Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold189
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2243555
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 25 characters in sequence are not A, C, G, or T
File 7 of 9
Found at i:1494426 original size:2 final size:2
Alignment explanation
Indices: 1494419--1494456 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1494409 GTAATCTCCC
1494419 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1494457 TTCCCTACCG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1495156 original size:27 final size:28
Alignment explanation
Indices: 1495116--1495169 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
1495106 AATATTTTTA
*
1495116 ATTTTTTTATTAATTTAAAAA-TAAAAT
1 ATTTTTTTATTAATATAAAAATTAAAAT
1495143 ATTTATTTTA-TAATATAAAAATTAAAA
1 ATTT-TTTTATTAATATAAAAATTAAAA
1495170 GGTAAATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 14 0.58
28 10 0.42
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (28 bp):
ATTTTTTTATTAATATAAAAATTAAAAT
Found at i:1495615 original size:7 final size:7
Alignment explanation
Indices: 1495603--1495627 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
1495593 AACTAATGTC
1495603 CAAATCT
1 CAAATCT
1495610 CAAATCT
1 CAAATCT
1495617 CAAATCT
1 CAAATCT
1495624 CAAA
1 CAAA
1495628 CTAATCCGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (7 bp):
CAAATCT
Found at i:1504033 original size:2 final size:2
Alignment explanation
Indices: 1504026--1504053 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1504016 TCCATTACTG
1504026 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1504054 AACTGAATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1504728 original size:2 final size:2
Alignment explanation
Indices: 1504721--1504763 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
1504711 TCATTGCTGT
1504721 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1504763 T
1 T
1504764 CCTAAAATAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1511234 original size:21 final size:21
Alignment explanation
Indices: 1511210--1511249 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
1511200 TATTAAAAAT
1511210 TATTTTAT-ATTAATATTTATA
1 TATTTTATAATTAA-ATTTATA
1511231 TATTTTATAATTAAATTTA
1 TATTTTATAATTAAATTTA
1511250 AATAATAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTTTATAATTAAATTTATA
Found at i:1517085 original size:3 final size:3
Alignment explanation
Indices: 1517077--1517108 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
1517067 TTTAGTATAT
1517077 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1517109 TTGGTTTATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1517826 original size:3 final size:3
Alignment explanation
Indices: 1517818--1517845 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
1517808 GCGACCACCC
1517818 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1517846 CTTAGCCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1518041 original size:2 final size:2
Alignment explanation
Indices: 1518036--1518061 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1518026 ATATCTGTAC
1518036 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1518062 TCACAGACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1522069 original size:21 final size:20
Alignment explanation
Indices: 1522045--1522104 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 20
1522035 TAGTTACATA
1522045 ATTTATTTTAAATTTTATTTT
1 ATTT-TTTTAAATTTTATTTT
***
1522066 ATTTTAAAAAATTATTATTTT
1 ATTTTTTTAAATT-TTATTTT
*
1522087 ATATTTTTAAATTTTATT
1 ATTTTTTTAAATTTTATT
1522105 AATAAAATTT
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
20 11 0.35
21 20 0.65
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
ATTTTTTTAAATTTTATTTT
Found at i:1522329 original size:17 final size:16
Alignment explanation
Indices: 1522304--1522337 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
1522294 AATTTTTTAA
1522304 AAAAATTTATTATTATT
1 AAAAATTTATT-TTATT
*
1522321 AAAATTTTATTTTATT
1 AAAAATTTATTTTATT
1522337 A
1 A
1522338 GTAAAAGGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
AAAAATTTATTTTATT
Found at i:1523167 original size:25 final size:26
Alignment explanation
Indices: 1523130--1523191 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 26
1523120 CTTTAATGGC
1523130 AAAATT-AATAATAATATTAAATATAAA
1 AAAATTAAATAATAATA-T-AATATAAA
1523157 AAAATTAAAT-ATAATATAATATAAA
1 AAAATTAAATAATAATATAATATAAA
*
1523182 AATA-TAAATA
1 AAAATTAAATA
1523192 TTTTAAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
24 5 0.16
25 11 0.34
26 1 0.03
27 12 0.38
28 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (26 bp):
AAAATTAAATAATAATATAATATAAA
Found at i:1523172 original size:5 final size:5
Alignment explanation
Indices: 1523164--1523297 Score: 57
Period size: 5 Copynumber: 27.2 Consensus size: 5
1523154 AAAAAAATTA
* * * *
1523164 AATAT AATAT AATAT AA-A- AATAT AA-AT ATTTT AAAATT TATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATA-T AATAT AATAT
* * * * * * *
1523212 AA-AT TAT-T AATAT ATTAT ATTTT ATATAT AA-AT AAAAT ATTTT AAATAT
1 AATAT AATAT AATAT AATAT AATAT A-ATAT AATAT AATAT AATAT -AATAT
* *
1523261 AAT-T AATTT AAAAAT AATAT AATAT AATAT AAATAT A
1 AATAT AATAT -AATAT AATAT AATAT AATAT -AATAT A
1523298 TTTAAAATGT
Statistics
Matches: 95, Mismatches: 22, Indels: 24
0.67 0.16 0.17
Matches are distributed among these distances:
3 2 0.02
4 19 0.20
5 57 0.60
6 17 0.18
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
AATAT
Found at i:1523236 original size:32 final size:33
Alignment explanation
Indices: 1523130--1523305 Score: 101
Period size: 32 Copynumber: 5.2 Consensus size: 33
1523120 CTTTAATGGC
* * * *
1523130 AAAATTAATAATAATAT-TAAATATAAAAAAATT
1 AAAATTTAT-ATAATATAAAAATATAAATATATT
* *
1523163 -AAATATAATATAATATAAAAATATAAATATTTT
1 AAAAT-TTATATAATATAAAAATATAAATATATT
* *
1523196 AAAATTTATATAATAT-AAATTATTAATATATT
1 AAAATTTATATAATATAAAAATATAAATATATT
* * * *
1523228 ATATTTTATATATAAATAAAATATTTTAAATATAATT
1 AAAATTTATATA-ATATAAAA-A-TATAAATAT-ATT
*
1523265 --AATTTAAAAATAATATAATATAATATAAATATATTT
1 AAAATTT--ATATAATATAA-A-AATATAAATATA-TT
1523301 AAAAT
1 AAAAT
1523306 GTCACTATTA
Statistics
Matches: 110, Mismatches: 18, Indels: 25
0.72 0.12 0.16
Matches are distributed among these distances:
32 34 0.31
33 29 0.26
34 7 0.06
35 5 0.05
36 22 0.20
37 9 0.08
38 4 0.04
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (33 bp):
AAAATTTATATAATATAAAAATATAAATATATT
Found at i:1523604 original size:24 final size:25
Alignment explanation
Indices: 1523574--1523630 Score: 82
Period size: 24 Copynumber: 2.3 Consensus size: 25
1523564 ATAAAATAGT
1523574 AATATATATATAATATAATAAATTTA
1 AATATATAT-TAATATAATAAATTTA
*
1523600 AATATA-ATTAATATAATATATTTA
1 AATATATATTAATATAATAAATTTA
1523624 AA-ATATA
1 AATATATA
1523631 AATTATATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 3 0.10
24 18 0.62
25 2 0.07
26 6 0.21
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (25 bp):
AATATATATTAATATAATAAATTTA
Found at i:1523643 original size:24 final size:23
Alignment explanation
Indices: 1523595--1523664 Score: 72
Period size: 24 Copynumber: 3.0 Consensus size: 23
1523585 AATATAATAA
*
1523595 ATTT-AAATATAATTAATATAATAT
1 ATTTAAAATATAATT-ATAT-TTAT
1523619 ATTTAAAATATAAATTATATTTAT
1 ATTTAAAATAT-AATTATATTTAT
*
1523643 ATTTAAAATTTTAA-TATATTTA
1 ATTTAAAA-TATAATTATATTTA
1523665 ATAATTTATA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
23 8 0.20
24 17 0.41
25 12 0.29
26 4 0.10
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
ATTTAAAATATAATTATATTTAT
Found at i:1526699 original size:2 final size:2
Alignment explanation
Indices: 1526692--1526722 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1526682 GATTTCCCAG
1526692 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1526723 TCATACACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1530201 original size:2 final size:2
Alignment explanation
Indices: 1530194--1530223 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1530184 GTCTCCATAC
1530194 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1530224 GCCTTTAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:1533966 original size:2 final size:2
Alignment explanation
Indices: 1533959--1533984 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1533949 TGATTGGTCC
1533959 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1533985 CATTGGAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1535604 original size:18 final size:19
Alignment explanation
Indices: 1535575--1535610 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
1535565 GAGCTTATTC
*
1535575 AGATATAATATATGATTTA
1 AGATATAATATATAATTTA
1535594 AGATA-AATATATAATTT
1 AGATATAATATATAATTT
1535611 CTAAAATTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (19 bp):
AGATATAATATATAATTTA
Found at i:1536785 original size:16 final size:15
Alignment explanation
Indices: 1536756--1536797 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
1536746 CCTATCTTAC
*
1536756 ATAT-TATATTTATA
1 ATATATATATGTATA
1536770 TATATATATATGTATA
1 -ATATATATATGTATA
1536786 ACTATATATATG
1 A-TATATATATG
1536798 CGTGAATACG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 5 0.21
16 19 0.79
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (15 bp):
ATATATATATGTATA
Found at i:1536811 original size:20 final size:20
Alignment explanation
Indices: 1536788--1536836 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
1536778 TATGTATAAC
*
1536788 TATATATATGCGTGAATACG-
1 TATATATATGCATG-ATACGA
* *
1536808 TATATATTTGCATGATATGA
1 TATATATATGCATGATACGA
1536828 TATATATAT
1 TATATATAT
1536837 ATACATATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.37, C:0.06, G:0.14, T:0.43
Consensus pattern (20 bp):
TATATATATGCATGATACGA
Found at i:1538777 original size:2 final size:2
Alignment explanation
Indices: 1538770--1538810 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
1538760 TTCATTCGCT
1538770 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1538811 CCTCTCATCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1539387 original size:2 final size:2
Alignment explanation
Indices: 1539380--1539409 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1539370 ACTGACATCC
1539380 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1539410 GTATGTATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1541781 original size:2 final size:2
Alignment explanation
Indices: 1541774--1541806 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1541764 AACTATCAGC
1541774 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1541807 CTCGACACAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1545380 original size:20 final size:20
Alignment explanation
Indices: 1545331--1545369 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1545321 AAAAAATATA
*
1545331 ATTTAAAAATAAAATTAAAT
1 ATTTAAATATAAAATTAAAT
1545351 ATTTAAATATAAAATTAAA
1 ATTTAAATATAAAATTAAA
1545370 ATTATTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
ATTTAAATATAAAATTAAAT
Found at i:1551351 original size:12 final size:12
Alignment explanation
Indices: 1551334--1551395 Score: 65
Period size: 12 Copynumber: 5.1 Consensus size: 12
1551324 GGCAGGAGAG
*
1551334 AAAGAAATAAAA
1 AAAGAAAGAAAA
*
1551346 AAAGAAAAAAAA
1 AAAGAAAGAAAA
1551358 AAAGAAAAAGAAAA
1 AAAG--AAAGAAAA
1551372 AAA-AAGAGAAAA
1 AAAGAA-AGAAAA
1551384 AAA-AAAGAAAA
1 AAAGAAAGAAAA
1551395 A
1 A
1551396 GGACAAAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
11 9 0.20
12 26 0.58
14 10 0.22
ACGTcount: A:0.87, C:0.00, G:0.11, T:0.02
Consensus pattern (12 bp):
AAAGAAAGAAAA
Found at i:1551367 original size:18 final size:18
Alignment explanation
Indices: 1551344--1551396 Score: 81
Period size: 18 Copynumber: 3.0 Consensus size: 18
1551334 AAAGAAATAA
1551344 AAAAAGAAAAAAAAAAAG
1 AAAAAGAAAAAAAAAAAG
*
1551362 AAAAAGAAAAAAAAAGAG
1 AAAAAGAAAAAAAAAAAG
*
1551380 AAAAA-AAAAAGAAAAAG
1 AAAAAGAAAAAAAAAAAG
1551397 GACAAAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
17 10 0.31
18 22 0.69
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAAAAAAAAAG
Found at i:1551368 original size:30 final size:29
Alignment explanation
Indices: 1551342--1551405 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 29
1551332 AGAAAGAAAT
1551342 AAAAAAAGA-AAAAAAAAAAGAAAAAGAA
1 AAAAAAAGAGAAAAAAAAAAGAAAAAGAA
*
1551370 AAAAAAAGAGAAAAAAAAAAGAAAAAGGA
1 AAAAAAAGAGAAAAAAAAAAGAAAAAGAA
*
1551399 CAAAAAA
1 AAAAAAA
1551406 TTTGTATTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
28 9 0.27
29 24 0.73
ACGTcount: A:0.86, C:0.02, G:0.12, T:0.00
Consensus pattern (29 bp):
AAAAAAAGAGAAAAAAAAAAGAAAAAGAA
Found at i:1551403 original size:18 final size:16
Alignment explanation
Indices: 1551350--1551405 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 16
1551340 ATAAAAAAAG
1551350 AAAAAAAAAAA-GAAA
1 AAAAAAAAAAAGGAAA
1551365 AAGAAAAAAAAAGAGAAAA
1 AA-AAAAAAAAAG-G-AAA
1551384 AAAAAAGAAAAAGGACAA
1 AAAAAA-AAAAAGGA-AA
1551402 AAAA
1 AAAA
1551406 TTTGTATTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
15 2 0.06
16 9 0.26
17 1 0.03
18 12 0.34
19 11 0.31
ACGTcount: A:0.86, C:0.02, G:0.12, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAGGAAA
Found at i:1551405 original size:1 final size:1
Alignment explanation
Indices: 1551342--1551395 Score: 54
Period size: 1 Copynumber: 54.0 Consensus size: 1
1551332 AGAAAGAAAT
* * * * * *
1551342 AAAAAAAGAAAAAAAAAAAGAAAAAGAAAAAAAAAGAGAAAAAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1551396 GGACAAAAAA
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (1 bp):
A
Found at i:1551467 original size:36 final size:36
Alignment explanation
Indices: 1551413--1551509 Score: 112
Period size: 36 Copynumber: 2.7 Consensus size: 36
1551403 AAATTTGTAT
*
1551413 TTATATTTATATTATTTTTT-TATATGTAA-AA-TAA
1 TTATATTTTTATTATTTTTTATATATG-AATAATTAA
*
1551447 TTATATTTTTATATATTTTTTATATATGAATAATTTA
1 TTATATTTTTAT-TATTTTTTATATATGAATAATTAA
*
1551484 TTTTA-TTTTATGTATTTTTTATATAT
1 TTATATTTTTAT-TATTTTTTATATAT
1551510 ATATATGTGT
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
34 11 0.20
35 10 0.18
36 28 0.51
37 6 0.11
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (36 bp):
TTATATTTTTATTATTTTTTATATATGAATAATTAA
Found at i:1552408 original size:21 final size:19
Alignment explanation
Indices: 1552377--1552433 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
1552367 TATTTTTGTC
*
1552377 AAAAAAGAAAGAAATAAAGG
1 AAAAAAAAAAGAAA-AAAGG
1552397 AGAAAAAAAAAG-AAAAAGG
1 A-AAAAAAAAAGAAAAAAGG
1552416 AAAGAAAAAAAGAAAAAA
1 AAA-AAAAAAAGAAAAAA
1552434 TTATGTATTC
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
18 2 0.06
19 14 0.42
20 8 0.24
21 9 0.27
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.02
Consensus pattern (19 bp):
AAAAAAAAAAGAAAAAAGG
Found at i:1552766 original size:18 final size:17
Alignment explanation
Indices: 1552733--1552766 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
1552723 ATTTTGATTT
*
1552733 TTTATATATATGTTAAG
1 TTTATATATATCTTAAG
1552750 TTTATATTATATCTTAA
1 TTTATA-TATATCTTAA
1552767 TTGATGTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (17 bp):
TTTATATATATCTTAAG
Found at i:1553495 original size:16 final size:17
Alignment explanation
Indices: 1553468--1553508 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
1553458 ATTTGTAAAT
1553468 AAATTTTA-TTAATT-A
1 AAATTTTATTTAATTAA
*
1553483 TAATTTTATTTAATTAA
1 AAATTTTATTTAATTAA
1553500 AAATTTTAT
1 AAATTTTAT
1553509 AAATATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 7 0.32
16 6 0.27
17 9 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
AAATTTTATTTAATTAA
Found at i:1557951 original size:30 final size:30
Alignment explanation
Indices: 1557916--1557976 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
1557906 TATTTAGGTC
*
1557916 ACGATCTTTAAATATATATATTTGTAGAAA
1 ACGATCTTTAAATATATATATTTGTACAAA
1557946 ACGATCTTTAAATATATATATTTGTACAAA
1 ACGATCTTTAAATATATATATTTGTACAAA
1557976 A
1 A
1557977 ATATATTTAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.39
Consensus pattern (30 bp):
ACGATCTTTAAATATATATATTTGTACAAA
Found at i:1562055 original size:19 final size:18
Alignment explanation
Indices: 1562031--1562066 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
1562021 TTTGGATTGG
1562031 TAGTACTAGTACTGTATTA
1 TAGTACTAGTACT-TATTA
1562050 TAGTACTAGTACTTATT
1 TAGTACTAGTACTTATT
1562067 TTTTCTTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.44
Consensus pattern (18 bp):
TAGTACTAGTACTTATTA
Found at i:1562419 original size:19 final size:19
Alignment explanation
Indices: 1562395--1562489 Score: 61
Period size: 16 Copynumber: 5.5 Consensus size: 19
1562385 TAATTTTATG
1562395 TATTATA-ATAATATATAAA
1 TATTATATAT-ATATATAAA
*
1562414 TATTATATATTTATATAAA
1 TATTATATATATATATAAA
1562433 T-TTA-A-ATATAT-T-AA
1 TATTATATATATATATAAA
*
1562447 TAATT-TAT-TTTATATAAA
1 T-ATTATATATATATATAAA
*
1562465 T-TT-TA-ATATATTTAAA
1 TATTATATATATATATAAA
1562481 TATT-TATAT
1 TATTATATAT
1562490 TATTTTTATA
Statistics
Matches: 61, Mismatches: 5, Indels: 21
0.70 0.06 0.24
Matches are distributed among these distances:
14 3 0.05
15 1 0.02
16 25 0.41
17 6 0.10
18 8 0.13
19 16 0.26
20 2 0.03
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TATTATATATATATATAAA
Found at i:1562430 original size:10 final size:10
Alignment explanation
Indices: 1562417--1562522 Score: 64
Period size: 10 Copynumber: 10.9 Consensus size: 10
1562407 ATATAAATAT
1562417 TATATATTTA
1 TATATATTTA
*
1562427 TATAAATTTA
1 TATATATTTA
* *
1562437 AATATATTAA
1 TATATATTTA
*
1562447 TAATTTATTTTA
1 T-ATATA-TTTA
*
1562459 TATAAATTT-
1 TATATATTTA
1562468 TAATATATTTA
1 T-ATATATTTA
1562479 -A-ATATTTA
1 TATATATTTA
*
1562487 TAT-TATTTT
1 TATATATTTA
*
1562496 TATATAATT-
1 TATATATTTA
1562505 T-TAT-TTTA
1 TATATATTTA
1562513 TATTATATTT
1 TA-TATATTT
1562523 TAATTAATTT
Statistics
Matches: 72, Mismatches: 13, Indels: 21
0.68 0.12 0.20
Matches are distributed among these distances:
7 2 0.03
8 11 0.15
9 12 0.17
10 33 0.46
11 10 0.14
12 4 0.06
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
TATATATTTA
Found at i:1562458 original size:22 final size:20
Alignment explanation
Indices: 1562369--1562488 Score: 60
Period size: 18 Copynumber: 6.2 Consensus size: 20
1562359 TGATCATGTG
*
1562369 TTATATTATATTTAAATA-A
1 TTATAATATATTTAAATATA
* *
1562388 TT-TTATGTA-TTATAATA-A
1 TTATAATATATTTA-AATATA
*
1562406 TATATAA-ATA-TTATATAT-
1 T-TATAATATATTTAAATATA
*
1562424 TTAT-ATAAATTTAAATATA
1 TTATAATATATTTAAATATA
* * *
1562443 TTAATAATTTATTTTATATAAA
1 TT-ATAATATA-TTTAAATATA
*
1562465 TTTTAATATATTTAAATAT-
1 TTATAATATATTTAAATATA
1562484 TTATA
1 TTATA
1562489 TTATTTTTAT
Statistics
Matches: 74, Mismatches: 17, Indels: 20
0.67 0.15 0.18
Matches are distributed among these distances:
16 1 0.01
17 8 0.11
18 21 0.28
19 14 0.19
20 11 0.15
21 9 0.12
22 10 0.14
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (20 bp):
TTATAATATATTTAAATATA
Found at i:1562464 original size:32 final size:33
Alignment explanation
Indices: 1562404--1562505 Score: 109
Period size: 32 Copynumber: 3.0 Consensus size: 33
1562394 GTATTATAAT
*
1562404 AATATATAAATATTATATATTTATATAAATTTA
1 AATATATTAATATTATATATTTATATAAATTTA
*
1562437 AATATATTAATAATT-TAT-TTTATATAAATTTT
1 AATATATTAAT-ATTATATATTTATATAAATTTA
*
1562469 AATATATTTAAATATTTATATTATTTTTATATAATTT
1 AATATA-TT-AATA-TTATA-TATTTATATA-AATTT
1562506 TATTTTATAT
Statistics
Matches: 58, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
32 19 0.33
33 16 0.28
34 8 0.14
35 2 0.03
36 1 0.02
37 7 0.12
38 5 0.09
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (33 bp):
AATATATTAATATTATATATTTATATAAATTTA
Found at i:1562470 original size:33 final size:32
Alignment explanation
Indices: 1562403--1562532 Score: 103
Period size: 33 Copynumber: 4.0 Consensus size: 32
1562393 TGTATTATAA
*
1562403 TAATATATAAATATTATATATTTATATAAATT
1 TAATATATTAATATTATATATTTATATAAATT
1562435 TAAATATATTAATAATT-TAT-TTTATATAAATTT
1 T-AATATATTAAT-ATTATATATTTATATAAA-TT
*
1562468 TAATATATTTAAATATTTATATTATTTTTATATAATT
1 TAATATA-TT-AATA-TTATA-TATTTATATA-AATT
* *
1562505 T--TAT-TTTATATTATAT-TTTA-ATTAATT
1 TAATATATTAATATTATATATTTATATAAATT
1562532 T
1 T
1562533 TTATATCATA
Statistics
Matches: 83, Mismatches: 5, Indels: 25
0.73 0.04 0.22
Matches are distributed among these distances:
27 5 0.06
28 2 0.02
29 3 0.04
30 1 0.01
31 5 0.06
32 20 0.24
33 21 0.25
34 8 0.10
35 5 0.06
36 1 0.01
37 10 0.12
38 2 0.02
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (32 bp):
TAATATATTAATATTATATATTTATATAAATT
Found at i:1562505 original size:38 final size:37
Alignment explanation
Indices: 1562369--1562553 Score: 114
Period size: 38 Copynumber: 4.9 Consensus size: 37
1562359 TGATCATGTG
* * *
1562369 TTATATTATATTTAAATAATTTTATGTA-TTATAATA-
1 TTATATTATTTTTATATAATTTTATATATTTA-AATAT
* * * * *
1562405 ATATATAAATATTATAT-ATTTATATAAATTTAAATAT
1 TTATATTATTTTTATATAATTT-TATATATTTAAATAT
1562442 ATTAATAATT-TATTTTATATAAATTTTAATATATTTAAATAT
1 -TT-AT-ATTAT-TTTTATAT-AATTTT-ATATATTTAAATAT
* *
1562484 TTATATTATTTTTATATAATTTTATTTTATATTATAT-T
1 TTATATTATTTTTATATAATTTTA-TATAT-TTAAATAT
*
1562522 TTA-ATTAATTTTTATATCATATTTATA-ATTTA
1 TTATATT-ATTTTTATATAAT-TTTATATATTTA
1562554 TAATTATATC
Statistics
Matches: 117, Mismatches: 17, Indels: 30
0.71 0.10 0.18
Matches are distributed among these distances:
35 4 0.03
36 22 0.19
37 9 0.08
38 28 0.24
39 22 0.19
40 12 0.10
41 3 0.03
42 17 0.15
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.57
Consensus pattern (37 bp):
TTATATTATTTTTATATAATTTTATATATTTAAATAT
Found at i:1562534 original size:28 final size:28
Alignment explanation
Indices: 1562450--1562559 Score: 86
Period size: 28 Copynumber: 3.9 Consensus size: 28
1562440 ATATTAATAA
*
1562450 TTTATTTTATA-TAAATTTTAA-TATATT
1 TTTATTTTATATTATATTTTAATTA-ATT
**
1562477 TAAATATTTATATTAT-TTTT-ATATAA-T
1 TTTAT-TTTATATTATATTTTAAT-TAATT
1562504 TTTATTTTATATTATATTTTAATTAATT
1 TTTATTTTATATTATATTTTAATTAATT
* *
1562532 TTTATATCATATTTATAATTTATAATTA
1 TTTATTTTATA-TTAT-ATTT-TAATTA
1562560 TATCATATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
26 10 0.15
27 15 0.23
28 23 0.35
29 8 0.12
30 4 0.06
31 6 0.09
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (28 bp):
TTTATTTTATATTATATTTTAATTAATT
Found at i:1562560 original size:24 final size:24
Alignment explanation
Indices: 1562510--1562583 Score: 87
Period size: 24 Copynumber: 3.1 Consensus size: 24
1562500 TAATTTTATT
* * **
1562510 TTATATTATATTT-TAATTAATTT
1 TTATATCATATTTATAATTTATAA
1562533 TTATATCATATTTATAATTTATAA
1 TTATATCATATTTATAATTTATAA
*
1562557 TTATATCATATTTAAAATTATATAA
1 TTATATCATATTTATAATT-TATAA
1562582 TT
1 TT
1562584 TAATTTTAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 12 0.27
24 25 0.57
25 7 0.16
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (24 bp):
TTATATCATATTTATAATTTATAA
Found at i:1562586 original size:15 final size:15
Alignment explanation
Indices: 1562545--1562586 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 15
1562535 ATATCATATT
*
1562545 TATAATTTATAATTA
1 TATAATTTAAAATTA
1562560 TATCATATTTAAAATTA
1 TAT-A-ATTTAAAATTA
1562577 TATAATTTAA
1 TATAATTTAA
1562587 TTTTAATTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 9 0.38
16 2 0.08
17 13 0.54
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (15 bp):
TATAATTTAAAATTA
Found at i:1562858 original size:2 final size:2
Alignment explanation
Indices: 1562851--1562880 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1562841 ACTTAGGTAA
*
1562851 AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1562881 GAAAACATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:1566388 original size:2 final size:2
Alignment explanation
Indices: 1566375--1566413 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
1566365 AGTTACCAAA
* *
1566375 AT AT AC AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1566414 CATAAAAGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:1576608 original size:22 final size:22
Alignment explanation
Indices: 1576583--1576629 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
1576573 ATAGTTTAAA
*
1576583 TATTGGTTTAT-ATTTAGTATAT
1 TATTAGTTTATAATTTA-TATAT
1576605 TATTAGTTTATAAATTTATATAT
1 TATTAGTTTAT-AATTTATATAT
1576628 TA
1 TA
1576630 CCGATAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 10 0.45
23 7 0.32
24 5 0.23
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (22 bp):
TATTAGTTTATAATTTATATAT
Found at i:1579455 original size:2 final size:2
Alignment explanation
Indices: 1579448--1579498 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
1579438 GTAACTATTC
1579448 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1579490 CT C- CT CT CT
1 CT CT CT CT CT
1579499 TTTTTAAGTA
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 47 0.98
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:1584175 original size:2 final size:2
Alignment explanation
Indices: 1584168--1584206 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1584158 GCCTTTTTGT
1584168 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1584207 GTGGCAGCAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:1588751 original size:4 final size:4
Alignment explanation
Indices: 1588727--1588764 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
1588717 CTTCTCTTCT
* *
1588727 TTTA TTCA TTTA TAT- TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1588765 TTATATAACA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
3 2 0.07
4 27 0.93
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:1591896 original size:2 final size:2
Alignment explanation
Indices: 1591889--1591933 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
1591879 TTACCTTAGC
* *
1591889 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1591931 TA T
1 TA T
1591934 TTGAATTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:1593741 original size:2 final size:2
Alignment explanation
Indices: 1593729--1593760 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
1593719 CTTTAATACA
*
1593729 AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1593761 TGGTGATTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1598747 original size:22 final size:20
Alignment explanation
Indices: 1598717--1598762 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
1598707 CAATATAATT
*
1598717 ATATAATATA-AAAATAAATA
1 ATATAATATATAAAA-ATATA
1598737 ATATAATATATAAAAATATA
1 ATATAATATATAAAAATATA
1598757 ATATAA
1 ATATAA
1598763 ATTATTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
ATATAATATATAAAAATATA
Found at i:1598760 original size:15 final size:15
Alignment explanation
Indices: 1598708--1598761 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
1598698 TTTTAAATAC
*
1598708 AATATAAT-TAT-AT
1 AATATAATATATAAA
*
1598721 AATATAA-AAATAAA
1 AATATAATATATAAA
1598735 TAATATAATATATAAA
1 -AATATAATATATAAA
1598751 AATATAATATA
1 AATATAATATA
1598762 AATTATTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.26
14 1 0.03
15 18 0.53
16 6 0.18
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AATATAATATATAAA
Found at i:1601286 original size:3 final size:3
Alignment explanation
Indices: 1601278--1601312 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
1601268 TCTTATAATA
1601278 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1601313 GATCATAATG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:1605901 original size:2 final size:2
Alignment explanation
Indices: 1605894--1605918 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1605884 AAAGTGCTTA
1605894 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1605919 CACACACAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1606229 original size:2 final size:2
Alignment explanation
Indices: 1606214--1606250 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
1606204 AATTAAATTA
* *
1606214 AC AC AC AA AA AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1606251 TATATATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.57, C:0.43, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:1606255 original size:2 final size:2
Alignment explanation
Indices: 1606250--1606275 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1606240 ACACACACAC
1606250 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1606276 TAATGCGTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1611140 original size:25 final size:24
Alignment explanation
Indices: 1611094--1611142 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
1611084 ATATATTAAA
* **
1611094 AAATAATATTATATATTTATATTT
1 AAATAATATTAAATATAAATATTT
1611118 AAATATATATTAAATATAAATATTT
1 AAATA-ATATTAAATATAAATATTT
1611143 TAAAAAGTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
AAATAATATTAAATATAAATATTT
Found at i:1612035 original size:23 final size:24
Alignment explanation
Indices: 1611990--1612039 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
1611980 AAAGCTTATC
1611990 AATTTCTATGGATTAAAAAAAAAT
1 AATTTCTATGGATTAAAAAAAAAT
1612014 AATTTCTATGGATTAAAAAAAAAT
1 AATTTCTATGGATTAAAAAAAAAT
1612038 AA
1 AA
1612040 AATCAGATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.56, C:0.04, G:0.08, T:0.32
Consensus pattern (24 bp):
AATTTCTATGGATTAAAAAAAAAT
Found at i:1634225 original size:27 final size:27
Alignment explanation
Indices: 1634179--1634251 Score: 66
Period size: 28 Copynumber: 2.9 Consensus size: 27
1634169 TTTTTAAAAA
1634179 TAAA-ATATAAA-AAAAT--AATA-AT
1 TAAATATATAAACAAAATAAAATATAT
* *
1634201 TAAATATATAAATAAATATAAAATATTT
1 TAAATATATAAACAAA-ATAAAATATAT
**
1634229 TATTTATATAAACAAAATAAAAT
1 TAAATATATAAACAAAATAAAAT
1634252 CAAATAACAT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
22 4 0.10
23 7 0.17
24 3 0.07
25 2 0.05
27 11 0.27
28 14 0.34
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.34
Consensus pattern (27 bp):
TAAATATATAAACAAAATAAAATATAT
Found at i:1640289 original size:22 final size:20
Alignment explanation
Indices: 1640242--1640289 Score: 51
Period size: 22 Copynumber: 2.3 Consensus size: 20
1640232 TGAATAAATT
*
1640242 ATATATTAATATTTTAAATA
1 ATATATTAATATTTTAAAGA
*
1640262 AAATATTAATTAATTTTAAAGA
1 ATATATTAA-T-ATTTTAAAGA
*
1640284 GTATAT
1 ATATAT
1640290 GTTAGCAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 8 0.36
21 1 0.05
22 13 0.59
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (20 bp):
ATATATTAATATTTTAAAGA
Found at i:1642830 original size:6 final size:6
Alignment explanation
Indices: 1642815--1642846 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
1642805 TGATTCCACC
*
1642815 CACCCG CACCCA CACCCA CACCCA CACCCA CA
1 CACCCA CACCCA CACCCA CACCCA CACCCA CA
1642847 TCGTTGACGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.31, C:0.66, G:0.03, T:0.00
Consensus pattern (6 bp):
CACCCA
Found at i:1643073 original size:16 final size:16
Alignment explanation
Indices: 1643052--1643087 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
1643042 TGTTCATTTG
*
1643052 ATTAGTTTAATTTTAA
1 ATTAGTTGAATTTTAA
1643068 ATTAGTTGAATTTTAA
1 ATTAGTTGAATTTTAA
1643084 ATTA
1 ATTA
1643088 TTAATTAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (16 bp):
ATTAGTTGAATTTTAA
Found at i:1644001 original size:2 final size:2
Alignment explanation
Indices: 1643996--1644020 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1643986 TGTGTGTGTG
1643996 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1644021 CCATGAAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1655855 original size:2 final size:2
Alignment explanation
Indices: 1655848--1655897 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
1655838 AACCAGCTCA
1655848 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1655890 CT CT CT CT
1 CT CT CT CT
1655898 TTCCGTCAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:1656788 original size:24 final size:23
Alignment explanation
Indices: 1656735--1656790 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 23
1656725 ATTTGGCATC
1656735 TAAATATT-TTTAAAAAATTAAT
1 TAAATATTATTTAAAAAATTAAT
* * *
1656757 TAATATATTATTTACAACATTACGT
1 TAA-ATATTATTTAAAAAATTA-AT
1656782 TAAATATTA
1 TAAATATTA
1656791 CATAATTCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 3 0.11
23 5 0.18
24 16 0.57
25 4 0.14
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (23 bp):
TAAATATTATTTAAAAAATTAAT
Found at i:1657420 original size:2 final size:2
Alignment explanation
Indices: 1657413--1657439 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1657403 CTCAATACTA
1657413 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1657440 AATATAACCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1657583 original size:18 final size:17
Alignment explanation
Indices: 1657549--1657599 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
1657539 TATTTAAAAT
* *
1657549 ATTTTATATTTTTATAA
1 ATTTTATATATTAATAA
1657566 ATTTTGATATATTAAT-A
1 ATTTT-ATATATTAATAA
1657583 ATTTATATAATATTAAT
1 ATTT-TAT-ATATTAAT
1657600 TTTAAAAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
17 12 0.41
18 17 0.59
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (17 bp):
ATTTTATATATTAATAA
Found at i:1657669 original size:14 final size:15
Alignment explanation
Indices: 1657636--1657672 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
1657626 TATCATATTT
1657636 TAATTAT-TTTATAA
1 TAATTATATTTATAA
*
1657650 TTATTATATTTAT-A
1 TAATTATATTTATAA
1657664 TAATTATAT
1 TAATTATAT
1657673 CTAAAATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TAATTATATTTATAA
Found at i:1662485 original size:20 final size:21
Alignment explanation
Indices: 1662460--1662500 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
1662450 CGTTCATAAA
1662460 TATTAAAATT-AAATTTTAAT
1 TATTAAAATTAAAATTTTAAT
1662480 TATTAAAATTAAAATTTTAAT
1 TATTAAAATTAAAATTTTAAT
1662501 ATTTTATCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TATTAAAATTAAAATTTTAAT
Found at i:1662503 original size:20 final size:19
Alignment explanation
Indices: 1662458--1662503 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
1662448 AGCGTTCATA
1662458 AATATTAAAATTAAATTTT
1 AATATTAAAATTAAATTTT
1662477 AATTATTAAAATTAAAATTTT
1 AA-TATTAAAATT-AAATTTT
1662498 AATATT
1 AATATT
1662504 TTATCTATAG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 2 0.08
20 14 0.56
21 9 0.36
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
AATATTAAAATTAAATTTT
Found at i:1666929 original size:14 final size:14
Alignment explanation
Indices: 1666910--1666945 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
1666900 CACCTGGAAG
1666910 CGATGGTTTCTAGC
1 CGATGGTTTCTAGC
1666924 CGATGGTTTCTAGC
1 CGATGGTTTCTAGC
*
1666938 CAATGGTT
1 CGATGGTT
1666946 CACCTCAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.17, C:0.19, G:0.28, T:0.36
Consensus pattern (14 bp):
CGATGGTTTCTAGC
Found at i:1668629 original size:56 final size:56
Alignment explanation
Indices: 1668562--1668676 Score: 230
Period size: 56 Copynumber: 2.1 Consensus size: 56
1668552 TTAATGGTTG
1668562 TTTATTAATCTGTAATACTATATTTAGGCAATTATCAACATGGAAGAAGATGGATC
1 TTTATTAATCTGTAATACTATATTTAGGCAATTATCAACATGGAAGAAGATGGATC
1668618 TTTATTAATCTGTAATACTATATTTAGGCAATTATCAACATGGAAGAAGATGGATC
1 TTTATTAATCTGTAATACTATATTTAGGCAATTATCAACATGGAAGAAGATGGATC
1668674 TTT
1 TTT
1668677 CTATCTTAAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (56 bp):
TTTATTAATCTGTAATACTATATTTAGGCAATTATCAACATGGAAGAAGATGGATC
Found at i:1672546 original size:3 final size:3
Alignment explanation
Indices: 1672538--1672580 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
1672528 TTCTAATTAA
1672538 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1672581 TTCTAGATAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1674771 original size:2 final size:2
Alignment explanation
Indices: 1674764--1674790 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1674754 TGAATGGCTT
1674764 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1674791 ATATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:1674795 original size:2 final size:2
Alignment explanation
Indices: 1674790--1674814 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1674780 TCTCTCTCTC
1674790 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1674815 TCATTCTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1676673 original size:70 final size:70
Alignment explanation
Indices: 1676597--1676732 Score: 227
Period size: 70 Copynumber: 1.9 Consensus size: 70
1676587 TTAAATAGAT
*
1676597 ACGATTATTATTATTATCTTATTTGAATTTGATTTAATCTATAAAAAACTCAAATTATTATTTTT
1 ACGATTATTATTATTATCTTATTTGAATTTGATTTAATCTATAAAAAACTCAAATTAATATTTTT
1676662 TAAAC
66 TAAAC
* * * *
1676667 ACGATTATTATTATTATTTTATTTGAATTTGATTTAATCTATGAACAACTCAAATTAATGTTTTT
1 ACGATTATTATTATTATCTTATTTGAATTTGATTTAATCTATAAAAAACTCAAATTAATATTTTT
1676732 T
66 T
1676733 GAAATCATGA
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
70 61 1.00
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.50
Consensus pattern (70 bp):
ACGATTATTATTATTATCTTATTTGAATTTGATTTAATCTATAAAAAACTCAAATTAATATTTTT
TAAAC
Found at i:1676967 original size:2 final size:2
Alignment explanation
Indices: 1676962--1676996 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
1676952 TCTTTAAATA
* *
1676962 AT AT AT AT AT AT AT AT AT AT AT AT GT AT CT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1676997 CTAGAATTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1680828 original size:24 final size:24
Alignment explanation
Indices: 1680801--1680851 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 24
1680791 AAAAATAATT
*
1680801 TTTA-ATTTTTTTTTACTTTTACTA
1 TTTATATTTTTATTTACTTTTA-TA
1680825 TTTATATTTTTATTTACTTTTATA
1 TTTATATTTTTATTTACTTTTATA
1680849 TTT
1 TTT
1680852 TGATAATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 9 0.36
25 16 0.64
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.73
Consensus pattern (24 bp):
TTTATATTTTTATTTACTTTTATA
Found at i:1682562 original size:18 final size:19
Alignment explanation
Indices: 1682534--1682571 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
1682524 TTTATTTAAA
*
1682534 TAAATTTATATTATATTAT
1 TAAATTTATATAATATTAT
1682553 TAAA-TTATATAATATTAT
1 TAAATTTATATAATATTAT
1682571 T
1 T
1682572 TTATTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TAAATTTATATAATATTAT
Found at i:1684191 original size:18 final size:19
Alignment explanation
Indices: 1684170--1684210 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
1684160 TTATCTTTTT
1684170 ATTTGTA-ATTAAATAAAA
1 ATTTGTATATTAAATAAAA
* *
1684188 ATTT-TATTTTAAATGAAA
1 ATTTGTATATTAAATAAAA
1684206 ATTTG
1 ATTTG
1684211 ATTCATGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (19 bp):
ATTTGTATATTAAATAAAA
Found at i:1684279 original size:37 final size:35
Alignment explanation
Indices: 1684238--1684313 Score: 98
Period size: 37 Copynumber: 2.1 Consensus size: 35
1684228 ATTTATGTAT
* * *
1684238 AAATTAAAAGTTAAATATCTATTTATATATAAATTAA
1 AAATTAAAAATTAAAAATCTATTTA-A-ATAAAATAA
*
1684275 AAATTAAAAATTAAAAATTTATTTAAATAAAATAA
1 AAATTAAAAATTAAAAATCTATTTAAATAAAATAA
1684310 AAAT
1 AAAT
1684314 AAATGAACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 12 0.34
36 1 0.03
37 22 0.63
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.37
Consensus pattern (35 bp):
AAATTAAAAATTAAAAATCTATTTAAATAAAATAA
Found at i:1684290 original size:6 final size:7
Alignment explanation
Indices: 1684268--1684293 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
1684258 ATTTATATAT
1684268 AAATTAA
1 AAATTAA
1684275 AAATTAA
1 AAATTAA
1684282 AAATTAA
1 AAATTAA
1684289 AAATT
1 AAATT
1684294 TATTTAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
AAATTAA
Found at i:1693934 original size:12 final size:12
Alignment explanation
Indices: 1693907--1693943 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
1693897 CACCCATTTG
*
1693907 CACTTTATAATCA
1 CACTTTAT-TTCA
1693920 CACTTTATTTCA
1 CACTTTATTTCA
1693932 CACTTTATTTCA
1 CACTTTATTTCA
1693944 TGAACAAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 15 0.65
13 8 0.35
ACGTcount: A:0.30, C:0.24, G:0.00, T:0.46
Consensus pattern (12 bp):
CACTTTATTTCA
Found at i:1706267 original size:2 final size:2
Alignment explanation
Indices: 1706260--1706289 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1706250 AAAACCAGAA
1706260 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1706290 GTCATCGTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1707274 original size:14 final size:16
Alignment explanation
Indices: 1707242--1707274 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
1707232 TTCTTGCGGA
1707242 GCTCTCGGCTGGCCTG
1 GCTCTCGGCTGGCCTG
1707258 GCTCT-GGCTGG-CTG
1 GCTCTCGGCTGGCCTG
1707272 GCT
1 GCT
1707275 GAAAACAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
15 6 0.35
16 5 0.29
ACGTcount: A:0.00, C:0.33, G:0.39, T:0.27
Consensus pattern (16 bp):
GCTCTCGGCTGGCCTG
Found at i:1709666 original size:15 final size:15
Alignment explanation
Indices: 1709646--1709677 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
1709636 ATGTTGACTA
1709646 CTCTAGCTGCTAATC
1 CTCTAGCTGCTAATC
1709661 CTCTAGCTGCTAATC
1 CTCTAGCTGCTAATC
1709676 CT
1 CT
1709678 AGTAAATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.34, G:0.12, T:0.34
Consensus pattern (15 bp):
CTCTAGCTGCTAATC
Found at i:1714513 original size:2 final size:2
Alignment explanation
Indices: 1714506--1714530 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1714496 GGGACCTTCC
1714506 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1714531 ATTCCCTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1715934 original size:19 final size:21
Alignment explanation
Indices: 1715906--1715955 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
1715896 AGAGAAGAAA
*
1715906 AGGAAAAAAA-AAAGTAAGCG
1 AGGAAAAAAACAGAGTAAGCG
*
1715926 AGGAAAAAAACAGATTAAGCG
1 AGGAAAAAAACAGAGTAAGCG
1715947 AGGAAAAAA
1 AGGAAAAAA
1715956 CATGGGAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.64, C:0.06, G:0.24, T:0.06
Consensus pattern (21 bp):
AGGAAAAAAACAGAGTAAGCG
Found at i:1717094 original size:39 final size:39
Alignment explanation
Indices: 1717041--1717142 Score: 98
Period size: 39 Copynumber: 2.6 Consensus size: 39
1717031 TCAATGCGCT
* * * * *
1717041 GAAGAGAAACCTCAGTTGCTGACGCCAAAA-ACGTTCATT
1 GAAGAAAAATCTCAGTTGCTGACACCAAAAGA-GTACATG
* * * *
1717080 GAAGATAACTCTCAGTTGGTGGCACCAAAAGAGTACATG
1 GAAGAAAAATCTCAGTTGCTGACACCAAAAGAGTACATG
*
1717119 GAAGAAAAATCTCAGTTGTTGACA
1 GAAGAAAAATCTCAGTTGCTGACA
1717143 TTAGAGGACT
Statistics
Matches: 50, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
39 49 0.98
40 1 0.02
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.22
Consensus pattern (39 bp):
GAAGAAAAATCTCAGTTGCTGACACCAAAAGAGTACATG
Found at i:1734365 original size:20 final size:20
Alignment explanation
Indices: 1734319--1734369 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
1734309 TATATTCAAA
*
1734319 ATATTATATAATCATAAAAT
1 ATATTATATAATAATAAAAT
* *
1734339 ATTTTATATATTAAT-AAAT
1 ATATTATATAATAATAAAAT
1734358 CATATTATATAA
1 -ATATTATATAA
1734370 ATTTTAATAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (20 bp):
ATATTATATAATAATAAAAT
Found at i:1736802 original size:12 final size:12
Alignment explanation
Indices: 1736785--1736809 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1736775 AAAACCTAAT
1736785 AAAAGAAAAAGG
1 AAAAGAAAAAGG
1736797 AAAAGAAAAAGG
1 AAAAGAAAAAGG
1736809 A
1 A
1736810 GAGACAGATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AAAAGAAAAAGG
Found at i:1739430 original size:2 final size:2
Alignment explanation
Indices: 1739418--1739452 Score: 52
Period size: 2 Copynumber: 17.0 Consensus size: 2
1739408 TATGCAACTA
*
1739418 AT AT GAT AT AT AT AT AT AT AG AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1739453 CAAACCAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.46
Consensus pattern (2 bp):
AT
Found at i:1740420 original size:2 final size:2
Alignment explanation
Indices: 1740413--1740452 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
1740403 ACACCTTTCA
1740413 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1740453 GTATTCTTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1742201 original size:15 final size:15
Alignment explanation
Indices: 1742170--1742204 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
1742160 CAAAAAATCG
1742170 AATAAAATAAAATAT
1 AATAAAATAAAATAT
1742185 AATAATAATAAAA-AT
1 AATAA-AATAAAATAT
1742200 AATAA
1 AATAA
1742205 CCGGTTCCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
AATAAAATAAAATAT
Found at i:1745262 original size:2 final size:2
Alignment explanation
Indices: 1745255--1745300 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
1745245 GTTCTATTTT
1745255 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1745297 TA TA
1 TA TA
1745301 GTGTGAGAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1756613 original size:2 final size:2
Alignment explanation
Indices: 1756606--1756630 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1756596 TAAGAGTATC
1756606 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1756631 ATCACAGTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1759783 original size:2 final size:2
Alignment explanation
Indices: 1759776--1759812 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
1759766 GGGCAAATAC
1759776 AT AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1759813 GAGATTGAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:1759993 original size:22 final size:22
Alignment explanation
Indices: 1759957--1759999 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
1759947 TAAATATTTT
* * *
1759957 TATTTAAATTTAATTTAAATTA
1 TATTTAAACTAAATTAAAATTA
1759979 TATTTAAACTAAATTAAAATT
1 TATTTAAACTAAATTAAAATT
1760000 TTAAATTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
TATTTAAACTAAATTAAAATTA
Found at i:1760202 original size:11 final size:11
Alignment explanation
Indices: 1760186--1760211 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
1760176 CATCCCCATT
1760186 TAATATAGTAA
1 TAATATAGTAA
1760197 TAATATAGTAA
1 TAATATAGTAA
1760208 TAAT
1 TAAT
1760212 TTTAAGTGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
TAATATAGTAA
Found at i:1762613 original size:2 final size:2
Alignment explanation
Indices: 1762606--1762633 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1762596 TCATCAGAAC
1762606 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1762634 GGAAGTCCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1766089 original size:2 final size:2
Alignment explanation
Indices: 1766082--1766108 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1766072 AAATAAATTA
1766082 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1766109 AAGTAATGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1767355 original size:2 final size:2
Alignment explanation
Indices: 1767348--1767381 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1767338 ACACCTTTCA
1767348 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1767382 GTATTCTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1780488 original size:30 final size:29
Alignment explanation
Indices: 1780451--1780540 Score: 78
Period size: 30 Copynumber: 3.0 Consensus size: 29
1780441 TTAGCCAATA
1780451 ATTTTTAAAGTGACTTAATATATTATTTATT
1 ATTTTTAAA-T-ACTTAATATATTATTTATT
*
1780482 A-TTTTAAATACATTAGAT-TA-TATATACTT
1 ATTTTTAAATAC-TTA-ATATATTATTTA-TT
*
1780511 ATTTTTAAAATTAATTAATATATTATTTAT
1 ATTTTT-AAA-TACTTAATATATTATTTAT
1780541 AATAATAATA
Statistics
Matches: 48, Mismatches: 3, Indels: 16
0.72 0.04 0.24
Matches are distributed among these distances:
28 7 0.15
29 9 0.19
30 15 0.31
31 10 0.21
32 7 0.15
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.53
Consensus pattern (29 bp):
ATTTTTAAATACTTAATATATTATTTATT
Found at i:1780504 original size:31 final size:28
Alignment explanation
Indices: 1780451--1780540 Score: 83
Period size: 31 Copynumber: 3.1 Consensus size: 28
1780441 TTAGCCAATA
* * *
1780451 ATTTTTAAAGTGACTTAATATATTATTT
1 ATTTTTAAAATTAATTAATATATTATTT
* *
1780479 ATTATTTTAAA-TACATTAGATTATATATACTT
1 ATT-TTTAAAATTA-ATTA-A-TATAT-TATTT
1780511 ATTTTTAAAATTAATTAATATATTATTT
1 ATTTTTAAAATTAATTAATATATTATTT
1780539 AT
1 AT
1780541 AATAATAATA
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
28 10 0.20
29 13 0.27
30 2 0.04
31 15 0.31
32 9 0.18
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.53
Consensus pattern (28 bp):
ATTTTTAAAATTAATTAATATATTATTT
Found at i:1780539 original size:22 final size:19
Alignment explanation
Indices: 1780510--1780553 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
1780500 TATATATACT
1780510 TATTTTTAAAATTAATTAATA
1 TATTTTTAAAA-TAA-TAATA
*
1780531 TATTATTTATAATAATAATA
1 TATT-TTTAAAATAATAATA
1780551 TAT
1 TAT
1780554 CAAAAGTAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 8 0.38
21 7 0.33
22 6 0.29
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
TATTTTTAAAATAATAATA
Found at i:1780549 original size:24 final size:26
Alignment explanation
Indices: 1780493--1780542 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
1780483 TTTTAAATAC
*
1780493 ATTAGATTATATATACTTATTTTTAAA
1 ATTA-ATTATATATACTTATTTATAAA
1780520 ATTAATTA-ATATA-TTATTTATAA
1 ATTAATTATATATACTTATTTATAA
1780543 TAATAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 9 0.41
25 5 0.23
26 4 0.18
27 4 0.18
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (26 bp):
ATTAATTATATATACTTATTTATAAA
Found at i:1783194 original size:20 final size:17
Alignment explanation
Indices: 1783181--1783223 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
1783171 TTTTATAATA
1783181 ATTATATTATTTTTTAT
1 ATTATATTATTTTTTAT
*
1783198 ATTATTTTATTTTTTTAT
1 ATTATATTA-TTTTTTAT
*
1783216 ATTTTATT
1 ATTATATT
1783224 TATATTACGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
ATTATATTATTTTTTAT
Found at i:1783224 original size:20 final size:19
Alignment explanation
Indices: 1783171--1783229 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 19
1783161 TATATATAAA
* *
1783171 TTTTATAATAATTATATTATT
1 TTTTATATTATTTATA-T-TT
1783192 TTTTATATTATTT-TATTT
1 TTTTATATTATTTATATTT
1783210 TTTTATATTTTATTTATATT
1 TTTTATA--TTATTTATATT
1783230 ACGTTAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 9 0.27
19 1 0.03
20 8 0.24
21 15 0.45
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTTATATTATTTATATTT
Found at i:1785168 original size:2 final size:2
Alignment explanation
Indices: 1785161--1785217 Score: 87
Period size: 2 Copynumber: 28.5 Consensus size: 2
1785151 AACTGGCAAT
* * *
1785161 TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA CA TA CA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1785203 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
1785218 CCATGCATGA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:1788268 original size:2 final size:2
Alignment explanation
Indices: 1788261--1788288 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1788251 TAATAATTCA
1788261 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1788289 TTGATCTCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1798036 original size:8 final size:9
Alignment explanation
Indices: 1798011--1798039 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
1798001 TAAAAAATTG
1798011 TAATATTTT
1 TAATATTTT
1798020 TAATATTTT
1 TAATATTTT
1798029 TAAT-TTTT
1 TAATATTTT
1798037 TAA
1 TAA
1798040 AAATTATTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 7 0.35
9 13 0.65
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (9 bp):
TAATATTTT
Found at i:1799788 original size:15 final size:15
Alignment explanation
Indices: 1799768--1799799 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1799758 TATCCATTCC
*
1799768 TGCCATTCCATGCCG
1 TGCCATGCCATGCCG
1799783 TGCCATGCCATGCCG
1 TGCCATGCCATGCCG
1799798 TG
1 TG
1799800 TTTTGTGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.12, C:0.38, G:0.25, T:0.25
Consensus pattern (15 bp):
TGCCATGCCATGCCG
Found at i:1824666 original size:2 final size:2
Alignment explanation
Indices: 1824661--1824688 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1824651 ATGAGGAGAA
1824661 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1824689 TTTGGTGGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1825941 original size:34 final size:33
Alignment explanation
Indices: 1825858--1826076 Score: 262
Period size: 34 Copynumber: 6.5 Consensus size: 33
1825848 TGGTAAAAAC
*
1825858 CACCATTTAATCAACAATGGCAA-CCTACCAAAT
1 CACCATTTAATCAACAATGGTAAGCC-ACCAAAT
* *
1825891 CTCCATTTAGTCAACAATGGTAAGCCACCAAAT
1 CACCATTTAATCAACAATGGTAAGCCACCAAAT
* *
1825924 CACCAATTTAATTAACAATGGTAAGCTACCAAATTT
1 CACC-ATTTAATCAACAATGGTAAGCCACCAAA--T
*
1825960 C-CCATTTAATCAACAATGGTAAGCTACCAAAT
1 CACCATTTAATCAACAATGGTAAGCCACCAAAT
* * * *
1825992 CTCCATTTAGTCAACAATGGCAAACCACCAAAT
1 CACCATTTAATCAACAATGGTAAGCCACCAAAT
* * *
1826025 CACCCATTTAATCAACAATGGTAAACTACTAAAT
1 CA-CCATTTAATCAACAATGGTAAGCCACCAAAT
1826059 CACCATTTAATCAACAAT
1 CACCATTTAATCAACAAT
1826077 TCTCCCACTT
Statistics
Matches: 163, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
32 2 0.01
33 74 0.45
34 83 0.51
35 2 0.01
36 2 0.01
ACGTcount: A:0.41, C:0.26, G:0.08, T:0.25
Consensus pattern (33 bp):
CACCATTTAATCAACAATGGTAAGCCACCAAAT
Found at i:1826000 original size:67 final size:67
Alignment explanation
Indices: 1825858--1826076 Score: 305
Period size: 67 Copynumber: 3.3 Consensus size: 67
1825848 TGGTAAAAAC
* * *
1825858 CACCATTTAATCAACAATGGCAACCTACCAAATCT-CCATTTAGTCAACAATGGTAAGCCACCAA
1 CACCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCAA
1825922 AT
66 AT
* * * *
1825924 CACCAATTTAATTAACAATGGTAAGCTACCAAATTTCCCATTTAATCAACAATGGTAAGCTACCA
1 CACC-ATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCA
1825989 AAT
65 AAT
* * * * * *
1825992 CTCCATTTAGTCAACAATGGCAAACCACCAAATCACCCATTTAATCAACAATGGTAAACTACTAA
1 CACCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCAA
1826057 AT
66 AT
1826059 CACCATTTAATCAACAAT
1 CACCATTTAATCAACAAT
1826077 TCTCCCACTT
Statistics
Matches: 133, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
66 4 0.03
67 97 0.73
68 32 0.24
ACGTcount: A:0.41, C:0.26, G:0.08, T:0.25
Consensus pattern (67 bp):
CACCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCAA
AT
Found at i:1826035 original size:101 final size:100
Alignment explanation
Indices: 1825858--1826076 Score: 341
Period size: 101 Copynumber: 2.2 Consensus size: 100
1825848 TGGTAAAAAC
* *
1825858 CACCATTTAATCAACAATGGCAACCTACCAAATCTCCATTTAGTCAACAATGGTAAGCCACCAAA
1 CACCATTTAATCAACAATGGCAACCTACCAAATCTCCATTTAGTCAACAATGGCAAACCACCAAA
* *
1825923 TCACCAATTTAATTAACAATGGTAAGCTACCAAATTT
66 TCACCAATTTAATCAACAATGGTAAACTACCAAA--T
* *
1825960 C-CCATTTAATCAACAATGGTAAGCTACCAAATCTCCATTTAGTCAACAATGGCAAACCACCAAA
1 CACCATTTAATCAACAATGGCAACCTACCAAATCTCCATTTAGTCAACAATGGCAAACCACCAAA
* *
1826024 TCACCCATTTAATCAACAATGGTAAACTACTAAAT
66 TCACCAATTTAATCAACAATGGTAAACTACCAAAT
1826059 CACCATTTAATCAACAAT
1 CACCATTTAATCAACAAT
1826077 TCTCCCACTT
Statistics
Matches: 108, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
99 2 0.02
100 16 0.15
101 89 0.82
102 1 0.01
ACGTcount: A:0.41, C:0.26, G:0.08, T:0.25
Consensus pattern (100 bp):
CACCATTTAATCAACAATGGCAACCTACCAAATCTCCATTTAGTCAACAATGGCAAACCACCAAA
TCACCAATTTAATCAACAATGGTAAACTACCAAAT
Done.