Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 101 of 185
Found at i:31857609 original size:174 final size:174
Alignment explanation
Indices: 31857318--31857819 Score: 932
Period size: 174 Copynumber: 2.9 Consensus size: 174
31857308 AACTCAAGGT
* *
31857318 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
31857383 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
31857448 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
31857492 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
31857557 GAAAATATATATTGGGTTCTCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
31857622 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
* *
31857666 AGTTACCTTTTCCACTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
31857731 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
*
31857796 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
31857820 TGTACAATTT
Statistics
Matches: 318, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 318 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:31857811 original size:29 final size:30
Alignment explanation
Indices: 31857772--31857850 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
31857762 CTTAATAATC
31857772 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
31857802 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
31857831 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
31857851 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:31865803 original size:29 final size:29
Alignment explanation
Indices: 31865740--31865807 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
31865730 TAATCAACCG
*
31865740 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
31865769 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
31865798 CGCACACTTA
1 CGCACACTTA
31865808 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:31865977 original size:29 final size:29
Alignment explanation
Indices: 31865914--31865981 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
31865904 TAATCAACCG
31865914 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
31865943 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
31865972 CGCACACTTA
1 CGCACACTTA
31865982 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:31866122 original size:29 final size:30
Alignment explanation
Indices: 31866083--31866161 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
31866073 CTTAATAATC
31866083 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
31866113 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
31866142 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
31866162 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:31866155 original size:174 final size:174
Alignment explanation
Indices: 31865629--31866130 Score: 968
Period size: 174 Copynumber: 2.9 Consensus size: 174
31865619 AACTCAAGGT
* *
31865629 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
31865694 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
31865759 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
31865803 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
31865868 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
31865933 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
31865977 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
31866042 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
*
31866107 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
31866131 TGTACAATTT
Statistics
Matches: 323, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 323 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:31867877 original size:33 final size:34
Alignment explanation
Indices: 31867840--31867911 Score: 101
Period size: 33 Copynumber: 2.1 Consensus size: 34
31867830 GAGTTAGTTT
31867840 ATTAAATTTAATTCAACTCAAATAAGTGTTAG-A
1 ATTAAATTTAATTCAACTCAAATAAGTGTTAGTA
* * * *
31867873 ATTAATTTTAGTTCAGCTTAAATAAGTGTTAGTA
1 ATTAAATTTAATTCAACTCAAATAAGTGTTAGTA
31867907 ATTAA
1 ATTAA
31867912 TTTGTTTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 28 0.82
34 6 0.18
ACGTcount: A:0.42, C:0.07, G:0.11, T:0.40
Consensus pattern (34 bp):
ATTAAATTTAATTCAACTCAAATAAGTGTTAGTA
Found at i:31871368 original size:16 final size:17
Alignment explanation
Indices: 31871349--31871387 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
31871339 GTCCTATATC
31871349 TTTCTTT-AACTTT-TT
1 TTTCTTTAAACTTTATT
31871364 GTTTCTTTAAACTTTATT
1 -TTTCTTTAAACTTTATT
31871382 TTTCTT
1 TTTCTT
31871388 CTTTTCCCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.33
17 12 0.57
18 2 0.10
ACGTcount: A:0.15, C:0.13, G:0.03, T:0.69
Consensus pattern (17 bp):
TTTCTTTAAACTTTATT
Found at i:31875454 original size:20 final size:20
Alignment explanation
Indices: 31875429--31875473 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
31875419 AATGTGTCTT
31875429 GTCTTAACCGAATTAATTGG
1 GTCTTAACCGAATTAATTGG
** *
31875449 GTCTTAACTTAATTAATTGT
1 GTCTTAACCGAATTAATTGG
31875469 GTCTT
1 GTCTT
31875474 GTTCTATTTA
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:0.27, C:0.13, G:0.16, T:0.44
Consensus pattern (20 bp):
GTCTTAACCGAATTAATTGG
Found at i:31916606 original size:36 final size:36
Alignment explanation
Indices: 31916559--31916628 Score: 113
Period size: 36 Copynumber: 1.9 Consensus size: 36
31916549 CATGGGTCAA
*
31916559 AATATATATATATCACTTGTCAGTCAACCTTGTGTC
1 AATATATATATATCACTTGCCAGTCAACCTTGTGTC
* *
31916595 AATATATATATATCAGTTGCCAGTCAACGTTGTG
1 AATATATATATATCACTTGCCAGTCAACCTTGTG
31916629 CATTTGTTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.37
Consensus pattern (36 bp):
AATATATATATATCACTTGCCAGTCAACCTTGTGTC
Found at i:31916767 original size:20 final size:20
Alignment explanation
Indices: 31916734--31916772 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
31916724 AAAAACTTTA
*
31916734 AAATCAACTTGAAATTAAAG
1 AAATCAACTAGAAATTAAAG
*
31916754 AAATCGACTAGAAATTAAA
1 AAATCAACTAGAAATTAAA
31916773 AGCTCAATAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.56, C:0.10, G:0.10, T:0.23
Consensus pattern (20 bp):
AAATCAACTAGAAATTAAAG
Found at i:31926448 original size:36 final size:37
Alignment explanation
Indices: 31926403--31926477 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 37
31926393 ATATGGATGT
* * *
31926403 TAATTTAAAAATAGTATATAATAA-CAATGAAATTTA
1 TAATTTAAAAATAATAAATAATAACCAATGAAATATA
* *
31926439 TAATTTAAAACTAATAAATAATAACCTATGAAATATA
1 TAATTTAAAAATAATAAATAATAACCAATGAAATATA
31926476 TA
1 TA
31926478 CAATATTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
36 21 0.64
37 12 0.36
ACGTcount: A:0.56, C:0.05, G:0.04, T:0.35
Consensus pattern (37 bp):
TAATTTAAAAATAATAAATAATAACCAATGAAATATA
Found at i:31937394 original size:12 final size:12
Alignment explanation
Indices: 31937373--31937404 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
31937363 TGCCATACAC
31937373 GGCCGTGTGCTA
1 GGCCGTGTGCTA
*
31937385 GGCTGTGTGCTA
1 GGCCGTGTGCTA
31937397 GGCCGTGT
1 GGCCGTGT
31937405 AACTCACTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.06, C:0.22, G:0.44, T:0.28
Consensus pattern (12 bp):
GGCCGTGTGCTA
Found at i:31943272 original size:21 final size:21
Alignment explanation
Indices: 31943246--31943288 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
31943236 TCGTAGCCAT
31943246 ATTACACAAAAGAGTGTTCTA
1 ATTACACAAAAGAGTGTTCTA
31943267 ATTACACAAAAGAGTGTTCTA
1 ATTACACAAAAGAGTGTTCTA
31943288 A
1 A
31943289 GCTTTCTCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (21 bp):
ATTACACAAAAGAGTGTTCTA
Found at i:31947772 original size:64 final size:64
Alignment explanation
Indices: 31947629--31947773 Score: 188
Period size: 64 Copynumber: 2.2 Consensus size: 64
31947619 AGTAGATGAT
* * *
31947629 GTGGTTTTGCGGAGGTTCGGATGGGCGTTAAGAGGGCTATGCGGGGTATGACTATTATGACTATA
1 GTGG-TTTGCTGAGGTTCGGATGGACGTTAAGAGGGCTATGCGGAGTATGACTATTATGACTATA
* *
31947694 -CGGTTT-CGTGGAGGTTCGGATGGACTTTAAGAGGGCTATGCGGAGTATGACTATTATGACTA-
1 GTGGTTTGC-T-GAGGTTCGGATGGACGTTAAGAGGGCTATGCGGAGTATGACTATTATGACTAT
31947756 A
64 A
31947757 GTGGCTTTGCTGAGGTT
1 GTGG-TTTGCTGAGGTT
31947774 TGGGTTGGTT
Statistics
Matches: 69, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
62 1 0.01
63 4 0.06
64 59 0.86
65 4 0.06
66 1 0.01
ACGTcount: A:0.20, C:0.12, G:0.37, T:0.32
Consensus pattern (64 bp):
GTGGTTTGCTGAGGTTCGGATGGACGTTAAGAGGGCTATGCGGAGTATGACTATTATGACTATA
Found at i:31951896 original size:27 final size:27
Alignment explanation
Indices: 31951858--31951909 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
31951848 CTAAGATTAC
31951858 AAAAATGAGCTAGTTAGAACTTAGACA
1 AAAAATGAGCTAGTTAGAACTTAGACA
*
31951885 AAAAATGGGCTAGTTAGAACTTAGA
1 AAAAATGAGCTAGTTAGAACTTAGA
31951910 AATCAATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.46, C:0.10, G:0.21, T:0.23
Consensus pattern (27 bp):
AAAAATGAGCTAGTTAGAACTTAGACA
Found at i:31952721 original size:27 final size:27
Alignment explanation
Indices: 31952683--31952765 Score: 87
Period size: 27 Copynumber: 3.1 Consensus size: 27
31952673 ATACAAAGTA
* *
31952683 GTGGCGCCTATCTCAGAGGCGCCAATG
1 GTGGTGCCTATCTAAGAGGCGCCAATG
* * * * *
31952710 GTGGTGCCTATCTGACAGGCACCATTA
1 GTGGTGCCTATCTAAGAGGCGCCAATG
31952737 GTGGTGCC-ATGCTAAGAGGCGCCAATG
1 GTGGTGCCTAT-CTAAGAGGCGCCAATG
31952764 GT
1 GT
31952766 CTTATTTTTC
Statistics
Matches: 44, Mismatches: 11, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
26 2 0.05
27 42 0.95
ACGTcount: A:0.20, C:0.25, G:0.33, T:0.22
Consensus pattern (27 bp):
GTGGTGCCTATCTAAGAGGCGCCAATG
Found at i:31954073 original size:27 final size:28
Alignment explanation
Indices: 31954014--31954073 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
31954004 AAATAAGACC
31954014 ATTGGCGCCTCTCAACATGGCACCACTA
1 ATTGGCGCCTCTCAACATGGCACCACTA
* *
31954042 A-TGGCGTCTGTCAA-ATAGGCACCAC-A
1 ATTGGCGCCTCTCAACAT-GGCACCACTA
31954068 ATTGGC
1 ATTGGC
31954074 ACCACTACTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
26 4 0.14
27 23 0.82
28 1 0.04
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.22
Consensus pattern (28 bp):
ATTGGCGCCTCTCAACATGGCACCACTA
Found at i:31954485 original size:3 final size:3
Alignment explanation
Indices: 31954477--31954555 Score: 158
Period size: 3 Copynumber: 26.3 Consensus size: 3
31954467 GCCAAAAATA
31954477 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
31954525 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
31954556 TTCCATAACC
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 76 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:31964410 original size:276 final size:277
Alignment explanation
Indices: 31963660--31964432 Score: 1158
Period size: 275 Copynumber: 2.8 Consensus size: 277
31963650 TACAGTTTCT
* * *
31963660 GCTGCTCATCAATGTGGATGATTCTGTCTAGCAAAATATTATCTAATGCTTAAACTGCCATTGAC
1 GCTGCTCATCAATGTGGATGATTCTGTCGAGCAAAATATTATCCAATGC-TAAACAGCCATTGAC
* * *
31963725 CATTTTACTTCCAAGTAGACTACCAGTCATGTGGATAGGATTTTCTACTGAGTAACCTTTTGCTC
65 CATTCTACTTCCAAGTAGACTACCATTCATGTGGATAGGATTTTCTACCGAGTAACCTTTTGCTC
* *
31963790 AATGATCCATCTTTTTGGTCTAGCTGATTTATGGCAACCCTTTTAAAAGCAGTTCCAATGATACA
130 AATGATCCATCTTTTTGATCTAGCTGATTTATGGTAACCCTTTT--AAGCAGTTCCAATGATACA
* * *
31963855 AAATGTAGTTTGACTCATACCCATTCACGTGGATAGGATTTTCTACCAAGTAACCTTATGCTCAA
193 AAAAGTAGTTTGACCCATACCCATTCACGTGAATAGGATTTTCTACCAAGTAACCTTATGCTCAA
31963920 TGATCCATCTTTTTGATCTA
258 TGATCCATCTTTTTGATCTA
* ** ***
31963940 GCTGTTTGTCAATGTGGATGATTCTGTCTG-GCAAAATATTATCCAATGCTTGGCAGCCATTGAC
1 GCTGCTCATCAATGTGGATGATTCTGTC-GAGCAAAATATTATCCAATGCTAAACAGCCATTGAC
* *
31964004 CATTCTACTTCCAAGCAGACTACCATTCATGTGGATAGGATTTTCTACC-AGGTAGCCTTTTGCT
65 CATTCTACTTCCAAGTAGACTACCATTCATGTGGATAGGATTTTCTACCGA-GTAACCTTTTGCT
**
31964068 CAATGATCCATCTTTTTGATCTAGCTGATTTATGGTAGTCCTTTTAAGCAGTTCCAATGATACAA
129 CAATGATCCATCTTTTTGATCTAGCTGATTTATGGTAACCCTTTTAAGCAGTTCCAATGATACAA
* * * * *
31964133 AAAGTAGTTTGACCCAT-TCCATTCATGTGAATAGGATTTTCTA-CGAGTAACCTTTTGTTCAAT
194 AAAGTAGTTTGACCCATACCCATTCACGTGAATAGGATTTTCTACCAAGTAACCTTATGCTCAAT
*
31964196 GATTCATCTTTTTGATCTA
259 GATCCATCTTTTTGATCTA
* * *
31964215 GCTGCTCATTAGTGTGGATGATTCTGTCGAGCAAAATATTATCCAATTCTAAACAGCCATTGACC
1 GCTGCTCATCAATGTGGATGATTCTGTCGAGCAAAATATTATCCAATGCTAAACAGCCATTGACC
* * *
31964280 ATTCTACTTACAAGTAGATTACCATTCATGTGGATAGGATTTTCTACCGAGTAACCTTTTTACTC
66 ATTCTACTTCCAAGTAGACTACCATTCATGTGGATAGGATTTTCTACCGAGTAACC-TTTTGCTC
*
31964345 AATGATCCGTCTTTTTGATCTAGCTGATTTATGGTAACCCTTTTAAGCAGTTCCAATGATACAAA
130 AATGATCCATCTTTTTGATCTAGCTGATTTATGGTAACCCTTTTAAGCAGTTCCAATGATACAAA
31964410 AAGTAGTTTGACCCATACCCATT
195 AAGTAGTTTGACCCATACCCATT
31964433 AGCTGGATCC
Statistics
Matches: 442, Mismatches: 45, Indels: 15
0.88 0.09 0.03
Matches are distributed among these distances:
274 1 0.00
275 139 0.31
276 109 0.25
277 40 0.09
278 1 0.00
279 109 0.25
280 43 0.10
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.36
Consensus pattern (277 bp):
GCTGCTCATCAATGTGGATGATTCTGTCGAGCAAAATATTATCCAATGCTAAACAGCCATTGACC
ATTCTACTTCCAAGTAGACTACCATTCATGTGGATAGGATTTTCTACCGAGTAACCTTTTGCTCA
ATGATCCATCTTTTTGATCTAGCTGATTTATGGTAACCCTTTTAAGCAGTTCCAATGATACAAAA
AGTAGTTTGACCCATACCCATTCACGTGAATAGGATTTTCTACCAAGTAACCTTATGCTCAATGA
TCCATCTTTTTGATCTA
Found at i:31967925 original size:20 final size:20
Alignment explanation
Indices: 31967897--31967936 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
31967887 CTCTAATTAG
*
31967897 AATCTCTAAAAATCAGCTAT
1 AATCCCTAAAAATCAGCTAT
* *
31967917 AATCCCTAAAGATTAGCTAT
1 AATCCCTAAAAATCAGCTAT
31967937 TCAATGCTGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.30
Consensus pattern (20 bp):
AATCCCTAAAAATCAGCTAT
Found at i:31974984 original size:22 final size:22
Alignment explanation
Indices: 31974919--31974987 Score: 63
Period size: 22 Copynumber: 3.3 Consensus size: 22
31974909 ATTATTATTA
*
31974919 AATATAA-TTAAT-AAAATAAT
1 AATATAATTTAATAAAAATCAT
* *** *
31974939 -ATATATTTTAATAACCTTCTT
1 AATATAATTTAATAAAAATCAT
31974960 AATATAATTTAATAAAAATCAT
1 AATATAATTTAATAAAAATCAT
31974982 AATATA
1 AATATA
31974988 TATAATATTA
Statistics
Matches: 35, Mismatches: 11, Indels: 4
0.70 0.22 0.08
Matches are distributed among these distances:
19 5 0.14
20 5 0.14
21 3 0.09
22 22 0.63
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.41
Consensus pattern (22 bp):
AATATAATTTAATAAAAATCAT
Found at i:31984526 original size:13 final size:13
Alignment explanation
Indices: 31984508--31984532 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31984498 TAATGGTATA
31984508 TTGAATCCATGAC
1 TTGAATCCATGAC
31984521 TTGAATCCATGA
1 TTGAATCCATGA
31984533 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:31985114 original size:27 final size:27
Alignment explanation
Indices: 31985076--31985250 Score: 190
Period size: 27 Copynumber: 6.4 Consensus size: 27
31985066 TAAATTGTAC
*
31985076 AGCACTAAGTGTGCGGTTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
31985103 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
31985129 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
31985157 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
31985185 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
31985212 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
31985239 AGCACTGAGTGT
1 AGCACTAAGTGT
31985251 TCGGGCTCAA
Statistics
Matches: 125, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 102 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:31985190 original size:82 final size:81
Alignment explanation
Indices: 31985077--31985232 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
31985067 AAATTGTACA
* *
31985077 GCACTAAGTGTGCGGTTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGGTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
31985141 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
31985158 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCG-GTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
31985223 TGCGAGTTGA
65 TGCGAATTGA
31985233 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 14 0.21
82 52 0.78
83 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGGTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:31985244 original size:82 final size:81
Alignment explanation
Indices: 31985073--31985250 Score: 223
Period size: 82 Copynumber: 2.2 Consensus size: 81
31985063 GATTAAATTG
* *
31985073 TACAGCACTAAGTGTGCGGTTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGGTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
31985138 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
31985154 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCG-GTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
31985218 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
31985236 TATAGCACTGAGTGT
1 TACAGCACTAAGTGT
31985251 TCGGGCTCAA
Statistics
Matches: 81, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 17 0.21
82 64 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGGTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:31996603 original size:20 final size:20
Alignment explanation
Indices: 31996571--31996619 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
31996561 NNNNNNNNNG
31996571 CTTAATT-AACCTTAATTTTA
1 CTTAATTAAACCTT-ATTTTA
31996591 -TTAATTAAACCTTATTTTA
1 CTTAATTAAACCTTATTTTA
31996610 CTTAAGTTAA
1 CTTAA-TTAA
31996620 TGGTCCCCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 12 0.46
20 10 0.38
21 4 0.15
ACGTcount: A:0.37, C:0.12, G:0.02, T:0.49
Consensus pattern (20 bp):
CTTAATTAAACCTTATTTTA
Found at i:32006781 original size:27 final size:27
Alignment explanation
Indices: 32006751--32006925 Score: 174
Period size: 27 Copynumber: 6.4 Consensus size: 27
32006741 TTGAGCCCGA
* *
32006751 ACACTCAGTGCTATATAATCAACTCGC
1 ACACTTAGTGCTACATAATCAACTCGC
* *
32006778 ACACTTAGTGCTACGTAATCAAATCGC
1 ACACTTAGTGCTACATAATCAACTCGC
*
32006805 ACACTTAGTGCTACATAGTCAAACTCGC
1 ACACTTAGTGCTACATAATC-AACTCGC
** ** *
32006833 ACACTTAGTGCCGCATGGTCAATTCGC
1 ACACTTAGTGCTACATAATCAACTCGC
* **
32006860 ACACTTAGTGC-ATCATATTCATTTCGC
1 ACACTTAGTGCTA-CATAATCAACTCGC
* *
32006887 ACACTTAGTGCAACATAGTCAAAC-CGC
1 ACACTTAGTGCTACATAATC-AACTCGC
32006914 ACACTTAGTGCT
1 ACACTTAGTGCT
32006926 GTACAATTTA
Statistics
Matches: 125, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
27 100 0.80
28 25 0.20
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
ACACTTAGTGCTACATAATCAACTCGC
Found at i:32006888 original size:82 final size:81
Alignment explanation
Indices: 32006769--32006924 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
32006759 TGCTATATAA
* *
32006769 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAAC-CGCA
32006834 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
32006851 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAACCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAACCGCA
32006915 CACTTAGTGC
65 CACTTAGTGC
32006925 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.78
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAACCGCAC
ACTTAGTGCCGCATGG
Found at i:32007485 original size:13 final size:13
Alignment explanation
Indices: 32007467--32007491 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32007457 TACTAAATTT
32007467 TCATGGATTCAAG
1 TCATGGATTCAAG
32007480 TCATGGATTCAA
1 TCATGGATTCAA
32007492 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:32013681 original size:7 final size:7
Alignment explanation
Indices: 32013669--32013693 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
32013659 CCATTCCTAA
32013669 TCATCCC
1 TCATCCC
32013676 TCATCCC
1 TCATCCC
32013683 TCATCCC
1 TCATCCC
32013690 TCAT
1 TCAT
32013694 ATTCTCTCTT
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:0.16, C:0.52, G:0.00, T:0.32
Consensus pattern (7 bp):
TCATCCC
Found at i:32019605 original size:6 final size:6
Alignment explanation
Indices: 32019575--32019700 Score: 64
Period size: 6 Copynumber: 20.3 Consensus size: 6
32019565 AAGAAACATT
* * * * *
32019575 ATCAGA A-CTAGA ATCAAA ATGAGA ATTAGA ATCAGA ACCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* *
32019624 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAGA ATCA-A GTGACAGA ATCAGA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
*
32019674 ATCAGT ATCAGGTA A-CAGA ATCAGA AT
1 ATCAGA ATCA-G-A ATCAGA ATCAGA AT
32019701 GTGAATGCAA
Statistics
Matches: 91, Mismatches: 15, Indels: 28
0.68 0.11 0.21
Matches are distributed among these distances:
5 7 0.08
6 67 0.74
7 12 0.13
8 5 0.05
ACGTcount: A:0.47, C:0.15, G:0.20, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:32019626 original size:19 final size:19
Alignment explanation
Indices: 32019602--32019674 Score: 65
Period size: 19 Copynumber: 3.5 Consensus size: 19
32019592 AATGAGAATT
32019602 AGAATCAGAACCAGGTGAC
1 AGAATCAGAACCAGGTGAC
*
32019621 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAA-C-----CAGGTGAC
* *
32019646 AGAATCAGAATCAAGTGAC
1 AGAATCAGAACCAGGTGAC
32019665 AGAATCAGAA
1 AGAATCAGAA
32019675 TCAGTATCAG
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
19 26 0.59
20 1 0.02
25 17 0.39
ACGTcount: A:0.47, C:0.16, G:0.22, T:0.15
Consensus pattern (19 bp):
AGAATCAGAACCAGGTGAC
Found at i:32019630 original size:25 final size:25
Alignment explanation
Indices: 32019596--32019700 Score: 123
Period size: 25 Copynumber: 4.4 Consensus size: 25
32019586 AATCAAAATG
* * * *
32019596 AGAATTAGAATCAGAACCAGGTGAC
1 AGAATCAGAATCAGTATCAGGTAAC
32019621 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGTATCAGGTAAC
*
32019646 AGAATCAGAATC---A--A-GTGAC
1 AGAATCAGAATCAGTATCAGGTAAC
32019665 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGTATCAGGTAAC
32019690 AGAATCAGAAT
1 AGAATCAGAAT
32019701 GTGAATGCAA
Statistics
Matches: 68, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
19 16 0.24
20 1 0.01
22 2 0.03
24 1 0.01
25 48 0.71
ACGTcount: A:0.46, C:0.15, G:0.21, T:0.18
Consensus pattern (25 bp):
AGAATCAGAATCAGTATCAGGTAAC
Found at i:32019664 original size:44 final size:44
Alignment explanation
Indices: 32019602--32019700 Score: 180
Period size: 44 Copynumber: 2.2 Consensus size: 44
32019592 AATGAGAATT
* *
32019602 AGAATCAGAACCAGGTGACAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAAGTGACAGAATCAGAATCAGTATCAGGTAAC
32019646 AGAATCAGAATCAAGTGACAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAAGTGACAGAATCAGAATCAGTATCAGGTAAC
32019690 AGAATCAGAAT
1 AGAATCAGAAT
32019701 GTGAATGCAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 53 1.00
ACGTcount: A:0.45, C:0.16, G:0.21, T:0.17
Consensus pattern (44 bp):
AGAATCAGAATCAAGTGACAGAATCAGAATCAGTATCAGGTAAC
Found at i:32019675 original size:19 final size:19
Alignment explanation
Indices: 32019626--32019677 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
32019616 GTGACAGAAT
* *
32019626 CAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAAGTAA
*
32019645 CAGAATCAGAATCAAGTGA
1 CAGAATCAGAATCAAGTAA
32019664 CAGAATCAGAATCA
1 CAGAATCAGAATCA
32019678 GTATCAGGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.46, C:0.17, G:0.19, T:0.17
Consensus pattern (19 bp):
CAGAATCAGAATCAAGTAA
Found at i:32019692 original size:19 final size:19
Alignment explanation
Indices: 32019626--32019697 Score: 72
Period size: 19 Copynumber: 3.5 Consensus size: 19
32019616 GTGACAGAAT
32019626 CAGAATCAGTATCAGGTAA
1 CAGAATCAGTATCAGGTAA
* *
32019645 CAGAATCAGAATCAAGTGACAGAA
1 CAGAATCAGTATC-AG-G---TAA
32019669 TCAGAATCAGTATCAGGTAA
1 -CAGAATCAGTATCAGGTAA
32019689 CAGAATCAG
1 CAGAATCAG
32019698 AATGTGAATG
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
19 21 0.49
20 4 0.09
21 1 0.02
23 1 0.02
24 4 0.09
25 12 0.28
ACGTcount: A:0.44, C:0.17, G:0.21, T:0.18
Consensus pattern (19 bp):
CAGAATCAGTATCAGGTAA
Found at i:32019855 original size:27 final size:26
Alignment explanation
Indices: 32019818--32019897 Score: 97
Period size: 26 Copynumber: 3.0 Consensus size: 26
32019808 AGTATGGCTT
*
32019818 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
*
32019844 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGACAGAGCCA
* * * *
32019871 CCAGACCAGATAATGTGGCAAAGCCA
1 CCAGAACAGATATTGTGACAGAGCCA
32019897 C
1 C
32019898 TTAACAGAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 24 0.50
27 24 0.50
ACGTcount: A:0.36, C:0.24, G:0.24, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:32020084 original size:22 final size:22
Alignment explanation
Indices: 32020056--32020120 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
32020046 GCAAATACGT
*
32020056 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
32020078 TTGGCACAAAGCCATATAT-AGG
1 TTGGCACAAAGCCATA-ATCAGG
*
32020100 TTGGCGCAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
32020121 AAGGCTTTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
21 2 0.05
22 35 0.90
23 2 0.05
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:32021012 original size:27 final size:27
Alignment explanation
Indices: 32020551--32021005 Score: 624
Period size: 27 Copynumber: 16.9 Consensus size: 27
32020541 GCAAAATGGA
* * **
32020551 AATTTTACCCCACAAGGGTATCCCGGT
1 AATTCTACCCTACAAGGGTATTTCGGT
* *
32020578 AATTCTACCCTACAGGGGTATTTCGAT
1 AATTCTACCCTACAAGGGTATTTCGGT
* * * *
32020605 ATTTTTACCTTACAAAGGTATTTCGGT
1 AATTCTACCCTACAAGGGTATTTCGGT
* *
32020632 ATTTCTACCCTACAAGGGTATTTCAGT
1 AATTCTACCCTACAAGGGTATTTCGGT
* *
32020659 AATTCTACCCTACAGGGGTATTTCGGG
1 AATTCTACCCTACAAGGGTATTTCGGT
*
32020686 ATTTCTACCCTACAAGGGTATTTCGGT
1 AATTCTACCCTACAAGGGTATTTCGGT
* *
32020713 ATTTCTACCCTACAAGGGTATTTTGGT
1 AATTCTACCCTACAAGGGTATTTCGGT
*
32020740 AATTCTACCATACAAGGGTATTTCGGT
1 AATTCTACCCTACAAGGGTATTTCGGT
*
32020767 AATTCTACCCTACAGGGGTATTTCGGT
1 AATTCTACCCTACAAGGGTATTTCGGT
**
32020794 AATTCTACCCTACAAGGGTATTTCAAT
1 AATTCTACCCTACAAGGGTATTTCGGT
* *
32020821 AATTCTACTCTACAGGGGTATTTCGGT
1 AATTCTACCCTACAAGGGTATTTCGGT
*
32020848 AATTCTACCCTAC-AGGGTATTTCGAT
1 AATTCTACCCTACAAGGGTATTTCGGT
* *
32020874 ATTTCTACCCTATAAGGGTATTTCGGT
1 AATTCTACCCTACAAGGGTATTTCGGT
* *
32020901 ATTTCTACCCTACAAGGGTATTTCGAT
1 AATTCTACCCTACAAGGGTATTTCGGT
*
32020928 AATTCTACCCTACAGGGGTATTTCGGT
1 AATTCTACCCTACAAGGGTATTTCGGT
*
32020955 AATTCTACGCTACAAGGGTATTTCGGT
1 AATTCTACCCTACAAGGGTATTTCGGT
*
32020982 AATTCTACCCTACAGGGGTATTTC
1 AATTCTACCCTACAAGGGTATTTC
32021006 AATAATTTTG
Statistics
Matches: 376, Mismatches: 51, Indels: 2
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 0.06
27 354 0.94
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.35
Consensus pattern (27 bp):
AATTCTACCCTACAAGGGTATTTCGGT
Found at i:32021027 original size:27 final size:27
Alignment explanation
Indices: 32020997--32021263 Score: 148
Period size: 27 Copynumber: 9.9 Consensus size: 27
32020987 TACCCTACAG
* *
32020997 GGGTATTTCAATAATTTTGTAAATCGA
1 GGGTATTTCAGTAATTTTGCAAATCGA
*** * *
32021024 GGGTAAAACAGTAATTTTGTAAATTGA
1 GGGTATTTCAGTAATTTTGCAAATCGA
* * *
32021051 GGGTACTTT-GGTAATTTTACAAGTCGA
1 GGGTA-TTTCAGTAATTTTGCAAATCGA
* *
32021078 GGGTATTTCAGTAATTTTACAAATCAA
1 GGGTATTTCAGTAATTTTGCAAATCGA
*
32021105 GGGTATTTCAGTAATTTTGCAAA-CTAA
1 GGGTATTTCAGTAATTTTGCAAATC-GA
** **
32021132 GGGTATTTTGGTAATTTCACAAATC-A
1 GGGTATTTCAGTAATTTTGCAAATCGA
** * *
32021158 GGGGTATTTTGGTAATTTTACAAA-CCA
1 -GGGTATTTCAGTAATTTTGCAAATCGA
** * * *
32021185 GGGATATTTTGGTAATTTTACAAACCCA
1 GGG-TATTTCAGTAATTTTGCAAATCGA
* * * *
32021213 GGGGTATTT-TGCTAATTTTGTAAACCAA
1 -GGGTATTTCAG-TAATTTTGCAAATCGA
** *
32021241 GGGTATTTTGGTAATTTTACAAA
1 GGGTATTTCAGTAATTTTGCAAA
32021264 CCAGAGGTAT
Statistics
Matches: 200, Mismatches: 29, Indels: 22
0.80 0.12 0.09
Matches are distributed among these distances:
26 9 0.05
27 165 0.82
28 23 0.12
29 3 0.01
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTGCAAATCGA
Found at i:32021054 original size:81 final size:80
Alignment explanation
Indices: 32020968--32021181 Score: 184
Period size: 81 Copynumber: 2.6 Consensus size: 80
32020958 TCTACGCTAC
* ** *
32020968 AAGGGTATTTCGGTAATTCTAC-CCTAC-AGGGGTATTTCAATAATTTTGTAAATCGAGGGTAAA
1 AAGGGTATTT-GGTAATTCTACAACT-CGA-GGGTATTTCAATAATTTTACAAATCAAGGGTAAA
* *
32021031 ACAGTAATTTTGTAAATT
63 ACAGTAATTTTGCAAACT
* * * * ***
32021049 GAGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTACAAATCAAGGGTATTTC
1 AAGGGTA-TTTGGTAATTCTACAACTCGAGGGTATTTCAATAATTTTACAAATCAAGGGTAAAAC
32021114 AGTAATTTTGCAAACT
65 AGTAATTTTGCAAACT
* ***
32021130 AAGGGTATTTTGGTAATT-TCACAAATC-AGGGGTATTTTGGTAATTTTACAAA
1 AAGGGTA-TTTGGTAATTCT-ACAACTCGA-GGGTATTTCAATAATTTTACAAA
32021182 CCAGGGATAT
Statistics
Matches: 110, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
80 2 0.02
81 103 0.94
82 5 0.05
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.37
Consensus pattern (80 bp):
AAGGGTATTTGGTAATTCTACAACTCGAGGGTATTTCAATAATTTTACAAATCAAGGGTAAAACA
GTAATTTTGCAAACT
Found at i:32021255 original size:82 final size:80
Alignment explanation
Indices: 32021050--32021284 Score: 245
Period size: 82 Copynumber: 2.9 Consensus size: 80
32021040 TTGTAAATTG
* * * ** * ** * **
32021050 AGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTACAAATCAAGGGTATTTCA
1 AGGGTATTTTGCTAATTTCACAAACCAAGGGTATTTTGGTAATTTTACAAA-CCAGGGTATTTTG
* *
32021115 GTAATTTTGCAAACTA
65 GTAATTTTACAAACCA
* * *
32021131 AGGGTATTTTGGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACCAGGGATATTTTG
1 AGGGTATTTTGCTAATTTCACAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGG-TATTTTG
32021196 GTAATTTTACAAACCCA
65 GTAATTTTACAAA-CCA
* ***
32021213 GGGGTATTTTGCTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAGAGGTATTTTG
1 AGGGTATTTTGCTAATTTCACAAACCAAGGGTATTTTGGTAATTTTACAAACCAG-GGTATTTTG
*
32021278 GTGATTT
65 GTAATTT
32021285 GGTAAACTAA
Statistics
Matches: 131, Mismatches: 20, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
80 5 0.04
81 61 0.47
82 63 0.48
83 2 0.02
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (80 bp):
AGGGTATTTTGCTAATTTCACAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGTATTTTGG
TAATTTTACAAACCA
Found at i:32021264 original size:27 final size:27
Alignment explanation
Indices: 32021050--32021284 Score: 258
Period size: 27 Copynumber: 8.7 Consensus size: 27
32021040 TTGTAAATTG
* ** *
32021050 AGGGTACTTTGGTAATTTTACAAGTCG
1 AGGGTATTTTGGTAATTTTACAAACCA
** *
32021077 AGGGTATTTCAGTAATTTTACAAATCA
1 AGGGTATTTTGGTAATTTTACAAACCA
** * *
32021104 AGGGTATTTCAGTAATTTTGCAAACTA
1 AGGGTATTTTGGTAATTTTACAAACCA
* *
32021131 AGGGTATTTTGGTAATTTCACAAATCA
1 AGGGTATTTTGGTAATTTTACAAACCA
*
32021158 GGGGTATTTTGGTAATTTTACAAACC-
1 AGGGTATTTTGGTAATTTTACAAACCA
32021184 AGGGATATTTTGGTAATTTTACAAACCCA
1 AGGG-TATTTTGGTAATTTTACAAA-CCA
* * **
32021213 GGGGTATTTTGCTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTACAAACCA
32021240 AGGGTATTTTGGTAATTTTACAAACC-
1 AGGGTATTTTGGTAATTTTACAAACCA
*
32021266 AGAGGTATTTTGGTGATTT
1 AG-GGTATTTTGGTAATTT
32021285 GGTAAACTAA
Statistics
Matches: 177, Mismatches: 27, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
26 5 0.03
27 150 0.85
28 19 0.11
29 3 0.02
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTACAAACCA
Found at i:32046202 original size:40 final size:40
Alignment explanation
Indices: 32046128--32046269 Score: 227
Period size: 40 Copynumber: 3.6 Consensus size: 40
32046118 AACCCAAGTA
*
32046128 CCTTCGGGA-TGTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACT-TAGCCCGGATATAGTC-ACTAGCACAAATG
*
32046167 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
32046207 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
32046247 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
32046270 CATTCGAATA
Statistics
Matches: 97, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
39 11 0.11
40 85 0.88
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:32057951 original size:47 final size:47
Alignment explanation
Indices: 32057814--32058079 Score: 383
Period size: 47 Copynumber: 5.6 Consensus size: 47
32057804 TATTTGAATA
*
32057814 AATGTGAAAGTGTATATATATGTGATAAGG-CTGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCT-AATGGCCGATGTGATG
32057863 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
32057912 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
32057959 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
32058006 AATGTGAAAGTGTATATATGTGACT-GGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGA-TAAGGCCTAATGGCCGATGTGATG
* *
32058053 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
32058080 TCCCGAAGGG
Statistics
Matches: 203, Mismatches: 11, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
46 1 0.00
47 142 0.70
48 1 0.00
49 57 0.28
50 2 0.01
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:32060723 original size:40 final size:40
Alignment explanation
Indices: 32060654--32060859 Score: 315
Period size: 40 Copynumber: 5.2 Consensus size: 40
32060644 AACCCAAGTA
* **
32060654 CCTTCGGGATTTAG-CCGGATATAACAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
32060693 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
32060733 CCTTCGGGAGTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
32060773 CCTTCGGGACTTAACCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
32060813 CCTTCGGGACTTAACCCGAATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
32060853 CCTTCGG
1 CCTTCGG
32060860 ATCTTAGTCC
Statistics
Matches: 155, Mismatches: 11, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
39 13 0.08
40 142 0.92
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:32068727 original size:40 final size:40
Alignment explanation
Indices: 32068608--32068828 Score: 337
Period size: 40 Copynumber: 5.6 Consensus size: 40
32068598 GCTACTCGCT
*
32068608 CAAATGCCTTCGGGACTTAGCCC-G-ATATAGT-AGTTCA-CA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTCA-CT-AGCA
* *
32068647 CAAATGCCTTC-GGACTTAGCCCGG-ATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTCACTAGCA
32068686 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
32068726 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
32068766 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
32068806 CAAATGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
32068829 CGTTATCATC
Statistics
Matches: 173, Mismatches: 4, Indels: 9
0.93 0.02 0.05
Matches are distributed among these distances:
38 11 0.06
39 33 0.19
40 127 0.73
41 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
Found at i:32073288 original size:21 final size:20
Alignment explanation
Indices: 32073264--32073320 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 20
32073254 TTGTTTTGTG
*
32073264 GTTTATGGTTTAAGGAATATA
1 GTTTA-GGTTTAAGGAATACA
* *
32073285 GTTTAGGGTTTAGGGGATACA
1 GTTTA-GGTTTAAGGAATACA
32073306 GTTTAGAGTTTAAGG
1 GTTTAG-GTTTAAGG
32073321 TTATGGGGAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 1 0.03
21 29 0.97
ACGTcount: A:0.28, C:0.02, G:0.32, T:0.39
Consensus pattern (20 bp):
GTTTAGGTTTAAGGAATACA
Found at i:32073315 original size:28 final size:28
Alignment explanation
Indices: 32073284--32073338 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
32073274 TAAGGAATAT
*
32073284 AGTTTAGGGTT-TAGGGGATACAGTTTAG
1 AGTTTAAGGTTAT-GGGGATACAGTTTAG
*
32073312 AGTTTAAGGTTATGGGGATATAGTTTA
1 AGTTTAAGGTTATGGGGATACAGTTTA
32073339 ATGATTTAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 23 0.96
29 1 0.04
ACGTcount: A:0.27, C:0.02, G:0.33, T:0.38
Consensus pattern (28 bp):
AGTTTAAGGTTATGGGGATACAGTTTAG
Found at i:32075583 original size:14 final size:14
Alignment explanation
Indices: 32075566--32075610 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
32075556 ATGTATATAT
32075566 ATATATCAATATGC
1 ATATATCAATATGC
32075580 ATATAT--ATA--C
1 ATATATCAATATGC
32075590 ATATATCAATATGC
1 ATATATCAATATGC
32075604 ATATATC
1 ATATATC
32075611 TTGGGTTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
10 7 0.26
12 6 0.22
14 14 0.52
ACGTcount: A:0.44, C:0.13, G:0.04, T:0.38
Consensus pattern (14 bp):
ATATATCAATATGC
Found at i:32075593 original size:24 final size:24
Alignment explanation
Indices: 32075559--32075609 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
32075549 GATTGTAATG
*
32075559 TATATATATATATCAATATGCATA
1 TATATACATATATCAATATGCATA
32075583 TATATACATATATCAATATGCATA
1 TATATACATATATCAATATGCATA
32075607 TAT
1 TAT
32075610 CTTGGGTTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.45, C:0.10, G:0.04, T:0.41
Consensus pattern (24 bp):
TATATACATATATCAATATGCATA
Found at i:32076472 original size:20 final size:21
Alignment explanation
Indices: 32076430--32076472 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
32076420 AAATTTTTTA
* *
32076430 TTATTAGTAAGAAATTATCAT
1 TTATAAGTAAGAAATTATAAT
*
32076451 TTATAAGTAAG-AATTCTAAT
1 TTATAAGTAAGAAATTATAAT
32076471 TT
1 TT
32076473 CACTAAAAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (21 bp):
TTATAAGTAAGAAATTATAAT
Found at i:32076517 original size:23 final size:23
Alignment explanation
Indices: 32076487--32076533 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
32076477 AAAAGTATTT
*
32076487 TGTTAAGAAAATTTATTTGATAA
1 TGTTAAGAAAATTCATTTGATAA
32076510 TGTTAAGAAAATTCATTTGATAA
1 TGTTAAGAAAATTCATTTGATAA
32076533 T
1 T
32076534 AATAAAAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.02, G:0.13, T:0.43
Consensus pattern (23 bp):
TGTTAAGAAAATTCATTTGATAA
Found at i:32076549 original size:22 final size:22
Alignment explanation
Indices: 32076490--32076549 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 22
32076480 AGTATTTTGT
**
32076490 TAAGAAAATTTATTTGATAATGT
1 TAAGAAAA-TTATTTGATAATAA
32076513 TAAGAAAATTCATTTGATAATAA
1 TAAGAAAATT-ATTTGATAATAA
32076536 TAA-AAAAGTTATTT
1 TAAGAAAA-TTATTT
32076550 TTATTTAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
22 10 0.30
23 23 0.70
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (22 bp):
TAAGAAAATTATTTGATAATAA
Found at i:32076894 original size:49 final size:48
Alignment explanation
Indices: 32076841--32076935 Score: 163
Period size: 49 Copynumber: 2.0 Consensus size: 48
32076831 TGCTATAATC
32076841 TCAACTAACTACTCAATCTTATTAATTAAATTTATTTTACTATAAAAAT
1 TCAACTAACTACTCAATCTTATTAATTAAATTTATTTTACTA-AAAAAT
* *
32076890 TCAACTAACTACTGAATCTTATTATTTAAATTTATTTTACTAAAAA
1 TCAACTAACTACTCAATCTTATTAATTAAATTTATTTTACTAAAAA
32076936 TCAAATTACT
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
48 4 0.09
49 40 0.91
ACGTcount: A:0.42, C:0.14, G:0.01, T:0.43
Consensus pattern (48 bp):
TCAACTAACTACTCAATCTTATTAATTAAATTTATTTTACTAAAAAAT
Found at i:32077286 original size:9 final size:9
Alignment explanation
Indices: 32077274--32077568 Score: 209
Period size: 9 Copynumber: 33.6 Consensus size: 9
32077264 TATATCATAT
32077274 CATAACTTA
1 CATAACTTA
*
32077283 CATAATTTA
1 CATAACTTA
32077292 CATAACTTA
1 CATAACTTA
*
32077301 AATAACTTA
1 CATAACTTA
* *
32077310 GATAA-ATA
1 CATAACTTA
*
32077318 TATAACTTA
1 CATAACTTA
32077327 CATAACTTA
1 CATAACTTA
32077336 CATAACTTA
1 CATAACTTA
32077345 CATAACTTA
1 CATAACTTA
* *
32077354 TATAA-ATA
1 CATAACTTA
* *
32077362 TATAATTTA
1 CATAACTTA
32077371 CATAACTTA
1 CATAACTTA
32077380 CATAACTTA
1 CATAACTTA
*
32077389 TATAACTTA
1 CATAACTTA
* *
32077398 GATAA-ATA
1 CATAACTTA
*
32077406 TATAACTTA
1 CATAACTTA
32077415 CATAACTTA
1 CATAACTTA
*
32077424 CATAA-ATA
1 CATAACTTA
* * *
32077432 TATATCATA
1 CATAACTTA
*
32077441 TCATTACTTA
1 -CATAACTTA
32077451 CATAA--TA
1 CATAACTTA
*
32077458 CATAAATATA
1 CATAACT-TA
32077468 TCAT-A--T-
1 -CATAACTTA
32077474 CATAACTTA
1 CATAACTTA
32077483 CATAACTTA
1 CATAACTTA
*
32077492 TATAACTTA
1 CATAACTTA
* *
32077501 GATAA-ATA
1 CATAACTTA
*
32077509 TATAACTTA
1 CATAACTTA
32077518 CATTAA-TTA
1 CA-TAACTTA
* * *
32077527 AATATCATA
1 CATAACTTA
*
32077536 TCATATCTTA
1 -CATAACTTA
32077546 CATAACTTA
1 CATAACTTA
*
32077555 CAAAACTTA
1 CATAACTTA
32077564 CATAA
1 CATAA
32077569 TACATAAATA
Statistics
Matches: 228, Mismatches: 41, Indels: 34
0.75 0.14 0.11
Matches are distributed among these distances:
5 3 0.01
6 1 0.00
7 8 0.04
8 33 0.14
9 162 0.71
10 18 0.08
11 3 0.01
ACGTcount: A:0.48, C:0.15, G:0.01, T:0.37
Consensus pattern (9 bp):
CATAACTTA
Found at i:32077325 original size:44 final size:44
Alignment explanation
Indices: 32077270--32077428 Score: 264
Period size: 44 Copynumber: 3.6 Consensus size: 44
32077260 AATATATATC
*
32077270 ATATCATAACTTACATAATTTACATAACTTAAATAACTTAGATAA
1 ATAT-ATAACTTACATAACTTACATAACTTAAATAACTTAGATAA
* *
32077315 ATATATAACTTACATAACTTACATAACTTACATAACTTATATAA
1 ATATATAACTTACATAACTTACATAACTTAAATAACTTAGATAA
* *
32077359 ATATATAATTTACATAACTTACATAACTTATATAACTTAGATAA
1 ATATATAACTTACATAACTTACATAACTTAAATAACTTAGATAA
32077403 ATATATAACTTACATAACTTACATAA
1 ATATATAACTTACATAACTTACATAA
32077429 ATATATATCA
Statistics
Matches: 107, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
44 103 0.96
45 4 0.04
ACGTcount: A:0.48, C:0.14, G:0.01, T:0.36
Consensus pattern (44 bp):
ATATATAACTTACATAACTTACATAACTTAAATAACTTAGATAA
Found at i:32077335 original size:35 final size:35
Alignment explanation
Indices: 32077284--32077530 Score: 156
Period size: 35 Copynumber: 6.6 Consensus size: 35
32077274 CATAACTTAC
*
32077284 ATAATTTACATAACTTAAATAACTTAGATAAATAT
1 ATAACTTACATAACTTAAATAACTTAGATAAATAT
*
32077319 ATAACTTACATAACTTACATAACTTACATAACTTATATAAATAT
1 ATAACTTACATAAC-T---T-A---A-ATAACTTAGATAAATAT
* * * * *
32077363 ATAATTTACATAACTTACATAACTTATATAACTTAG
1 ATAACTTACATAACTTAAATAACTTAGATAA-ATAT
* * * *
32077399 ATAA-ATATATAACTTACATAACTTACATAAATAT
1 ATAACTTACATAACTTAAATAACTTAGATAAATAT
* * * * * *
32077433 ATATCATATCATTACTTACATAATACATAAATATATCATAT
1 ATAACTTA-CATAACTTAAAT-A-ACTTAGATA-A--ATAT
*
32077474 CATAACTTACATAACTTATATAACTTAGATAAATAT
1 -ATAACTTACATAACTTAAATAACTTAGATAAATAT
32077510 ATAACTTACATTAA-TTAAATA
1 ATAACTTACA-TAACTTAAATA
32077531 TCATATCATA
Statistics
Matches: 170, Mismatches: 23, Indels: 38
0.74 0.10 0.16
Matches are distributed among these distances:
34 5 0.03
35 68 0.40
36 24 0.14
37 1 0.01
38 8 0.05
39 10 0.06
40 3 0.02
41 14 0.08
42 6 0.04
43 2 0.01
44 29 0.17
ACGTcount: A:0.49, C:0.13, G:0.01, T:0.37
Consensus pattern (35 bp):
ATAACTTACATAACTTAAATAACTTAGATAAATAT
Found at i:32077472 original size:32 final size:35
Alignment explanation
Indices: 32077336--32077568 Score: 153
Period size: 35 Copynumber: 6.6 Consensus size: 35
32077326 ACATAACTTA
* *
32077336 CATAACTTACATAACTTATATAAATATATA--ATTT
1 CATAACTTACATAAC-TACATAAATATATATCATAT
* * * *
32077370 ACATAACTTACATAACTTATATAACT-TAGATAAATAT
1 -CATAACTTACATAAC-TACATAAATATATAT-CATAT
32077407 -ATAACTTACATAACTTACATAAATATATATCATAT
1 CATAACTTACATAAC-TACATAAATATATATCATAT
*
32077442 CATTACTTACATAA-TACAT-AA-ATATATCATAT
1 CATAACTTACATAACTACATAAATATATATCATAT
* * * *
32077474 CATAACTTACATAACTTATATAACT-TAGATAAATAT
1 CATAACTTACATAAC-TACATAAATATATAT-CATAT
* * * *
32077510 -ATAACTTACATTAATTAAATATCATATCATATCTTA-
1 CATAACTTACA-TAACTACATA-AATAT-ATATCATAT
*
32077546 CATAACTTACAAAACTTACATAA
1 CATAACTTACATAAC-TACATAA
32077569 TACATAAATA
Statistics
Matches: 158, Mismatches: 24, Indels: 31
0.74 0.11 0.15
Matches are distributed among these distances:
32 24 0.15
33 2 0.01
34 12 0.08
35 70 0.44
36 26 0.16
37 21 0.13
38 3 0.02
ACGTcount: A:0.48, C:0.15, G:0.01, T:0.37
Consensus pattern (35 bp):
CATAACTTACATAACTACATAAATATATATCATAT
Found at i:32090673 original size:12 final size:12
Alignment explanation
Indices: 32090656--32090714 Score: 50
Period size: 11 Copynumber: 4.8 Consensus size: 12
32090646 CCTCTTGAAT
32090656 TTTTTATTTATA
1 TTTTTATTTATA
**
32090668 TTTTTAAATATA
1 TTTTTATTTATA
32090680 TTATTTATAGTTATA
1 TT-TTTAT--TTATA
32090695 -TTTTATTTAT-
1 TTTTTATTTATA
*
32090705 TATTTATTTA
1 TTTTTATTTA
32090715 GGGAATAATC
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
11 12 0.32
12 12 0.32
13 9 0.24
14 1 0.03
15 4 0.11
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.68
Consensus pattern (12 bp):
TTTTTATTTATA
Found at i:32092137 original size:17 final size:17
Alignment explanation
Indices: 32092115--32092153 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
32092105 TATGTTTTGT
*
32092115 ACTGATGGAAATATTGC
1 ACTGATGGAAATAGTGC
32092132 ACTGATGGAAATAGTGC
1 ACTGATGGAAATAGTGC
32092149 ACTGA
1 ACTGA
32092154 GCATTGAGCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.26
Consensus pattern (17 bp):
ACTGATGGAAATAGTGC
Found at i:32098630 original size:50 final size:50
Alignment explanation
Indices: 32098556--32098849 Score: 381
Period size: 50 Copynumber: 5.9 Consensus size: 50
32098546 TTCTTGTACC
* * * * ** * * *
32098556 GCCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTAATATAGGT
1 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
* * ** ** *
32098606 GCCCATGCCATGTCTGAGACATGGTCTTACGGGGGACCTCTCATCTTGGT
1 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
* *
32098656 GCCAACGCCATGTCCCAAACATAGTCTTACATGGGACCTCTCATCTCGGT
1 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
*
32098706 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
1 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
* *
32098756 GCCAACGCCATGTCCTAGACATGATCTTACATGGGACCTCTCATCTCGGT
1 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
* *
32098806 GCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTTTCAT
1 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
32098850 AATCTCAATG
Statistics
Matches: 212, Mismatches: 32, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 212 1.00
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.27
Consensus pattern (50 bp):
GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
Found at i:32098766 original size:150 final size:153
Alignment explanation
Indices: 32098556--32098897 Score: 440
Period size: 150 Copynumber: 2.2 Consensus size: 153
32098546 TTCTTGTACC
* * ** * *
32098556 GCCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTAATATAGGTGCCCATGCCATGT-C
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTAATATAGGTGCCAACGCCATGTCC
* * *
32098620 TGAGACATGGTCTTACGGGGGACCTCTCATCTTGGTGCCAACGCCATGTCCCAAACATAGTCTTA
66 T-AGACATGATCTTACAGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAAACATAGTCTTA
* *
32098685 CATGGGACC-TC-TCATCTC-GGT
130 CATGGGACCTTCATAATCTCAGAT
* * * *
32098706 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCC
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTAATATAGGTGCCAACGCCATGTCC
* *
32098771 TAGACATGATCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAAACATGGTCTTAC
66 TAGACATGATCTTACAGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAAACATAGTCTTAC
32098836 ATGGGACCTTTCATAATCTCAATGAT
131 ATGGGACC-TTCATAATCTC-A-GAT
* * *
32098862 GCTAATGCCATGTCCCAGGCATGGTTTTACATGAGA
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGAGA
32098898 TGTCTTTACC
Statistics
Matches: 164, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
150 120 0.73
151 2 0.01
152 2 0.01
153 6 0.04
156 34 0.21
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (153 bp):
GCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTAATATAGGTGCCAACGCCATGTCC
TAGACATGATCTTACAGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAAACATAGTCTTAC
ATGGGACCTTCATAATCTCAGAT
Found at i:32102479 original size:11 final size:11
Alignment explanation
Indices: 32102463--32102493 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
32102453 CTTCATTCAT
32102463 CATCCCTCAAA
1 CATCCCTCAAA
32102474 CATCCCTCAAA
1 CATCCCTCAAA
*
32102485 CATTCCTCA
1 CATCCCTCA
32102494 TTCATTCTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.32, C:0.45, G:0.00, T:0.23
Consensus pattern (11 bp):
CATCCCTCAAA
Found at i:32121813 original size:4 final size:4
Alignment explanation
Indices: 32121806--32121832 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
32121796 TAAATCAAAA
32121806 AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAA
32121833 AAGGAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:32124048 original size:14 final size:14
Alignment explanation
Indices: 32124029--32124056 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
32124019 GGGCCTCTTG
32124029 TCATAATTATTTAA
1 TCATAATTATTTAA
32124043 TCATAATTATTTAA
1 TCATAATTATTTAA
32124057 CCCAATATAA
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:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (14 bp):
TCATAATTATTTAA
Found at i:32125869 original size:62 final size:59
Alignment explanation
Indices: 32125795--32125908 Score: 156
Period size: 62 Copynumber: 1.9 Consensus size: 59
32125785 TATTATCTTA
* * *
32125795 ATATTAAATTTAATATAATGTTTATCTTGTAGATAAACATTCTATTAATTTAATAATATTTT
1 ATATTAAATTTAATATAATATTTATC-TG--GACAAACATTATATTAATTTAATAATATTTT
* *
32125857 ATATTAAGTTTAATATAATATTTATCTGGACAAATATTATATTAATTTAATA
1 ATATTAAATTTAATATAATATTTATCTGGACAAACATTATATTAATTTAATA
32125909 TTAAAGTGAT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
59 21 0.45
61 2 0.04
62 24 0.51
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.48
Consensus pattern (59 bp):
ATATTAAATTTAATATAATATTTATCTGGACAAACATTATATTAATTTAATAATATTTT
Found at i:32127943 original size:12 final size:10
Alignment explanation
Indices: 32127918--32127964 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
32127908 GAACATGAAG
32127918 AATTTTAATT
1 AATTTTAATT
32127928 AATTTTATAGTT
1 AATTTTA-A-TT
*
32127940 AATTTTGATT
1 AATTTTAATT
*
32127950 AATTTTGA-T
1 AATTTTAATT
32127959 AATTTT
1 AATTTT
32127965 TGATAGATTC
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
9 7 0.21
10 17 0.50
11 2 0.06
12 8 0.24
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (10 bp):
AATTTTAATT
Found at i:32135364 original size:23 final size:24
Alignment explanation
Indices: 32135308--32135367 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
32135298 TTATTAACAT
*
32135308 TGTTCGTGAATATGTTCAATTATA
1 TGTTCGTGAACATGTTCAATTATA
* *
32135332 TGTTCATGAACATGTTCATTTA-A
1 TGTTCGTGAACATGTTCAATTATA
32135355 TGTTCGTGAACAT
1 TGTTCGTGAACAT
32135368 TAAATAAACG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
23 13 0.41
24 19 0.59
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.43
Consensus pattern (24 bp):
TGTTCGTGAACATGTTCAATTATA
Found at i:32136101 original size:40 final size:40
Alignment explanation
Indices: 32136016--32136105 Score: 121
Period size: 39 Copynumber: 2.3 Consensus size: 40
32136006 GGGACGTGTT
* * * *
32136016 AGCAAATCGCATCCACGTCAGCTCGATTACTTACGTGGCA
1 AGCAAATCGCGTCCACGTAAGCGCGATTACTGACGTGGCA
32136056 A-CAAATCGCGTCCACGTAAGCGCGATTTACTGACGTGG-A
1 AGCAAATCGCGTCCACGTAAGCGCGA-TTACTGACGTGGCA
32136095 AGCAAATCGCG
1 AGCAAATCGCG
32136106 CTTACGTGGA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
39 23 0.52
40 21 0.48
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.20
Consensus pattern (40 bp):
AGCAAATCGCGTCCACGTAAGCGCGATTACTGACGTGGCA
Found at i:32138355 original size:12 final size:12
Alignment explanation
Indices: 32138340--32138367 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
32138330 TGTTATCATG
32138340 GTGGTTATAATA
1 GTGGTTATAATA
32138352 GTGGTTATAATA
1 GTGGTTATAATA
32138364 GTGG
1 GTGG
32138368 AACTTCTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.32, T:0.39
Consensus pattern (12 bp):
GTGGTTATAATA
Found at i:32143102 original size:28 final size:28
Alignment explanation
Indices: 32143068--32143123 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
32143058 TAACATAGTT
32143068 TTTCTATGTTTTCCATTTGTTAAAACTA
1 TTTCTATGTTTTCCATTTGTTAAAACTA
32143096 TTTCTATGTTTTCCATTTGTTAAAACTA
1 TTTCTATGTTTTCCATTTGTTAAAACTA
32143124 ATCCCTTTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.14, G:0.07, T:0.54
Consensus pattern (28 bp):
TTTCTATGTTTTCCATTTGTTAAAACTA
Found at i:32143674 original size:5 final size:6
Alignment explanation
Indices: 32143645--32143678 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
32143635 TTTGACTTTA
32143645 AAAAAT AAAGAAAT AAAAAT AAAAAT AAAAAT AA
1 AAAAAT -AA-AAAT AAAAAT AAAAAT AAAAAT AA
32143679 TTAAATTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 18 0.69
7 4 0.15
8 4 0.15
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:32147808 original size:16 final size:16
Alignment explanation
Indices: 32147785--32147834 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
32147775 TAAAAAGTAA
32147785 TTAGAATATATAATAT
1 TTAGAATATATAATAT
* *
32147801 TTCA-AATA-AAAATAA
1 TT-AGAATATATAATAT
32147816 TTAGAATATATAATAT
1 TTAGAATATATAATAT
32147832 TTA
1 TTA
32147835 AAAATAAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
14 1 0.04
15 11 0.41
16 14 0.52
17 1 0.04
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (16 bp):
TTAGAATATATAATAT
Found at i:32147820 original size:31 final size:32
Alignment explanation
Indices: 32147770--32147842 Score: 121
Period size: 31 Copynumber: 2.3 Consensus size: 32
32147760 AGATACTAAC
32147770 TCAAATAAAAAGTAATTAGAATATATAATATT
1 TCAAATAAAAAGTAATTAGAATATATAATATT
32147802 TCAAATAAAAA-TAATTAGAATATATAATATT
1 TCAAATAAAAAGTAATTAGAATATATAATATT
*
32147833 TAAAAATAAA
1 T-CAAATAAA
32147843 TTTTAAATCA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
31 21 0.54
32 18 0.46
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.33
Consensus pattern (32 bp):
TCAAATAAAAAGTAATTAGAATATATAATATT
Found at i:32147823 original size:15 final size:15
Alignment explanation
Indices: 32147773--32147823 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
32147763 TACTAACTCA
32147773 AATAAAAAGTAATTAG
1 AATAAAAA-TAATTAG
* *
32147789 AATATATAATATTTCA-
1 AATA-AAAATAATT-AG
32147805 AATAAAAATAATTAG
1 AATAAAAATAATTAG
32147820 AATA
1 AATA
32147824 TATAATATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
14 1 0.04
15 11 0.39
16 12 0.43
17 4 0.14
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (15 bp):
AATAAAAATAATTAG
Found at i:32147999 original size:17 final size:17
Alignment explanation
Indices: 32147958--32147999 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
32147948 TTTCATTGCT
*
32147958 ATTATTTTGATTGTCAA
1 ATTATTTGGATTGTCAA
32147975 ATTAATTTGGA-TGTCTAA
1 ATT-ATTTGGATTGTC-AA
32147993 ATTATTT
1 ATTATTT
32148000 AAACAATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.31, C:0.05, G:0.12, T:0.52
Consensus pattern (17 bp):
ATTATTTGGATTGTCAA
Found at i:32149217 original size:27 final size:27
Alignment explanation
Indices: 32149187--32149275 Score: 92
Period size: 27 Copynumber: 3.3 Consensus size: 27
32149177 CGCGAGGTGG
*
32149187 GGTTCGCCAGTTGGTTTGGCAAGCTA-A
1 GGTTTGCCAGTTGGTTTGGCAAG-TAGA
* ** *
32149214 GGTTTGCTAGTTGGTTTGGTGAGTAGG
1 GGTTTGCCAGTTGGTTTGGCAAGTAGA
*
32149241 GGTTTGCCAGTTGGTTTGGCGAACTAG-
1 GGTTTGCCAGTTGGTTTGGC-AAGTAGA
32149268 GGTTTGCC
1 GGTTTGCC
32149276 GGTATAAGTC
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
26 2 0.04
27 45 0.88
28 4 0.08
ACGTcount: A:0.13, C:0.13, G:0.38, T:0.35
Consensus pattern (27 bp):
GGTTTGCCAGTTGGTTTGGCAAGTAGA
Found at i:32151748 original size:33 final size:33
Alignment explanation
Indices: 32151704--32151864 Score: 139
Period size: 33 Copynumber: 4.9 Consensus size: 33
32151694 CATGGCATCC
* * *
32151704 ATAGAGGTAGTCCGCTGAGACAGTAAACACAGA
1 ATAGAGATAGTCCACTGAGACAATAAACACAGA
* * *
32151737 ATAGAGATAGTCCGCTGGGACAATAAACACAAA
1 ATAGAGATAGTCCACTGAGACAATAAACACAGA
* * * * *
32151770 ATAGAGATAGTCTACTGGGATAGTAAACATAGA
1 ATAGAGATAGTCCACTGAGACAATAAACACAGA
* * * *
32151803 ATAAAGATAGTCCATTGAGACAATAAATATA-A
1 ATAGAGATAGTCCACTGAGACAATAAACACAGA
* *
32151835 A-ATAGATAGTCCA-TTACGACAATAAACACA
1 ATAGAGATAGTCCACTGA-GACAATAAACACA
32151865 TAACAAATAA
Statistics
Matches: 106, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
30 2 0.02
31 22 0.21
32 2 0.02
33 80 0.75
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.20
Consensus pattern (33 bp):
ATAGAGATAGTCCACTGAGACAATAAACACAGA
Found at i:32151941 original size:28 final size:28
Alignment explanation
Indices: 32151874--32151943 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
32151864 ATAACAAATA
* *
32151874 AAGTCTGTTAAGACAGTAAACACGAGGT
1 AAGTCTGATAGGACAGTAAACACGAGGT
**
32151902 AAG-CCAACTAGGACAGTAAACA-GAGGGT
1 AAGTCTGA-TAGGACAGTAAACACGA-GGT
32151930 AAGTCTGATAGGAC
1 AAGTCTGATAGGAC
32151944 GTAGAGAACA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
27 3 0.09
28 28 0.85
29 2 0.06
ACGTcount: A:0.40, C:0.16, G:0.27, T:0.17
Consensus pattern (28 bp):
AAGTCTGATAGGACAGTAAACACGAGGT
Found at i:32159834 original size:22 final size:21
Alignment explanation
Indices: 32159809--32159852 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
32159799 TGATAAACTT
32159809 TAATATATA-ATTATATTATTTA
1 TAATATATATATTA-ATT-TTTA
*
32159831 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
32159852 T
1 T
32159853 CAACTTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Found at i:32172428 original size:45 final size:45
Alignment explanation
Indices: 32172379--32172571 Score: 194
Period size: 45 Copynumber: 4.3 Consensus size: 45
32172369 TATCATAAAT
*
32172379 GAGTAAGACCATGACTAAAAGACATTATGACATCATGATTCTATC
1 GAGTAAGACCATGACTAAAAGACATTATGACATCACGATTCTATC
* * * * *
32172424 GAGTAAGACCATGATTGAAAGACGTTATGGCATCACGACTCTATC
1 GAGTAAGACCATGACTAAAAGACATTATGACATCACGATTCTATC
* * * *
32172469 GAGTAAGACCATGAC-AGAAAAACGTTATGGCATCACGATTCTATA
1 GAGTAAGACCATGACTA-AAAGACATTATGACATCACGATTCTATC
* * * * *
32172514 TAGTAAGACCAT-AGCTAAAAGATGA-TATGACATCACGAATCAAAC
1 GAGTAAGACCATGA-CTAAAAGA-CATTATGACATCACGATTCTATC
*
32172559 GAATAAGACCATG
1 GAGTAAGACCATG
32172572 GTTGAAAGAC
Statistics
Matches: 121, Mismatches: 22, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
44 1 0.01
45 119 0.98
46 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.23
Consensus pattern (45 bp):
GAGTAAGACCATGACTAAAAGACATTATGACATCACGATTCTATC
Found at i:32172580 original size:45 final size:45
Alignment explanation
Indices: 32172539--32172628 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 45
32172529 TAAAAGATGA
* *
32172539 TATGACATCACGAATCA-AACGAATAAGACCATGGTTGAAAGACAC
1 TATGACATCAAG-ATCAGAACAAATAAGACCATGGTTGAAAGACAC
* * *
32172584 TATGGCATCAAGATGAGAATAAATAAGACCATGGTTGAAAGACAC
1 TATGACATCAAGATCAGAACAAATAAGACCATGGTTGAAAGACAC
32172629 CATGGCACAC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
44 3 0.08
45 36 0.92
ACGTcount: A:0.44, C:0.17, G:0.20, T:0.19
Consensus pattern (45 bp):
TATGACATCAAGATCAGAACAAATAAGACCATGGTTGAAAGACAC
Found at i:32172588 original size:90 final size:90
Alignment explanation
Indices: 32172382--32172593 Score: 228
Period size: 90 Copynumber: 2.4 Consensus size: 90
32172372 CATAAATGAG
* * * * * *
32172382 TAAGACCATGACTAAAAGACATTATGACATCATGATTCTATCGAGTAAGACCATGATTGAAAGAC
1 TAAGACCATGACTGAAAGACATTATGGCATCACGATTCTATAGAGTAAGACCATGACTAAAAGAC
* * * * * *
32172447 GTTATGGCATCACGACTCTATCGAG
66 GATATGACATCACGAATCAAACGAA
* * * *
32172472 TAAGACCATGACAGAAAAACGTTATGGCATCACGATTCTATATAGTAAGACCAT-AGCTAAAAGA
1 TAAGACCATGACTGAAAGACATTATGGCATCACGATTCTATAGAGTAAGACCATGA-CTAAAAGA
*
32172536 TGATATGACATCACGAATCAAACGAA
65 CGATATGACATCACGAATCAAACGAA
** *
32172562 TAAGACCATGGTTGAAAGACACTATGGCATCA
1 TAAGACCATGACTGAAAGACATTATGGCATCA
32172594 AGATGAGAAT
Statistics
Matches: 98, Mismatches: 23, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
89 1 0.01
90 97 0.99
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.23
Consensus pattern (90 bp):
TAAGACCATGACTGAAAGACATTATGGCATCACGATTCTATAGAGTAAGACCATGACTAAAAGAC
GATATGACATCACGAATCAAACGAA
Found at i:32173524 original size:20 final size:20
Alignment explanation
Indices: 32173499--32173552 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
32173489 TATTTAAGCT
*
32173499 AAAGTAAGTAAATGCACTGA
1 AAAGTAAGTAAATGCAATGA
*
32173519 AAAGTAAGTAAATGCAATGG
1 AAAGTAAGTAAATGCAATGA
32173539 AAAGTAAGTAAATG
1 AAAGTAAGTAAATG
32173553 GAAGGGTTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.52, C:0.06, G:0.22, T:0.20
Consensus pattern (20 bp):
AAAGTAAGTAAATGCAATGA
Found at i:32175067 original size:13 final size:13
Alignment explanation
Indices: 32175049--32175091 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
32175039 TACATTTTTC
32175049 CTAAATATTATCA
1 CTAAATATTATCA
32175062 CTAAATA--ATC-
1 CTAAATATTATCA
*
32175072 CTAAATGTTATCA
1 CTAAATATTATCA
32175085 CTAAATA
1 CTAAATA
32175092 ATTCAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 6 0.24
11 3 0.12
12 3 0.12
13 13 0.52
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:32175074 original size:23 final size:23
Alignment explanation
Indices: 32175047--32175093 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
32175037 GCTACATTTT
32175047 TCCTAAATATTATCACTAAATAA
1 TCCTAAATATTATCACTAAATAA
*
32175070 TCCTAAATGTTATCACTAAATAA
1 TCCTAAATATTATCACTAAATAA
32175093 T
1 T
32175094 TCAAAATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.36
Consensus pattern (23 bp):
TCCTAAATATTATCACTAAATAA
Found at i:32175100 original size:23 final size:23
Alignment explanation
Indices: 32175051--32175100 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
32175041 CATTTTTCCT
*
32175051 AAATATTATCACTAAATAATCCT
1 AAATATTATCACTAAATAATCCA
* *
32175074 AAATGTTATCACTAAATAATTCA
1 AAATATTATCACTAAATAATCCA
32175097 AAAT
1 AAAT
32175101 TTAAAAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.50, C:0.14, G:0.02, T:0.34
Consensus pattern (23 bp):
AAATATTATCACTAAATAATCCA
Found at i:32213313 original size:16 final size:16
Alignment explanation
Indices: 32213294--32213332 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
32213284 ATAAATAAAT
*
32213294 AAAATTATATTATATA
1 AAAATTACATTATATA
32213310 AAAATTACATTATATA
1 AAAATTACATTATATA
32213326 AAAATTA
1 AAAATTA
32213333 AATGAGTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
AAAATTACATTATATA
Found at i:32213671 original size:55 final size:55
Alignment explanation
Indices: 32213587--32213754 Score: 218
Period size: 52 Copynumber: 3.1 Consensus size: 55
32213577 TTATTTAAAC
32213587 AAAAAATATTTTTTAATAT-AAAAATTGATTCGCGCCTGTCAAATAGGCGCGATT
1 AAAAAATATTTTTTAATATAAAAAATTGATTCGCGCCTGTCAAATAGGCGCGATT
** *
32213641 AAAAAATATTTTTTAATATAAAAAATTGATTCGCGTTTGTCATATAGGCGCGATT
1 AAAAAATATTTTTTAATATAAAAAATTGATTCGCGCCTGTCAAATAGGCGCGATT
* * * * * *
32213696 --AAAGT-TTTTTTAATATAAAAAATTGATTGGTGCCTGCCAGATAGGCACGATT
1 AAAAAATATTTTTTAATATAAAAAATTGATTCGCGCCTGTCAAATAGGCGCGATT
32213748 ACAAAAA
1 A-AAAAA
32213755 ACATACCATT
Statistics
Matches: 98, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
52 40 0.41
53 4 0.04
54 19 0.19
55 35 0.36
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.34
Consensus pattern (55 bp):
AAAAAATATTTTTTAATATAAAAAATTGATTCGCGCCTGTCAAATAGGCGCGATT
Found at i:32214612 original size:21 final size:21
Alignment explanation
Indices: 32214586--32214629 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
32214576 AATACATTAC
32214586 CTTCTT-TCTTTCTTC-CTTCTT
1 CTTCTTCTC-TTCTTCTCTT-TT
32214607 CTTCTTCTCTTCTTCTCTTTT
1 CTTCTTCTCTTCTTCTCTTTT
32214628 CT
1 CT
32214630 CTATTTTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (21 bp):
CTTCTTCTCTTCTTCTCTTTT
Found at i:32214617 original size:8 final size:8
Alignment explanation
Indices: 32214586--32214631 Score: 53
Period size: 8 Copynumber: 5.9 Consensus size: 8
32214576 AATACATTAC
32214586 CTTCT-TT
1 CTTCTCTT
32214593 CTT-TCTT
1 CTTCTCTT
32214600 CCTTCTTCTT
1 -CTTC-TCTT
32214610 CTTCTCTT
1 CTTCTCTT
32214618 CTTCTCTT
1 CTTCTCTT
32214626 -TTCTCT
1 CTTCTCT
32214632 ATTTTCTTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
6 1 0.03
7 11 0.31
8 15 0.43
9 4 0.11
10 4 0.11
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (8 bp):
CTTCTCTT
Found at i:32214739 original size:20 final size:20
Alignment explanation
Indices: 32214714--32214762 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
32214704 TTTTCCCATT
*
32214714 GAAGGGACAATAGCC-TGGTG
1 GAAGGGACAACA-CCATGGTG
32214734 GAAGGGACAACACCATGGTG
1 GAAGGGACAACACCATGGTG
32214754 GAAGGGACA
1 GAAGGGACA
32214763 GAGGCAACAG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 2 0.07
20 25 0.93
ACGTcount: A:0.35, C:0.16, G:0.39, T:0.10
Consensus pattern (20 bp):
GAAGGGACAACACCATGGTG
Found at i:32215561 original size:45 final size:43
Alignment explanation
Indices: 32215434--32215644 Score: 212
Period size: 43 Copynumber: 4.9 Consensus size: 43
32215424 CGCTAAAGAA
* * * * *
32215434 CATGTTCTTTAGCGGCACTTCTCTCACAAATGCCGCTAAA-GCC
1 CATGTTCTTTAGCGGCGCTTTTCTCAAAAACGCCGCTAAACG-T
* *
32215477 CTTGTTCTTTAGCGGCGCTTTTCTCAAAAACGCCACTAAACGT
1 CATGTTCTTTAGCGGCGCTTTTCTCAAAAACGCCGCTAAACGT
* *
32215520 CATGTTCTTTAGCGGCGGTTTTTTCTCAAAAACGCCGCTAAAAC-C
1 CATGTTCTTTAGCGGC-G-CTTTTCTCAAAAACGCCGCT-AAACGT
* * * * *
32215565 CTTGTTCTTTAGCGACGCCTTTCTCAAAAACACCGCTAAAGGT
1 CATGTTCTTTAGCGGCGCTTTTCTCAAAAACGCCGCTAAACGT
**
32215608 CATGTTCTTTAGCGGCGCTTCCCT-AAGAAACGCCGCT
1 CATGTTCTTTAGCGGCGCTTTTCTCAA-AAACGCCGCT
32215645 CTTGTTTGAT
Statistics
Matches: 138, Mismatches: 24, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
42 5 0.04
43 94 0.68
44 3 0.02
45 32 0.23
46 4 0.03
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.30
Consensus pattern (43 bp):
CATGTTCTTTAGCGGCGCTTTTCTCAAAAACGCCGCTAAACGT
Found at i:32215574 original size:88 final size:87
Alignment explanation
Indices: 32215434--32215644 Score: 275
Period size: 88 Copynumber: 2.4 Consensus size: 87
32215424 CGCTAAAGAA
* * * * *
32215434 CATGTTCTTTAGCGGC-ACTTCTCTCACAAATGCCGCTAAAGCCCTTGTTCTTTAGCGGCGCTTT
1 CATGTTCTTTAGCGGCGACTTCTCTCAAAAACGCCGCTAAAACCCTTGTTCTTTAGCGACGCCTT
*
32215498 TCTCAAAAACGCCACTAAACGT
66 TCTCAAAAACACCACTAAACGT
** *
32215520 CATGTTCTTTAGCGGCGGTTTTTTCTCAAAAACGCCGCTAAAACCCTTGTTCTTTAGCGACGCCT
1 CATGTTCTTTAGCGGC-GACTTCTCTCAAAAACGCCGCTAAAACCCTTGTTCTTTAGCGACGCCT
* *
32215585 TTCTCAAAAACACCGCTAAAGGT
65 TTCTCAAAAACACCACTAAACGT
*
32215608 CATGTTCTTTAGCGGCG-CTTCCCT-AAGAAACGCCGCT
1 CATGTTCTTTAGCGGCGACTTCTCTCAA-AAACGCCGCT
32215645 CTTGTTTGAT
Statistics
Matches: 108, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
85 2 0.02
86 30 0.28
87 1 0.01
88 75 0.69
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.30
Consensus pattern (87 bp):
CATGTTCTTTAGCGGCGACTTCTCTCAAAAACGCCGCTAAAACCCTTGTTCTTTAGCGACGCCTT
TCTCAAAAACACCACTAAACGT
Found at i:32216017 original size:21 final size:21
Alignment explanation
Indices: 32215993--32216063 Score: 115
Period size: 21 Copynumber: 3.4 Consensus size: 21
32215983 TTCTGCTCTG
*
32215993 CTCTGCTTCCCTTACTGCCGC
1 CTCTGCTTCCCTCACTGCCGC
*
32216014 CTCTGCTTCCCTCACTACCGC
1 CTCTGCTTCCCTCACTGCCGC
*
32216035 CTCTGCTTCCCTCGCTGCCGC
1 CTCTGCTTCCCTCACTGCCGC
32216056 CTCTGCTT
1 CTCTGCTT
32216064 TAAGTTGTAG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.04, C:0.49, G:0.14, T:0.32
Consensus pattern (21 bp):
CTCTGCTTCCCTCACTGCCGC
Found at i:32217771 original size:44 final size:44
Alignment explanation
Indices: 32217711--32218528 Score: 1432
Period size: 44 Copynumber: 18.7 Consensus size: 44
32217701 AAACAGCACA
* *
32217711 TATAATATTAATTAAGTTGTGTATTATGTATTATGTACATTATA
1 TATAATATTAATTAAGTTGTGTATTATGTATTATGTACGTTATG
*
32217755 TATAATATTAATTAAGTTGTGTATTATGTATTATGTATGTTATG
1 TATAATATTAATTAAGTTGTGTATTATGTATTATGTACGTTATG
* *
32217799 TATAATATTAATTAAGTTGTGTAATGTGTATTATGTACGTTATG
1 TATAATATTAATTAAGTTGTGTATTATGTATTATGTACGTTATG
*
32217843 TATAATATTAATTAAGTTGTGTATTATGCATTATGTACGTTATG
1 TATAATATTAATTAAGTTGTGTATTATGTATTATGTACGTTATG
32217887 TATAATATTAATTAAGTTGTGTATTATGTATTATGTACGTTAT-
1 TATAATATTAATTAAGTTGTGTATTATGTATTATGTACGTTATG
*
32217930 T-TAATATTAATTAAGTTGTGTATTATGTATTATGTATGTTATG
1 TATAATATTAATTAAGTTGTGTATTATGTATTATGTACGTTATG
*
32217973 TATAATATTAATTAAGTTGTGTAATATGTATTATGTACGTTATG
1 TATAATATTAATTAAGTTGTGTATTATGTATTATGTACGTTATG
* *
32218017 TATAATATTAATTAAGTTGTGTAATATGTATTATGTATGTTATG
1 TATAATATTAATTAAGTTGTGTATTATGTATTATGTACGTTATG
*
32218061 TATAATATTAATTAAGTTGTGTATTATGCATTATGTACGTTATG
1 TATAATATTAATTAAGTTGTGTATTATGTATTATGTACGTTATG
32218105 TATAATATTAATTAAGTTGTGTATTATGTATTATGTACGTTAT-
1 TATAATATTAATTAAGTTGTGTATTATGTATTATGTACGTTATG
32218148 T-TAATATTAATTAAGTTGTGTATTATGTATTATGTACGTTATG
1 TATAATATTAATTAAGTTGTGTATTATGTATTATGTACGTTATG
*
32218191 TATAATATTAATTAAGTTGTGTATTATGTATTATGTATGTTATG
1 TATAATATTAATTAAGTTGTGTATTATGTATTATGTACGTTATG
*
32218235 TATAATATTAATTAAGTTGTGTATTATGCATTATGTACGTTATG
1 TATAATATTAATTAAGTTGTGTATTATGTATTATGTACGTTATG
*
32218279 TATAATATTAATTAAGTTTTGTATTATGTATTATGTACGTTAT-
1 TATAATATTAATTAAGTTGTGTATTATGTATTATGTACGTTATG
*
32218322 T-TAATATTAATTAAGTTGTGTATTATGTATTATGTATGTTATG
1 TATAATATTAATTAAGTTGTGTATTATGTATTATGTACGTTATG
* * *
32218365 TATAATATTAATTAGGTTGTGTAATATGTTTTATGTACGTTATG
1 TATAATATTAATTAAGTTGTGTATTATGTATTATGTACGTTATG
32218409 TATAATATTAATTAAGTTGTGTATTATGTATTATGTACGTTATG
1 TATAATATTAATTAAGTTGTGTATTATGTATTATGTACGTTATG
32218453 TATAATATTAATTAAGTTGTGTATTATGTATTATGTACGTTATG
1 TATAATATTAATTAAGTTGTGTATTATGTATTATGTACGTTATG
32218497 TATAATATTAATTAAGTTGTGTATTATGTATT
1 TATAATATTAATTAAGTTGTGTATTATGTATT
32218529 TAAGTTGTGT
Statistics
Matches: 736, Mismatches: 32, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
42 120 0.16
43 6 0.01
44 610 0.83
ACGTcount: A:0.32, C:0.02, G:0.15, T:0.50
Consensus pattern (44 bp):
TATAATATTAATTAAGTTGTGTATTATGTATTATGTACGTTATG
Found at i:32218005 original size:174 final size:176
Alignment explanation
Indices: 32217711--32218528 Score: 1432
Period size: 174 Copynumber: 4.7 Consensus size: 176
32217701 AAACAGCACA
* *
32217711 TATAATATTAATTAAGTTGTGTATTATGTATTATGTACATTATATATAATATTAATTAAGTTGTG
1 TATAATATTAATTAAGTTGTGTATTATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTG
* * *
32217776 TATTATGTATTATGTATGTTATGTATAATATTAATTAAGTTGTGTAATGTGTATTATGTACGTTA
66 TATTATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTATTATGTATTATGTACGTTA
* *
32217841 TGTATAATATTAATTAAGTTGTGTATTATGCATTATGTACGTTATG
131 TGTATAATATTAATTAAGTTGTGTAATATGTATTATGTACGTTATG
32217887 TATAATATTAATTAAGTTGTGTATTATGTATTATGTACGTTAT-T-TAATATTAATTAAGTTGTG
1 TATAATATTAATTAAGTTGTGTATTATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTG
* *
32217950 TATTATGTATTATGTATGTTATGTATAATATTAATTAAGTTGTGTAATATGTATTATGTACGTTA
66 TATTATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTATTATGTATTATGTACGTTA
*
32218015 TGTATAATATTAATTAAGTTGTGTAATATGTATTATGTATGTTATG
131 TGTATAATATTAATTAAGTTGTGTAATATGTATTATGTACGTTATG
*
32218061 TATAATATTAATTAAGTTGTGTATTATGCATTATGTACGTTATGTATAATATTAATTAAGTTGTG
1 TATAATATTAATTAAGTTGTGTATTATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTG
32218126 TATTATGTATTATGTACGTTAT-T-TAATATTAATTAAGTTGTGTATTATGTATTATGTACGTTA
66 TATTATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTATTATGTATTATGTACGTTA
* *
32218189 TGTATAATATTAATTAAGTTGTGTATTATGTATTATGTATGTTATG
131 TGTATAATATTAATTAAGTTGTGTAATATGTATTATGTACGTTATG
* *
32218235 TATAATATTAATTAAGTTGTGTATTATGCATTATGTACGTTATGTATAATATTAATTAAGTTTTG
1 TATAATATTAATTAAGTTGTGTATTATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTG
*
32218300 TATTATGTATTATGTACGTTAT-T-TAATATTAATTAAGTTGTGTATTATGTATTATGTATGTTA
66 TATTATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTATTATGTATTATGTACGTTA
* *
32218363 TGTATAATATTAATTAGGTTGTGTAATATGTTTTATGTACGTTATG
131 TGTATAATATTAATTAAGTTGTGTAATATGTATTATGTACGTTATG
32218409 TATAATATTAATTAAGTTGTGTATTATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTG
1 TATAATATTAATTAAGTTGTGTATTATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTG
32218474 TATTATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTATTATGTATT
66 TATTATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTATTATGTATT
32218529 TAAGTTGTGT
Statistics
Matches: 621, Mismatches: 17, Indels: 8
0.96 0.03 0.01
Matches are distributed among these distances:
174 505 0.81
175 4 0.01
176 112 0.18
ACGTcount: A:0.32, C:0.02, G:0.15, T:0.50
Consensus pattern (176 bp):
TATAATATTAATTAAGTTGTGTATTATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTG
TATTATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTATTATGTATTATGTACGTTA
TGTATAATATTAATTAAGTTGTGTAATATGTATTATGTACGTTATG
Found at i:32218321 original size:16 final size:15
Alignment explanation
Indices: 32218124--32218367 Score: 62
Period size: 16 Copynumber: 16.9 Consensus size: 15
32218114 AATTAAGTTG
32218124 TGTA-TTATGTATTA
1 TGTAGTTATGTATTA
* *
32218138 TGTACGTTATTTAATA
1 TGTA-GTTATGTATTA
* * *
32218154 T-TAATTAAG--TTG
1 TGTAGTTATGTATTA
32218166 TGTA-TTATGTATTA
1 TGTAGTTATGTATTA
32218180 TGTACGTTATGTATAATA
1 TGTA-GTTATGTAT--TA
* * *
32218198 T-TAATTAAG--TTG
1 TGTAGTTATGTATTA
32218210 TGTA-TTATGTATTA
1 TGTAGTTATGTATTA
32218224 TGTATGTTATGTATAATA
1 TGTA-GTTATGTAT--TA
* * *
32218242 T-TAATTAAG--TTG
1 TGTAGTTATGTATTA
*
32218254 TGTA-TTATGCATTA
1 TGTAGTTATGTATTA
32218268 TGTACGTTATGTATAATA
1 TGTA-GTTATGTAT--TA
* *
32218286 T-TAATTAAGT-TT-
1 TGTAGTTATGTATTA
32218298 TGTA-TTATGTATTA
1 TGTAGTTATGTATTA
* *
32218312 TGTACGTTATTTAATA
1 TGTA-GTTATGTATTA
* * *
32218328 T-TAATTAAG--TTG
1 TGTAGTTATGTATTA
32218340 TGTA-TTATGTATTA
1 TGTAGTTATGTATTA
32218354 TGTATGTTATGTAT
1 TGTA-GTTATGTAT
32218368 AATATTAATT
Statistics
Matches: 165, Mismatches: 32, Indels: 64
0.63 0.12 0.25
Matches are distributed among these distances:
12 30 0.18
13 13 0.08
14 40 0.24
15 5 0.03
16 62 0.38
17 6 0.04
18 9 0.05
ACGTcount: A:0.31, C:0.02, G:0.15, T:0.52
Consensus pattern (15 bp):
TGTAGTTATGTATTA
Found at i:32218528 original size:218 final size:218
Alignment explanation
Indices: 32217713--32218524 Score: 1439
Period size: 218 Copynumber: 3.7 Consensus size: 218
32217703 ACAGCACATA
* *
32217713 TAATATTAATTAAGTTGTGTATTATGTATTATGTACATTATATATAATATTAATTAAGTTGTGTA
1 TAATATTAATTAAGTTGTGTATTATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTA
* *
32217778 TTATGTATTATGTATGTTATGTATAATATTAATTAAGTTGTGTAATGTGTATTATGTACGTTATG
66 TTATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTAATATGTATTATGTACGTTATG
32217843 TATAATATTAATTAAGTTGTGTATTATGCATTATGTACGTTATGTATAATATTAATTAAGTTGTG
131 TATAATATTAATTAAGTTGTGTATTATGCATTATGTACGTTATGTATAATATTAATTAAGTTGTG
32217908 TATTATGTATTATGTACGTTATT
196 TATTATGTATTATGTACGTTATT
*
32217931 TAATATTAATTAAGTTGTGTATTATGTATTATGTATGTTATGTATAATATTAATTAAGTTGTGTA
1 TAATATTAATTAAGTTGTGTATTATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTA
* *
32217996 ATATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTAATATGTATTATGTATGTTATG
66 TTATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTAATATGTATTATGTACGTTATG
32218061 TATAATATTAATTAAGTTGTGTATTATGCATTATGTACGTTATGTATAATATTAATTAAGTTGTG
131 TATAATATTAATTAAGTTGTGTATTATGCATTATGTACGTTATGTATAATATTAATTAAGTTGTG
32218126 TATTATGTATTATGTACGTTATT
196 TATTATGTATTATGTACGTTATT
32218149 TAATATTAATTAAGTTGTGTATTATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTA
1 TAATATTAATTAAGTTGTGTATTATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTA
* * *
32218214 TTATGTATTATGTATGTTATGTATAATATTAATTAAGTTGTGTATTATGCATTATGTACGTTATG
66 TTATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTAATATGTATTATGTACGTTATG
* *
32218279 TATAATATTAATTAAGTTTTGTATTATGTATTATGTACGTTAT-T-TAATATTAATTAAGTTGTG
131 TATAATATTAATTAAGTTGTGTATTATGCATTATGTACGTTATGTATAATATTAATTAAGTTGTG
*
32218342 TATTATGTATTATGTATGTTATGT
196 TATTATGTATTATGTACGTTAT-T
* * *
32218366 ATAATATTAATTAGGTTGTGTAATATGTTTTATGTACGTTATGTATAATATTAATTAAGTTGTGT
1 -TAATATTAATTAAGTTGTGTATTATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGT
*
32218431 ATTATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTATTATGTATTATGTACGTTAT
65 ATTATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTAATATGTATTATGTACGTTAT
32218496 GTATAATATTAATTAAGTTGTGTATTATG
130 GTATAATATTAATTAAGTTGTGTATTATG
32218525 TATTTAAGTT
Statistics
Matches: 570, Mismatches: 22, Indels: 4
0.96 0.04 0.01
Matches are distributed among these distances:
216 40 0.07
217 2 0.00
218 528 0.93
ACGTcount: A:0.32, C:0.02, G:0.16, T:0.50
Consensus pattern (218 bp):
TAATATTAATTAAGTTGTGTATTATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTA
TTATGTATTATGTACGTTATGTATAATATTAATTAAGTTGTGTAATATGTATTATGTACGTTATG
TATAATATTAATTAAGTTGTGTATTATGCATTATGTACGTTATGTATAATATTAATTAAGTTGTG
TATTATGTATTATGTACGTTATT
Found at i:32218550 original size:16 final size:17
Alignment explanation
Indices: 32218508--32218555 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 17
32218498 ATAATATTAA
32218508 TTAAGTTGTGTATTATG
1 TTAAGTTGTGTATTATG
32218525 TATTTAAGTTGTGTATTATG
1 ---TTAAGTTGTGTATTATG
*
32218545 -TAAGTTATGTA
1 TTAAGTTGTGTA
32218556 AGAAATGTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 10 0.37
20 17 0.63
ACGTcount: A:0.27, C:0.00, G:0.21, T:0.52
Consensus pattern (17 bp):
TTAAGTTGTGTATTATG
Found at i:32218554 original size:9 final size:9
Alignment explanation
Indices: 32218540--32218713 Score: 51
Period size: 9 Copynumber: 19.1 Consensus size: 9
32218530 AAGTTGTGTA
32218540 TTATGTAAG
1 TTATGTAAG
32218549 TTATGTAAG
1 TTATGTAAG
**
32218558 AAATGT-A-
1 TTATGTAAG
32218565 TTATGTAAG
1 TTATGTAAG
*
32218574 TTGTGT-A-
1 TTATGTAAG
* *
32218581 TAATGTTAG
1 TTATGTAAG
**
32218590 TTATCAAAG
1 TTATGTAAG
32218599 TTATGT-A-
1 TTATGTAAG
*
32218606 CTATGTAATTAG
1 TTATGT-A--AG
*
32218618 TTATTTAAG
1 TTATGTAAG
32218627 TTATGTAAG
1 TTATGTAAG
*
32218636 TT-TGTGTA-
1 TTATGT-AAG
*
32218644 TTATATAAG
1 TTATGTAAG
*
32218653 TTAT-TATG
1 TTATGTAAG
32218661 TTATTATGTAAG
1 ---TTATGTAAG
*
32218673 TTATGCAAG
1 TTATGTAAG
*
32218682 TTTATATAAG
1 -TTATGTAAG
*
32218692 TTTAAATATAAG
1 -TT--ATGTAAG
32218704 TTATGTAAG
1 TTATGTAAG
32218713 T
1 T
32218714 ATATCACTTT
Statistics
Matches: 120, Mismatches: 26, Indels: 38
0.65 0.14 0.21
Matches are distributed among these distances:
7 13 0.11
8 14 0.12
9 61 0.51
10 10 0.08
11 8 0.07
12 14 0.12
ACGTcount: A:0.34, C:0.02, G:0.17, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:32218557 original size:25 final size:24
Alignment explanation
Indices: 32218509--32218580 Score: 71
Period size: 25 Copynumber: 3.1 Consensus size: 24
32218499 TAATATTAAT
32218509 TAAGTTGTGTATTATGT-A--TT-
1 TAAGTTGTGTATTATGTAAGTTTG
32218529 TAAGTTGTGTATTATGTAAGTTATG
1 TAAGTTGTGTATTATGTAAGTT-TG
***
32218554 TAAGAAATGTATTATGTAAGTTGTG
1 TAAGTTGTGTATTATGTAAGTT-TG
32218579 TA
1 TA
32218581 TAATGTTAGT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
20 17 0.40
21 1 0.02
23 1 0.02
24 1 0.02
25 23 0.53
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (24 bp):
TAAGTTGTGTATTATGTAAGTTTG
Found at i:32218605 original size:41 final size:41
Alignment explanation
Indices: 32218529--32218613 Score: 107
Period size: 41 Copynumber: 2.1 Consensus size: 41
32218519 ATTATGTATT
* ** *
32218529 TAAGTTGTGTATTATGTAAGTTATGTAAGAAATGTATTATG
1 TAAGTTGTGTATAATGTAAGTTATCAAAGAAATGTACTATG
* **
32218570 TAAGTTGTGTATAATGTTAGTTATCAAAGTTATGTACTATG
1 TAAGTTGTGTATAATGTAAGTTATCAAAGAAATGTACTATG
32218611 TAA
1 TAA
32218614 TTAGTTATTT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.34, C:0.02, G:0.20, T:0.44
Consensus pattern (41 bp):
TAAGTTGTGTATAATGTAAGTTATCAAAGAAATGTACTATG
Found at i:32218676 original size:17 final size:18
Alignment explanation
Indices: 32218627--32218677 Score: 59
Period size: 20 Copynumber: 2.8 Consensus size: 18
32218617 GTTATTTAAG
32218627 TTATGTAAGTT-TGTGTA
1 TTATGTAAGTTATGTGTA
* *
32218644 TTATATAAGTTATTATGTTA
1 TTATGTAAGTTA-TGTG-TA
32218664 TTATGTAAGTTATG
1 TTATGTAAGTTATG
32218678 CAAGTTTATA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
17 10 0.37
19 4 0.15
20 13 0.48
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.53
Consensus pattern (18 bp):
TTATGTAAGTTATGTGTA
Found at i:32219892 original size:146 final size:147
Alignment explanation
Indices: 32219665--32219982 Score: 388
Period size: 146 Copynumber: 2.2 Consensus size: 147
32219655 GTTTATATAT
* * * *
32219665 AAGCGCCACTAACTATAAGTCAAAACGCAGTCGTTTCATCAACAAATAGCTCAAACCTGTGGCAT
1 AAGCGCCACTAACTATAAGTCAAAACGCAGTCGCTTCATCAACAAATACCTCAAACCCGTGACAT
** * * * * * *
32219730 TTTTTAATAAATGCCACTAAT-A-ATATAGCAAAACAGCATCGTATCAATAAATGTTAAAATATT
66 TTTCGAAAAAACGCCACTAATAACATATA-AAAAACAGCAGCGTATCAATAAATGTTAAAACAAT
*
32219793 TTTGCGGCATTTTAAGCA
130 TTTGCAGCATTTTAAGCA
* ** *
32219811 AAGCACCACTAACTATAAGTCAAAACGCAGTCGCTTCATCAACACTTACCTCAAACCCGTGACGT
1 AAGCGCCACTAACTATAAGTCAAAACGCAGTCGCTTCATCAACAAATACCTCAAACCCGTGACAT
* * * * *
32219876 TTTCGAAAAAACGCCACTAATAACATTTAAAAAACGGCAGCGTTTCTATAAATGTTAGAACAATT
66 TTTCGAAAAAACGCCACTAATAACATATAAAAAACAGCAGCGTATCAATAAATGTTAAAACAATT
* *
32219941 TTGCAGCGTTTTAAGTA
131 TTGCAGCATTTTAAGCA
32219958 AAGCGCCACTAACTATAAGTTCAAA
1 AAGCGCCACTAACTATAAG-TCAAA
32219983 CGAGGTCGTT
Statistics
Matches: 144, Mismatches: 25, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
146 74 0.51
147 61 0.42
148 9 0.06
ACGTcount: A:0.39, C:0.21, G:0.13, T:0.27
Consensus pattern (147 bp):
AAGCGCCACTAACTATAAGTCAAAACGCAGTCGCTTCATCAACAAATACCTCAAACCCGTGACAT
TTTCGAAAAAACGCCACTAATAACATATAAAAAACAGCAGCGTATCAATAAATGTTAAAACAATT
TTGCAGCATTTTAAGCA
Found at i:32220057 original size:147 final size:147
Alignment explanation
Indices: 32219665--32220074 Score: 362
Period size: 147 Copynumber: 2.8 Consensus size: 147
32219655 GTTTATATAT
* * * ** * * *
32219665 AAGCGCCACTAACTATAAGTCAAAACGCAGTCGTTTCATCAACAAATAGCTCAAACCTGTGGC-A
1 AAGCACCACTAACTATAAGTCAAAACGCAGTCGCTTCACCAACACTTAACTCAAACCCGTGACGA
*** * * * * * * *
32219729 TTTTTTAATAAATGCCACTAATAATATAG-CAAAACAGCATCGTATCAATAAATGTTAAAATATT
66 -TTCCGAAAAAACGCCACTAATAACATAGACAAAACGGCAGCGTATCAATAAATGTTAAAACAAT
*
32219793 TTTGCGGCATTTTAAGCA
130 TTTGCAGCATTTTAAGCA
* * *
32219811 AAGCACCACTAACTATAAGTCAAAACGCAGTCGCTTCATCAACACTTACCTCAAACCCGTGACGT
1 AAGCACCACTAACTATAAGTCAAAACGCAGTCGCTTCACCAACACTTAACTCAAACCCGTGACGA
* ** * * * *
32219876 TTTCGAAAAAACGCCACTAATAACATTTAAAAAACGGCAGCGTTTCTATAAATGTTAGAACAATT
66 TTCCGAAAAAACGCCACTAATAACATAGACAAAACGGCAGCGTATCAATAAATGTTAAAACAATT
* *
32219941 TTGCAGCGTTTTAAGTA
131 TTGCAGCATTTTAAGCA
* * * * * ** *
32219958 AAGCGCCACTAACTATAAGTTC-AAACG-AGGTCGTTTCCCCAACAGTTAACTCAAGCTTGTGGC
1 AAGCACCACTAACTATAAG-TCAAAACGCA-GTCGCTTCACCAACACTTAACTCAAACCCGTGAC
* * * *
32220021 GATTCC-AGAAAAACGCCACTAATACCATAGACAAAACGACAACATATCAATAAA
64 GATTCCGA-AAAAACGCCACTAATAACATAGACAAAACGGCAGCGTATCAATAAA
32220075 CATAATTACA
Statistics
Matches: 212, Mismatches: 47, Indels: 9
0.79 0.18 0.03
Matches are distributed among these distances:
146 79 0.37
147 131 0.62
148 2 0.01
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.25
Consensus pattern (147 bp):
AAGCACCACTAACTATAAGTCAAAACGCAGTCGCTTCACCAACACTTAACTCAAACCCGTGACGA
TTCCGAAAAAACGCCACTAATAACATAGACAAAACGGCAGCGTATCAATAAATGTTAAAACAATT
TTGCAGCATTTTAAGCA
Found at i:32221447 original size:73 final size:72
Alignment explanation
Indices: 32221287--32221718 Score: 442
Period size: 71 Copynumber: 5.8 Consensus size: 72
32221277 TTTTTCGGAA
* * * * *
32221287 AAGCGCCGCTAATACCACTGCATCTCAAATCAAAACGATGCATTTT-GATTATTTTTGTGGCG-T
1 AAGCGCCGCTAATGCCACTACATCTCAAATCAAAACGATGCGTTTTGGTTTTTTTTTGTGGCGCT
32221350 TTTCACAG
66 TTT-ACAG
*
32221358 AAGCGCCGCTAATGCCACTACATCTCAAATCAAAATGATGCGTTTTGGTTTTTTTCTTGTGGCGC
1 AAGCGCCGCTAATGCCACTACATCTCAAATCAAAACGATGCGTTTTGGTTTTTTT-TTGTGGCGC
32221423 TTTTACAG
65 TTTTACAG
* * *** * ** *
32221431 AAGCGCCGCTAATGCCACTACGGCGCTAATGC-CACTACATCTCAAATCAAAAGGATGCGTTTTG
1 AAGCGCCGCTAATGCCACTA-----C--AT-CTCA--A-A--TCAAAACGATGCGTTTTGGTTT-
32221495 GTTTTTTTTTTGTGGCGCTTTTACAG
52 -----TTTTTTGTGGCGCTTTTACAG
*
32221521 AAGCGCCGCTAATGCCACTACATCTCAAATCAAAACGATGTGTTTTGG-TTTTTTTTGTGGCGCT
1 AAGCGCCGCTAATGCCACTACATCTCAAATCAAAACGATGCGTTTTGGTTTTTTTTTGTGGCGCT
32221585 TTTACAG
66 TTTACAG
* *
32221592 AAGCGCCGCTAACGCCACTACATCTCAAATCAAAATGATGCGTTTTGG-TTTTTTTTGTGGCGCT
1 AAGCGCCGCTAATGCCACTACATCTCAAATCAAAACGATGCGTTTTGGTTTTTTTTTGTGGCGCT
*
32221656 TTTATAG
66 TTTACAG
** *
32221663 AAGCGCCGCTAATGCCACTACATCTCAAATCAAAACGATGTTTTTTGATTTTTTTT
1 AAGCGCCGCTAATGCCACTACATCTCAAATCAAAACGATGCGTTTTGGTTTTTTTT
32221719 GCGGCAATGC
Statistics
Matches: 303, Mismatches: 34, Indels: 47
0.79 0.09 0.12
Matches are distributed among these distances:
71 173 0.57
72 13 0.04
73 32 0.11
74 4 0.01
77 2 0.01
78 11 0.04
80 5 0.02
81 2 0.01
82 2 0.01
83 5 0.02
85 13 0.04
90 37 0.12
91 4 0.01
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (72 bp):
AAGCGCCGCTAATGCCACTACATCTCAAATCAAAACGATGCGTTTTGGTTTTTTTTTGTGGCGCT
TTTACAG
Found at i:32221517 original size:90 final size:90
Alignment explanation
Indices: 32221364--32221541 Score: 338
Period size: 90 Copynumber: 2.0 Consensus size: 90
32221354 ACAGAAGCGC
*
32221364 CGCTAATGCCACTACATCTCAAATCAAAATGATGCGTTTTGGTTTTTTTCTTGTGGCGCTTTTAC
1 CGCTAATGCCACTACATCTCAAATCAAAAGGATGCGTTTTGGTTTTTTTCTTGTGGCGCTTTTAC
32221429 AGAAGCGCCGCTAATGCCACTACGG
66 AGAAGCGCCGCTAATGCCACTACGG
*
32221454 CGCTAATGCCACTACATCTCAAATCAAAAGGATGCGTTTTGGTTTTTTTTTTGTGGCGCTTTTAC
1 CGCTAATGCCACTACATCTCAAATCAAAAGGATGCGTTTTGGTTTTTTTCTTGTGGCGCTTTTAC
32221519 AGAAGCGCCGCTAATGCCACTAC
66 AGAAGCGCCGCTAATGCCACTAC
32221542 ATCTCAAATC
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
90 86 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.33
Consensus pattern (90 bp):
CGCTAATGCCACTACATCTCAAATCAAAAGGATGCGTTTTGGTTTTTTTCTTGTGGCGCTTTTAC
AGAAGCGCCGCTAATGCCACTACGG
Found at i:32221749 original size:51 final size:52
Alignment explanation
Indices: 32221673--32221772 Score: 175
Period size: 51 Copynumber: 1.9 Consensus size: 52
32221663 AAGCGCCGCT
*
32221673 AATGCCACTACATCTCAAATCAAAACGATGTTTTTTGATT-TTTTTTGCGGC
1 AATGCCACTACATCTCAAATCAAAACGATGTGTTTTGATTATTTTTTGCGGC
*
32221724 AATGCCACTGCATCTCAAATCAAAACGATGTGTTTTGATTATTTTTTGC
1 AATGCCACTACATCTCAAATCAAAACGATGTGTTTTGATTATTTTTTGC
32221773 TGCGCTTTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
51 38 0.83
52 8 0.17
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (52 bp):
AATGCCACTACATCTCAAATCAAAACGATGTGTTTTGATTATTTTTTGCGGC
Found at i:32221841 original size:123 final size:122
Alignment explanation
Indices: 32221605--32221841 Score: 332
Period size: 123 Copynumber: 1.9 Consensus size: 122
32221595 CGCCGCTAAC
* *
32221605 GCCACTACATCTCAAATCAAAATGATGCGTTTTGGTTTTTTTTGTGGCGCTTTTATAGAAGCGCC
1 GCCACTACATCTCAAATCAAAACGATGCGTTTTGATTTTTTTTGTGGCGCTTTTATAGAAGCGCC
* * ** * *
32221670 GCTAATGCCACTACATCTCAAATCAAAACGATGTTTTTTGATTTTTTTTGCGGCAAT
66 GCTAATGCCACAACATCTCAAATCAAAACGAAGCGTTTGGATTATTTTTGCGGCAAT
* * *
32221727 GCCACTGCATCTCAAATCAAAACGATGTGTTTTGATTATTTTTTGCT-GCGCTTTTATGGAAGCG
1 GCCACTACATCTCAAATCAAAACGATGCGTTTTGATT-TTTTTTG-TGGCGCTTTTATAGAAGCG
* *
32221791 CCGCTAGTGCCACAACATCTCAAATCAAAACGAAGCGTTTGGGTTATTTTT
64 CCGCTAATGCCACAACATCTCAAATCAAAACGAAGCGTTTGGATTATTTTT
32221842 TTGCAGCATT
Statistics
Matches: 100, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
122 33 0.33
123 66 0.66
124 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (122 bp):
GCCACTACATCTCAAATCAAAACGATGCGTTTTGATTTTTTTTGTGGCGCTTTTATAGAAGCGCC
GCTAATGCCACAACATCTCAAATCAAAACGAAGCGTTTGGATTATTTTTGCGGCAAT
Found at i:32221887 original size:73 final size:73
Alignment explanation
Indices: 32221724--32221946 Score: 277
Period size: 73 Copynumber: 3.1 Consensus size: 73
32221714 TTTTTGCGGC
* * * * *
32221724 AATGCCACTGCATCTCAAATCAAAACGATGTGTTTTGATTA-TTTTTTGCTGCGCTTTTATGGAA
1 AATGCCACTACATCTCAAATCAAAACGATGCGTTTGGATTATTTTTTTGCTGCGTTTTTACGGAA
*
32221788 GCGCCGCT
66 TCGCCGCT
* * * * * *
32221796 AGTGCCACAACATCTCAAATCAAAACGAAGCGTTTGGGTTATTTTTTTGCAGCATTTTTACGGAA
1 AATGCCACTACATCTCAAATCAAAACGATGCGTTTGGATTATTTTTTTGCTGCGTTTTTACGGAA
*
32221861 TCACCGCT
66 TCGCCGCT
* * * *
32221869 AATGCCACTACATTTCAAATCAAAACGATGCGTTTGGATTATTTGTTTGCTGCGTTTCTACAGAA
1 AATGCCACTACATCTCAAATCAAAACGATGCGTTTGGATTATTTTTTTGCTGCGTTTTTACGGAA
*
32221934 TTGCCGCT
66 TCGCCGCT
32221942 AATGC
1 AATGC
32221947 TCAATTTTTA
Statistics
Matches: 125, Mismatches: 25, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
72 34 0.27
73 91 0.73
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.34
Consensus pattern (73 bp):
AATGCCACTACATCTCAAATCAAAACGATGCGTTTGGATTATTTTTTTGCTGCGTTTTTACGGAA
TCGCCGCT
Found at i:32222774 original size:19 final size:19
Alignment explanation
Indices: 32222744--32222809 Score: 96
Period size: 20 Copynumber: 3.3 Consensus size: 19
32222734 ATTTTATAAT
32222744 TTTTTTATAAATATTTTGAA
1 TTTTTTA-AAATATTTTGAA
32222764 TTTTTTAAAATTATTTTGAA
1 TTTTTTAAAA-TATTTTGAA
*
32222784 TTTTTTAAATTTATTTTGAA
1 TTTTTTAAA-ATATTTTGAA
32222804 TTTTTT
1 TTTTTT
32222810 TGTTGAAAGA
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
19 3 0.07
20 40 0.93
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (19 bp):
TTTTTTAAAATATTTTGAA
Found at i:32228173 original size:8 final size:8
Alignment explanation
Indices: 32228160--32228190 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
32228150 AATGCTTTAA
32228160 AAATTGTC
1 AAATTGTC
32228168 AAATTGTC
1 AAATTGTC
32228176 AAATTGTC
1 AAATTGTC
32228184 AAATTGT
1 AAATTGT
32228191 ATTTTCTTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.39
Consensus pattern (8 bp):
AAATTGTC
Found at i:32229308 original size:25 final size:25
Alignment explanation
Indices: 32229273--32229329 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
32229263 GAAGTTTCTT
* *
32229273 TTATTTAATGTTTTCTATCTGATTA
1 TTATTTTATGTTTTATATCTGATTA
32229298 TTATTTTATGTTTTATATCTGATTA
1 TTATTTTATGTTTTATATCTGATTA
32229323 TTATTTT
1 TTATTTT
32229330 TCATTCTTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.23, C:0.05, G:0.07, T:0.65
Consensus pattern (25 bp):
TTATTTTATGTTTTATATCTGATTA
Found at i:32235421 original size:12 final size:12
Alignment explanation
Indices: 32235404--32235428 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32235394 AAGACGAATC
32235404 AATCTGTCAACG
1 AATCTGTCAACG
32235416 AATCTGTCAACG
1 AATCTGTCAACG
32235428 A
1 A
32235429 GTGGGTACAT
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:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (12 bp):
AATCTGTCAACG
Found at i:32241761 original size:28 final size:28
Alignment explanation
Indices: 32241728--32241782 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
32241718 TATTGCTGTC
32241728 TCAAAACTGATTCACTACCAATTTTTAA
1 TCAAAACTGATTCACTACCAATTTTTAA
32241756 TCAAAACTGATTCACTACCAATTTTTA
1 TCAAAACTGATTCACTACCAATTTTTA
32241783 CTTTTTCATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.38, C:0.22, G:0.04, T:0.36
Consensus pattern (28 bp):
TCAAAACTGATTCACTACCAATTTTTAA
Found at i:32242528 original size:50 final size:50
Alignment explanation
Indices: 32242460--32242642 Score: 258
Period size: 50 Copynumber: 3.7 Consensus size: 50
32242450 TTTTTTGTAC
* * ** *
32242460 TGCCAATGCCATATCCCAGATATAGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATAGTCTTACATGGGACCTCTCATCTCGG
* * *
32242510 TGCCCATGCCATGTCCCAGACATAGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATAGTCTTACATGGGACCTCTCATCTCGG
* * *
32242560 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATAGTCTTACATGGGACCTCTCATCTCGG
*
32242610 TGCCAATGCCATGTCCCAGACATGGTCTTACAT
1 TGCCAATGCCATGTCCCAGACATAGTCTTACAT
32242643 CCCAAACATG
Statistics
Matches: 118, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 118 1.00
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATAGTCTTACATGGGACCTCTCATCTCGG
Found at i:32242651 original size:19 final size:19
Alignment explanation
Indices: 32242623--32242661 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
32242613 CAATGCCATG
*
32242623 TCCCAGACATGGTCTTACA
1 TCCCAAACATGGTCTTACA
32242642 TCCCAAACATGGTCTTACA
1 TCCCAAACATGGTCTTACA
32242661 T
1 T
32242662 GGGACCTCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (19 bp):
TCCCAAACATGGTCTTACA
Done.