Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 32 of 250
Found at i:9560671 original size:6 final size:6
Alignment explanation
Indices: 9560656--9560692 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
9560646 GCCCAACTCT
* *
9560656 CCGCCG CCGCCA CCGCCA CCGCAA CCGCCA CCGCCA C
1 CCGCCA CCGCCA CCGCCA CCGCCA CCGCCA CCGCCA C
9560693 AGATCCAAGC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.16, C:0.65, G:0.19, T:0.00
Consensus pattern (6 bp):
CCGCCA
Found at i:9562631 original size:25 final size:26
Alignment explanation
Indices: 9562589--9562642 Score: 101
Period size: 25 Copynumber: 2.1 Consensus size: 26
9562579 TAATAAACAG
9562589 ATTAGACATTTTTTTTACTATATTAT
1 ATTAGACATTTTTTTTACTATATTAT
9562615 ATTAGAC-TTTTTTTTACTATATTAT
1 ATTAGACATTTTTTTTACTATATTAT
9562640 ATT
1 ATT
9562643 CAAGGATGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 21 0.75
26 7 0.25
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.59
Consensus pattern (26 bp):
ATTAGACATTTTTTTTACTATATTAT
Found at i:9567392 original size:25 final size:25
Alignment explanation
Indices: 9567364--9567421 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
9567354 ATTTTACTTT
** *
9567364 TATTTATTGTATATATAAATAAATA
1 TATTTATTCAATATAAAAATAAATA
*
9567389 TATTTATTCAATATAAAAATAAATT
1 TATTTATTCAATATAAAAATAAATA
*
9567414 TATGTATT
1 TATTTATT
9567422 TATTTTTTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (25 bp):
TATTTATTCAATATAAAAATAAATA
Found at i:9576226 original size:23 final size:23
Alignment explanation
Indices: 9576196--9576249 Score: 108
Period size: 23 Copynumber: 2.3 Consensus size: 23
9576186 TATTTGTTAA
9576196 AAGGTTTATTTAGTAATTAAACT
1 AAGGTTTATTTAGTAATTAAACT
9576219 AAGGTTTATTTAGTAATTAAACT
1 AAGGTTTATTTAGTAATTAAACT
9576242 AAGGTTTA
1 AAGGTTTA
9576250 AATGGAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.39, C:0.04, G:0.15, T:0.43
Consensus pattern (23 bp):
AAGGTTTATTTAGTAATTAAACT
Found at i:9576259 original size:23 final size:23
Alignment explanation
Indices: 9576196--9576260 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 23
9576186 TATTTGTTAA
** *
9576196 AAGGTTTATTTAGTAATTAAACT
1 AAGGTTTAAATAGAAATTAAACT
** *
9576219 AAGGTTTATTTAGTAATTAAACT
1 AAGGTTTAAATAGAAATTAAACT
*
9576242 AAGGTTTAAATGGAAATTA
1 AAGGTTTAAATAGAAATTA
9576261 GGCCATAGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.42, C:0.03, G:0.15, T:0.40
Consensus pattern (23 bp):
AAGGTTTAAATAGAAATTAAACT
Found at i:9581229 original size:12 final size:12
Alignment explanation
Indices: 9581212--9581237 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9581202 TTTATGGACT
9581212 TAGTAAATAAAA
1 TAGTAAATAAAA
9581224 TAGTAAATAAAA
1 TAGTAAATAAAA
9581236 TA
1 TA
9581238 ACTTAAACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (12 bp):
TAGTAAATAAAA
Found at i:9584774 original size:23 final size:23
Alignment explanation
Indices: 9584748--9584795 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
9584738 AGGTAGAATG
9584748 TTAACATGATATATTCATTTAGA
1 TTAACATGATATATTCATTTAGA
9584771 TTAACATGATATATTCATTTAGA
1 TTAACATGATATATTCATTTAGA
9584794 TT
1 TT
9584796 TGTTAATTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (23 bp):
TTAACATGATATATTCATTTAGA
Found at i:9591334 original size:21 final size:22
Alignment explanation
Indices: 9591300--9591341 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
9591290 TATTTTATCT
*
9591300 AAATTATTAGTAATTTAATGAC
1 AAATTATTAATAATTTAATGAC
*
9591322 AAATTA-TAATAATTTCATGA
1 AAATTATTAATAATTTAATGA
9591342 TTTATCATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.40
Consensus pattern (22 bp):
AAATTATTAATAATTTAATGAC
Found at i:9599853 original size:41 final size:41
Alignment explanation
Indices: 9599796--9599884 Score: 142
Period size: 41 Copynumber: 2.2 Consensus size: 41
9599786 TGAACTTAAG
** * *
9599796 GGTTTAGGGTCTTAGGTCTTGGGCATAATGTCTAGGTTTTA
1 GGTTTAGGGTCTTAGGTCTTGGGCATAAACTCCAAGTTTTA
9599837 GGTTTAGGGTCTTAGGTCTTGGGCATAAACTCCAAGTTTTA
1 GGTTTAGGGTCTTAGGTCTTGGGCATAAACTCCAAGTTTTA
9599878 GGTTTAG
1 GGTTTAG
9599885 TGTTTTAGCA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.19, C:0.11, G:0.30, T:0.39
Consensus pattern (41 bp):
GGTTTAGGGTCTTAGGTCTTGGGCATAAACTCCAAGTTTTA
Found at i:9602145 original size:22 final size:22
Alignment explanation
Indices: 9602096--9602145 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
9602086 GCGAAATTGT
**
9602096 AGCAAAACAATAGTGAAATGAC
1 AGCAAAACAATAGTGAAACAAC
* * *
9602118 AACAAAATAGTAGTGAAACAAC
1 AGCAAAACAATAGTGAAACAAC
9602140 AGCAAA
1 AGCAAA
9602146 GCAACTGATT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.58, C:0.14, G:0.16, T:0.12
Consensus pattern (22 bp):
AGCAAAACAATAGTGAAACAAC
Found at i:9602890 original size:24 final size:26
Alignment explanation
Indices: 9602844--9602982 Score: 87
Period size: 24 Copynumber: 5.4 Consensus size: 26
9602834 AAAATATTAA
*
9602844 ATAAAATAATAGAATGAATATAACAT
1 ATAATATAATAGAATGAATATAACAT
*
9602870 ATAATATAATAGCATG-A-ATAACAT
1 ATAATATAATAGAATGAATATAACAT
* * * *
9602894 ATAATA-ACATATAATATAATACAAAATT
1 ATAATATA-ATAGAAT-GAATATAACA-T
* *
9602922 ATAATA-AATTA-TATAAAATACTAA-AT
1 ATAATATAA-TAGAAT-GAATA-TAACAT
*
9602948 A-AA-ATAATAGATTGAATATAACAT
1 ATAATATAATAGAATGAATATAACAT
9602972 ATAATATAATA
1 ATAATATAATA
9602983 TAAAAAATCT
Statistics
Matches: 88, Mismatches: 13, Indels: 24
0.70 0.10 0.19
Matches are distributed among these distances:
23 4 0.05
24 28 0.32
25 8 0.09
26 23 0.26
27 13 0.15
28 12 0.14
ACGTcount: A:0.60, C:0.05, G:0.04, T:0.31
Consensus pattern (26 bp):
ATAATATAATAGAATGAATATAACAT
Found at i:9602934 original size:28 final size:27
Alignment explanation
Indices: 9602893--9602947 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
9602883 ATGAATAACA
*
9602893 TATAATAACATATAATATAATACAAAAT
1 TATAATAACATAT-ATAAAATACAAAAT
*
9602921 TATAATAA-ATTATATAAAATACTAAAT
1 TATAATAACA-TATATAAAATACAAAAT
9602948 AAAATAATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 13 0.54
28 11 0.46
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (27 bp):
TATAATAACATATATAAAATACAAAAT
Found at i:9602995 original size:21 final size:22
Alignment explanation
Indices: 9602971--9603012 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
9602961 GAATATAACA
9602971 TATAATATA-ATATAAA-AAATC
1 TATAATA-ACATATAAATAAATC
9602992 TATAATAACATATAAATAAAT
1 TATAATAACATATAAATAAAT
9603013 AAACAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 1 0.05
21 14 0.74
22 4 0.21
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (22 bp):
TATAATAACATATAAATAAATC
Found at i:9604597 original size:20 final size:20
Alignment explanation
Indices: 9604561--9604611 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
9604551 GATATATGTT
9604561 GATTAATTAAGTAAAACA-A
1 GATTAATTAAGTAAAACATA
9604580 GATTAATTAAGATAAAACATA
1 GATTAATTAAG-TAAAACATA
9604601 -ATTAATTAAGT
1 GATTAATTAAGT
9604612 TAATTAACCT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 12 0.40
20 17 0.57
21 1 0.03
ACGTcount: A:0.55, C:0.04, G:0.10, T:0.31
Consensus pattern (20 bp):
GATTAATTAAGTAAAACATA
Found at i:9608050 original size:43 final size:42
Alignment explanation
Indices: 9607987--9608104 Score: 157
Period size: 43 Copynumber: 2.8 Consensus size: 42
9607977 TATCGTACCA
*
9607987 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCATATCG
* * *
9608029 ATGCCAATAGCCCAGCTATGGTCTTACACG-AATTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACATGTAA-TCTCATATCG
**
9608072 ATTTCATATCCCAGATATGGTCTTACATGTAAT
1 ATGCCATATCCCAGATATGGTCTTACATGTAAT
9608105 ATCAGTAACC
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
42 29 0.45
43 35 0.55
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGTAATCTCATATCG
Found at i:9610270 original size:28 final size:29
Alignment explanation
Indices: 9610239--9610293 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
9610229 CTGAAATTCT
*
9610239 GATAT-CATGGCCCTAAGCCAAATCAGCC
1 GATATGCATGGCCCAAAGCCAAATCAGCC
*
9610267 GATATGCATGGCCCAAAGGCAAATCAG
1 GATATGCATGGCCCAAAGCCAAATCAG
9610294 TTTATCTCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.21
29 19 0.79
ACGTcount: A:0.35, C:0.27, G:0.22, T:0.16
Consensus pattern (29 bp):
GATATGCATGGCCCAAAGCCAAATCAGCC
Found at i:9610649 original size:16 final size:16
Alignment explanation
Indices: 9610630--9610667 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
9610620 ATTGATTTTG
9610630 TTCAATCATCTATTCA
1 TTCAATCATCTATTCA
9610646 TTCAATCATCTATTCA
1 TTCAATCATCTATTCA
9610662 TTCAAT
1 TTCAAT
9610668 TTAGTCCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.45
Consensus pattern (16 bp):
TTCAATCATCTATTCA
Found at i:9614108 original size:19 final size:19
Alignment explanation
Indices: 9614054--9614116 Score: 60
Period size: 20 Copynumber: 3.4 Consensus size: 19
9614044 CTAAAAAAAT
*
9614054 TAATTTTTATACTTTTTGAA
1 TAATTTTTATA-TTTTTCAA
* *
9614074 TAATTTTTAAAATTTTCAA
1 TAATTTTTATATTTTTCAA
9614093 TAAATTTTT-TATTTTT-AA
1 T-AATTTTTATATTTTTCAA
9614111 -AATTTT
1 TAATTTT
9614117 AAAAAATTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
16 6 0.16
18 2 0.05
19 12 0.32
20 17 0.46
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (19 bp):
TAATTTTTATATTTTTCAA
Found at i:9629474 original size:13 final size:13
Alignment explanation
Indices: 9629458--9629526 Score: 84
Period size: 13 Copynumber: 5.2 Consensus size: 13
9629448 TTATAGAAAC
9629458 TTCATATAACCAT
1 TTCATATAACCAT
* *
9629471 TTCATATATCTAT
1 TTCATATAACCAT
*
9629484 TTCCATATAAACAT
1 TT-CATATAACCAT
*
9629498 TTCATATATCCAT
1 TTCATATAACCAT
*
9629511 TTCATATTACCAT
1 TTCATATAACCAT
9629524 TTC
1 TTC
9629527 TGCTTGCTCA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
13 36 0.78
14 10 0.22
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCATATAACCAT
Found at i:9629498 original size:27 final size:26
Alignment explanation
Indices: 9629458--9629526 Score: 102
Period size: 27 Copynumber: 2.6 Consensus size: 26
9629448 TTATAGAAAC
*
9629458 TTCATATAACCATTTCATATATCTAT
1 TTCATATAACCATTTCATATATCCAT
*
9629484 TTCCATATAAACATTTCATATATCCAT
1 TT-CATATAACCATTTCATATATCCAT
*
9629511 TTCATATTACCATTTC
1 TTCATATAACCATTTC
9629527 TGCTTGCTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
26 14 0.37
27 24 0.63
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.45
Consensus pattern (26 bp):
TTCATATAACCATTTCATATATCCAT
Found at i:9631443 original size:26 final size:26
Alignment explanation
Indices: 9631407--9631462 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
9631397 AAACTGTTAT
9631407 TAACACAATATTGACGATTACTCCGC
1 TAACACAATATTGACGATTACTCCGC
9631433 TAACACAATATTGACGATTACTCCGC
1 TAACACAATATTGACGATTACTCCGC
9631459 TAAC
1 TAAC
9631463 TTTCCTTTCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.11, T:0.27
Consensus pattern (26 bp):
TAACACAATATTGACGATTACTCCGC
Found at i:9633860 original size:44 final size:44
Alignment explanation
Indices: 9633793--9633876 Score: 132
Period size: 44 Copynumber: 1.9 Consensus size: 44
9633783 CAAATATCCC
* *
9633793 TAATCTATTCATAATCCCATCGACTCATCTTTCTTTTTCATAAA
1 TAATCTATACACAATCCCATCGACTCATCTTTCTTTTTCATAAA
**
9633837 TAATCTATACACAATCCTGTCGACTCATCTTTCTTTTTCA
1 TAATCTATACACAATCCCATCGACTCATCTTTCTTTTTCA
9633877 CAAACAGAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.27, C:0.26, G:0.04, T:0.43
Consensus pattern (44 bp):
TAATCTATACACAATCCCATCGACTCATCTTTCTTTTTCATAAA
Found at i:9637207 original size:13 final size:12
Alignment explanation
Indices: 9637189--9637232 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 12
9637179 ATTCATTTAG
9637189 CATTTCATATATT
1 CATTTCA-ATATT
9637202 CATTTCAAGTATT
1 CATTTCAA-TATT
*
9637215 CATTCCAAATATT
1 CATTTC-AATATT
9637228 CATTT
1 CATTT
9637233 TCACATAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 1 0.04
13 24 0.89
14 2 0.07
ACGTcount: A:0.32, C:0.18, G:0.02, T:0.48
Consensus pattern (12 bp):
CATTTCAATATT
Found at i:9646066 original size:20 final size:20
Alignment explanation
Indices: 9646037--9646081 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
9646027 AGCACATGTA
* *
9646037 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
9646057 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
9646077 TTCAT
1 TTCAT
9646082 TTTATTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:9649591 original size:50 final size:50
Alignment explanation
Indices: 9649506--9649720 Score: 236
Period size: 50 Copynumber: 4.3 Consensus size: 50
9649496 GCTAAATGAC
* * * * *
9649506 CTTGTATATTCGGCCACATAGGTATGTACATATGTGATGTTGTATTGGAT
1 CTTGTATATTCGGCCATATAGGTAAGCACATATGTGATATTATATTGGAT
* * * * *
9649556 CTTGAATATTCGGCCATGA-AGGTATGCACAAATGTGATATTATGTTTGAAT
1 CTTGTATATTCGGCCAT-ATAGGTAAGCACATATGTGATATTAT-ATTGGAT
* * * *
9649607 -TTGTATATTCGGCCATATAAGTAAGTACATATGTGATATTAAATTTGAT
1 CTTGTATATTCGGCCATATAGGTAAGCACATATGTGATATTATATTGGAT
* * *
9649656 CTTGCATATTCGGCCATTTAGGTAAGCACATATGTGATATTATATTTGAT
1 CTTGTATATTCGGCCATATAGGTAAGCACATATGTGATATTATATTGGAT
*
9649706 CTTGTATATTTGGCC
1 CTTGTATATTCGGCC
9649721 CAATGAGTGA
Statistics
Matches: 137, Mismatches: 24, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
49 5 0.04
50 126 0.92
51 6 0.04
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (50 bp):
CTTGTATATTCGGCCATATAGGTAAGCACATATGTGATATTATATTGGAT
Found at i:9649685 original size:100 final size:100
Alignment explanation
Indices: 9649506--9649720 Score: 288
Period size: 100 Copynumber: 2.1 Consensus size: 100
9649496 GCTAAATGAC
* * * **
9649506 CTTGTATATTCGGCCACATAGGTATGTACATATGTGATGTTGTATTGGATCTTGAATATTCGGCC
1 CTTGTATATTCGGCCACATAAGTAAGTACATATGTGATATTAAATTGGATCTTGAATATTCGGCC
* *
9649571 ATGAAGGTATGCACAAATGTGATATTATGTTTGAAT
66 ATGAAGGTAAGCACAAATGTGATATTATATTTG-AT
* * *
9649607 -TTGTATATTCGGCCATATAAGTAAGTACATATGTGATATTAAATTTGATCTTGCATATTCGGCC
1 CTTGTATATTCGGCCACATAAGTAAGTACATATGTGATATTAAATTGGATCTTGAATATTCGGCC
** *
9649671 ATTTAGGTAAGCACATATGTGATATTATATTTGAT
66 ATGAAGGTAAGCACAAATGTGATATTATATTTGAT
*
9649706 CTTGTATATTTGGCC
1 CTTGTATATTCGGCC
9649721 CAATGAGTGA
Statistics
Matches: 99, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
99 2 0.02
100 97 0.98
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (100 bp):
CTTGTATATTCGGCCACATAAGTAAGTACATATGTGATATTAAATTGGATCTTGAATATTCGGCC
ATGAAGGTAAGCACAAATGTGATATTATATTTGAT
Found at i:9663890 original size:18 final size:18
Alignment explanation
Indices: 9663826--9663893 Score: 77
Period size: 18 Copynumber: 3.8 Consensus size: 18
9663816 ATAAGTGACA
*
9663826 TTTTGAAAATTAATAACG
1 TTTTGAAAATGAATAACG
*
9663844 TTTTGAAAGA-GTATAAC-
1 TTTTGAAA-ATGAATAACG
*
9663861 TTTGTGATAATGAATAACG
1 TTT-TGAAAATGAATAACG
9663880 TTTTGAAAATGAAT
1 TTTTGAAAATGAAT
9663894 GACACGTTCT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
17 4 0.10
18 33 0.80
19 4 0.10
ACGTcount: A:0.41, C:0.04, G:0.16, T:0.38
Consensus pattern (18 bp):
TTTTGAAAATGAATAACG
Found at i:9664359 original size:5 final size:5
Alignment explanation
Indices: 9664342--9664373 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
9664332 AAGTAAATAA
9664342 TATAT TA-AT TATAT TATAT TATAT TATAT TAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TAT
9664374 TATAATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:9664376 original size:13 final size:14
Alignment explanation
Indices: 9664341--9664386 Score: 60
Period size: 13 Copynumber: 3.4 Consensus size: 14
9664331 TAAGTAAATA
9664341 ATATATTA-ATTAT
1 ATATATTATATTAT
9664354 ATTATATTATATTAT
1 A-TATATTATATTAT
*
9664369 AT-TATTATAATAT
1 ATATATTATATTAT
9664382 ATATA
1 ATATA
9664387 ACATTAAAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 13 0.45
14 10 0.34
15 6 0.21
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
ATATATTATATTAT
Found at i:9668313 original size:37 final size:37
Alignment explanation
Indices: 9668260--9668362 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
9668250 CGAATAGTCC
*
9668260 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
9668297 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
9668334 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
9668363 ATATATTTCC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:9668638 original size:48 final size:48
Alignment explanation
Indices: 9668503--9668648 Score: 247
Period size: 48 Copynumber: 3.0 Consensus size: 48
9668493 ATATACACAC
* * *
9668503 ATCTCCTACATATTTCACATTAGCCATTCGGCTTTACCAAATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
9668551 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
9668599 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
9668647 AT
1 AT
9668649 ATTTGTCTTG
Statistics
Matches: 93, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 93 1.00
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:9672717 original size:970 final size:970
Alignment explanation
Indices: 9670837--9672782 Score: 3811
Period size: 970 Copynumber: 2.0 Consensus size: 970
9670827 AATCCATCAT
9670837 CATTTTTCTTTACAACAAAGTTAAAGATAGAGGGGAGCTTAGAAAACTTACCAACTTAGGATACA
1 CATTTTTCTTTACAACAAAGTTAAAGATAGAGGGGAGCTTAGAAAACTTACCAACTTAGGATACA
9670902 ACTCTTAAACAAGCTAAATCCTTAGTTTCCTTCAACATGCAAACTGTCTCCATTTTTCTTTTTGT
66 ACTCTTAAACAAGCTAAATCCTTAGTTTCCTTCAACATGCAAACTGTCTCCATTTTTCTTTTTGT
9670967 TGCAGCCCTCTTCTTCTTCTTCGATGGATTACCAAGTTACTTGAAATTTCAGCTACCTAACTAGC
131 TGCAGCCCTCTTCTTCTTCTTCGATGGATTACCAAGTTACTTGAAATTTCAGCTACCTAACTAGC
9671032 TAAAATAATAGTTTTTCCTCCTTCTAGCCATCTTCTAAGCCAAAAATTAAAGCAACCAAACTTTC
196 TAAAATAATAGTTTTTCCTCCTTCTAGCCATCTTCTAAGCCAAAAATTAAAGCAACCAAACTTTC
*
9671097 TTCTTCCTCCCTCAAGTCACGGCAATGGAGGAGCAAGGGTGAGATAACTTTGGTTTCTCCTCCCA
261 TTCTTCCTCCCTCAAGTCACGGCAATGGAGGAGCAAGGGTGAGACAACTTTGGTTTCTCCTCCCA
9671162 TTAACTAGTATTTTATTATTTCTCACACAACATTTTAACACAAAATGTTTATAATATGTTTTAAC
326 TTAACTAGTATTTTATTATTTCTCACACAACATTTTAACACAAAATGTTTATAATATGTTTTAAC
9671227 CCCTAGCATGGCCAGCCACTACCTAACATTTTGGGTAATTTGACATGCAAGTACAAGCATTTCCT
391 CCCTAGCATGGCCAGCCACTACCTAACATTTTGGGTAATTTGACATGCAAGTACAAGCATTTCCT
*
9671292 AACATGCATTAATAGATCCTTATAGCTTAACCTATCACATTTCAAAAGTGTCACACATAAGTCCT
456 AACATGCATTAATAGATCCTTATAGATTAACCTATCACATTTCAAAAGTGTCACACATAAGTCCT
9671357 ATTTAATAAAATTCACTTTCAATTAACAAAATTCAAACATGAAATTTTCACACATGCATATATAC
521 ATTTAATAAAATTCACTTTCAATTAACAAAATTCAAACATGAAATTTTCACACATGCATATATAC
*
9671422 ATATAATAAGCATCAACTATGACGGTTAATTATTTTTATGACTCGGTTTTGTGGTCCCGAAACCA
586 ATATAATAAGCATCAACTATGACGATTAATTATTTTTATGACTCGGTTTTGTGGTCCCGAAACCA
*
9671487 CTTTCCGACTAGGGTCACATTAGGGGTGTCACAATCTCATTTTGAAGAGTGCCGAATGAAAACTG
651 CTTTCCGACTAGGGTCACATTAGGGGTGTCACAATCTCATTTAGAAGAGTGCCGAATGAAAACTG
9671552 GGGCCCATTACAGATGTAGTTCACTTGATCATTTTCTCAAAGATTATCCAGAGAGGGTAGAAAAA
716 GGGCCCATTACAGATGTAGTTCACTTGATCATTTTCTCAAAGATTATCCAGAGAGGGTAGAAAAA
*
9671617 CACATTGATCATATTGCAAAGCCGAGTAATCCAGTTTCGAGGGGTAGACTGGCTCGACCTTCTGA
781 CACATTGATCAGATTGCAAAGCCGAGTAATCCAGTTTCGAGGGGTAGACTGGCTCGACCTTCTGA
9671682 AAATGTCAGTGGTAGCTGAGGTGCAACAAAAAACTCTACAGTTAAATCTGAAGCGATAGCACCGA
846 AAATGTCAGTGGTAGCTGAGGTGCAACAAAAAACTCTACAGTTAAATCTGAAGCGATAGCACCGA
9671747 CAAGGACATATGTCATTCGTGTTAGAGAGGATGCTTCCGTACCGGACGTTATTAGTGGTA
911 CAAGGACATATGTCATTCGTGTTAGAGAGGATGCTTCCGTACCGGACGTTATTAGTGGTA
9671807 CATTTTTCTTTACAACAAAGTTAAAGATAGAGGGGAGCTTAGAAAACTTACCAACTTAGGATACA
1 CATTTTTCTTTACAACAAAGTTAAAGATAGAGGGGAGCTTAGAAAACTTACCAACTTAGGATACA
*
9671872 GCTCTTAAACAAGCTAAATCCTTAGTTTCCTTCAACATGCAAACTGTCTCCATTTTTCTTTTTGT
66 ACTCTTAAACAAGCTAAATCCTTAGTTTCCTTCAACATGCAAACTGTCTCCATTTTTCTTTTTGT
9671937 TGCAGCCCTCTTCTTCTTCTTCGATGGATTACCAAGTTACTTGAAATTTCAGCTACCTAACTAGC
131 TGCAGCCCTCTTCTTCTTCTTCGATGGATTACCAAGTTACTTGAAATTTCAGCTACCTAACTAGC
*
9672002 TAAAATCATAGTTTTTCCTCCTTCTAGCCATCTTCTAAGCCAAAAATTAAAGCAACCAAACTTTC
196 TAAAATAATAGTTTTTCCTCCTTCTAGCCATCTTCTAAGCCAAAAATTAAAGCAACCAAACTTTC
9672067 TTCTTCCTCCCTCAAGTCACGGCAATGGAGGAGCAAGGGTGAGACAACTTTGGTTTCTCCTCCCA
261 TTCTTCCTCCCTCAAGTCACGGCAATGGAGGAGCAAGGGTGAGACAACTTTGGTTTCTCCTCCCA
9672132 TTAACTAGTATTTTATTATTTCTCACACAACATTTTAACACAAAATGTTTATAATATGTTTTAAC
326 TTAACTAGTATTTTATTATTTCTCACACAACATTTTAACACAAAATGTTTATAATATGTTTTAAC
*
9672197 CCCTAGCATGGCCGGCCACTACCTAACATTTTGGGTAATTTGACATGCAAGTACAAGCATTTCCT
391 CCCTAGCATGGCCAGCCACTACCTAACATTTTGGGTAATTTGACATGCAAGTACAAGCATTTCCT
9672262 AACATGCATTAATAGATCCTTATAGATTAACCTATCACATTTCAAAAGTGTCACACATAAGTCCT
456 AACATGCATTAATAGATCCTTATAGATTAACCTATCACATTTCAAAAGTGTCACACATAAGTCCT
9672327 ATTTAATAAAATTCACTTTCAATTAACAAAATTCAAACATGAAATTTTCACACATGCATATATAC
521 ATTTAATAAAATTCACTTTCAATTAACAAAATTCAAACATGAAATTTTCACACATGCATATATAC
*
9672392 ATATAATAAGCATCAACTATGATGATTAATTATTTTTATGACTCGGTTTTGTGGTCCCGAAACCA
586 ATATAATAAGCATCAACTATGACGATTAATTATTTTTATGACTCGGTTTTGTGGTCCCGAAACCA
9672457 CTTTCCGACTAGGGTCACATTAGGGGTGTCACAATCTCATTTAGAAGAGTGCCGAATGAAAACTG
651 CTTTCCGACTAGGGTCACATTAGGGGTGTCACAATCTCATTTAGAAGAGTGCCGAATGAAAACTG
9672522 GGGCCCATTACAGATGTAGTTCACTTGATCATTTTCTCAAAGATTATCCAGAGAGGGTAGAAAAA
716 GGGCCCATTACAGATGTAGTTCACTTGATCATTTTCTCAAAGATTATCCAGAGAGGGTAGAAAAA
9672587 CACATTGATCAGATTGCAAAGCCGAGTAATCCAGTTTCGAGGGGTAGACTGGCTCGACCTTCTGA
781 CACATTGATCAGATTGCAAAGCCGAGTAATCCAGTTTCGAGGGGTAGACTGGCTCGACCTTCTGA
9672652 AAATGTCAGTGGTAGCTGAGGTGCAACAAAAAACTCTACAGTTAAATCTGAAGCGATAGCACCGA
846 AAATGTCAGTGGTAGCTGAGGTGCAACAAAAAACTCTACAGTTAAATCTGAAGCGATAGCACCGA
9672717 CAAGGACATATGTCATTCGTGTTAGAGAGGATGCTTCCGTACCGGACGTTATTAGTGGTA
911 CAAGGACATATGTCATTCGTGTTAGAGAGGATGCTTCCGTACCGGACGTTATTAGTGGTA
9672777 CATTTT
1 CATTTT
9672783 CCTTACTTGA
Statistics
Matches: 967, Mismatches: 9, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
970 967 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (970 bp):
CATTTTTCTTTACAACAAAGTTAAAGATAGAGGGGAGCTTAGAAAACTTACCAACTTAGGATACA
ACTCTTAAACAAGCTAAATCCTTAGTTTCCTTCAACATGCAAACTGTCTCCATTTTTCTTTTTGT
TGCAGCCCTCTTCTTCTTCTTCGATGGATTACCAAGTTACTTGAAATTTCAGCTACCTAACTAGC
TAAAATAATAGTTTTTCCTCCTTCTAGCCATCTTCTAAGCCAAAAATTAAAGCAACCAAACTTTC
TTCTTCCTCCCTCAAGTCACGGCAATGGAGGAGCAAGGGTGAGACAACTTTGGTTTCTCCTCCCA
TTAACTAGTATTTTATTATTTCTCACACAACATTTTAACACAAAATGTTTATAATATGTTTTAAC
CCCTAGCATGGCCAGCCACTACCTAACATTTTGGGTAATTTGACATGCAAGTACAAGCATTTCCT
AACATGCATTAATAGATCCTTATAGATTAACCTATCACATTTCAAAAGTGTCACACATAAGTCCT
ATTTAATAAAATTCACTTTCAATTAACAAAATTCAAACATGAAATTTTCACACATGCATATATAC
ATATAATAAGCATCAACTATGACGATTAATTATTTTTATGACTCGGTTTTGTGGTCCCGAAACCA
CTTTCCGACTAGGGTCACATTAGGGGTGTCACAATCTCATTTAGAAGAGTGCCGAATGAAAACTG
GGGCCCATTACAGATGTAGTTCACTTGATCATTTTCTCAAAGATTATCCAGAGAGGGTAGAAAAA
CACATTGATCAGATTGCAAAGCCGAGTAATCCAGTTTCGAGGGGTAGACTGGCTCGACCTTCTGA
AAATGTCAGTGGTAGCTGAGGTGCAACAAAAAACTCTACAGTTAAATCTGAAGCGATAGCACCGA
CAAGGACATATGTCATTCGTGTTAGAGAGGATGCTTCCGTACCGGACGTTATTAGTGGTA
Found at i:9680762 original size:18 final size:18
Alignment explanation
Indices: 9680739--9680774 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
9680729 GGCTAGGGGA
9680739 AGCCCGTGTGTCGTGGCC
1 AGCCCGTGTGTCGTGGCC
9680757 AGCCCGTGTGTCGTGGCC
1 AGCCCGTGTGTCGTGGCC
9680775 GTATGGGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.06, C:0.33, G:0.39, T:0.22
Consensus pattern (18 bp):
AGCCCGTGTGTCGTGGCC
Found at i:9682802 original size:27 final size:27
Alignment explanation
Indices: 9682772--9682852 Score: 110
Period size: 27 Copynumber: 3.0 Consensus size: 27
9682762 GAATCTCATA
* *
9682772 TCTGT-AGGCTAGTATTACTGAAATACC
1 TCTGTAAGG-TAGAATTACTAAAATACC
9682799 TCTGTAAGGTAGAATTACTAAAATACC
1 TCTGTAAGGTAGAATTACTAAAATACC
* *
9682826 CCTATAAGGTAGAATTACTAAAATACC
1 TCTGTAAGGTAGAATTACTAAAATACC
9682853 CCTGGTTTAC
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
27 46 0.94
28 3 0.06
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (27 bp):
TCTGTAAGGTAGAATTACTAAAATACC
Found at i:9682853 original size:27 final size:27
Alignment explanation
Indices: 9682785--9682855 Score: 115
Period size: 27 Copynumber: 2.6 Consensus size: 27
9682775 GTAGGCTAGT
* * *
9682785 ATTACTGAAATACCTCTGTAAGGTAGA
1 ATTACTAAAATACCCCTATAAGGTAGA
9682812 ATTACTAAAATACCCCTATAAGGTAGA
1 ATTACTAAAATACCCCTATAAGGTAGA
9682839 ATTACTAAAATACCCCT
1 ATTACTAAAATACCCCT
9682856 GGTTTACAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.28
Consensus pattern (27 bp):
ATTACTAAAATACCCCTATAAGGTAGA
Found at i:9683164 original size:55 final size:54
Alignment explanation
Indices: 9683061--9683185 Score: 137
Period size: 55 Copynumber: 2.3 Consensus size: 54
9683051 AAAATTGCTG
* * *
9683061 AAATACCCTTGATTTGGAAAATTACAGAAATACCCCTAATTTATAAAATTA-CA
1 AAATACCCTTGATTTGAAAAATTACAGAAATACCACTAATTTACAAAATTACCA
* ** *
9683114 AGAATACCCTTGACTTCT-AAAAATTACAGAAATACCATTGGTTTGCAAAATTACCA
1 A-AATACCCTTGA-TT-TGAAAAATTACAGAAATACCACTAATTTACAAAATTACCA
*
9683170 AAATACCCTTGGTTTG
1 AAATACCCTTGATTTG
9683186 TAGATTTACC
Statistics
Matches: 59, Mismatches: 8, Indels: 9
0.78 0.11 0.12
Matches are distributed among these distances:
53 2 0.03
54 13 0.22
55 40 0.68
56 4 0.07
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.30
Consensus pattern (54 bp):
AAATACCCTTGATTTGAAAAATTACAGAAATACCACTAATTTACAAAATTACCA
Found at i:9683185 original size:27 final size:27
Alignment explanation
Indices: 9682838--9683207 Score: 248
Period size: 27 Copynumber: 13.7 Consensus size: 27
9682828 TATAAGGTAG
* * **
9682838 AATTACTAAAATACCCCTGGTTTACAA
1 AATTACCAAAATACCCTTGGTTTGTAA
** **
9682865 AATTA-CTGAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCTTGGTTTGTAA
** *** * *
9682891 AATTACCAAAATGTCCTCAATTAGCAA
1 AATTACCAAAATACCCTTGGTTTGTAA
9682918 AATTACCAAAATACCCTTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTGTAA
*
9682945 AATTACCAAAATA-CCTCTAGTTTGTAA
1 AATTACCAAAATACCCT-TGGTTTGTAA
* * *
9682972 AATTACCAAAATACCTTTGATTTGTGA
1 AATTACCAAAATACCCTTGGTTTGTAA
* * * ** *
9682999 AATTATCGAAATACCCTCGGCCTATAA
1 AATTACCAAAATACCCTTGGTTTGTAA
* *
9683026 AATTACCGAAATACCC-TCGTCTTGTAA
1 AATTACCAAAATACCCTTGGT-TTGTAA
* ** * *
9683053 AATTGCTGAAATACCCTTGATTTGGAA
1 AATTACCAAAATACCCTTGGTTTGTAA
* ** *
9683080 AATTA-CAGAAATACCCCTAATTTATAA
1 AATTACCA-AAATACCCTTGGTTTGTAA
** *
9683107 AATTA-CAAGAATACCCTTGACTTCTAAA
1 AATTACCAA-AATACCCTTGGTTTGT-AA
* *
9683135 AATTA-CAGAAATACCATTGGTTTGCAA
1 AATTACCA-AAATACCCTTGGTTTGTAA
*
9683162 AATTACCAAAATACCCTTGGTTTGTAG
1 AATTACCAAAATACCCTTGGTTTGTAA
* *
9683189 ATTTACCAAAACACCCTTG
1 AATTACCAAAATACCCTTG
9683208 TAGGGTGAAA
Statistics
Matches: 267, Mismatches: 66, Indels: 20
0.76 0.19 0.06
Matches are distributed among these distances:
26 27 0.10
27 213 0.80
28 26 0.10
29 1 0.00
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTGTAA
Found at i:9683680 original size:22 final size:22
Alignment explanation
Indices: 9683628--9683692 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
9683618 GCCAATTATT
* *
9683628 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
9683650 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
9683672 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
9683693 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:9683920 original size:22 final size:22
Alignment explanation
Indices: 9683895--9683942 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
9683885 GTTGATGTGA
*
9683895 TGTTTACGGCTATGTGTTGTCC
1 TGTTTACGGCTATGAGTTGTCC
*
9683917 TGTTTACGGCTATGAGTTGTTC
1 TGTTTACGGCTATGAGTTGTCC
9683939 TGTT
1 TGTT
9683943 GACTTAGTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.10, C:0.15, G:0.27, T:0.48
Consensus pattern (22 bp):
TGTTTACGGCTATGAGTTGTCC
Found at i:9689200 original size:42 final size:42
Alignment explanation
Indices: 9689153--9689244 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
9689143 TGGCCCTTAG
* ** *
9689153 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
9689195 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
9689237 GCCCATTT
1 GCCCATTT
9689245 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:9689420 original size:25 final size:25
Alignment explanation
Indices: 9689392--9689461 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
9689382 CTCTTTTAAT
*
9689392 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAGAGCCCTTTTC-GATA
* *
9689417 AACTGAGGCAGAGCCCTTTTCGGTA
1 AACTGGGGCAGAGCCCTTTTCGATA
9689442 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAGAGCCCTTTT
9689462 AGCACTTCCT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 36 0.90
26 4 0.10
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAGAGCCCTTTTCGATA
Found at i:9690411 original size:27 final size:27
Alignment explanation
Indices: 9690385--9690515 Score: 97
Period size: 27 Copynumber: 4.7 Consensus size: 27
9690375 ATTTACAAAC
*
9690385 CAAGGGTATTTCAATAATTTTGTAAA-
1 CAAGGGTATTTCGATAATTTTGTAAAT
* * *
9690411 CTAATGGTATTCCTATAATTTT-TAAAAAAGT
1 C-AAGGGTATTTCGATAATTTTGT---AAA-T
9690442 CAAGGGTATTTCTG-TAATTTTGTAAAT
1 CAAGGGTATTTC-GATAATTTTGTAAAT
* * * **
9690469 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCGATAATTTTGTAAAT
*
9690496 TAAGGGTATTTCGATAATTT
1 CAAGGGTATTTCGATAATTT
9690516 CTCAAACCAG
Statistics
Matches: 82, Mismatches: 14, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
26 3 0.04
27 55 0.67
28 3 0.04
29 3 0.04
30 16 0.20
31 2 0.02
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.42
Consensus pattern (27 bp):
CAAGGGTATTTCGATAATTTTGTAAAT
Found at i:9690540 original size:27 final size:27
Alignment explanation
Indices: 9690441--9690541 Score: 91
Period size: 27 Copynumber: 3.7 Consensus size: 27
9690431 TTTAAAAAAG
**
9690441 TCAAGGGTATTTCT-GTAATTTTGTAAA
1 TCAAGGGTATTT-TGGTAATTTTACAAA
*
9690468 TCAGGGGTATTTTGGTAATTTTACAAA
1 TCAAGGGTATTTTGGTAATTTTACAAA
* * *
9690495 TTAAGGGTATTTCGATAATTTCT-CAAA
1 TCAAGGGTATTTTGGTAATTT-TACAAA
*
9690522 -CCAGTGGTATTTTGGTAATT
1 TCAAG-GGTATTTTGGTAATT
9690542 CTATCCTACA
Statistics
Matches: 60, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
26 3 0.05
27 56 0.93
28 1 0.02
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.43
Consensus pattern (27 bp):
TCAAGGGTATTTTGGTAATTTTACAAA
Found at i:9690607 original size:27 final size:27
Alignment explanation
Indices: 9690573--9690664 Score: 123
Period size: 27 Copynumber: 3.4 Consensus size: 27
9690563 ATAATTTCAC
*
9690573 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAATGATAATTTTGTA
*
9690600 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATGATAATTTTGTA
* * *
9690627 AATCGAAGGTAAAATGATAATTCTATA
1 AATCGAGGGTAAAATGATAATTTTGTA
9690654 AATCGAGGGTA
1 AATCGAGGGTA
9690665 CTTTGGTAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.02
27 54 0.96
28 1 0.02
ACGTcount: A:0.41, C:0.07, G:0.23, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAATGATAATTTTGTA
Found at i:9693811 original size:31 final size:31
Alignment explanation
Indices: 9693773--9693831 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
9693763 GGTTATTAGG
9693773 CCGAAGCCTTTTCATAAATCATATCACTGGA
1 CCGAAGCCTTTTCATAAATCATATCACTGGA
9693804 CCGAAGCCTTTTCATAAATCATATCACT
1 CCGAAGCCTTTTCATAAATCATATCACT
9693832 CGGCCAAAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.32, C:0.27, G:0.10, T:0.31
Consensus pattern (31 bp):
CCGAAGCCTTTTCATAAATCATATCACTGGA
Found at i:9693914 original size:42 final size:42
Alignment explanation
Indices: 9693867--9693960 Score: 143
Period size: 42 Copynumber: 2.2 Consensus size: 42
9693857 TATGGCCCTT
* ** * *
9693867 AAGCCCATTTCAATATCACATGTAATGTCAATGGATGTATTC
1 AAGCCCATTTCAATATCACATGAAATCCCAATGAATGTATGC
9693909 AAGCCCATTTCAATATCACATGAAATCCCAATGAATGTATGC
1 AAGCCCATTTCAATATCACATGAAATCCCAATGAATGTATGC
9693951 AAGCCCATTT
1 AAGCCCATTT
9693961 GGGGAGACTA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (42 bp):
AAGCCCATTTCAATATCACATGAAATCCCAATGAATGTATGC
Found at i:9694121 original size:24 final size:24
Alignment explanation
Indices: 9694094--9694152 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 24
9694084 ACTGGAGCCT
9694094 AGCCTCTTTTAAT-AACTGGGGCAG
1 AGCC-CTTTTAATAAACTGGGGCAG
**
9694118 AGCCCTTTTCGGTAAACTGGGGCAG
1 AGCCCTTTT-AATAAACTGGGGCAG
9694143 AGCCCTTTTA
1 AGCCCTTTTA
9694153 GCACTTCCTC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 5 0.17
24 5 0.17
25 20 0.67
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTGGGGCAG
Found at i:9695602 original size:15 final size:15
Alignment explanation
Indices: 9695554--9695633 Score: 76
Period size: 15 Copynumber: 5.4 Consensus size: 15
9695544 CAAAGATAAC
*
9695554 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
9695568 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
*
9695583 GAGAAA-CCGAGAATA
1 AAGAAATCC-AGAATA
9695598 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* * *
9695613 AAGAGATCTAGGATA
1 AAGAAATCCAGAATA
9695628 AAGAAA
1 AAGAAA
9695634 CACAAGATAT
Statistics
Matches: 54, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
14 11 0.20
15 40 0.74
16 3 0.06
ACGTcount: A:0.59, C:0.11, G:0.19, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:9698649 original size:46 final size:45
Alignment explanation
Indices: 9698582--9698756 Score: 190
Period size: 46 Copynumber: 3.8 Consensus size: 45
9698572 TGTAACCCGC
9698582 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGTAT
* *
9698628 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGT-T
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCTTCGTAT
* *** * * * *
9698674 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGTAT
* *
9698721 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
9698757 ATGCCCAAAT
Statistics
Matches: 106, Mismatches: 18, Indels: 10
0.79 0.13 0.07
Matches are distributed among these distances:
45 1 0.01
46 69 0.65
47 34 0.32
48 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTCGTAT
Found at i:9698702 original size:93 final size:93
Alignment explanation
Indices: 9698590--9698761 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
9698580 GCCCATAAGT
* * * * *
9698590 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
9698655 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
9698683 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
*
9698748 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
9698762 CAAATATCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:9700791 original size:27 final size:27
Alignment explanation
Indices: 9700730--9700793 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
9700720 GGCGTATTCA
9700730 TCATTTTACCATACAAGGGTATTACGG
1 TCATTTTACCATACAAGGGTATTACGG
* * *
9700757 TCACTTTACCCTACAGGGGCT-TTACGG
1 TCATTTTACCATACAAGGG-TATTACGG
*
9700784 TCTTTTTACC
1 TCATTTTACC
9700794 TATTAGGGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (27 bp):
TCATTTTACCATACAAGGGTATTACGG
Found at i:9700877 original size:27 final size:27
Alignment explanation
Indices: 9700847--9700945 Score: 103
Period size: 27 Copynumber: 3.6 Consensus size: 27
9700837 GTAAATCTAC
9700847 AAACCAAGGGTATTTC-AGTAATTTTGT
1 AAACCAAGGGTATTTCTA-TAATTTTGT
* *
9700874 AAACCAATGGTATTCCTATAATTTT-T
1 AAACCAAGGGTATTTCTATAATTTTGT
*
9700900 AAAAAAGTCAAGGGTATTTCTATAATTTTGT
1 ---AAA-CCAAGGGTATTTCTATAATTTTGT
*
9700931 AAATCAAGGGTATTT
1 AAACCAAGGGTATTT
9700946 TGGTAATTTT
Statistics
Matches: 61, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
26 1 0.02
27 33 0.54
28 4 0.07
29 3 0.05
30 19 0.31
31 1 0.02
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.38
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTGT
Found at i:9700961 original size:27 final size:26
Alignment explanation
Indices: 9700907--9701005 Score: 78
Period size: 27 Copynumber: 3.8 Consensus size: 26
9700897 TTTAAAAAAG
*
9700907 TCAAGGGTATTTCT-ATAATTTTGTAAA
1 TCAAGGGTATTT-TGATAATTTT-CAAA
*
9700934 TCAAGGGTATTTTGGTAATTTTACAAA
1 TCAAGGGTATTTTGATAATTTT-CAAA
** *
9700961 TTGAGGGTATTTCGATAATTTCTCAAA
1 TCAAGGGTATTTTGATAATTT-TCAAA
* *
9700988 -CCA-GGTATTTTGGTAATT
1 TCAAGGGTATTTTGATAATT
9701006 CTATCCTACA
Statistics
Matches: 59, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
25 13 0.22
26 2 0.03
27 43 0.73
28 1 0.02
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.42
Consensus pattern (26 bp):
TCAAGGGTATTTTGATAATTTTCAAA
Found at i:9701056 original size:26 final size:27
Alignment explanation
Indices: 9701025--9701128 Score: 106
Period size: 27 Copynumber: 3.9 Consensus size: 27
9701015 AAGGTTATTT
9701025 CAGTAATTTCAT-AATCGAGGGTAAAA
1 CAGTAATTTCATAAATCGAGGGTAAAA
** *
9701051 CAGTAATTTTGTAAATTGAGGGTAAAA
1 CAGTAATTTCATAAATCGAGGGTAAAA
** **
9701078 TGGTAATTTTGTAAATCGAGGGTAAAA
1 CAGTAATTTCATAAATCGAGGGTAAAA
9701105 C-GATAA-TTCTATAAATCGAGGGTA
1 CAG-TAATTTC-ATAAATCGAGGGTA
9701129 CTTTGGTAAT
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
26 13 0.20
27 53 0.80
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (27 bp):
CAGTAATTTCATAAATCGAGGGTAAAA
Found at i:9701076 original size:27 final size:26
Alignment explanation
Indices: 9701037--9701128 Score: 121
Period size: 27 Copynumber: 3.4 Consensus size: 26
9701027 GTAATTTCAT
9701037 AATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAAC-GTAATTTTGTA
* *
9701064 AATTGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAA-CGTAATTTTGTA
* *
9701091 AATCGAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACG-TAATTTTGTA
9701118 AATCGAGGGTA
1 AATCGAGGGTA
9701129 CTTTGGTAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
26 1 0.02
27 56 0.98
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.29
Consensus pattern (26 bp):
AATCGAGGGTAAAACGTAATTTTGTA
Found at i:9701103 original size:54 final size:54
Alignment explanation
Indices: 9701037--9701173 Score: 141
Period size: 54 Copynumber: 2.5 Consensus size: 54
9701027 GTAATTTCAT
* **
9701037 AATCGAGGGTAAAACAGTAATTTTGTAAATTGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTTTACA
* * ***
9701091 AATCGAGGGTAAAAC-GATAATTCTATAAATCGAGGGTACTTTGGTAATTTTACA
1 AATCGAGGGTAAAACAG-TAATTTTGTAAATCGAGGGTAAAATGGTAATTTTACA
* *** *
9701145 AGTCGAGGGTATTTCAGTAATTTGGTAAA
1 AATCGAGGGTAAAACAGTAATTTTGTAAA
9701174 CTAAAGTATT
Statistics
Matches: 66, Mismatches: 15, Indels: 4
0.78 0.18 0.05
Matches are distributed among these distances:
53 1 0.02
54 64 0.97
55 1 0.02
ACGTcount: A:0.36, C:0.07, G:0.23, T:0.33
Consensus pattern (54 bp):
AATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTTTACA
Found at i:9702351 original size:12 final size:12
Alignment explanation
Indices: 9702334--9702358 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9702324 GCCGACTACT
9702334 GTTACTGTTACC
1 GTTACTGTTACC
9702346 GTTACTGTTACC
1 GTTACTGTTACC
9702358 G
1 G
9702359 ATTTAACACT
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:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:9702386 original size:45 final size:45
Alignment explanation
Indices: 9702336--9702442 Score: 160
Period size: 45 Copynumber: 2.4 Consensus size: 45
9702326 CGACTACTGT
* *
9702336 TACTGTTACCGTTACTGTTACCGATTTAACACTTTGTGTGTCAAA
1 TACTGTTACCGTTACTGTTACAGATTCAACACTTTGTGTGTCAAA
* **
9702381 TACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTTGAA
1 TACTGTTACCGTTACTGTTACAGATTCAACACTTTGTGTGTCAAA
*
9702426 TACTGTTACTGTTACTG
1 TACTGTTACCGTTACTG
9702443 ATACTGCTAC
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 56 1.00
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.41
Consensus pattern (45 bp):
TACTGTTACCGTTACTGTTACAGATTCAACACTTTGTGTGTCAAA
Found at i:9702448 original size:18 final size:18
Alignment explanation
Indices: 9702425--9702467 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
9702415 TGTGTGTTGA
* *
9702425 ATACTGTTACTGTTACTG
1 ATACTGCTACCGTTACTG
9702443 ATACTGCTACCGTTACTG
1 ATACTGCTACCGTTACTG
9702461 ATTACTG
1 A-TACTG
9702468 ATTAGGTACT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.40
Consensus pattern (18 bp):
ATACTGCTACCGTTACTG
Found at i:9712111 original size:43 final size:43
Alignment explanation
Indices: 9712050--9712161 Score: 206
Period size: 43 Copynumber: 2.6 Consensus size: 43
9712040 CCAGCATTAC
*
9712050 GCCTGCTAGGCACGAAGGCCCGAATACACATCGCCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
9712093 GCCTGCTAGGTACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
9712136 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
9712162 TAATACCAGC
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 66 1.00
ACGTcount: A:0.29, C:0.33, G:0.28, T:0.11
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:9712204 original size:38 final size:38
Alignment explanation
Indices: 9712154--9712350 Score: 286
Period size: 38 Copynumber: 5.1 Consensus size: 38
9712144 GGCACGAAGG
* * * *
9712154 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
9712192 CCCGGACATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
** *
9712230 CCCGGATATTTTACCAGCACGAAGCCTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA
*
9712269 GCTCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 -CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
9712308 CCCGGATATAATACCAGCACGAAGCCTGTGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
9712346 CCCGG
1 CCCGG
9712351 GGGATTTAAC
Statistics
Matches: 142, Mismatches: 15, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
38 103 0.73
39 10 0.07
40 29 0.20
ACGTcount: A:0.28, C:0.27, G:0.24, T:0.21
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:9712356 original size:14 final size:14
Alignment explanation
Indices: 9712337--9712364 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
9712327 CGAAGCCTGT
9712337 GGGATTTAACCCGG
1 GGGATTTAACCCGG
9712351 GGGATTTAACCCGG
1 GGGATTTAACCCGG
9712365 ATATATTACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.36, T:0.21
Consensus pattern (14 bp):
GGGATTTAACCCGG
Found at i:9712377 original size:52 final size:52
Alignment explanation
Indices: 9712299--9712454 Score: 294
Period size: 52 Copynumber: 3.0 Consensus size: 52
9712289 CGAAGCCTGC
* *
9712299 GGGATTTAACCCGGATATAATACCAGCACGAAGCCTGTGGGATTTAACCCGG
1 GGGATTTAACCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
9712351 GGGATTTAACCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 GGGATTTAACCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
9712403 GGGATTTAACCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 GGGATTTAACCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
9712455 ATATACATCG
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 102 1.00
ACGTcount: A:0.28, C:0.24, G:0.27, T:0.21
Consensus pattern (52 bp):
GGGATTTAACCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
Found at i:9712408 original size:14 final size:14
Alignment explanation
Indices: 9712389--9712416 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
9712379 CGAAGCCTGC
9712389 GGGATTTAACCCGG
1 GGGATTTAACCCGG
9712403 GGGATTTAACCCGG
1 GGGATTTAACCCGG
9712417 ATATATTACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.36, T:0.21
Consensus pattern (14 bp):
GGGATTTAACCCGG
Found at i:9720567 original size:184 final size:184
Alignment explanation
Indices: 9720252--9720637 Score: 507
Period size: 185 Copynumber: 2.1 Consensus size: 184
9720242 CCTAAAATTT
*
9720252 TTTATTTTATACCCATAAAAAGATAGATAAATGTTTATAATGTATAATTTAAACATTCTGGCAGT
1 TTTATTTTATACCCATAAAAAGATAGATAAATGTTTATAATGTATAATTTAAACATTCTGGCACT
* * * *
9720317 ATTTTAATATAATATTAGAATCCCTACTTTTGCAAGTTTTTTTTTCTTTATTCCAATGAAGTGCA
66 ATTTTAATATAATATTAGAAACCCTACTTCT-CAAGGTTTTTTTCCTTTATTCCAATGAAGTGCA
* *
9720382 TTA-TTTTTATTTTACACTTAAACATGTTTTTTTTTTTCTAAATTGTACCTAAATAA
130 TTAGTTTTTATTTTACACTTAAACATG--TTTTTTTTTATAAATTGTACCTAAAAAA
* *
9720438 TTT-TTTTATACCCA-AAAAAGTATAGATAAATTTTTATAATGTACT-GTTTAAACATT-TGGCA
1 TTTATTTTATACCCATAAAAAG-ATAGATAAATGTTTATAATGTA-TAATTTAAACATTCTGGCA
* **
9720499 CTATTTTAATATAATATTAGAAACCAC-GCTTCT-ATAGGTTTTTTTCCTTTATTTTTAATGAAG
64 CTATTTTAATATAATATTAGAAACC-CTACTTCTCA-AGGTTTTTTTCCTTTA-TTCCAATGAAG
* **
9720562 TGCATTAGTTTTTGTTTTACACTTAAACATGTTTTTTTTTATAAATTGTATTTAAAAAA
126 TGCATTAGTTTTTATTTTACACTTAAACATGTTTTTTTTTATAAATTGTACCTAAAAAA
9720621 TTTCATTTTATACCCAT
1 TTT-ATTTTATACCCAT
9720638 TAAGCATTTT
Statistics
Matches: 176, Mismatches: 15, Indels: 18
0.84 0.07 0.09
Matches are distributed among these distances:
182 1 0.01
183 41 0.23
184 54 0.31
185 76 0.43
186 4 0.02
ACGTcount: A:0.33, C:0.11, G:0.08, T:0.48
Consensus pattern (184 bp):
TTTATTTTATACCCATAAAAAGATAGATAAATGTTTATAATGTATAATTTAAACATTCTGGCACT
ATTTTAATATAATATTAGAAACCCTACTTCTCAAGGTTTTTTTCCTTTATTCCAATGAAGTGCAT
TAGTTTTTATTTTACACTTAAACATGTTTTTTTTTATAAATTGTACCTAAAAAA
Found at i:9721229 original size:29 final size:29
Alignment explanation
Indices: 9721194--9721252 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
9721184 AGGAACTAGG
9721194 CGAGAGACCCGATCAACGATCGATAGACT
1 CGAGAGACCCGATCAACGATCGATAGACT
9721223 CGAGAGACCCGATCAACGATCGATAGACT
1 CGAGAGACCCGATCAACGATCGATAGACT
9721252 C
1 C
9721253 TATCACCGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.34, C:0.29, G:0.24, T:0.14
Consensus pattern (29 bp):
CGAGAGACCCGATCAACGATCGATAGACT
Found at i:9722022 original size:59 final size:61
Alignment explanation
Indices: 9721955--9722071 Score: 166
Period size: 62 Copynumber: 1.9 Consensus size: 61
9721945 ATCAATTTAG
* * *
9721955 TATTAAATTAATATAATATTTA-T-CAAGATAAATATTAGATTAAATTTAACATTAAATCT
1 TATTAAATTAATAAAATATTTACTACAAGATAAACATTAAATTAAATTTAACATTAAATCT
* *
9722014 TATTAAATTAATAAAATATTTATCTACAAGATAAACATTAAATTTAATTTAATATTAA
1 TATTAAATTAATAAAATATTTA-CTACAAGATAAACATTAAATTAAATTTAACATTAA
9722072 GATAATCACT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 21 0.42
61 1 0.02
62 28 0.56
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (61 bp):
TATTAAATTAATAAAATATTTACTACAAGATAAACATTAAATTAAATTTAACATTAAATCT
Found at i:9727937 original size:29 final size:29
Alignment explanation
Indices: 9727876--9727954 Score: 79
Period size: 29 Copynumber: 2.8 Consensus size: 29
9727866 ACATACATGT
* * * *
9727876 ATATGGCCCACTAGGCCC-AATCTCATTC
1 ATATGACCCATTAGACCCAAATCACATTC
* *
9727904 ATATGACTCATTGGACCCAAATCACATTC
1 ATATGACCCATTAGACCCAAATCACATTC
* *
9727933 GTATGGCCCATTAGACCCAAAT
1 ATATGACCCATTAGACCCAAAT
9727955 AATATACATA
Statistics
Matches: 40, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
28 13 0.32
29 27 0.68
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (29 bp):
ATATGACCCATTAGACCCAAATCACATTC
Found at i:9734428 original size:18 final size:18
Alignment explanation
Indices: 9734405--9734456 Score: 104
Period size: 18 Copynumber: 2.9 Consensus size: 18
9734395 TGATTTGGAT
9734405 CGTGTGGGTCCACACAAG
1 CGTGTGGGTCCACACAAG
9734423 CGTGTGGGTCCACACAAG
1 CGTGTGGGTCCACACAAG
9734441 CGTGTGGGTCCACACA
1 CGTGTGGGTCCACACA
9734457 GATAGTCCAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.21, C:0.29, G:0.33, T:0.17
Consensus pattern (18 bp):
CGTGTGGGTCCACACAAG
Found at i:9738450 original size:23 final size:23
Alignment explanation
Indices: 9738422--9738515 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
9738412 ATGTGTGTAT
* *
9738422 CTTTTCATATTCAAGCCTCTTAA
1 CTTTTCATATTCAAGTCTCTTCA
*
9738445 CTTTTCATCTTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
* * *
9738468 CTATTCATATTCAAGTTTTTTCA
1 CTTTTCATATTCAAGTCTCTTCA
9738491 CTTTTCATATTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
9738514 CT
1 CT
9738516 CTTCTAACTT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.22, C:0.26, G:0.04, T:0.48
Consensus pattern (23 bp):
CTTTTCATATTCAAGTCTCTTCA
Found at i:9742949 original size:23 final size:23
Alignment explanation
Indices: 9742921--9743014 Score: 116
Period size: 23 Copynumber: 4.1 Consensus size: 23
9742911 ATGTGTGTAT
* *
9742921 CTTTTCATATTCAAGCCTCTTAA
1 CTTTTCATATTCAAGTCTCTTCA
**
9742944 CTTTTCATCCTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
* * *
9742967 CTATTCATATTCAAGTTTTTTCA
1 CTTTTCATATTCAAGTCTCTTCA
*
9742990 CTTTTCATATTCAAGTCTATTCA
1 CTTTTCATATTCAAGTCTCTTCA
9743013 CT
1 CT
9743015 CTTCTAACTT
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 59 1.00
ACGTcount: A:0.23, C:0.26, G:0.04, T:0.47
Consensus pattern (23 bp):
CTTTTCATATTCAAGTCTCTTCA
Found at i:9745426 original size:261 final size:261
Alignment explanation
Indices: 9744957--9745481 Score: 1032
Period size: 261 Copynumber: 2.0 Consensus size: 261
9744947 CTCAACTTAT
9744957 CTTCAATATATTTGTAACACCCCGATATTCGATCCGATCATCGGGTCAGAGCTATAAGGTGGCAC
1 CTTCAATATATTTGTAACACCCCGATATTCGATCCGATCATCGGGTCAGAGCTATAAGGTGGCAC
9745022 ATTCGTTGTCGGAGTAATTGTAATATATAACATTCAATTCAACATTAATATACATTCAATTACAA
66 ATTCGTTGTCGGAGTAATTGTAATATATAACATTCAATTCAACATTAATATACATTCAATTACAA
*
9745087 GTGAATCATACGCATTAAATAATATACAATAATTTTTGAGTCTTATATGAGCTTATGAAAGATCG
131 GTGAATCATACGCATTAAATAATATACAATAATTTTTGAGTCTTATACGAGCTTATGAAAGATCG
9745152 TTTACTAACCTGAGGTCGATACAGACCAAATTGTAAAGAATGCAAAGTTTCAAATCGACGTCGTG
196 TTTACTAACCTGAGGTCGATACAGACCAAATTGTAAAGAATGCAAAGTTTCAAATCGACGTCGTG
9745217 A
261 A
*
9745218 CTTCGATATATTTGTAACACCCCGATATTCGATCCGATCATCGGGTCAGAGCTATAAGGTGGCAC
1 CTTCAATATATTTGTAACACCCCGATATTCGATCCGATCATCGGGTCAGAGCTATAAGGTGGCAC
9745283 ATTCGTTGTCGGAGTAATTGTAATATATAACATTCAATTCAACATTAATATACATTCAATTACAA
66 ATTCGTTGTCGGAGTAATTGTAATATATAACATTCAATTCAACATTAATATACATTCAATTACAA
9745348 GTGAATCATACGCATTAAATAATATACAATAATTTTTGAGTCTTATACGAGCTTATGAAAGATCG
131 GTGAATCATACGCATTAAATAATATACAATAATTTTTGAGTCTTATACGAGCTTATGAAAGATCG
9745413 TTTACTAACCTGAGGTCGATACAGACCAAATTGTAAAGAATGCAAAGTTTCAAATCGACGTCGTG
196 TTTACTAACCTGAGGTCGATACAGACCAAATTGTAAAGAATGCAAAGTTTCAAATCGACGTCGTG
9745478 A
261 A
9745479 CTT
1 CTT
9745482 TGAGATTTCC
Statistics
Matches: 262, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
261 262 1.00
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.31
Consensus pattern (261 bp):
CTTCAATATATTTGTAACACCCCGATATTCGATCCGATCATCGGGTCAGAGCTATAAGGTGGCAC
ATTCGTTGTCGGAGTAATTGTAATATATAACATTCAATTCAACATTAATATACATTCAATTACAA
GTGAATCATACGCATTAAATAATATACAATAATTTTTGAGTCTTATACGAGCTTATGAAAGATCG
TTTACTAACCTGAGGTCGATACAGACCAAATTGTAAAGAATGCAAAGTTTCAAATCGACGTCGTG
A
Found at i:9754394 original size:23 final size:23
Alignment explanation
Indices: 9754368--9754414 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
9754358 CTGTGAGAGA
9754368 TAGTCTTTGCACTCTTTCTTGCC
1 TAGTCTTTGCACTCTTTCTTGCC
9754391 TAGTCTTTGCACTCTTTCTTGCC
1 TAGTCTTTGCACTCTTTCTTGCC
9754414 T
1 T
9754415 CTTATTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.09, C:0.30, G:0.13, T:0.49
Consensus pattern (23 bp):
TAGTCTTTGCACTCTTTCTTGCC
Found at i:9757495 original size:111 final size:111
Alignment explanation
Indices: 9757375--9757576 Score: 257
Period size: 111 Copynumber: 1.8 Consensus size: 111
9757365 CACTTTTTAA
* * * * *
9757375 TATTAAAAAA-TAATTGTATTTTG-GTGTTAGTAAACTGATGGTCGATAC-CTATTTTATCAGAT
1 TATTAAAAAATTAATT-T-TTTTGCGTGCTAGCAAACTAATGGTCGACACTC-ACTTTATCAGAT
* *
9757437 AAAAAAATTTTGGGTTTGGGAAACTAGATAGTCAGCATCACCTTTTTCT
63 AAAAAAAATTTGGGTTTAGGAAACTAGATAGTCAGCATCACCTTTTTCT
* * * *
9757486 TATTAAAAAATTAATTTTTTTGCTTGCTGGCACACTAATGGTTGACACTCACTTTATCAGATAAA
1 TATTAAAAAATTAATTTTTTTGCGTGCTAGCAAACTAATGGTCGACACTCACTTTATCAGATAAA
9757551 AAAAATTTGGGTTTAGGAAACTAGAT
66 AAAAATTTGGGTTTAGGAAACTAGAT
9757577 GGCCTGCATC
Statistics
Matches: 77, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
110 5 0.06
111 66 0.86
112 6 0.08
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (111 bp):
TATTAAAAAATTAATTTTTTTGCGTGCTAGCAAACTAATGGTCGACACTCACTTTATCAGATAAA
AAAAATTTGGGTTTAGGAAACTAGATAGTCAGCATCACCTTTTTCT
Found at i:9760882 original size:12 final size:12
Alignment explanation
Indices: 9760865--9760889 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9760855 GAATAGATTA
9760865 AAACCAATTAAT
1 AAACCAATTAAT
9760877 AAACCAATTAAT
1 AAACCAATTAAT
9760889 A
1 A
9760890 GACTTAATAA
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:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (12 bp):
AAACCAATTAAT
Found at i:9765807 original size:36 final size:39
Alignment explanation
Indices: 9765760--9765878 Score: 172
Period size: 41 Copynumber: 3.0 Consensus size: 39
9765750 TTCAGAATTG
*
9765760 TAAATTCTC-A-AA-TACATTTGTCCTAGAACTCAAGTC
1 TAAATTCTCAATAAGTAAATTTGTCCTAGAACTCAAGTC
9765796 TAAATTCTCAAATAATGTAAATTTGTCCTAGAACTCAAGTC
1 TAAATTCTC-AATAA-GTAAATTTGTCCTAGAACTCAAGTC
9765837 TAAATTCTCAAATAATGTAAATTTGTCCTAGAACTCAAGTC
1 TAAATTCTC-AATAA-GTAAATTTGTCCTAGAACTCAAGTC
9765878 T
1 T
9765879 TGGAATCTTT
Statistics
Matches: 77, Mismatches: 1, Indels: 5
0.93 0.01 0.06
Matches are distributed among these distances:
36 9 0.12
38 1 0.01
39 2 0.03
41 65 0.84
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.34
Consensus pattern (39 bp):
TAAATTCTCAATAAGTAAATTTGTCCTAGAACTCAAGTC
Found at i:9765832 original size:41 final size:41
Alignment explanation
Indices: 9765775--9765878 Score: 208
Period size: 41 Copynumber: 2.5 Consensus size: 41
9765765 TCTCAAATAC
9765775 ATTTGTCCTAGAACTCAAGTCTAAATTCTCAAATAATGTAA
1 ATTTGTCCTAGAACTCAAGTCTAAATTCTCAAATAATGTAA
9765816 ATTTGTCCTAGAACTCAAGTCTAAATTCTCAAATAATGTAA
1 ATTTGTCCTAGAACTCAAGTCTAAATTCTCAAATAATGTAA
9765857 ATTTGTCCTAGAACTCAAGTCT
1 ATTTGTCCTAGAACTCAAGTCT
9765879 TGGAATCTTT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 63 1.00
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.35
Consensus pattern (41 bp):
ATTTGTCCTAGAACTCAAGTCTAAATTCTCAAATAATGTAA
Found at i:9768595 original size:24 final size:24
Alignment explanation
Indices: 9768568--9768619 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
9768558 CTAGTAGGTC
*
9768568 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
9768592 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
9768616 AAAT
1 AAAT
9768620 CTTCTAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:9769436 original size:30 final size:30
Alignment explanation
Indices: 9769400--9769463 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
9769390 TTAGAGTTAT
9769400 CGCTCGTTGACACTAACAAAAAATCATCAC
1 CGCTCGTTGACACTAACAAAAAATCATCAC
*
9769430 CGCTCGTTGACACTAACAAGAAATCATCAC
1 CGCTCGTTGACACTAACAAAAAATCATCAC
9769460 CGCT
1 CGCT
9769464 TTCATCGGCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.36, C:0.31, G:0.12, T:0.20
Consensus pattern (30 bp):
CGCTCGTTGACACTAACAAAAAATCATCAC
Found at i:9774410 original size:18 final size:18
Alignment explanation
Indices: 9774389--9774425 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
9774379 AGTACAGTGC
9774389 ATAA-TAAAATAAAATAAA
1 ATAACTAAAA-AAAATAAA
9774407 ATAACTAAAAAAAATAAA
1 ATAACTAAAAAAAATAAA
9774425 A
1 A
9774426 CTAAATGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (18 bp):
ATAACTAAAAAAAATAAA
Found at i:9775780 original size:13 final size:13
Alignment explanation
Indices: 9775762--9775787 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9775752 GGGGATTTTT
9775762 TTAACTAAACTAA
1 TTAACTAAACTAA
9775775 TTAACTAAACTAA
1 TTAACTAAACTAA
9775788 GAATGCACAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACTAAACTAA
Found at i:9782119 original size:13 final size:13
Alignment explanation
Indices: 9782101--9782126 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9782091 GGGGATTTTT
9782101 TTAACTAAACTAA
1 TTAACTAAACTAA
9782114 TTAACTAAACTAA
1 TTAACTAAACTAA
9782127 GAATGCATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACTAAACTAA
Found at i:9786069 original size:20 final size:18
Alignment explanation
Indices: 9786042--9786090 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 18
9786032 AAATTATAGG
*
9786042 ATAAATTATATTGAAAGTA
1 ATAAATTATATT-AAAATA
*
9786061 ATAAAATTAAAATTAAAATA
1 AT-AAATT-ATATTAAAATA
9786081 ATAAATTATA
1 ATAAATTATA
9786091 GGATAAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 2 0.08
19 7 0.28
20 12 0.48
21 4 0.16
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (18 bp):
ATAAATTATATTAAAATA
Found at i:9786101 original size:51 final size:50
Alignment explanation
Indices: 9786029--9786188 Score: 232
Period size: 51 Copynumber: 3.2 Consensus size: 50
9786019 CTGATGGCTA
* *
9786029 AATAAATTATAGGATAAATTATATTGAAAGTAATAAAATTAAAATTAAAAT
1 AATAAATTATAGGATAAATTATATTTAAAGTAAT-AAATTTAAATTAAAAT
9786080 AATAAATTATAGGATAAATTATATTTAAAGTAATAAATTTAAATTAAAAAT
1 AATAAATTATAGGATAAATTATATTTAAAGTAATAAATTTAAATT-AAAAT
* * * *
9786131 AATTAATTAAATGATAAATTATATTTAAAGTATTAAATTTAAATTAAAA-
1 AATAAATTATAGGATAAATTATATTTAAAGTAATAAATTTAAATTAAAAT
9786180 AATAGAATT
1 AATA-AATT
9786189 TAATTAAAAA
Statistics
Matches: 100, Mismatches: 7, Indels: 5
0.89 0.06 0.04
Matches are distributed among these distances:
49 3 0.03
50 18 0.18
51 79 0.79
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (50 bp):
AATAAATTATAGGATAAATTATATTTAAAGTAATAAATTTAAATTAAAAT
Found at i:9786177 original size:19 final size:17
Alignment explanation
Indices: 9786042--9786208 Score: 78
Period size: 19 Copynumber: 9.6 Consensus size: 17
9786032 AAATTATAGG
*
9786042 ATAAATTATATTGAAAGTA
1 ATAAATTAAATT-AAA-TA
9786061 ATAAAATTAAAATT-AA-A
1 AT-AAATT-AAATTAAATA
* **
9786078 AT-AA-TAAATTATAGG
1 ATAAATTAAATTAAATA
*
9786093 ATAAATTATATTTAAAGTA
1 ATAAATTA-AATTAAA-TA
9786112 ATAAATTTAAATTAAA-A
1 ATAAA-TTAAATTAAATA
*
9786129 AT-AATT-AATTAAATG
1 ATAAATTAAATTAAATA
*
9786144 ATAAATTATATTTAAAGTA
1 ATAAATTA-AATTAAA-TA
* *
9786163 TTAAATTTAAATTAAAAA
1 ATAAA-TTAAATTAAATA
* *
9786181 ATAGAATTTAATTAAAAA
1 ATA-AATTAAATTAAATA
*
9786199 ATTAATTAAA
1 ATAAATTAAA
9786209 GGCAAAATTA
Statistics
Matches: 114, Mismatches: 18, Indels: 34
0.69 0.11 0.20
Matches are distributed among these distances:
13 5 0.04
14 9 0.08
15 8 0.07
16 8 0.07
17 14 0.12
18 27 0.24
19 28 0.25
20 11 0.10
21 4 0.04
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (17 bp):
ATAAATTAAATTAAATA
Found at i:9786201 original size:51 final size:49
Alignment explanation
Indices: 9786044--9786209 Score: 155
Period size: 51 Copynumber: 3.3 Consensus size: 49
9786034 ATTATAGGAT
* * * *
9786044 AAATTATATTGAAAGTAATAAAATTAAAATTAAAATAATAAATT-A-TAGGAT
1 AAATTATATTTAAAGT-ATTAAATTTAAATTAAAA-AATAAATTAATTA--AA
*
9786095 AAATTATATTTAAAGTAATAAATTTAAATT-AAAAAT-AATTAATTAAATGA
1 AAATTATATTTAAAGTATTAAATTTAAATTAAAAAATAAATTAATT-AA--A
9786145 TAAATTATATTTAAAGTATTAAATTTAAATTAAAAAATAGAATTTAATTAAA
1 -AAATTATATTTAAAGTATTAAATTTAAATTAAAAAATA-AA-TTAATTAAA
9786197 AAATTA-A-TTAAAG
1 AAATTATATTTAAAG
9786210 GCAAAATTAG
Statistics
Matches: 99, Mismatches: 6, Indels: 22
0.78 0.05 0.17
Matches are distributed among these distances:
47 4 0.04
48 5 0.05
49 10 0.10
50 13 0.13
51 50 0.51
52 7 0.07
54 4 0.04
55 6 0.06
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (49 bp):
AAATTATATTTAAAGTATTAAATTTAAATTAAAAAATAAATTAATTAAA
Found at i:9786234 original size:19 final size:18
Alignment explanation
Indices: 9786162--9786234 Score: 53
Period size: 18 Copynumber: 4.1 Consensus size: 18
9786152 TATTTAAAGT
*
9786162 ATTAAATTTAAATTAAAAA
1 ATTAAATTT-AAGTAAAAA
*
9786181 A-TAGAATTTAATTAAAAA
1 ATTA-AATTTAAGTAAAAA
* **
9786199 ATT-AATTAAAG-GCAAA
1 ATTAAATTTAAGTAAAAA
9786215 ATTAGAATTTAAGTAAAAA
1 ATTA-AATTTAAGTAAAAA
9786234 A
1 A
9786235 CGGTTATGGG
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
16 6 0.14
17 6 0.14
18 19 0.45
19 11 0.26
ACGTcount: A:0.60, C:0.01, G:0.07, T:0.32
Consensus pattern (18 bp):
ATTAAATTTAAGTAAAAA
Found at i:9786469 original size:18 final size:19
Alignment explanation
Indices: 9786446--9786481 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
9786436 CCTTTAATTA
9786446 ATTTTTTAA-TTAAATTTT
1 ATTTTTTAATTTAAATTTT
9786464 ATTTTTTAATTTAAATTT
1 ATTTTTTAATTTAAATTT
9786482 AATACTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTTTTAATTTAAATTTT
Found at i:9786482 original size:18 final size:17
Alignment explanation
Indices: 9786441--9786482 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
9786431 TTTAGCCTTT
*
9786441 AATTAATTTTTTAATTA
1 AATTTATTTTTTAATTA
9786458 AATTTTATTTTTTAATTTA
1 AA-TTTATTTTTTAA-TTA
9786477 AATTTA
1 AATTTA
9786483 ATACTTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 2 0.09
18 15 0.68
19 5 0.23
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
AATTTATTTTTTAATTA
Found at i:9786591 original size:51 final size:50
Alignment explanation
Indices: 9786467--9786663 Score: 270
Period size: 51 Copynumber: 3.9 Consensus size: 50
9786457 AAATTTTATT
* * * *
9786467 TTTTAATTTAAATTTAATACTTTAAATATGATTTATCCTATAATTAAATA
1 TTTTAATTTTAATTTATTACTTTAAATATAATTTATCCTATAATTAATTA
* * * * *
9786517 TTTTAATTTTAATTTATTGCTTTAAAAATAATTTATCATTTAACTAATTA
1 TTTTAATTTTAATTTATTACTTTAAATATAATTTATCCTATAATTAATTA
9786567 TTTTTAA-TTTAGATTTATTACTTTAAATATAATTTATCCTATAATTAATTA
1 -TTTTAATTTTA-ATTTATTACTTTAAATATAATTTATCCTATAATTAATTA
*
9786618 TTTTAATTTTAATTTTATTGCTTTAAATATAATTTATCCTATAATT
1 TTTTAATTTTAA-TTTATTACTTTAAATATAATTTATCCTATAATT
9786664 TATTTAGTCA
Statistics
Matches: 128, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
50 52 0.41
51 76 0.59
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (50 bp):
TTTTAATTTTAATTTATTACTTTAAATATAATTTATCCTATAATTAATTA
Found at i:9786620 original size:101 final size:102
Alignment explanation
Indices: 9786466--9786655 Score: 328
Period size: 101 Copynumber: 1.9 Consensus size: 102
9786456 TAAATTTTAT
*
9786466 TTTTTAATTTAAATTTAATACTTTAAATATGATTTATCCTATAATTAAATATTTTAATTTTAA-T
1 TTTTTAATTTAAATTTAATACTTTAAATATAATTTATCCTATAATTAAATATTTTAATTTTAATT
9786530 TTATTGCTTTAAAAATAATTTATCATTTAACTAATTA
66 TTATTGCTTTAAAAATAATTTATCATTTAACTAATTA
* * *
9786567 TTTTTAATTTAGATTTATTACTTTAAATATAATTTATCCTATAATTAATTATTTTAATTTTAATT
1 TTTTTAATTTAAATTTAATACTTTAAATATAATTTATCCTATAATTAAATATTTTAATTTTAATT
*
9786632 TTATTGCTTTAAATATAATTTATC
66 TTATTGCTTTAAAAATAATTTATC
9786656 CTATAATTTA
Statistics
Matches: 83, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
101 59 0.71
102 24 0.29
ACGTcount: A:0.37, C:0.06, G:0.02, T:0.55
Consensus pattern (102 bp):
TTTTTAATTTAAATTTAATACTTTAAATATAATTTATCCTATAATTAAATATTTTAATTTTAATT
TTATTGCTTTAAAAATAATTTATCATTTAACTAATTA
Found at i:9792553 original size:21 final size:21
Alignment explanation
Indices: 9792529--9792603 Score: 82
Period size: 21 Copynumber: 3.6 Consensus size: 21
9792519 TCATATAAAA
*
9792529 ATATAGTAAAATAATTAATAC
1 ATATAGGAAAATAATTAATAC
* *
9792550 ATATTGGAAAATACA-TAGTA-
1 ATATAGGAAAATA-ATTAATAC
*
9792570 ATATAGTAAAATAATTAATAC
1 ATATAGGAAAATAATTAATAC
*
9792591 ATATTGGAAAATA
1 ATATAGGAAAATA
9792604 CATAGTATAT
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
19 1 0.02
20 15 0.35
21 26 0.60
22 1 0.02
ACGTcount: A:0.55, C:0.04, G:0.09, T:0.32
Consensus pattern (21 bp):
ATATAGGAAAATAATTAATAC
Found at i:9792585 original size:41 final size:41
Alignment explanation
Indices: 9792528--9792619 Score: 168
Period size: 41 Copynumber: 2.3 Consensus size: 41
9792518 TTCATATAAA
9792528 AATATAGTAAAATAATTAATACATATTGGAAAATACATAGT
1 AATATAGTAAAATAATTAATACATATTGGAAAATACATAGT
9792569 AATATAGTAAAATAATTAATACATATTGGAAAATACATAGT
1 AATATAGTAAAATAATTAATACATATTGGAAAATACATAGT
*
9792610 -ATATACTAAA
1 AATATAGTAAA
9792620 TTTATAAATA
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
40 9 0.18
41 41 0.82
ACGTcount: A:0.54, C:0.05, G:0.09, T:0.32
Consensus pattern (41 bp):
AATATAGTAAAATAATTAATACATATTGGAAAATACATAGT
Found at i:9792677 original size:12 final size:12
Alignment explanation
Indices: 9792662--9792687 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9792652 TATAATTAAT
9792662 AATATATACAAA
1 AATATATACAAA
9792674 AATATATACAAA
1 AATATATACAAA
9792686 AA
1 AA
9792688 AACATATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (12 bp):
AATATATACAAA
Found at i:9792717 original size:14 final size:14
Alignment explanation
Indices: 9792647--9792801 Score: 51
Period size: 14 Copynumber: 11.0 Consensus size: 14
9792637 TAATAGTATG
9792647 AATAATATAAT-T-
1 AATAATATAATATA
*
9792659 AATAATAT-ATACA
1 AATAATATAATATA
* *
9792672 AA-AATATATACAAA
1 AATAATATA-ATATA
*
9792686 AAAACATATAATATA
1 AATA-ATATAATATA
9792701 AATAATAT-ATATGA
1 AATAATATAATAT-A
* *
9792715 AAT-ATATGATGAAA
1 AATAATATAAT-ATA
* * *
9792729 AAT-TTAAAATGTA
1 AATAATATAATATA
9792742 TAATAATATAATAGATA
1 -AATAATATAAT--ATA
9792759 AAT-ATAGTGAA-ATA
1 AATAATA-T-AATATA
*
9792773 AATAATATATATATC
1 AATAATATA-ATATA
9792788 AA-AATAATAATATA
1 AATAAT-ATAATATA
9792802 TTGGATAATA
Statistics
Matches: 107, Mismatches: 17, Indels: 36
0.67 0.11 0.22
Matches are distributed among these distances:
11 2 0.02
12 13 0.12
13 12 0.11
14 41 0.38
15 26 0.24
16 9 0.08
17 4 0.04
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.32
Consensus pattern (14 bp):
AATAATATAATATA
Found at i:9792784 original size:21 final size:21
Alignment explanation
Indices: 9792746--9792802 Score: 64
Period size: 20 Copynumber: 2.7 Consensus size: 21
9792736 AATGTATAAT
* *
9792746 AATATAATAGATAAATATAGTGA
1 AATATAATA-ATATATATA-TCA
9792769 AATA-AATAATATATATATCA
1 AATATAATAATATATATATCA
9792789 AA-ATAATAATATAT
1 AATATAATAATATAT
9792803 TGGATAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 1 0.03
20 14 0.45
21 8 0.26
22 4 0.13
23 4 0.13
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (21 bp):
AATATAATAATATATATATCA
Found at i:9796927 original size:30 final size:30
Alignment explanation
Indices: 9796842--9796928 Score: 120
Period size: 30 Copynumber: 2.9 Consensus size: 30
9796832 ACGGCCATGA
* * * * *
9796842 CACACGGGCATGTGGTCTGCCCGTATGCCT
1 CACACGAGCGTGTGGTTTACCCGTGTGCCT
*
9796872 CACACGAGCGTGTGGTTTACTCGTGTGCCT
1 CACACGAGCGTGTGGTTTACCCGTGTGCCT
9796902 CACACGAGCGTGTGGTTTACCCGTGTG
1 CACACGAGCGTGTGGTTTACCCGTGTG
9796929 GAAGTGCCTG
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.14, C:0.29, G:0.31, T:0.26
Consensus pattern (30 bp):
CACACGAGCGTGTGGTTTACCCGTGTGCCT
Found at i:9800008 original size:112 final size:112
Alignment explanation
Indices: 9799785--9800013 Score: 300
Period size: 112 Copynumber: 2.0 Consensus size: 112
9799775 ATACTATTCT
* * * * *
9799785 CAATCTATTTCAATAAATGACAACGGTTTTAAATGTTTATAAAATTCAAAATCAAAATGGATTGA
1 CAATTTATTACAAAAAATGACAACAGTTTCAAATGTTTATAAAATTCAAAATCAAAATGGATTGA
* * *
9799850 TTAGCGACCATGCTAAAACCTATCTTTTAGTTACTAAGCTTTTTGGC
66 TTAGAGACCATGCTAAAACCAATCTTTTAGTTACTAAGCTTATTGGC
* *
9799897 CAATTTATTACAAAAAATGACAATAGTTTCAAATGTTTATAAAATTCAAAATCAAGAT-GAGTTG
1 CAATTTATTACAAAAAATGACAACAGTTTCAAATGTTTATAAAATTCAAAATCAAAATGGA-TTG
* * **
9799961 ATTAGAGATCATGCTATAACCAATCTTTTAGTTA-TTGGACTTATTGGC
65 ATTAGAGACCATGCTAAAACCAATCTTTTAGTTACTAAG-CTTATTGGC
9800009 CAATT
1 CAATT
9800014 AAAATGATGG
Statistics
Matches: 101, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
111 4 0.04
112 97 0.96
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.36
Consensus pattern (112 bp):
CAATTTATTACAAAAAATGACAACAGTTTCAAATGTTTATAAAATTCAAAATCAAAATGGATTGA
TTAGAGACCATGCTAAAACCAATCTTTTAGTTACTAAGCTTATTGGC
Found at i:9805423 original size:7 final size:8
Alignment explanation
Indices: 9805411--9805436 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
9805401 TAATTTTTAA
9805411 ATTTTTTT
1 ATTTTTTT
9805419 ATTTTTTT
1 ATTTTTTT
9805427 ATTTTTTT
1 ATTTTTTT
9805435 AT
1 AT
9805437 ATTGTCAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (8 bp):
ATTTTTTT
Found at i:9805424 original size:16 final size:16
Alignment explanation
Indices: 9805403--9805436 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9805393 TATACATATA
9805403 ATTTTTAAATTTTTTT
1 ATTTTTAAATTTTTTT
**
9805419 ATTTTTTTATTTTTTT
1 ATTTTTAAATTTTTTT
9805435 AT
1 AT
9805437 ATTGTCAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (16 bp):
ATTTTTAAATTTTTTT
Found at i:9808669 original size:21 final size:21
Alignment explanation
Indices: 9808644--9808688 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
9808634 TGGAGGGGTT
9808644 TTTCCACGTTAAATTTGTGTG
1 TTTCCACGTTAAATTTGTGTG
9808665 TTTCCACGTTAAATTTGTGTG
1 TTTCCACGTTAAATTTGTGTG
9808686 TTT
1 TTT
9808689 ATATTCCGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.18, C:0.13, G:0.18, T:0.51
Consensus pattern (21 bp):
TTTCCACGTTAAATTTGTGTG
Found at i:9809672 original size:30 final size:29
Alignment explanation
Indices: 9809637--9809739 Score: 100
Period size: 30 Copynumber: 3.4 Consensus size: 29
9809627 TTAATCACAT
* *
9809637 TAATATTAAACTAATAAAATATTGTCTAGA
1 TAATATTAAATTAATAAAATA-TATCTAGA
** *
9809667 TAATATTAAATTTAATTGAATATATCATA-T
1 TAATATTAAA-TTAATAAAATATATC-TAGA
9809697 TAATATTAAATTAATAAAATACTATCTAGA
1 TAATATTAAATTAATAAAATA-TATCTAGA
*
9809727 TAGATATTTAATT
1 TA-ATATTAAATT
9809740 TAATTTAATA
Statistics
Matches: 59, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
29 11 0.19
30 29 0.49
31 19 0.32
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.42
Consensus pattern (29 bp):
TAATATTAAATTAATAAAATATATCTAGA
Found at i:9809728 original size:60 final size:61
Alignment explanation
Indices: 9809630--9809764 Score: 200
Period size: 60 Copynumber: 2.2 Consensus size: 61
9809620 ATTAGAATTA
* *
9809630 ATCACATTAATATTAAACTAATAAAATATTGTCTAGATA-ATATTAAATTTAATTGAATAT
1 ATCACATTAATATTAAACTAATAAAATACTATCTAGATAGATATTAAATTTAATTGAATAT
* * * *
9809690 ATCATATTAATATTAAATTAATAAAATACTATCTAGATAGATATTTAATTTAATTTAATAT
1 ATCACATTAATATTAAACTAATAAAATACTATCTAGATAGATATTAAATTTAATTGAATAT
*
9809751 CTCACATTAATATT
1 ATCACATTAATATT
9809765 TAGATTAAAT
Statistics
Matches: 66, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
60 35 0.53
61 31 0.47
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (61 bp):
ATCACATTAATATTAAACTAATAAAATACTATCTAGATAGATATTAAATTTAATTGAATAT
Found at i:9809764 original size:30 final size:30
Alignment explanation
Indices: 9809667--9809781 Score: 99
Period size: 31 Copynumber: 3.8 Consensus size: 30
9809657 ATTGTCTAGA
* * *
9809667 TAATATTAAATTTAATTGAATATATCATAT
1 TAATATTTAATTTAATTTAATATATCACAT
* ** *
9809697 TAATA-TTAAATTAATAAAATACTATCTAGA-
1 TAATATTTAATTTAATTTAATA-TATC-ACAT
*
9809727 TAGATATTTAATTTAATTTAATATCTCACAT
1 TA-ATATTTAATTTAATTTAATATATCACAT
*
9809758 TAATATTTAGATTAAATTTAATAT
1 TAATATTTA-ATTTAATTTAATAT
9809782 TAAATTCATT
Statistics
Matches: 68, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
29 12 0.18
30 20 0.29
31 23 0.34
32 13 0.19
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.45
Consensus pattern (30 bp):
TAATATTTAATTTAATTTAATATATCACAT
Found at i:9816282 original size:27 final size:27
Alignment explanation
Indices: 9816252--9816433 Score: 204
Period size: 27 Copynumber: 6.8 Consensus size: 27
9816242 AGGCAGACCA
* ** **
9816252 TTCAGAGTTCACCACAAAAACTATTTT
1 TTCAGAGTTCGCCACAAAGGCTATCCT
**
9816279 TTCAGAGTTTTCCACAAAGGCTATCCT
1 TTCAGAGTTCGCCACAAAGGCTATCCT
9816306 TTCAGAGTTCGCCAC-AAGGCTATCCT
1 TTCAGAGTTCGCCACAAAGGCTATCCT
*
9816332 TTCAAAGTTCGCCACAAAGGCTATCCT
1 TTCAGAGTTCGCCACAAAGGCTATCCT
* * *
9816359 TTCAGAGTTCACCATAAAGGCTATTCT
1 TTCAGAGTTCGCCACAAAGGCTATCCT
* * * * **
9816386 TTTAAAGTTGGCCACAAAGTCTATTGT
1 TTCAGAGTTCGCCACAAAGGCTATCCT
9816413 TTCAGAGTTCGCCACAAAGGC
1 TTCAGAGTTCGCCACAAAGGC
9816434 CATCAAAATG
Statistics
Matches: 130, Mismatches: 24, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
26 25 0.19
27 105 0.81
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (27 bp):
TTCAGAGTTCGCCACAAAGGCTATCCT
Found at i:9822721 original size:15 final size:15
Alignment explanation
Indices: 9822701--9822732 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
9822691 TATTTCACTA
*
9822701 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
9822716 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
9822731 TT
1 TT
9822733 TGCATGCATA
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:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:9829414 original size:18 final size:19
Alignment explanation
Indices: 9829377--9829428 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 19
9829367 ATTTTATATA
*
9829377 TATATATATATATGTACTTT
1 TATATATAAATATG-ACTTT
9829397 TATATATAAATATG-CTTT
1 TATATATAAATATGACTTT
*
9829415 TAT-TTTAAATATGA
1 TATATATAAATATGA
9829429 TAATAATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 9 0.31
18 7 0.24
20 13 0.45
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.52
Consensus pattern (19 bp):
TATATATAAATATGACTTT
Found at i:9841232 original size:16 final size:17
Alignment explanation
Indices: 9841194--9841234 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
9841184 ATTTTTTTAA
*
9841194 AATATAATACATATATT
1 AATAAAATACATATATT
*
9841211 AA-AAAATACTTA-ATT
1 AATAAAATACATATATT
9841226 AATAAAATA
1 AATAAAATA
9841235 TAAATAATCC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 5 0.24
16 14 0.67
17 2 0.10
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (17 bp):
AATAAAATACATATATT
Found at i:9841242 original size:18 final size:19
Alignment explanation
Indices: 9841191--9841291 Score: 55
Period size: 20 Copynumber: 5.2 Consensus size: 19
9841181 ATTATTTTTT
*
9841191 TAAAATAT-AATACATATAT
1 TAAAATATAAATA-ATATAA
* **
9841210 TAAAAAATACTTAAT-TAA
1 TAAAATATAAATAATATAA
9841228 TAAAATATAAATAATCCAT-A
1 TAAAATATAAATAAT--ATAA
**
9841248 TATCATATAAAATAATATAA
1 TAAAATAT-AAATAATATAA
* * *
9841268 TAATATATAATAAAATAAAA
1 TAAAATATAA-ATAATATAA
9841288 TAAA
1 TAAA
9841292 TGGATTTCCA
Statistics
Matches: 61, Mismatches: 14, Indels: 13
0.69 0.16 0.15
Matches are distributed among these distances:
18 14 0.23
19 13 0.21
20 26 0.43
21 8 0.13
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (19 bp):
TAAAATATAAATAATATAA
Found at i:9843707 original size:20 final size:20
Alignment explanation
Indices: 9843662--9843708 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
9843652 TTTTTTTTTA
*
9843662 TTTTCATTACTTTAAAATGT
1 TTTTTATTACTTTAAAATGT
*
9843682 TATTTTATTATTTTAAATAT-T
1 T-TTTTATTACTTTAAA-ATGT
9843703 TTTTTA
1 TTTTTA
9843709 AAATTAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 6 0.26
21 15 0.65
22 2 0.09
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (20 bp):
TTTTTATTACTTTAAAATGT
Found at i:9844345 original size:44 final size:41
Alignment explanation
Indices: 9844272--9844363 Score: 121
Period size: 44 Copynumber: 2.2 Consensus size: 41
9844262 ATAGTAACAT
*
9844272 ATAAAATATGTACAAAATTAAACTGTAAATATTATACTAAA
1 ATAAAATATGTACAAAATTAAAATGTAAATATTATACTAAA
* * *
9844313 ATAAAATATGTATAATGCAATTAAAATTTAAATATTATATTAAA
1 ATAAAATATGTACAA---AATTAAAATGTAAATATTATACTAAA
9844357 ATAAAAT
1 ATAAAAT
9844364 TTTAATTTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
41 14 0.32
44 30 0.68
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.35
Consensus pattern (41 bp):
ATAAAATATGTACAAAATTAAAATGTAAATATTATACTAAA
Found at i:9844390 original size:25 final size:25
Alignment explanation
Indices: 9844317--9844392 Score: 75
Period size: 24 Copynumber: 3.0 Consensus size: 25
9844307 ACTAAAATAA
** *
9844317 AATATGTATAATGCAATTAAAATTTA
1 AATAT-TATAATAAAATTAAAATTTT
*
9844343 AATATTATATTAAAA-TAAAATTTT
1 AATATTATAATAAAATTAAAATTTT
*
9844367 AAT-TTAATAATAAAATTAATATTTT
1 AATATT-ATAATAAAATTAAAATTTT
9844392 A
1 A
9844393 TTAATTTAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
23 2 0.05
24 19 0.45
25 16 0.38
26 5 0.12
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (25 bp):
AATATTATAATAAAATTAAAATTTT
Found at i:9845496 original size:2 final size:2
Alignment explanation
Indices: 9845489--9845520 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
9845479 AAAATTAGGA
9845489 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
9845521 TCGAATAGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:9857482 original size:302 final size:301
Alignment explanation
Indices: 9856937--9857517 Score: 1101
Period size: 302 Copynumber: 1.9 Consensus size: 301
9856927 ATTCTTCACC
*
9856937 ATGCTGAAACTAATTATCCCGATGTGGTCTCTGTTAACAATACCCGTGGCACCAATATGATTCAT
1 ATGCTGAAACTAATTATCCCGATGTGGTCTCTGTTAACAATACCCGTGACACCAATATGATTCAT
*
9857002 CTAAAGGTCTGTTGATCTTTGAAATTAATTGAAAATTTAGGGTGACCAATCAAGCAGTTTTCTTT
66 CTAAAGGTCTGTTGATCTTTGAAATTAATTGAAAACTTAGGGTGACCAATCAAGCAGTTTTCTTT
*
9857067 CTCTTTTTACTTCTATTGCTTTACGATTTATCATATAGACTGCACTGCATAAAAGATCTCATTCA
131 CTCTTTTTACTTCTATTGCTTTACAATTTATCATATAGACTGCACTGCATAAAAGATCTCATTCA
9857132 AGCGCACAACAAATTTACCTCAAGCTATATCATTTAATCAAATGTTCTGCTTGAAGGCAATGCGA
196 AGCGCACAACAAATTTACCTCAAGCTATATCATTTAATCAAATGTTCTGCTTGAAGGCAATGCGA
9857197 CATGGTAGAGCTCTTCTCCATGTTTATGCAGTGCAGTCTAT
261 CATGGTAGAGCTCTTCTCCATGTTTATGCAGTGCAGTCTAT
9857238 ATGCTGAAACTAATTA-CCCTGATGTGGTCTCTGTTAACAATACCCGTGACACCAATATGATTCA
1 ATGCTGAAACTAATTATCCC-GATGTGGTCTCTGTTAACAATACCCGTGACACCAATATGATTCA
9857302 TCTAAAGGTCTGTTGATCTCTTGAAATTAATTGAAAACTTAGGGTGACCAATCAAGCAGTTTTCT
65 TCTAAAGGTCTGTTGATCT-TTGAAATTAATTGAAAACTTAGGGTGACCAATCAAGCAGTTTTCT
*
9857367 TTCTCTTTTTACTTCTATTGCTTTACAATTTATCATATAGACTGCACTGCATACAAGATCTCATT
129 TTCTCTTTTTACTTCTATTGCTTTACAATTTATCATATAGACTGCACTGCATAAAAGATCTCATT
9857432 CAAGCGCACAACAAATTTACCTCAAGCTATATCATTTAATCAAATGTTCTGCTTGAAGGCAATGC
194 CAAGCGCACAACAAATTTACCTCAAGCTATATCATTTAATCAAATGTTCTGCTTGAAGGCAATGC
9857497 GACATGGTAGAGCTCTTCTCC
259 GACATGGTAGAGCTCTTCTCC
9857518 GAGTATCAAT
Statistics
Matches: 274, Mismatches: 4, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
300 3 0.01
301 78 0.28
302 193 0.70
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (301 bp):
ATGCTGAAACTAATTATCCCGATGTGGTCTCTGTTAACAATACCCGTGACACCAATATGATTCAT
CTAAAGGTCTGTTGATCTTTGAAATTAATTGAAAACTTAGGGTGACCAATCAAGCAGTTTTCTTT
CTCTTTTTACTTCTATTGCTTTACAATTTATCATATAGACTGCACTGCATAAAAGATCTCATTCA
AGCGCACAACAAATTTACCTCAAGCTATATCATTTAATCAAATGTTCTGCTTGAAGGCAATGCGA
CATGGTAGAGCTCTTCTCCATGTTTATGCAGTGCAGTCTAT
Found at i:9862090 original size:22 final size:22
Alignment explanation
Indices: 9862062--9862104 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
9862052 CTAAAACTCA
9862062 AAAAAATAAAATTCCTTATTTT
1 AAAAAATAAAATTCCTTATTTT
9862084 AAAAAATAAAATTCCTTATTT
1 AAAAAATAAAATTCCTTATTT
9862105 GAATTGATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (22 bp):
AAAAAATAAAATTCCTTATTTT
Found at i:9870304 original size:17 final size:17
Alignment explanation
Indices: 9870282--9870330 Score: 89
Period size: 17 Copynumber: 2.9 Consensus size: 17
9870272 TTATCCATTT
*
9870282 ATTTTATTGTAATTTAA
1 ATTTTATTTTAATTTAA
9870299 ATTTTATTTTAATTTAA
1 ATTTTATTTTAATTTAA
9870316 ATTTTATTTTAATTT
1 ATTTTATTTTAATTT
9870331 TGTTTATATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (17 bp):
ATTTTATTTTAATTTAA
Found at i:9883769 original size:30 final size:30
Alignment explanation
Indices: 9883735--9883791 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
9883725 AAGCAGTTCT
*
9883735 ACACGGGTA-ATCCACACGCCCGTGTGTGAC
1 ACACGGGTAGA-CCACACACCCGTGTGTGAC
9883765 ACACGGGTAGACCACACACCCGTGTGT
1 ACACGGGTAGACCACACACCCGTGTGT
9883792 CATGGCCATG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.25, C:0.33, G:0.26, T:0.16
Consensus pattern (30 bp):
ACACGGGTAGACCACACACCCGTGTGTGAC
Found at i:9885688 original size:43 final size:42
Alignment explanation
Indices: 9885533--9885689 Score: 138
Period size: 43 Copynumber: 3.7 Consensus size: 42
9885523 ATGTGTTATC
* * * *
9885533 GTGTAAGACCACGTCTAGGATGTTGGAATTGA-ATTATGATTA
1 GTGTAAGACCACGTCTGGGACGTTGGCATCGATATT-TGATTA
* *
9885575 TGTGTAAGACCACATATGGGACGTTGGCATCG-TATTTGATTTA
1 -GTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGA-TTA
** * * **
9885618 GTGTAAGACCTTGTTTGGAACAATGGCATCGATATTTGATTA
1 GTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTA
* *
9885660 CATGTAAGACCACGTCTGGGATGTTGGCAT
1 -GTGTAAGACCACGTCTGGGACGTTGGCAT
9885690 TGTACAAGCT
Statistics
Matches: 89, Mismatches: 21, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
42 30 0.34
43 59 0.66
ACGTcount: A:0.27, C:0.13, G:0.26, T:0.33
Consensus pattern (42 bp):
GTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTA
Found at i:9887503 original size:84 final size:82
Alignment explanation
Indices: 9887286--9887504 Score: 249
Period size: 74 Copynumber: 2.7 Consensus size: 82
9887276 GCTGGGAAAA
* * * *
9887286 AAATCCCAAAACAAATTTTATTTACTTTTAATTC-TAATTTGGAAACAAAATAAAATCAGATAAA
1 AAATCCCGAAACAAATTTTATTTAATTTTAATTCTTGATTTGGAAACAAAAT-TAA--A-ATAAA
*
9887350 ATTTTGGTAAACGGCAGGAAT
62 ATCTTGGTAAACGGCAGGAAT
*
9887371 AAATCCTGAAACAAATTTTATTTAA-TTTAATT-TTGATTTGG-----AAA-TAAAATAAAATCT
1 AAATCCCGAAACAAATTTTATTTAATTTTAATTCTTGATTTGGAAACAAAATTAAAATAAAATCT
*
9887428 TGTTAAACGGCAGGAAT
66 TGGTAAACGGCAGGAAT
*
9887445 AAATCCCGAAACAAATTTTATTTAATTTTAATTTCTTGTTTTTGGAAACAAAATTAAAAT
1 AAATCCCGAAACAAATTTTATTTAATTTTAA-TTCTTG-ATTTGGAAACAAAATTAAAAT
9887505 GTAATAAATT
Statistics
Matches: 114, Mismatches: 9, Indels: 23
0.78 0.06 0.16
Matches are distributed among these distances:
74 48 0.42
75 6 0.05
76 2 0.02
77 5 0.04
78 5 0.04
79 3 0.03
83 3 0.03
84 20 0.18
85 22 0.19
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.36
Consensus pattern (82 bp):
AAATCCCGAAACAAATTTTATTTAATTTTAATTCTTGATTTGGAAACAAAATTAAAATAAAATCT
TGGTAAACGGCAGGAAT
Found at i:9887564 original size:78 final size:78
Alignment explanation
Indices: 9887469--9887672 Score: 236
Period size: 79 Copynumber: 2.6 Consensus size: 78
9887459 ATTTTATTTA
* * * * * * *
9887469 ATTTTAATTT-CTTGTTTTTGGAAACAAAATTAAAA-TGTAATAAATTCGTTGAATAG-TGGGAA
1 ATTTTATTTTACTCGTTTTTGGAAATAAAA-CAAAATTGGAATAAAATCGTTGAA-AGACGGGAA
*
9887531 -CAAATCCCGAAACGG
64 TC-AATCCCGAAACAG
* *
9887546 ATTTTATTTTACTCGTTTTTGGAAATAAAACAAAATTTGGAATAAAATCGTTGCACGACGGGAAT
1 ATTTTATTTTACTCGTTTTTGGAAATAAAACAAAA-TTGGAATAAAATCGTTGAAAGACGGGAAT
9887611 CAATCCCGAAACAG
65 CAATCCCGAAACAG
*
9887625 ATTTTATTTTACTCGTTTTTGTAAATAAAACAAAATTTGGAATAAAAT
1 ATTTTATTTTACTCGTTTTTGGAAATAAAACAAAA-TTGGAATAAAAT
9887673 TTGTAACACC
Statistics
Matches: 111, Mismatches: 11, Indels: 8
0.85 0.08 0.06
Matches are distributed among these distances:
77 13 0.12
78 18 0.16
79 79 0.71
80 1 0.01
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (78 bp):
ATTTTATTTTACTCGTTTTTGGAAATAAAACAAAATTGGAATAAAATCGTTGAAAGACGGGAATC
AATCCCGAAACAG
Done.