genome.fa.s4.2.7.7.80.10.50.1000.33.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:  31929104

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   

This is table  33  of  82  ( 9773 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)
12024333--12024565	54	4.3	54	91	4	389	25	40	13	20	1.89
12024381--12024475	30	3.4	31	64	28	84	25	43	12	18	1.86
12028994--12029071	37	2.1	37	92	0	129	25	35	8	29	1.87
12034818--12034868	25	2.0	25	96	0	93	41	19	21	17	1.91
12042038--12042066	14	2.1	14	100	0	58	48	27	6	17	1.72
12042180--12042368	37	5.1	37	87	5	258	25	34	10	29	1.89
12052796--12052837	18	2.3	18	87	0	57	52	0	4	42	1.22
12053737--12053811	15	5.0	15	85	4	98	68	0	32	0	0.90
12053749--12053794	11	4.5	10	79	20	51	69	0	30	0	0.89
12053736--12053811	30	2.5	30	89	6	127	68	0	31	0	0.90
12054707--12054751	20	2.2	21	84	11	58	40	26	2	31	1.68
12059282--12059444	77	2.1	75	85	2	218	40	12	6	41	1.67
12062568--12062664	38	2.5	38	85	5	115	25	16	34	23	1.95
12069360--12069514	43	3.6	43	86	0	202	23	18	35	22	1.95
12079557--12079643	25	3.4	24	76	7	75	26	32	18	22	1.97
12085201--12085287	34	2.6	35	85	5	117	26	11	24	37	1.89
12085201--12085311	34	3.3	33	79	8	107	29	9	24	36	1.88
12085445--12085483	15	2.6	15	83	0	51	79	0	7	12	0.93
12088962--12089052	45	2.0	44	97	2	173	27	23	8	40	1.84
12096893--12097000	41	2.6	41	82	5	119	38	22	14	24	1.91
12097938--12097980	19	2.3	19	91	0	68	16	37	6	39	1.75
12100184--12100218	2	17.5	2	100	0	70	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12105536--12105591	25	2.2	25	83	0	76	25	16	28	30	1.96
12110231--12110290	25	2.4	25	86	5	77	25	13	30	31	1.93
12110358--12110418	30	2.0	32	81	15	76	24	13	29	32	1.93
12120640--12120693	20	2.5	21	80	14	58	33	0	24	42	1.55
12120690--12120825	43	3.2	43	88	2	184	29	19	30	20	1.97
12126168--12126216	22	2.2	22	88	0	71	18	10	22	48	1.77
12127945--12128115	35	4.9	35	91	0	263	28	10	36	23	1.88
12136201--12136288	22	4.0	22	90	0	131	29	9	20	40	1.83
12148730--12148819	35	2.5	35	85	8	112	21	11	38	28	1.87
12149117--12149443	123	2.6	122	83	10	380	24	24	18	33	1.97
12149137--12149453	62	5.1	62	77	7	306	25	24	17	32	1.97
12153332--12153370	19	2.1	19	85	0	51	51	0	7	41	1.31
12155532--12155556	2	12.5	2	100	0	50	52	0	0	48	1.00
12155943--12156002	25	2.4	25	88	0	84	26	15	30	28	1.96
12157448--12157676	107	2.2	105	84	1	296	36	8	13	41	1.75
12157428--12157676	35	7.1	35	83	3	279	36	8	12	42	1.73
12167594--12167695	38	2.6	39	84	4	127	23	38	16	21	1.93
12177512--12177580	35	2.0	35	94	0	120	37	8	10	43	1.69
12178329--12178487	54	2.9	54	87	0	237	27	40	12	19	1.87
12180050--12180213	35	4.6	35	85	3	202	35	7	14	43	1.73
12185686--12185769	42	2.0	42	90	0	132	21	23	33	21	1.97
12185810--12185855	2	23.0	2	95	0	83	50	2	0	47	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12194699--12194739	21	1.9	22	90	5	66	51	7	24	17	1.70
12194699--12194743	20	2.2	21	84	11	58	55	6	22	15	1.63
12194697--12194744	21	2.3	20	79	10	60	56	6	22	14	1.61
12197644--12197835	72	2.7	71	82	7	217	18	18	22	39	1.92
12197643--12197835	73	2.7	73	82	7	223	19	18	22	39	1.92
12203321--12203463	40	3.6	40	91	3	211	20	34	20	23	1.96
12203355--12203475	38	3.1	38	90	4	172	23	34	17	23	1.96
12203577--12203601	2	12.5	2	100	0	50	52	0	0	48	1.00
12207401--12207670	136	2.0	134	97	0	504	30	16	24	27	1.97
12210953--12211020	35	1.9	35	90	0	109	27	11	35	25	1.91
12221643--12221675	14	2.3	15	89	5	50	57	15	3	24	1.52
12223636--12223662	14	1.9	14	100	0	54	40	0	7	51	1.30
12223640--12223664	12	2.1	12	100	0	50	40	0	8	52	1.31
12224126--12224161	15	2.4	15	90	9	56	13	0	19	66	1.24
12227174--12227210	19	2.0	18	89	5	56	78	2	0	18	0.87
12227695--12227736	21	2.0	21	90	9	68	23	19	21	35	1.96
12237965--12238025	29	2.1	28	90	3	95	63	9	8	18	1.48
12240180--12240240	5	12.4	5	87	5	81	1	21	0	77	0.86
12240372--12240464	34	2.7	34	77	8	107	22	27	12	36	1.91
12240550--12240638	34	2.6	34	85	0	115	34	25	13	25	1.93
12247954--12247993	21	1.9	21	89	0	62	30	30	5	35	1.79
12249869--12249907	21	1.9	20	94	5	69	35	12	15	35	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12251845--12251889	22	2.0	22	82	0	54	35	22	2	40	1.66
12262095--12262134	21	1.9	21	84	0	53	47	2	7	42	1.45
12262473--12262564	25	3.5	25	75	18	105	45	2	6	44	1.41
12262456--12262569	55	2.1	55	98	0	219	44	1	7	45	1.41
12262475--12262580	27	3.9	27	74	8	106	45	1	5	46	1.37
12283454--12283591	73	1.9	72	87	1	204	41	7	11	39	1.71
12283688--12283721	17	1.9	18	88	5	52	35	8	8	47	1.66
12285988--12286126	71	2.0	70	86	1	197	45	13	16	24	1.84
12288237--12288293	30	1.9	29	92	3	96	38	17	19	24	1.93
12289096--12289137	21	2.0	21	95	0	75	23	45	4	26	1.73
12290047--12290081	18	1.9	18	94	0	61	48	0	0	51	1.00
12293318--12293357	21	1.9	21	90	10	64	40	17	10	32	1.83
12295023--12295084	29	2.1	30	85	8	83	50	20	6	22	1.71
12302224--12302278	11	4.8	12	77	22	64	47	0	1	50	1.11
12302221--12302306	24	4.0	22	72	14	81	48	0	3	47	1.18
12302219--12302278	24	2.6	22	84	5	84	51	0	1	46	1.10
12302224--12302291	33	2.0	36	83	13	90	45	0	2	51	1.16
12304171--12304200	14	2.1	14	93	0	51	23	6	3	66	1.30
12304697--12304738	2	21.0	2	100	0	84	50	0	0	50	1.00
12312969--12313032	30	2.1	30	85	0	83	56	9	6	28	1.55
12314458--12314490	9	3.7	9	91	0	57	39	24	9	27	1.85
12314448--12314496	18	2.5	21	77	19	68	42	20	8	28	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12314458--12314496	18	2.2	18	95	0	69	41	20	7	30	1.80
12314555--12314624	26	2.7	27	76	21	71	64	2	0	32	1.08
12314736--12314770	18	1.9	18	100	0	70	40	20	11	28	1.87
12314795--12314828	10	3.3	10	88	8	50	26	2	17	52	1.58
12314795--12314828	11	3.2	11	91	4	52	26	2	17	52	1.58
12316176--12316212	18	2.0	19	89	5	58	40	0	0	59	0.97
12316345--12316437	15	6.2	16	70	22	53	44	1	2	52	1.20
12325953--12325999	21	2.2	21	84	0	67	29	21	12	36	1.91
12329725--12329787	2	31.0	2	96	3	117	49	0	0	49	1.01
12331028--12331130	15	6.8	15	68	18	70	39	1	2	55	1.26
12332102--12332212	47	2.4	47	93	0	195	36	4	9	49	1.56
12339335--12339708	185	2.0	192	87	4	555	47	13	17	20	1.81
12343449--12343478	15	2.0	15	100	0	60	33	6	13	46	1.69
12344134--12344164	3	10.3	3	100	0	62	67	0	0	32	0.91
12344204--12344230	2	13.5	2	100	0	54	0	48	0	51	1.00
12347222--12347258	18	2.0	19	85	15	51	75	0	18	5	0.99
12349928--12349970	18	2.5	17	82	10	52	39	0	0	60	0.97
12350018--12350188	69	2.5	69	80	9	188	38	19	16	25	1.93
12350063--12350265	24	8.8	24	71	16	108	39	19	16	25	1.91
12350063--12350268	93	2.2	92	81	7	247	38	19	16	25	1.92
12350154--12350309	68	2.3	69	87	2	224	38	19	17	24	1.93
12350244--12350416	45	3.8	45	86	1	213	31	21	23	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12350451--12350480	15	2.1	14	93	6	51	0	6	3	90	0.56
12351166--12351192	11	2.5	11	100	0	54	18	37	11	33	1.86
12351638--12351702	13	4.8	13	70	18	53	46	0	0	53	1.00
12351652--12351703	21	2.5	21	81	9	61	48	0	0	51	1.00
12351609--12351711	52	2.0	51	81	11	120	45	0	0	52	1.13
12351611--12351720	26	4.1	27	72	16	77	44	0	0	53	1.13
12371924--12372003	35	2.3	35	80	8	92	43	17	16	22	1.87
12372251--12372346	29	3.4	28	78	4	84	16	29	6	47	1.71
12385803--12385852	22	2.3	22	83	10	59	2	30	2	66	1.14
12386509--12386721	108	2.0	108	86	1	302	35	22	7	34	1.84

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