	4.7	6	100	0	56	67	14	0	17	1.22
23438195--23438235	17	2.4	17	84	8	57	82	0	9	7	0.83
23447256--23447292	2	18.5	2	88	0	56	51	0	0	48	1.00
23449083--23449168	36	2.4	36	90	3	129	46	27	9	16	1.77
23462007--23462045	18	2.2	18	86	9	53	48	17	0	33	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23468049--23468090	12	3.5	12	75	12	50	64	0	9	26	1.24
23468045--23468091	24	2.0	24	100	0	94	63	0	8	27	1.23
23470384--23470432	23	2.2	21	75	10	53	38	0	4	57	1.18
23470422--23470472	18	2.8	18	75	3	57	33	3	7	54	1.47
23478902--23479004	50	2.1	50	96	3	190	49	10	16	23	1.77
23484057--23484157	39	2.7	35	71	21	87	55	1	5	36	1.36
23484764--23484826	9	6.4	10	76	20	53	30	1	0	68	0.99
23484743--23484816	30	2.5	28	84	8	94	33	2	0	63	1.09
23484753--23484883	40	3.1	40	89	6	181	35	2	0	62	1.08
23484832--23484893	32	1.9	32	90	0	97	32	1	1	64	1.13
23485737--23485761	7	3.6	7	100	0	50	72	0	0	28	0.86
23486655--23486778	63	2.0	63	80	0	140	29	8	32	29	1.86
23486990--23487031	13	3.2	13	80	6	57	47	9	7	35	1.64
23489368--23489524	69	2.3	68	80	5	192	38	23	21	17	1.93
23489387--23489512	23	5.5	23	91	0	189	38	23	22	15	1.92
23491655--23491682	6	4.7	6	100	0	56	64	0	0	35	0.94
23492982--23493006	4	6.2	4	100	0	50	0	0	24	76	0.80
23493810--23493970	72	2.2	72	78	2	171	35	14	22	26	1.94
23493911--23494033	60	2.0	60	92	3	203	41	13	21	22	1.89
23493980--23494218	75	3.2	75	78	4	182	40	11	24	24	1.88
23494035--23494216	75	2.4	75	81	5	208	39	11	25	24	1.89
23500686--23500740	7	7.7	7	76	11	58	5	0	40	54	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23500678--23500720	13	3.2	13	83	6	59	6	0	46	46	1.30
23500766--23501036	96	2.8	94	84	3	344	36	2	17	43	1.63
23501485--23501527	18	2.4	18	88	0	59	44	9	27	18	1.80
23501582--23501639	30	1.9	30	85	0	80	3	13	48	34	1.60
23502145--23502170	7	3.7	7	100	0	52	57	15	0	26	1.38
23503328--23503374	11	4.3	11	82	17	62	42	0	31	25	1.55
23509784--23509821	20	1.9	20	88	0	58	44	0	10	44	1.38
23513262--23513298	18	2.1	17	90	5	56	78	2	0	18	0.87
23520009--23520151	42	3.4	42	76	10	132	28	14	16	39	1.88
23523404--23523430	12	2.2	12	100	0	54	70	0	0	29	0.88
23524062--23524110	22	2.3	21	82	10	55	69	6	2	22	1.21
23527906--23527957	25	2.0	26	88	3	79	21	7	9	61	1.51
23530581--23530835	56	4.7	56	95	2	441	26	18	29	25	1.98
23540124--23540195	4	18.0	4	88	11	96	0	22	2	75	0.94
23540116--23540189	22	3.3	22	84	7	96	0	24	2	72	0.97
23541187--23541282	30	3.2	29	71	12	77	25	18	9	46	1.79
23541833--23541952	19	6.8	16	74	16	69	61	1	3	33	1.22
23541944--23542019	21	3.6	21	77	10	66	60	3	1	34	1.23
23541820--23542078	9	27.6	9	69	14	96	61	3	3	31	1.29
23545742--23545926	8	20.9	8	67	23	79	34	1	3	60	1.22
23545750--23545793	17	2.6	17	79	13	54	38	0	2	59	1.10
23545743--23545970	55	4.1	55	76	18	220	33	1	3	61	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23545737--23546007	118	2.3	118	98	0	517	33	2	3	60	1.26
23545868--23545911	17	2.6	17	79	13	54	38	0	2	59	1.10
23545901--23545997	36	2.6	35	78	15	97	30	2	4	62	1.25
23545901--23546016	55	2.1	54	81	12	130	31	2	3	62	1.26
23546313--23546358	14	3.4	14	70	11	51	4	45	13	36	1.63
23546305--23546367	26	2.4	26	100	0	126	3	47	9	39	1.52
23552221--23552322	4	26.0	4	82	11	113	47	28	2	21	1.65
23554760--23554787	12	2.3	12	100	0	56	42	17	14	25	1.87
23559671--23559702	6	5.3	6	92	0	55	0	46	3	50	1.17
23560238--23560296	24	2.5	24	82	0	73	18	16	30	33	1.94
23566580--23566630	3	16.7	3	79	4	57	25	0	3	70	1.04
23568663--23568701	20	2.0	20	94	0	69	33	10	17	38	1.84
23571336--23571362	2	13.5	2	100	0	54	51	0	48	0	1.00
23571866--23571926	27	2.3	26	88	2	95	27	11	22	37	1.89
23574734--23574823	45	2.0	45	91	0	144	28	15	6	48	1.70
23574979--23575056	38	2.1	38	97	0	147	30	12	25	30	1.93
23578728--23578845	40	3.0	38	81	7	148	38	18	18	24	1.93
23578901--23578980	41	2.0	41	97	0	151	21	20	32	26	1.97
23594025--23594176	23	6.6	22	72	14	103	31	6	21	40	1.79
23594793--23594999	43	4.8	43	94	0	333	18	20	34	26	1.96
23595472--23595515	18	2.4	18	88	0	61	13	2	43	40	1.57
23596817--23596895	35	2.3	35	93	0	131	43	21	12	22	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23597939--23597985	24	2.0	24	83	8	60	21	2	8	68	1.27
23597950--23597984	11	2.9	12	87	12	54	20	0	11	68	1.20
23603462--23603501	19	2.1	19	100	0	80	20	32	10	37	1.85
23605384--23605410	11	2.5	11	100	0	54	40	0	0	59	0.98
23609454--23609606	57	2.6	56	81	10	162	32	18	24	24	1.97
23617726--23617775	24	2.1	24	88	7	75	50	10	20	20	1.76
23617845--23617922	38	2.1	38	100	0	156	35	5	24	34	1.78
23619419--23619517	31	3.2	31	83	11	98	62	0	2	35	1.07
23619435--23619477	11	3.8	11	78	6	50	60	0	2	37	1.10
23619420--23619507	41	2.1	42	91	8	144	61	0	2	36	1.09

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