Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 205 of 410
Found at i:62697815 original size:15 final size:15
Alignment explanation
Indices: 62697767--62697846 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
62697757 CAAAGATAAC
*
62697767 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
62697781 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
62697796 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
62697811 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
62697826 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
62697841 AAGAAA
1 AAGAAA
62697847 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:62697855 original size:15 final size:15
Alignment explanation
Indices: 62697778--62697855 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
62697768 AGAAAACCGA
62697778 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
62697793 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
62697807 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
62697822 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
62697838 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
62697853 ATA
1 ATA
62697856 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:62702489 original size:15 final size:15
Alignment explanation
Indices: 62702469--62702537 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
62702459 GTATCTTGGG
62702469 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
62702484 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
62702499 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
62702514 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
62702529 TTTCTTTAT
1 TTTCTTTAT
62702538 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:62702538 original size:30 final size:30
Alignment explanation
Indices: 62702460--62702547 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
62702450 CATAGTATCG
* * * *
62702460 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
62702490 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
62702520 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
62702548 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:62704833 original size:93 final size:93
Alignment explanation
Indices: 62704721--62704892 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
62704711 GCCCATAAGT
* *
62704721 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
62704786 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
62704814 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
62704879 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
62704893 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:62704888 original size:46 final size:46
Alignment explanation
Indices: 62704713--62704888 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
62704703 TGTAACCCGC
* * *
62704713 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
62704759 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
62704809 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
62704852 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
62704889 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:62707312 original size:30 final size:30
Alignment explanation
Indices: 62707268--62707356 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
62707258 CAAAGATAAC
62707268 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
62707297 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
62707327 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
62707357 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:62707316 original size:15 final size:15
Alignment explanation
Indices: 62707268--62707347 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
62707258 CAAAGATAAC
*
62707268 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
62707282 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
62707297 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
62707312 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
62707327 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
62707342 AAGAAA
1 AAGAAA
62707348 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:62707356 original size:15 final size:15
Alignment explanation
Indices: 62707279--62707356 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
62707269 AGAAAACCGA
62707279 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
62707294 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
62707308 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
62707323 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
62707339 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
62707354 ATA
1 ATA
62707357 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:62710408 original size:93 final size:93
Alignment explanation
Indices: 62710296--62710467 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
62710286 GCCCATAAGT
* *
62710296 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
62710361 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
62710389 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
62710454 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
62710468 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:62710463 original size:46 final size:46
Alignment explanation
Indices: 62710288--62710463 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
62710278 TGTAACCCGC
* * *
62710288 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
62710334 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
62710384 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
62710427 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
62710464 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:62717781 original size:28 final size:26
Alignment explanation
Indices: 62717741--62717800 Score: 84
Period size: 28 Copynumber: 2.2 Consensus size: 26
62717731 TCGAATAAAA
* *
62717741 AAATTTCGAGTTAATATTTTATGATTTG
1 AAATTTCGAGTTAA-AATTT-CGATTTG
62717769 AAATTTCGAGTTAAAATTTCGATTTG
1 AAATTTCGAGTTAAAATTTCGATTTG
62717795 AAATTT
1 AAATTT
62717801 TCTCGTATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 12 0.40
27 4 0.13
28 14 0.47
ACGTcount: A:0.35, C:0.05, G:0.13, T:0.47
Consensus pattern (26 bp):
AAATTTCGAGTTAAAATTTCGATTTG
Found at i:62718029 original size:19 final size:18
Alignment explanation
Indices: 62718003--62718039 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
62717993 ATGTATTATA
62718003 AAATTAAAAAAATATATT
1 AAATTAAAAAAATATATT
*
62718021 AAATGTAAAAATATATATT
1 AAAT-TAAAAAAATATATT
62718040 TTTTAATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (18 bp):
AAATTAAAAAAATATATT
Found at i:62719322 original size:42 final size:42
Alignment explanation
Indices: 62719275--62719384 Score: 161
Period size: 42 Copynumber: 2.6 Consensus size: 42
62719265 CATAGTTCAA
*
62719275 CTATGGTCTTACACATCTTCACATAAT-GACGCCATAGCCCAG
1 CTATGGTCTTACACATATTCACAT-ATCGACGCCATAGCCCAG
* *
62719317 CTATGGTCTTACACATATTCATATATCGATGCCATAGCCCAG
1 CTATGGTCTTACACATATTCACATATCGACGCCATAGCCCAG
*
62719359 CTATGGTCTTACACA-AATCACATATC
1 CTATGGTCTTACACATATTCACATATC
62719385 TCACTGATGC
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
41 11 0.18
42 51 0.82
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.29
Consensus pattern (42 bp):
CTATGGTCTTACACATATTCACATATCGACGCCATAGCCCAG
Found at i:62719446 original size:47 final size:46
Alignment explanation
Indices: 62719343--62719465 Score: 156
Period size: 47 Copynumber: 2.7 Consensus size: 46
62719333 ATTCATATAT
* * * * *
62719343 CGATGCCATAGCCCAGCTATGGTCTTACACAAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTATACAAAGCACATATCACAC
* * *
62719389 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATACA-AAGCACATATCACAC
*
62719436 CGATGCCATATCCTAGATATGGTCTTATAC
1 CGATGCCATATCCCAGATATGGTCTTATAC
62719466 GGAAATAACT
Statistics
Matches: 66, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
46 27 0.41
47 39 0.59
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (46 bp):
CGATGCCATATCCCAGATATGGTCTTATACAAAGCACATATCACAC
Found at i:62719534 original size:31 final size:31
Alignment explanation
Indices: 62719491--62719671 Score: 256
Period size: 31 Copynumber: 5.8 Consensus size: 31
62719481 CTTGTCACTT
* *
62719491 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCTGAAGCTACCACTTTTCACTGATCAG
* *
62719522 GTAGAC-GGAGCTACCATTTTTTCACTGATCAG
1 GTAG-CTGAAGCTACCA-CTTTTCACTGATCAG
* *
62719554 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCTGAAGCTACCACTTTTCACTGATCAG
*
62719585 GTAGCTGAAACTACCACTTTTCACTGATCAG
1 GTAGCTGAAGCTACCACTTTTCACTGATCAG
* *
62719616 GTAGCAGAAGCTACCATTTTTCACTGATCAG
1 GTAGCTGAAGCTACCACTTTTCACTGATCAG
62719647 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCTGAAGCTACCACTTTTCACT
62719672 TGTCATTTGT
Statistics
Matches: 135, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
31 107 0.79
32 28 0.21
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCTGAAGCTACCACTTTTCACTGATCAG
Found at i:62719753 original size:50 final size:51
Alignment explanation
Indices: 62719647--62719770 Score: 180
Period size: 50 Copynumber: 2.5 Consensus size: 51
62719637 CACTGATCAG
* * * *
62719647 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATTAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
*
62719698 GTAGCCGAAGCTATCACTTATCACTT-TCACTTTTTC-TTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
62719748 GTAGCCGAAGCTATCACTTATCA
1 GTAGCCGAAGCTATCACTTATCA
62719771 TGTGATGGCC
Statistics
Matches: 67, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
50 39 0.58
51 28 0.42
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:62721838 original size:40 final size:39
Alignment explanation
Indices: 62721680--62721818 Score: 197
Period size: 39 Copynumber: 3.5 Consensus size: 39
62721670 GCATGATATT
*
62721680 TGGAAATATATCTGGACTTAAGGTCCGCAGGCTATATGC
1 TGGAAATATATCCGGACTTAAGGTCCGCAGGCTATATGC
*
62721719 TGGAATTATATCCGGACTTAAGGTCCGCAGGCTATATGC
1 TGGAAATATATCCGGACTTAAGGTCCGCAGGCTATATGC
* * * **
62721758 TGGAATTATAATCCGGACTTAAGGTTCGCAGGTTACGTGC
1 TGGAAATAT-ATCCGGACTTAAGGTCCGCAGGCTATATGC
*
62721798 TGGAAATATATCCGGGCTTAA
1 TGGAAATATATCCGGACTTAA
62721819 AGTTCCAAAG
Statistics
Matches: 91, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
39 57 0.63
40 34 0.37
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (39 bp):
TGGAAATATATCCGGACTTAAGGTCCGCAGGCTATATGC
Found at i:62724761 original size:28 final size:28
Alignment explanation
Indices: 62724705--62724761 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
62724695 GAATAGGAGG
* **
62724705 AGAGTAAAAGTTTTGGGGGAAGTGGAAA
1 AGAGTAAAAGCTTTGGGGGAAAAGGAAA
*
62724733 AGAGTAAAAGCTTTGGGGGAAAAGTAAA
1 AGAGTAAAAGCTTTGGGGGAAAAGGAAA
62724761 A
1 A
62724762 ATATTTGATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.44, C:0.02, G:0.35, T:0.19
Consensus pattern (28 bp):
AGAGTAAAAGCTTTGGGGGAAAAGGAAA
Found at i:62727059 original size:37 final size:37
Alignment explanation
Indices: 62727006--62727108 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
62726996 CGAATAGTCC
*
62727006 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
* *
62727043 CCACACATAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
62727080 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
62727109 ATATATTTCC
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:62727307 original size:48 final size:48
Alignment explanation
Indices: 62727249--62727769 Score: 925
Period size: 48 Copynumber: 10.9 Consensus size: 48
62727239 ATATACACAC
*
62727249 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
62727297 ATCTCATACATATTTCAAACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
62727345 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
62727393 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATTCAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
62727441 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
62727489 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
62727537 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACCT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
62727585 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
62727633 ATCTCATATATATTTCACATTAGCCATTCGGCCTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
62727681 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
62727729 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
62727770 CACATATATA
Statistics
Matches: 461, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 461 1.00
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:62732743 original size:26 final size:26
Alignment explanation
Indices: 62732705--62732779 Score: 73
Period size: 26 Copynumber: 2.9 Consensus size: 26
62732695 GAAACTTCAG
* *
62732705 AGAGCCATAAATCAGGAAGCTCACAA
1 AGAGCCTTTAATCAGGAAGCTCACAA
*
62732731 AGAGCCTTTAATC-GGAAAGCTCACGA
1 AGAGCCTTTAATCAGG-AAGCTCACAA
* *
62732757 AGAGCCATATAA-CAGGACGCTCA
1 AGAGCC-TTTAATCAGGAAGCTCA
62732780 TAAGAGCTGC
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
25 2 0.05
26 33 0.80
27 6 0.15
ACGTcount: A:0.40, C:0.24, G:0.21, T:0.15
Consensus pattern (26 bp):
AGAGCCTTTAATCAGGAAGCTCACAA
Found at i:62740303 original size:16 final size:16
Alignment explanation
Indices: 62740282--62740313 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
62740272 GGAAGGTCTG
62740282 AATGAGGACATCAAGT
1 AATGAGGACATCAAGT
62740298 AATGAGGACATCAAGT
1 AATGAGGACATCAAGT
62740314 TGTTGATTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.25, T:0.19
Consensus pattern (16 bp):
AATGAGGACATCAAGT
Found at i:62745587 original size:44 final size:43
Alignment explanation
Indices: 62745437--62745694 Score: 190
Period size: 44 Copynumber: 6.0 Consensus size: 43
62745427 TTTTATCAAA
* * ** *
62745437 TCACCGGCATTTAGCCTGCTAGGTTTAAAAACCCGAAT--TCAT-
1 TCACCAGCATTTAGCCTGCTAGG-CTCGAAGCCCGAATAGT-ATC
* * *
62745479 TCACCAGCAGTTCGCCTGCTAGGCTCGAAGCCCG-ATA-TCATT
1 TCACCAGCATTTAGCCTGCTAGGCTCGAAGCCCGAATAGT-ATC
* * * *
62745521 TCACCGGCATATAGCTTGCTAGGCTCGAAAGCCCAAATAGTATC
1 TCACCAGCATTTAGCCTGCTAGGCTCG-AAGCCCGAATAGTATC
* * *
62745565 TCACCAGCATTTCGCATGCTAGGCTCGAAGCCTGAATAGTATC
1 TCACCAGCATTTAGCCTGCTAGGCTCGAAGCCCGAATAGTATC
*
62745608 TCA-CAGGCATTATAGCCTGCTA-GCTCAAAGGCCCGAATAGTATC
1 TCACCA-GCATT-TAGCCTGCTAGGCTCGAA-GCCCGAATAGTATC
* * * * *
62745652 TCACCGGTATTATAGCCTGCT-TGCTCAAATGCCCAAATAGTAT
1 TCACCAGCATT-TAGCCTGCTAGGCTCGAA-GCCCGAATAGTAT
62745695 TGTGCGATAT
Statistics
Matches: 178, Mismatches: 28, Indels: 18
0.79 0.12 0.08
Matches are distributed among these distances:
40 2 0.01
41 11 0.06
42 44 0.25
43 34 0.19
44 85 0.48
45 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (43 bp):
TCACCAGCATTTAGCCTGCTAGGCTCGAAGCCCGAATAGTATC
Found at i:62745588 original size:86 final size:87
Alignment explanation
Indices: 62745479--62745656 Score: 238
Period size: 87 Copynumber: 2.1 Consensus size: 87
62745469 CCGAATTCAT
* * * *
62745479 TCACCAGCAGTTCGCCTGCTAGGCTCGAAGCCCG-ATA-TCATTTCACCGGCA-TATAGCTTGCT
1 TCACCAGCAGTTCGCATGCTAGGCTCGAAGCCCGAATAGT-ATCTCACAGGCATTATAGCCTGCT
62745541 AGGCTCGAAA-GCCCAAATAGTATC
65 A-GCTC-AAAGGCCCAAATAGTATC
* *
62745565 TCACCAGCATTTCGCATGCTAGGCTCGAAGCCTGAATAGTATCTCACAGGCATTATAGCCTGCTA
1 TCACCAGCAGTTCGCATGCTAGGCTCGAAGCCCGAATAGTATCTCACAGGCATTATAGCCTGCTA
*
62745630 GCTCAAAGGCCCGAATAGTATC
66 GCTCAAAGGCCCAAATAGTATC
62745652 TCACC
1 TCACC
62745657 GGTATTATAG
Statistics
Matches: 81, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
86 34 0.42
87 35 0.43
88 12 0.15
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (87 bp):
TCACCAGCAGTTCGCATGCTAGGCTCGAAGCCCGAATAGTATCTCACAGGCATTATAGCCTGCTA
GCTCAAAGGCCCAAATAGTATC
Found at i:62746441 original size:46 final size:47
Alignment explanation
Indices: 62746358--62746498 Score: 225
Period size: 46 Copynumber: 3.0 Consensus size: 47
62746348 AAAATTTTCT
*
62746358 TTAACTAAGTAACTTATCCGGAAATAATAAG-GCCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGAG-CAAATTTAACAAGC
62746405 TTAACTAAGTAACTT-TCCGGAAATATTAAGAGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
* *
62746451 TTAACTAAGTAACTTATCCAGAAATATTAAAAGC-AATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
62746497 TT
1 TT
62746499 TATATTCAAC
Statistics
Matches: 89, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
46 57 0.64
47 32 0.36
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.28
Consensus pattern (47 bp):
TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
Found at i:62753192 original size:88 final size:88
Alignment explanation
Indices: 62753024--62753242 Score: 273
Period size: 88 Copynumber: 2.5 Consensus size: 88
62753014 AATGGTTCAT
* ** * **
62753024 TCACCGGCATTTCGCCTGCTAGGCTCAAAG-CCTGATA-TCATTTCACTGGCATTATAGCCTACT
1 TCACCGGCATTTCACCTGCTAGGCTCAAAGCCCAAATAGT-ATCTCACCAGCATTATAGCCTACT
62753087 AGGCTCGAAAGCCCGAATAGTATC
65 AGGCTCGAAAGCCCGAATAGTATC
* * *
62753111 TCACCGGTATTTCTCCTGCTAGGCTCGAAGCCCAAATAGTATCTCACCAGCATTATAGCCTACTA
1 TCACCGGCATTTCACCTGCTAGGCTCAAAGCCCAAATAGTATCTCACCAGCATTATAGCCTACTA
62753176 GGCTC-AAAGGCCCGAATAGTATC
66 GGCTCGAAA-GCCCGAATAGTATC
* * *
62753199 TCACTGGCATTATAACCTGCTAGGCTCAAAGGCCCGAATAGTAT
1 TCACCGGCATT-TCACCTGCTAGGCTCAAA-GCCCAAATAGTAT
62753243 TGTGCGATAT
Statistics
Matches: 113, Mismatches: 14, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
87 30 0.27
88 55 0.49
89 16 0.14
90 12 0.11
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (88 bp):
TCACCGGCATTTCACCTGCTAGGCTCAAAGCCCAAATAGTATCTCACCAGCATTATAGCCTACTA
GGCTCGAAAGCCCGAATAGTATC
Found at i:62753201 original size:45 final size:44
Alignment explanation
Indices: 62753024--62753242 Score: 239
Period size: 45 Copynumber: 5.0 Consensus size: 44
62753014 AATGGTTCAT
* * * *
62753024 TCACCGGCATT-TCGCCTGCTAGGCTCAAAGCCTG-ATA-TCATT
1 TCACCGGCATTATAGCCTACTAGGCTCAAAGCCCGAATAGT-ATC
*
62753066 TCACTGGCATTATAGCCTACTAGGCTCGAAAGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTACTAGGCTC-AAAGCCCGAATAGTATC
* ** * * *
62753111 TCACCGGTATT-TCTCCTGCTAGGCTCGAAGCCCAAATAGTATC
1 TCACCGGCATTATAGCCTACTAGGCTCAAAGCCCGAATAGTATC
*
62753154 TCACCAGCATTATAGCCTACTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTACTAGGCTCAAA-GCCCGAATAGTATC
* * *
62753199 TCACTGGCATTATAACCTGCTAGGCTCAAAGGCCCGAATAGTAT
1 TCACCGGCATTATAGCCTACTAGGCTCAAA-GCCCGAATAGTAT
62753243 TGTGCGATAT
Statistics
Matches: 148, Mismatches: 23, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
42 10 0.07
43 37 0.25
44 33 0.22
45 67 0.45
46 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (44 bp):
TCACCGGCATTATAGCCTACTAGGCTCAAAGCCCGAATAGTATC
Found at i:62754133 original size:46 final size:47
Alignment explanation
Indices: 62754049--62754235 Score: 281
Period size: 46 Copynumber: 4.0 Consensus size: 47
62754039 AAAATTTTCT
* * * * *
62754049 TTAACTAAGTTACTTATCCGGAAATAATAAGGGAAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCAGAAATATTAAGAGCAAATTTAACAAGC
**
62754096 TTAACTAAGTAACTT-TCTGGAAATATTAAGAGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCAGAAATATTAAGAGCAAATTTAACAAGC
*
62754142 TTAACTAAGTAACTT-TCCAAAAATATTAAGAGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCAGAAATATTAAGAGCAAATTTAACAAGC
62754188 TTAACTAAGTAACTTATCCAGAAATATTAAGAGC-AATTTAACAAGC
1 TTAACTAAGTAACTTATCCAGAAATATTAAGAGCAAATTTAACAAGC
62754234 TT
1 TT
62754236 TAAATTCAAC
Statistics
Matches: 130, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
46 99 0.76
47 31 0.24
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (47 bp):
TTAACTAAGTAACTTATCCAGAAATATTAAGAGCAAATTTAACAAGC
Found at i:62757326 original size:55 final size:54
Alignment explanation
Indices: 62757209--62757333 Score: 135
Period size: 55 Copynumber: 2.3 Consensus size: 54
62757199 GAGTATGCCA
* *
62757209 CATGGGCGTGCCCCATGGCCGTGTTAAAAAGACAGTGTCGTCCACGGGCAGGCAG
1 CATGGGCGTGCCCCATGGCCGTGTTAAAAAGACAGTGTCGCCCACGGGAAGG-AG
* ** * * * *
62757264 CACGGGCGTGTGCCATGGCCGTGTTGATAAGTCAGTGTCGCCCACGATTGAAGG-G
1 CATGGGCGTGCCCCATGGCCGTGTTAAAAAGACAGTGTCGCCCACG--GGAAGGAG
62757319 CATGGGCGTGCCCCA
1 CATGGGCGTGCCCCA
62757334 AGTCACACGG
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
55 52 0.93
57 4 0.07
ACGTcount: A:0.19, C:0.27, G:0.35, T:0.18
Consensus pattern (54 bp):
CATGGGCGTGCCCCATGGCCGTGTTAAAAAGACAGTGTCGCCCACGGGAAGGAG
Found at i:62761770 original size:65 final size:65
Alignment explanation
Indices: 62761660--62761805 Score: 170
Period size: 65 Copynumber: 2.2 Consensus size: 65
62761650 ATATCAGAAG
* * * * *
62761660 GCTCATAAAGAGCTGCGTTTGTGTCCACAACATCTACAGGTTCACAACTA-ATCGCAT-AACAAG
1 GCTCACAAAGAGCTGCATTTGTGTCCACAACATATACAGGATCACAAC-AGATC-AATAAACAAG
62761723 AC
64 AC
* ** * *
62761725 GCTTACAAAGAGCTGCATTTGTGTCCGTAACATATGCAGGATCACAACAGATCAATAAACAGGAC
1 GCTCACAAAGAGCTGCATTTGTGTCCACAACATATACAGGATCACAACAGATCAATAAACAAGAC
62761790 GCTCACAAAGAGCTGC
1 GCTCACAAAGAGCTGC
62761806 GATAGTTGCA
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
64 3 0.04
65 65 0.96
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (65 bp):
GCTCACAAAGAGCTGCATTTGTGTCCACAACATATACAGGATCACAACAGATCAATAAACAAGAC
Found at i:62770728 original size:79 final size:80
Alignment explanation
Indices: 62770619--62770880 Score: 381
Period size: 79 Copynumber: 3.3 Consensus size: 80
62770609 TACTCGTTCA
* * **
62770619 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
62770682 ATTTAGTGACTCGCACC
64 ATTTAGTGACTCGCACC
62770699 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
*
62770763 TTAGTGACTCGCACA
66 TTAGTGACTCGCACC
62770778 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
* * *
62770842 ATAGTCACTTAGCA-C
66 TTAGTGAC-TCGCACC
*
62770857 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
62770881 CATCATTCGA
Statistics
Matches: 168, Mismatches: 10, Indels: 8
0.90 0.05 0.04
Matches are distributed among these distances:
78 3 0.02
79 137 0.82
80 28 0.17
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
TTAGTGACTCGCACC
Found at i:62770834 original size:119 final size:121
Alignment explanation
Indices: 62770617--62770880 Score: 353
Period size: 119 Copynumber: 2.2 Consensus size: 121
62770607 GCTACTCGTT
*
62770617 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* * * *
62770681 GATTTAGTGACTCGCACCAATGCCTTCGGGCTTAGCCCGGA-ATTAGTAAC-TCGCA
66 GAATTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGATA-TAGTAACTTAGCA
* * *
62770736 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTGACTCGCACAAATGCCTTCGGG-CTTAGCCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCC
* * *
62770798 GGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCA
65 GGAATTAGTAACTCGCACAAATGCCTTCGG-GCTTAGCCCGGATATAGTAACTTAGCA
62770856 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
62770881 CATCATTCGA
Statistics
Matches: 127, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
118 37 0.29
119 76 0.60
120 14 0.11
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (121 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
GAATTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGATATAGTAACTTAGCA
Found at i:62770880 original size:40 final size:40
Alignment explanation
Indices: 62770598--62770880 Score: 330
Period size: 40 Copynumber: 7.1 Consensus size: 40
62770588 CGGAATTTAA
** *
62770598 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
62770638 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
62770678 CCGGATTTAGTGACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
62770717 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
62770757 CCGGATTTAGTGACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
62770796 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
62770836 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
62770876 CCGGA
1 CCGGA
62770881 CATCATTCGA
Statistics
Matches: 208, Mismatches: 23, Indels: 24
0.82 0.09 0.09
Matches are distributed among these distances:
38 4 0.02
39 64 0.31
40 126 0.61
41 14 0.07
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:62778877 original size:79 final size:80
Alignment explanation
Indices: 62778768--62779027 Score: 363
Period size: 79 Copynumber: 3.3 Consensus size: 80
62778758 TACTCGTTCA
* * * *
62778768 AATGCCTTCGGGACATAGCCCGG-TTATAGTACCTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGCCCGG
62778831 ATTTAGTGACTCGCACC
64 ATTTAGTGACTCGCACC
62778848 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGCCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGCCCGGAT
62778912 TTAGTGACTCGCACC
66 TTAGTGACTCGCACC
*
62778927 AATGCCTTCGGG-CTTAGCCC--AATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGCCCGGAT
* * *
62778989 ATAGTCACTTAGCA-C
66 TTAGTGAC-TCGCACC
*
62779004 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
62779028 CATCATTCGA
Statistics
Matches: 165, Mismatches: 9, Indels: 12
0.89 0.05 0.06
Matches are distributed among these distances:
77 59 0.36
78 15 0.09
79 77 0.47
80 14 0.08
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGCCCGGAT
TTAGTGACTCGCACC
Found at i:62779027 original size:40 final size:40
Alignment explanation
Indices: 62778747--62779027 Score: 310
Period size: 40 Copynumber: 7.1 Consensus size: 40
62778737 CGGAATTTAA
** *
62778747 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
62778787 CCGGTTATAGTACCTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
62778827 CCGGATTTAGTGACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
62778866 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
62778906 CCGGATTTAGTGACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
62778945 CC-AAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
62778983 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
62779023 CCGGA
1 CCGGA
62779028 CATCATTCGA
Statistics
Matches: 203, Mismatches: 26, Indels: 24
0.80 0.10 0.09
Matches are distributed among these distances:
36 2 0.01
37 21 0.10
38 11 0.05
39 42 0.21
40 114 0.56
41 13 0.06
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:62785737 original size:40 final size:40
Alignment explanation
Indices: 62785643--62785819 Score: 185
Period size: 40 Copynumber: 4.4 Consensus size: 40
62785633 AATGGTGTCG
* * * * *
62785643 GGGCAAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAACC
* *
62785684 GGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAACC
1 GGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAACC
* * *
62785724 GGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAACC
* * * * *
62785764 GGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAACC
*
62785804 GGGCTATGTCCCGAAG
1 GGGCTAAGTCCCGAAG
62785820 ACAATCGAGC
Statistics
Matches: 113, Mismatches: 21, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
40 90 0.80
41 23 0.20
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAACC
Found at i:62785782 original size:80 final size:80
Alignment explanation
Indices: 62785643--62785859 Score: 224
Period size: 80 Copynumber: 2.7 Consensus size: 80
62785633 AATGGTGTCG
* * * * *
62785643 GGGCAAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTTGT
1 GGGCTAAGTCCCGAAGGCATTCGTGC-GAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATTGT
* *
62785708 GCGAGTTACCAAAACC
65 GCGAATCACCAAAACC
* *
62785724 GGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAATTGT
1 GGGCTAAGTCCCGAAGGCATTCGTGCGAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAATTGT
* *
62785788 GCGAATCACTATAACC
65 GCGAATCACCAAAACC
* * * * * * *
62785804 GGGCTATGTCCCGAAGACAATCGAGCGAGTCG-CTATATCCGGTTAAATT-CCGAAGG
1 GGGCTAAGTCCCGAAGGCATTCGTGCGAGT-GACTAAATCCGGGTCAATTCCCGAAGG
62785860 TACGTGATTC
Statistics
Matches: 113, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
79 8 0.07
80 83 0.73
81 22 0.19
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGGCATTCGTGCGAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATTGTG
CGAATCACCAAAACC
Found at i:62785840 original size:40 final size:40
Alignment explanation
Indices: 62785692--62785845 Score: 141
Period size: 40 Copynumber: 3.9 Consensus size: 40
62785682 CCGGGTCAAT
* * * * * * *
62785692 TCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAG
1 TCCCGAAGGCAATCGTGCGAGTCACTATAACCGGGCTATG
* *
62785732 TCCCGAAGGCATTCGTGCGAGTTACTA-AATCCGGGCTAAT-
1 TCCCGAAGGCAATCGTGCGAGTCACTATAA-CCGGGCT-ATG
* *
62785772 TCCCGAAGGCAATTGTGCGAATCACTATAACCGGGCTATG
1 TCCCGAAGGCAATCGTGCGAGTCACTATAACCGGGCTATG
* * * *
62785812 TCCCGAAGACAATCGAGCGAGTCGCTATATCCGG
1 TCCCGAAGGCAATCGTGCGAGTCACTATAACCGG
62785846 TTAAATTCCG
Statistics
Matches: 96, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
39 4 0.04
40 89 0.93
41 3 0.03
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.22
Consensus pattern (40 bp):
TCCCGAAGGCAATCGTGCGAGTCACTATAACCGGGCTATG
Found at i:62798882 original size:42 final size:43
Alignment explanation
Indices: 62798824--62798939 Score: 146
Period size: 43 Copynumber: 2.7 Consensus size: 43
62798814 TAGGGTTACT
*
62798824 GAGATTACATGTAAGACCATATCTGGGATATAG-CATCGATAT
1 GAGATTACATGTAAGACCATATCTGGGATATAGCCATCGATAC
** * * * *
62798866 GAGACTT-TGTGTAAGACCATAGCTAGGCTATTGCCATCGATAC
1 GAGA-TTACATGTAAGACCATATCTGGGATATAGCCATCGATAC
62798909 GAGATTACATGTAAGACCATATCTGGGATAT
1 GAGATTACATGTAAGACCATATCTGGGATAT
62798940 GACATTTGTA
Statistics
Matches: 59, Mismatches: 12, Indels: 5
0.78 0.16 0.07
Matches are distributed among these distances:
42 26 0.44
43 33 0.56
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.28
Consensus pattern (43 bp):
GAGATTACATGTAAGACCATATCTGGGATATAGCCATCGATAC
Found at i:62799544 original size:26 final size:26
Alignment explanation
Indices: 62799508--62799557 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
62799498 AGGCTTGCAA
62799508 ATTGATAGAGCAAGCAATGTGACTGG
1 ATTGATAGAGCAAGCAATGTGACTGG
62799534 ATTGATAGAGCAAGCAATGTGACT
1 ATTGATAGAGCAAGCAATGTGACT
62799558 AAATAAGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.36, C:0.12, G:0.28, T:0.24
Consensus pattern (26 bp):
ATTGATAGAGCAAGCAATGTGACTGG
Found at i:62802350 original size:68 final size:68
Alignment explanation
Indices: 62802200--62802357 Score: 169
Period size: 68 Copynumber: 2.3 Consensus size: 68
62802190 CTAGCCAATT
* * *
62802200 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGGATCACACATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGGATCACACATGCGACCTAGCTACA
**
62802265 TTTA
65 CATA
* * *
62802269 TCTCTCCCGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTA
1 TATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGGATCACACATGCGACCTAGCTA
62802331 CTACATA
63 C-ACATA
62802338 GTATCTCGTAGCTCTCTTGT
1 -TATCTCGTAGCTCTCTTGT
62802358 ACACATGATG
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
68 36 0.48
69 7 0.09
70 6 0.08
71 26 0.35
ACGTcount: A:0.20, C:0.29, G:0.16, T:0.34
Consensus pattern (68 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGGATCACACATGCGACCTAGCTACAC
ATA
Found at i:62804850 original size:29 final size:27
Alignment explanation
Indices: 62804795--62804850 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 27
62804785 TACTATAGAT
*
62804795 CATAAAATAATATAAAAATATTTTTTC
1 CATAAAATAATATAAAAATAATTTTTC
62804822 CATAAAATAATATAAAAAAATAATTTTTC
1 CATAAAATAATAT--AAAAATAATTTTTC
62804851 TTTCGAAATC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 13 0.50
29 13 0.50
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (27 bp):
CATAAAATAATATAAAAATAATTTTTC
Found at i:62813009 original size:40 final size:40
Alignment explanation
Indices: 62812964--62813130 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
62812954 CGGAATATAA
62812964 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
62813004 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
62813044 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
62813084 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
62813123 CCGGATAT
1 CCGGATAT
62813131 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:62813114 original size:80 final size:79
Alignment explanation
Indices: 62812964--62813130 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
62812954 CGGAATATAA
* *
62812964 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
62813029 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
62813044 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
62813106 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
62813123 CCGGATAT
1 CCGGATAT
62813131 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:62813978 original size:17 final size:19
Alignment explanation
Indices: 62813955--62814000 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
62813945 AAGAAGCATG
62813955 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
62813973 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
62813991 AATCATGCTC
1 AATCATGCTC
62814001 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:62821011 original size:40 final size:40
Alignment explanation
Indices: 62820966--62821130 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
62820956 CGGAATATAA
62820966 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
62821006 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
62821046 CCGG--ATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
62821084 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
62821123 CCGGATAT
1 CCGGATAT
62821131 CATTCAATTT
Statistics
Matches: 103, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
38 30 0.29
39 14 0.14
40 59 0.57
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:62821087 original size:38 final size:37
Alignment explanation
Indices: 62820982--62821090 Score: 128
Period size: 38 Copynumber: 2.8 Consensus size: 37
62820972 ATAATCACGT
* *
62820982 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT--AACAACTA
* *
62821022 GCACGAATGCCTTCGGGCCTTAGCCCGGATAACCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAACAACTA
*
62821060 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
62821091 TAATTTCCAG
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
37 2 0.03
38 31 0.51
40 28 0.46
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.22
Consensus pattern (37 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAACAACTA
Found at i:62821114 original size:78 final size:77
Alignment explanation
Indices: 62820982--62821129 Score: 192
Period size: 78 Copynumber: 1.9 Consensus size: 77
62820972 ATAATCACGT
*
62820982 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
62821047 CGGATAACCACTA
65 CGGATAACCACTA
* * ** * *
62821060 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
62821123 CCGGATA
64 CCGGATA
62821130 TCATTCAATT
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
77 16 0.26
78 45 0.74
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.25
Consensus pattern (77 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATAACCACTA
Found at i:62821978 original size:17 final size:19
Alignment explanation
Indices: 62821955--62822000 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
62821945 AAGAAGCATG
62821955 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
62821973 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
62821991 AATCATGCTC
1 AATCATGCTC
62822001 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:62827842 original size:40 final size:40
Alignment explanation
Indices: 62827715--62827844 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
62827705 ATGCTGGAAA
* *
62827715 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
62827755 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
62827795 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
62827835 TTATATCCGG
1 TTATATCCGG
62827845 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:62830057 original size:15 final size:15
Alignment explanation
Indices: 62830028--62830099 Score: 53
Period size: 15 Copynumber: 4.9 Consensus size: 15
62830018 TGTATTTACT
*
62830028 TAATATATAAGTAAAA
1 TAATA-ATAATTAAAA
*
62830044 TAATAATAATTAAAG
1 TAATAATAATTAAAA
* *
62830059 T-ATATTATATTAATA
1 TAATAATA-ATTAAAA
62830074 TAATAAT-A-TAAAA
1 TAATAATAATTAAAA
*
62830087 T-ATAATAAATAAA
1 TAATAATAATTAAA
62830100 GACAAGTGTA
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
12 5 0.11
13 6 0.13
14 10 0.22
15 15 0.33
16 9 0.20
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (15 bp):
TAATAATAATTAAAA
Found at i:62830158 original size:19 final size:19
Alignment explanation
Indices: 62830123--62830161 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
62830113 TGATGTATGG
*
62830123 ATACATATGTTCTAATAAT
1 ATACATATGTTCAAATAAT
62830142 ATACATATGTAT-AAATAAT
1 ATACATATGT-TCAAATAAT
62830161 A
1 A
62830162 AATAAGTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.38
Consensus pattern (19 bp):
ATACATATGTTCAAATAAT
Found at i:62830248 original size:20 final size:19
Alignment explanation
Indices: 62830215--62830252 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
62830205 TAAAGAAACA
62830215 AAAGAAATAAGAAATGAAAT
1 AAAGAAATAAGAAA-GAAAT
62830235 AAAGAAA-AAGGAAAGAAA
1 AAAGAAATAA-GAAAGAAA
62830253 GAAGGCCACG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (19 bp):
AAAGAAATAAGAAAGAAAT
Found at i:62830253 original size:15 final size:16
Alignment explanation
Indices: 62830215--62830256 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
62830205 TAAAGAAACA
* *
62830215 AAAGAAATAAGAAATG
1 AAAGAAAGAAGAAAGG
*
62830231 AAATAAAGAA-AAAGG
1 AAAGAAAGAAGAAAGG
62830246 AAAGAAAGAAG
1 AAAGAAAGAAG
62830257 GCCACGGTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.71, C:0.00, G:0.21, T:0.07
Consensus pattern (16 bp):
AAAGAAAGAAGAAAGG
Found at i:62830857 original size:39 final size:39
Alignment explanation
Indices: 62830803--62830880 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
62830793 GACAATGGGA
62830803 GTTAGCTCGAGAAAATAAGGTTTGTATTTCTATAAACTG
1 GTTAGCTCGAGAAAATAAGGTTTGTATTTCTATAAACTG
62830842 GTTAGCTCGAGAAAATAAGGTTTGTATTTCTATAAACTG
1 GTTAGCTCGAGAAAATAAGGTTTGTATTTCTATAAACTG
62830881 AACTTAATAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (39 bp):
GTTAGCTCGAGAAAATAAGGTTTGTATTTCTATAAACTG
Found at i:62831565 original size:18 final size:18
Alignment explanation
Indices: 62831544--62831596 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
62831534 GATTGCTATG
*
62831544 GAATAATTGACTGTTATT
1 GAATAAATGACTGTTATT
*
62831562 GAATAAATGACTGTTACT
1 GAATAAATGACTGTTATT
* *
62831580 GCATAACTGACTGTTAT
1 GAATAAATGACTGTTAT
62831597 AGAGTGTCGG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (18 bp):
GAATAAATGACTGTTATT
Found at i:62832903 original size:15 final size:15
Alignment explanation
Indices: 62832883--62832920 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
62832873 CTGGGAGTTA
62832883 GTTTCTTTGTGCAAG
1 GTTTCTTTGTGCAAG
62832898 GTTTCTTTGTGCAAG
1 GTTTCTTTGTGCAAG
*
62832913 ATTTCTTT
1 GTTTCTTT
62832921 CTTTTGATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.13, C:0.13, G:0.21, T:0.53
Consensus pattern (15 bp):
GTTTCTTTGTGCAAG
Found at i:62833595 original size:24 final size:24
Alignment explanation
Indices: 62833568--62833616 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
62833558 ACTGTCACTG
*
62833568 TCATCATAGTTTGCACTATTACTA
1 TCATCATAGCTTGCACTATTACTA
62833592 TCATCATAGCTTGCACTATTACTA
1 TCATCATAGCTTGCACTATTACTA
62833616 T
1 T
62833617 ATAGACACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (24 bp):
TCATCATAGCTTGCACTATTACTA
Found at i:62834832 original size:26 final size:27
Alignment explanation
Indices: 62834787--62834842 Score: 64
Period size: 26 Copynumber: 2.1 Consensus size: 27
62834777 ACAAAATACC
*
62834787 AAATAAATTTAGAAAAAAA-TGAATAA
1 AAATAAATTTAGAAAAAAATTAAATAA
62834813 AAATAAA-TTA-AATAAGAAATTAAATAA
1 AAATAAATTTAGAA-AA-AAATTAAATAA
62834840 AAA
1 AAA
62834843 AGAGTAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
24 2 0.08
25 5 0.19
26 10 0.38
27 9 0.35
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.23
Consensus pattern (27 bp):
AAATAAATTTAGAAAAAAATTAAATAA
Found at i:62836227 original size:25 final size:27
Alignment explanation
Indices: 62836190--62836242 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
62836180 TCAAACATGC
62836190 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
62836216 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
62836242 A
1 A
62836243 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:62837759 original size:26 final size:26
Alignment explanation
Indices: 62837730--62837839 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
62837720 CATGAAATTC
62837730 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
62837756 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
62837782 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* * *
62837808 TTATCATGGAACTTTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
62837834 TTATCA
1 TTATCA
62837840 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:62846499 original size:40 final size:39
Alignment explanation
Indices: 62846440--62846551 Score: 111
Period size: 40 Copynumber: 2.8 Consensus size: 39
62846430 AACAAATCTT
*
62846440 TTTACTATTTT-TAAAAATTTTGAATAATTTTTTTACAATA-
1 TTTACT-TTTTCTAATAATTTT--ATAATTTTTTTACAATAC
* *
62846480 TTTACTTTTTCTAATAATTTTTCTAATTTTTTTTATAATAC
1 TTTACTTTTTCTAATAA-TTTTATAA-TTTTTTTACAATAC
* **
62846521 CTTACAATTTCTAATAATTTTATAATTTTTT
1 TTTACTTTTTCTAATAATTTTATAATTTTTT
62846552 ATAGTTTTTA
Statistics
Matches: 61, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
39 13 0.21
40 30 0.49
41 18 0.30
ACGTcount: A:0.32, C:0.08, G:0.01, T:0.59
Consensus pattern (39 bp):
TTTACTTTTTCTAATAATTTTATAATTTTTTTACAATAC
Found at i:62846660 original size:17 final size:20
Alignment explanation
Indices: 62846630--62846666 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
62846620 TATTTATATT
62846630 TATTTTTGATAATT-TTTTA
1 TATTTTTGATAATTCTTTTA
62846649 TATTTTT-A-AATTCTTTTA
1 TATTTTTGATAATTCTTTTA
62846667 AGTTTTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 4 0.24
18 6 0.35
19 7 0.41
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.68
Consensus pattern (20 bp):
TATTTTTGATAATTCTTTTA
Found at i:62848160 original size:28 final size:29
Alignment explanation
Indices: 62848108--62848162 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
62848098 TACAGGGGTT
*
62848108 TTCACACGGCCAAGCACACGCCCGTGTCC
1 TTCACACAGCCAAGCACACGCCCGTGTCC
* *
62848137 TTCACACAGCCTAG-ACACGTCCGTGT
1 TTCACACAGCCAAGCACACGCCCGTGT
62848163 GGTCATCCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.22, C:0.40, G:0.20, T:0.18
Consensus pattern (29 bp):
TTCACACAGCCAAGCACACGCCCGTGTCC
Found at i:62851617 original size:61 final size:59
Alignment explanation
Indices: 62851546--62851709 Score: 163
Period size: 61 Copynumber: 2.7 Consensus size: 59
62851536 TTTTGATAAG
*
62851546 ATTATTATTAAATATAATTTAATAAAAATAAAAATAAATAATATAATCATATTTTAACATA
1 ATTATTATTAAATATAATTTAATAAAAATAAAAATAAATAATATAA-CAT-TCTTAACATA
* * * * * * *
62851607 ATTATCATTAAATAAAATTTGAT-AAAATAATATATAATTTA-ATAACATTCTTAATATA
1 ATTATTATTAAATATAATTTAATAAAAATAA-AAATAAATAATATAACATTCTTAACATA
* * *
62851665 ATTATTATTAAAATATGAA-TTAATAAAAATCATAATATATAATAT
1 ATTATTATT-AAATAT-AATTTAATAAAAATAAAAATAAATAATAT
62851710 TATAAAAATA
Statistics
Matches: 81, Mismatches: 17, Indels: 11
0.74 0.16 0.10
Matches are distributed among these distances:
58 16 0.20
59 17 0.21
60 21 0.26
61 27 0.33
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (59 bp):
ATTATTATTAAATATAATTTAATAAAAATAAAAATAAATAATATAACATTCTTAACATA
Found at i:62854181 original size:44 final size:45
Alignment explanation
Indices: 62854093--62854182 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
62854083 GAACCATATG
* *
62854093 ATCTGAACTCATTGAGTTGTGGTTTGAGTTCATGATATTTGTGAC
1 ATCTGAACTCATTGAGTTGTGGTTCGAGTTCATGATATATGTGAC
62854138 ATCTGAACTCATTGAGTTGTGG-TCGAGTTCATGATATATGTGAC
1 ATCTGAACTCATTGAGTTGTGGTTCGAGTTCATGATATATGTGAC
62854182 A
1 A
62854183 CATGTTTTGG
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
44 21 0.49
45 22 0.51
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.39
Consensus pattern (45 bp):
ATCTGAACTCATTGAGTTGTGGTTCGAGTTCATGATATATGTGAC
Found at i:62858903 original size:3 final size:3
Alignment explanation
Indices: 62858895--62858940 Score: 65
Period size: 3 Copynumber: 15.3 Consensus size: 3
62858885 AGTAGATTTA
* * *
62858895 ATT ATT ATT ATT AGT AGT ATT ATT ATT AAT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
62858941 AATAAATTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:62859366 original size:25 final size:23
Alignment explanation
Indices: 62859321--62859377 Score: 62
Period size: 25 Copynumber: 2.4 Consensus size: 23
62859311 TAATGACAAA
*
62859321 TTGTAATAAAAATATTGGTACAT
1 TTGTAATAAAAATATTGGTACAC
62859344 TTGTAATAAATAGATATAT-GTACAC
1 TTGTAATAAA-A-ATAT-TGGTACAC
*
62859369 TTGTTATAA
1 TTGTAATAA
62859378 TATAATTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 10 0.34
24 1 0.03
25 17 0.59
26 1 0.03
ACGTcount: A:0.42, C:0.05, G:0.12, T:0.40
Consensus pattern (23 bp):
TTGTAATAAAAATATTGGTACAC
Found at i:62862284 original size:26 final size:26
Alignment explanation
Indices: 62862248--62862357 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
62862238 CATGAAATTC
62862248 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
62862274 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
62862300 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
62862326 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
62862352 TTATCA
1 TTATCA
62862358 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:62863931 original size:38 final size:39
Alignment explanation
Indices: 62863830--62863936 Score: 94
Period size: 38 Copynumber: 2.7 Consensus size: 39
62863820 ACCTTGAGTT
* **
62863830 GATGAGACACTGGGTGTCACTATTTTACTTCAGATAGATTC
1 GATGAGACACTGGGTGTCA--ACTTTACTTCAGATAGAGCC
** * *
62863871 GATGAGGTACTGGGT-ACCACTTTACTTCAGCA-AG-GCC
1 GATGAGACACTGGGTGTCAACTTTACTTCAG-ATAGAGCC
*
62863908 GATGAGACACTGGGTGTCAACTTTGCTTC
1 GATGAGACACTGGGTGTCAACTTTACTTC
62863937 GAACTATCTG
Statistics
Matches: 52, Mismatches: 12, Indels: 7
0.73 0.17 0.10
Matches are distributed among these distances:
37 14 0.27
38 23 0.44
39 1 0.02
40 1 0.02
41 13 0.25
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (39 bp):
GATGAGACACTGGGTGTCAACTTTACTTCAGATAGAGCC
Found at i:62864813 original size:3 final size:3
Alignment explanation
Indices: 62864805--62864851 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
62864795 TTTTATTTAA
62864805 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
62864852 ATGAATGAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:62865084 original size:40 final size:39
Alignment explanation
Indices: 62865014--62865178 Score: 188
Period size: 40 Copynumber: 4.2 Consensus size: 39
62865004 GAGGTGTTAC
*** *
62865014 AGCATCTGTTTGGCATGTTCAGTTGGACTAGCTCTTATG
1 AGCATCTGTTTGGTGCGTTCAGTTGAACTAGCTCTTATG
62865053 AGCATCTGTTTGGTGCGCTTCAGTTGAACTAGCTCTTATG
1 AGCATCTGTTTGGTGCG-TTCAGTTGAACTAGCTCTTATG
* * * * *
62865093 AGTATCTGCTTGG-GTGTTCAGTTGGACTAGCTCTTTTG
1 AGCATCTGTTTGGTGCGTTCAGTTGAACTAGCTCTTATG
* * * *
62865131 AGCATCTGTCTGGTGCATTTCGGTTGAACTAGCTTTTATG
1 AGCATCTGTTTGGTGC-GTTCAGTTGAACTAGCTCTTATG
62865171 AGCATCTG
1 AGCATCTG
62865179 GTCTATTTTC
Statistics
Matches: 105, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
38 30 0.29
39 17 0.16
40 58 0.55
ACGTcount: A:0.17, C:0.18, G:0.26, T:0.39
Consensus pattern (39 bp):
AGCATCTGTTTGGTGCGTTCAGTTGAACTAGCTCTTATG
Found at i:62865158 original size:78 final size:78
Alignment explanation
Indices: 62865014--62865178 Score: 240
Period size: 78 Copynumber: 2.1 Consensus size: 78
62865004 GAGGTGTTAC
* * * *
62865014 AGCATCTGTTTGGCATGTTCAGTTGGACTAGCTCTTATGAGCATCTGTTTGGTGCGCTTCAGTTG
1 AGCATCTGCTTGG-GTGTTCAGTTGGACTAGCTCTTATGAGCATCTGTCTGGTGCACTTCAGTTG
62865079 AACTAGCTCTTATG
65 AACTAGCTCTTATG
* * * *
62865093 AGTATCTGCTTGGGTGTTCAGTTGGACTAGCTCTTTTGAGCATCTGTCTGGTGCATTTCGGTTGA
1 AGCATCTGCTTGGGTGTTCAGTTGGACTAGCTCTTATGAGCATCTGTCTGGTGCACTTCAGTTGA
*
62865158 ACTAGCTTTTATG
66 ACTAGCTCTTATG
62865171 AGCATCTG
1 AGCATCTG
62865179 GTCTATTTTC
Statistics
Matches: 76, Mismatches: 10, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
78 65 0.86
79 11 0.14
ACGTcount: A:0.17, C:0.18, G:0.26, T:0.39
Consensus pattern (78 bp):
AGCATCTGCTTGGGTGTTCAGTTGGACTAGCTCTTATGAGCATCTGTCTGGTGCACTTCAGTTGA
ACTAGCTCTTATG
Found at i:62866776 original size:49 final size:49
Alignment explanation
Indices: 62866718--62866820 Score: 197
Period size: 49 Copynumber: 2.1 Consensus size: 49
62866708 AATAGGAAAG
62866718 TAAATCTTTCTCTTTATAGAAACTGGTAGAATTGTTATTCTCGGAAAAT
1 TAAATCTTTCTCTTTATAGAAACTGGTAGAATTGTTATTCTCGGAAAAT
62866767 TAAATCTTTCTCTTTATAGAAACTGGTAGAATTGTTATTCTCGGAAAAT
1 TAAATCTTTCTCTTTATAGAAACTGGTAGAATTGTTATTCTCGGAAAAT
*
62866816 AAAAT
1 TAAAT
62866821 TTATACTTTG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 53 1.00
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.40
Consensus pattern (49 bp):
TAAATCTTTCTCTTTATAGAAACTGGTAGAATTGTTATTCTCGGAAAAT
Found at i:62869349 original size:15 final size:16
Alignment explanation
Indices: 62869310--62869349 Score: 66
Period size: 15 Copynumber: 2.6 Consensus size: 16
62869300 AATGTCGAAT
62869310 ATTTCTAAAAAATAAA
1 ATTTCTAAAAAATAAA
62869326 A-TTCTAAAAAATAAA
1 ATTTCTAAAAAATAAA
62869341 ATTTC-AAAA
1 ATTTCTAAAA
62869350 CATTTATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 19 0.83
16 4 0.17
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTTCTAAAAAATAAA
Found at i:62869512 original size:75 final size:75
Alignment explanation
Indices: 62869419--62869568 Score: 300
Period size: 75 Copynumber: 2.0 Consensus size: 75
62869409 TCCATAAAAC
62869419 CGTCAATTATTGTTTATTTGATGCAGCATTACACACTAAATTTAAATGACTTTATCTTTTGGATA
1 CGTCAATTATTGTTTATTTGATGCAGCATTACACACTAAATTTAAATGACTTTATCTTTTGGATA
62869484 TAAAATTGAT
66 TAAAATTGAT
62869494 CGTCAATTATTGTTTATTTGATGCAGCATTACACACTAAATTTAAATGACTTTATCTTTTGGATA
1 CGTCAATTATTGTTTATTTGATGCAGCATTACACACTAAATTTAAATGACTTTATCTTTTGGATA
62869559 TAAAATTGAT
66 TAAAATTGAT
62869569 TGAAGTAGAA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (75 bp):
CGTCAATTATTGTTTATTTGATGCAGCATTACACACTAAATTTAAATGACTTTATCTTTTGGATA
TAAAATTGAT
Found at i:62870852 original size:24 final size:24
Alignment explanation
Indices: 62870825--62870871 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
62870815 TAGGTTATAA
* *
62870825 GAAGGTGAAAGGTGAAGAGTTAAG
1 GAAGATGAAAGGTGAAAAGTTAAG
62870849 GAAGATGAAAGGTGAAAAGTTAA
1 GAAGATGAAAGGTGAAAAGTTAA
62870872 ACATCTACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.36, T:0.17
Consensus pattern (24 bp):
GAAGATGAAAGGTGAAAAGTTAAG
Found at i:62874052 original size:29 final size:27
Alignment explanation
Indices: 62873961--62874067 Score: 99
Period size: 29 Copynumber: 3.8 Consensus size: 27
62873951 TACATACATG
*
62873961 CATATAGCCCACTAGGCCCAATCTTATT
1 CATATGGCCCACTAGGCCCAAT-TTATT
*
62873989 CAAATGGCCCATCT-GGCCCAATTTATATT
1 CATATGGCCCA-CTAGGCCCAA-TT-TATT
** *
62874018 TTTATGGCCCACTAGGCCCAATTCACCTT
1 CATATGGCCCACTAGGCCCAATTTA--TT
*
62874047 CATATGGCCCATTAGGCCCAA
1 CATATGGCCCACTAGGCCCAA
62874068 ATCCTATTAT
Statistics
Matches: 64, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
27 1 0.02
28 21 0.33
29 42 0.66
ACGTcount: A:0.26, C:0.32, G:0.14, T:0.28
Consensus pattern (27 bp):
CATATGGCCCACTAGGCCCAATTTATT
Found at i:62874126 original size:18 final size:16
Alignment explanation
Indices: 62874085--62874118 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
62874075 TATACTCATG
62874085 CTCACATACAAATTTT
1 CTCACATACAAATTTT
*
62874101 CTCACATATAAATTTT
1 CTCACATACAAATTTT
62874117 CT
1 CT
62874119 AACACATAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.35, C:0.24, G:0.00, T:0.41
Consensus pattern (16 bp):
CTCACATACAAATTTT
Found at i:62874186 original size:18 final size:19
Alignment explanation
Indices: 62874163--62874200 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
62874153 ATGGGCCCAA
62874163 TAGCCCA-TCAGGCCCATT
1 TAGCCCATTCAGGCCCATT
*
62874181 TAGCCCATTCCGGCCCATT
1 TAGCCCATTCAGGCCCATT
62874200 T
1 T
62874201 GGTCAATTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.18, C:0.39, G:0.16, T:0.26
Consensus pattern (19 bp):
TAGCCCATTCAGGCCCATT
Found at i:62875535 original size:16 final size:16
Alignment explanation
Indices: 62875514--62875546 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
62875504 AAAAATTCAA
62875514 GATTTCAGGATTTTTG
1 GATTTCAGGATTTTTG
*
62875530 GATTTCGGGATTTTTG
1 GATTTCAGGATTTTTG
62875546 G
1 G
62875547 GGCGTTACAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.06, G:0.30, T:0.48
Consensus pattern (16 bp):
GATTTCAGGATTTTTG
Found at i:62877589 original size:19 final size:21
Alignment explanation
Indices: 62877551--62877593 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
62877541 AGATTACAAG
62877551 ATCATATCTTCAAGACTGCAT
1 ATCATATCTTCAAGACTGCAT
*
62877572 ATCATATC-T-AAGATTGCAT
1 ATCATATCTTCAAGACTGCAT
62877591 ATC
1 ATC
62877594 CTTAAAGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 12 0.57
20 1 0.05
21 8 0.38
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCATATCTTCAAGACTGCAT
Found at i:62879334 original size:3 final size:3
Alignment explanation
Indices: 62879326--62879368 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
62879316 ATTTAAGAGT
62879326 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
62879369 AGTTTTTGGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:62879765 original size:2 final size:2
Alignment explanation
Indices: 62879760--62879799 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
62879750 TCAAATCATC
62879760 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
62879800 TATGTTAGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:62887679 original size:21 final size:19
Alignment explanation
Indices: 62887655--62887708 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
62887645 CGGTCTCCTT
62887655 TCTACTTATTCTTTCACTTCC
1 TCTACTT-TTCTTTCAC-TCC
* * *
62887676 TCTATTTTTTTTTCTCTCC
1 TCTACTTTTCTTTCACTCC
*
62887695 TCTTCTTTTCTTTC
1 TCTACTTTTCTTTC
62887709 CTTTTTTCTT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
19 14 0.52
20 7 0.26
21 6 0.22
ACGTcount: A:0.07, C:0.30, G:0.00, T:0.63
Consensus pattern (19 bp):
TCTACTTTTCTTTCACTCC
Found at i:62891588 original size:16 final size:16
Alignment explanation
Indices: 62891564--62891619 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 16
62891554 TGTTTGGTTC
* *
62891564 ACTGGAATGGAATAGA
1 ACTGTAATGAAATAGA
*
62891580 ACTGTAATGTAATA-A
1 ACTGTAATGAAATAGA
*
62891595 AGCTGTAATAAAATAGA
1 A-CTGTAATGAAATAGA
*
62891612 GCTGTAAT
1 ACTGTAAT
62891620 CAGTAATTCA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
15 2 0.06
16 30 0.91
17 1 0.03
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.27
Consensus pattern (16 bp):
ACTGTAATGAAATAGA
Found at i:62896154 original size:39 final size:39
Alignment explanation
Indices: 62896109--62896267 Score: 239
Period size: 39 Copynumber: 4.1 Consensus size: 39
62896099 AATTATATTA
* * *
62896109 CCAGCACAAAGCCTGCGGGACTTTAGCTCGGATACATTT
1 CCAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTT
62896148 CCAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTT
* **
62896187 CCAGCACGAAGCCTGCATGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTT
* *
62896226 CTAGCACGAAGCCTACGAGACTTTAGCCC-GATACATTT
1 CCAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTT
62896264 CCAG
1 CCAG
62896268 TGTCTTGCAT
Statistics
Matches: 109, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
38 12 0.11
39 97 0.89
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.22
Consensus pattern (39 bp):
CCAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTT
Found at i:62899738 original size:30 final size:30
Alignment explanation
Indices: 62899702--62899777 Score: 100
Period size: 30 Copynumber: 2.5 Consensus size: 30
62899692 TGGTTGACAC
*
62899702 ATCCC-TTTCAATAATTCGATAACCGAAGTT
1 ATCCCTTTTC-ATAATTCGACAACCGAAGTT
* * *
62899732 TTCCCTTTTCATAGTTCGACAGCCGAAGTT
1 ATCCCTTTTCATAATTCGACAACCGAAGTT
62899762 ATCCCTTTTCATAATT
1 ATCCCTTTTCATAATT
62899778 TGATGGTCGT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
30 35 0.90
31 4 0.10
ACGTcount: A:0.26, C:0.25, G:0.11, T:0.38
Consensus pattern (30 bp):
ATCCCTTTTCATAATTCGACAACCGAAGTT
Found at i:62899832 original size:30 final size:30
Alignment explanation
Indices: 62899809--62899871 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
62899799 TTCATAATTT
*
62899809 GATAGCTGAAGCTATCCCCTTTCATAGATC
1 GATAGCTGAAGCCATCCCCTTTCATAGATC
* *
62899839 GATAGCTGAAGCCATCCCTTTTCATAGTTC
1 GATAGCTGAAGCCATCCCCTTTCATAGATC
62899869 GAT
1 GAT
62899872 GGTCGTCACC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.32
Consensus pattern (30 bp):
GATAGCTGAAGCCATCCCCTTTCATAGATC
Found at i:62899909 original size:29 final size:30
Alignment explanation
Indices: 62899850--62899923 Score: 114
Period size: 29 Copynumber: 2.5 Consensus size: 30
62899840 ATAGCTGAAG
*
62899850 CCATCCCTTTTCATAGTTCGATGGTCGTCA
1 CCATCCCTTTTCATAGTTCGACGGTCGTCA
* *
62899880 CCATTCCTTTTCATTGTT-GACGGTCGTCA
1 CCATCCCTTTTCATAGTTCGACGGTCGTCA
62899909 CCATCCCTTTTCATA
1 CCATCCCTTTTCATA
62899924 ATCGATAGCC
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
29 23 0.59
30 16 0.41
ACGTcount: A:0.16, C:0.31, G:0.14, T:0.39
Consensus pattern (30 bp):
CCATCCCTTTTCATAGTTCGACGGTCGTCA
Found at i:62899989 original size:30 final size:29
Alignment explanation
Indices: 62899911--62900010 Score: 173
Period size: 29 Copynumber: 3.4 Consensus size: 29
62899901 GGTCGTCACC
62899911 ATCCCTTTTCATAATCGATAGCCAAAGCT
1 ATCCCTTTTCATAATCGATAGCCAAAGCT
62899940 ATCCCTTTTCATAATCGATAGCCAAAGCT
1 ATCCCTTTTCATAATCGATAGCCAAAGCT
* *
62899969 ATCCCTTTTCATGGATCGATAGCCGAAGCT
1 ATCCCTTTTCAT-AATCGATAGCCAAAGCT
62899999 ATCCCTTTTCAT
1 ATCCCTTTTCAT
62900011 TTGTCAATGA
Statistics
Matches: 68, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
29 41 0.60
30 27 0.40
ACGTcount: A:0.27, C:0.28, G:0.12, T:0.33
Consensus pattern (29 bp):
ATCCCTTTTCATAATCGATAGCCAAAGCT
Found at i:62900415 original size:11 final size:11
Alignment explanation
Indices: 62900401--62900440 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
62900391 TATTTTCTCC
62900401 CTATTTTGCTA
1 CTATTTTGCTA
*
62900412 CTATTTTACTA
1 CTATTTTGCTA
* *
62900423 TTATGTTGCTA
1 CTATTTTGCTA
62900434 CTATTTT
1 CTATTTT
62900441 ATTGTTATTG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.20, C:0.15, G:0.07, T:0.57
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:62901956 original size:9 final size:9
Alignment explanation
Indices: 62901923--62901993 Score: 56
Period size: 9 Copynumber: 8.0 Consensus size: 9
62901913 AAATTTCTTA
62901923 AATAATTTT
1 AATAATTTT
**
62901932 -ATTTTTTT
1 AATAATTTT
*
62901940 AA-ATTTTT
1 AATAATTTT
62901948 AATAATTTT
1 AATAATTTT
62901957 AATAATTTT
1 AATAATTTT
*
62901966 CATAATTTTT
1 AATAA-TTTT
**
62901976 TGTAATTTT
1 AATAATTTT
*
62901985 TATAATTTT
1 AATAATTTT
62901994 TTATTATTTA
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
8 13 0.25
9 31 0.61
10 7 0.14
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (9 bp):
AATAATTTT
Found at i:62901963 original size:19 final size:18
Alignment explanation
Indices: 62901936--62902065 Score: 69
Period size: 17 Copynumber: 7.2 Consensus size: 18
62901926 AATTTTATTT
62901936 TTTTA-AATTTTTAATAA
1 TTTTATAATTTTTAATAA
*
62901953 TTTTAATAATTTTCATAAT-T
1 TTTT-ATAATTTT--TAATAA
*
62901973 TTTTGTAATTTTT-ATAA
1 TTTTATAATTTTTAATAA
*
62901990 TTTT-TTATTATTTAA-AA
1 TTTTATAATT-TTTAATAA
*
62902007 ATTTAT-ATTTTT-ATAA
1 TTTTATAATTTTTAATAA
**
62902023 TTTTGA-ATATTTTTACATTT
1 TTTT-ATA-ATTTTTA-ATAA
*
62902043 TTTTGTACATTTTTAATAA
1 TTTTATA-ATTTTTAATAA
62902062 TTTT
1 TTTT
62902066 TTTGTCTGGC
Statistics
Matches: 86, Mismatches: 12, Indels: 28
0.68 0.10 0.22
Matches are distributed among these distances:
15 1 0.01
16 14 0.16
17 21 0.24
18 9 0.10
19 19 0.22
20 18 0.21
21 4 0.05
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTTATAATTTTTAATAA
Found at i:62901994 original size:9 final size:9
Alignment explanation
Indices: 62901935--62902066 Score: 78
Period size: 9 Copynumber: 14.6 Consensus size: 9
62901925 TAATTTTATT
62901935 TTTTTA-AA
1 TTTTTATAA
62901943 TTTTTAATAA
1 TTTTT-ATAA
*
62901953 TTTTAATAA
1 TTTTTATAA
*
62901962 TTTTCATAA
1 TTTTTATAA
*
62901971 TTTTTTGTAA
1 -TTTTTATAA
62901981 TTTTTATAA
1 TTTTTATAA
62901990 TTTTT-T-A
1 TTTTTATAA
62901997 TTATTTA-AA
1 TT-TTTATAA
**
62902006 AATTTAT-A
1 TTTTTATAA
62902014 TTTTTATAA
1 TTTTTATAA
*
62902023 TTTTGA-ATA
1 TTTTTATA-A
* *
62902032 TTTTTACATT
1 TTTTTATA-A
*
62902042 TTTTTGTACA
1 TTTTTATA-A
62902052 TTTTTAATAA
1 TTTTT-ATAA
62902062 TTTTT
1 TTTTT
62902067 TTGTCTGGCC
Statistics
Matches: 96, Mismatches: 17, Indels: 20
0.72 0.13 0.15
Matches are distributed among these distances:
7 3 0.03
8 20 0.21
9 39 0.41
10 32 0.33
11 2 0.02
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (9 bp):
TTTTTATAA
Found at i:62903359 original size:2 final size:2
Alignment explanation
Indices: 62903352--62903378 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
62903342 GAGACTAGTC
62903352 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
62903379 CATGTCATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:62905414 original size:30 final size:30
Alignment explanation
Indices: 62905380--62905440 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
62905370 TCCTTAACTC
62905380 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
62905410 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
62905440 A
1 A
62905441 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:62906570 original size:19 final size:18
Alignment explanation
Indices: 62906528--62906572 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
62906518 GATGAATTGG
*
62906528 TTTTCTATATTTTTAACA
1 TTTTTTATATTTTTAACA
*
62906546 TCTTTTTATATTTTTATATA
1 T-TTTTTATATTTTTA-ACA
62906566 TTTTTTA
1 TTTTTTA
62906573 ATAATTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 1 0.04
19 19 0.83
20 3 0.13
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTTTATATTTTTAACA
Found at i:62907799 original size:24 final size:24
Alignment explanation
Indices: 62907771--62907901 Score: 97
Period size: 24 Copynumber: 5.3 Consensus size: 24
62907761 TAAAGAAATG
*
62907771 AAATAAATAATATAAAATAATTTA
1 AAATAAATAATATAAAAAAATTTA
* * *
62907795 AAATAAATAATACATAAAATTTTA
1 AAATAAATAATATAAAAAAATTTA
* *
62907819 AAGTAAATGATGTATAAAAAAAGTTTA
1 AAATAAAT-A-ATATAAAAAAA-TTTA
*
62907846 AAATGAACATTATAT-AAAAAA-TTA
1 AAAT-AA-ATAATATAAAAAAATTTA
**
62907870 AAATGGATAATA-AATAAAAATTTAA
1 AAATAAATAATATAA-AAAAATTT-A
62907895 AAATAAA
1 AAATAAA
62907902 CAGTATATAT
Statistics
Matches: 81, Mismatches: 17, Indels: 17
0.70 0.15 0.15
Matches are distributed among these distances:
22 6 0.07
23 5 0.06
24 36 0.44
25 7 0.09
26 13 0.16
27 10 0.12
28 2 0.02
29 2 0.02
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (24 bp):
AAATAAATAATATAAAAAAATTTA
Found at i:62907939 original size:51 final size:50
Alignment explanation
Indices: 62907836--62907949 Score: 124
Period size: 49 Copynumber: 2.3 Consensus size: 50
62907826 TGATGTATAA
* * * *
62907836 AAAAAGTTT-AAAATGAACATTATATAAAAAATTAAAATGGATAATAAAT
1 AAAAAGTTTAAAAATAAACAGTATATAAAAAATTAAAATAGACAATAAAT
* **
62907885 AAAAA-TTTAAAAATAAACAGTATATATAAAAATTCAATATAGACAATATGT
1 AAAAAGTTTAAAAATAAACAGTATATA-AAAAATT-AAAATAGACAATAAAT
62907936 AAAAGAGTTTAAAA
1 AAAA-AGTTTAAAA
62907950 CCAACAAAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
48 3 0.06
49 20 0.38
50 7 0.13
51 15 0.28
52 1 0.02
53 7 0.13
ACGTcount: A:0.61, C:0.04, G:0.08, T:0.28
Consensus pattern (50 bp):
AAAAAGTTTAAAAATAAACAGTATATAAAAAATTAAAATAGACAATAAAT
Found at i:62908748 original size:15 final size:17
Alignment explanation
Indices: 62908728--62908760 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
62908718 TCCTACTCCC
62908728 TTTTTC-CTTTTT-TAT
1 TTTTTCTCTTTTTATAT
62908743 TTTTTCTCTTTTTATAT
1 TTTTTCTCTTTTTATAT
62908760 T
1 T
62908761 CAAAATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 6 0.38
17 4 0.25
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTCTCTTTTTATAT
Found at i:62909355 original size:22 final size:21
Alignment explanation
Indices: 62909313--62909355 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
62909303 TAGTTCATAC
* * *
62909313 AAAATTAAAAGTGAAACTAAA
1 AAAATTAAAAATAAAAATAAA
62909334 AAAAGTTAAAAATAAAAATAAA
1 AAAA-TTAAAAATAAAAATAAA
62909356 CTCTTGTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.72, C:0.02, G:0.07, T:0.19
Consensus pattern (21 bp):
AAAATTAAAAATAAAAATAAA
Found at i:62910321 original size:2 final size:2
Alignment explanation
Indices: 62910314--62910344 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
62910304 AAAAGAATTA
62910314 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
62910345 GCATCCACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:62911515 original size:40 final size:39
Alignment explanation
Indices: 62911423--62911515 Score: 114
Period size: 40 Copynumber: 2.3 Consensus size: 39
62911413 TATAGAGTAT
* * *
62911423 TAGCGGCGTTTTCGAAAAAACGCAGTTAAATGTCGACCTA
1 TAGCGGCGTTTT-TAAAAAACGCAGCTAAAGGTCGACCTA
* * *
62911463 TAGCGGCGTTTTTAAAAAAGCGCCGCTAAAGGTCTACTTA
1 TAGCGGCGTTTTTAAAAAA-CGCAGCTAAAGGTCGACCTA
62911503 TAGCGGCGTTTTT
1 TAGCGGCGTTTTT
62911516 TTCGAAATCC
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
39 6 0.13
40 40 0.87
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (39 bp):
TAGCGGCGTTTTTAAAAAACGCAGCTAAAGGTCGACCTA
Found at i:62912331 original size:16 final size:16
Alignment explanation
Indices: 62912297--62912340 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
62912287 ATGATTTTCT
*
62912297 CTAAACCC-TAACGCA
1 CTAAACCCTTAAAGCA
*
62912312 CTAAACCCTTAAATCA
1 CTAAACCCTTAAAGCA
*
62912328 CTAAACCTTTAAA
1 CTAAACCCTTAAA
62912341 CCCGTAAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 8 0.32
16 17 0.68
ACGTcount: A:0.43, C:0.32, G:0.02, T:0.23
Consensus pattern (16 bp):
CTAAACCCTTAAAGCA
Found at i:62912483 original size:22 final size:22
Alignment explanation
Indices: 62912446--62912499 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
62912436 CTTAAATCTC
62912446 AAAC-CTTAAACTATAAACCCT
1 AAACTCTTAAACTATAAACCCT
62912467 AAACTCTTAAA-TCATAAACCCT
1 AAACTCTTAAACT-ATAAACCCT
*
62912489 AAAATCTTAAA
1 AAACTCTTAAA
62912500 AATAAATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 5 0.17
22 25 0.83
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (22 bp):
AAACTCTTAAACTATAAACCCT
Found at i:62913000 original size:42 final size:42
Alignment explanation
Indices: 62912954--62913082 Score: 136
Period size: 42 Copynumber: 3.1 Consensus size: 42
62912944 TCAAGGTTTA
* *
62912954 GGGTATTGGGTTCAGAATTTAGTTTATAAGGTTTAGAGTATT
1 GGGTATTAGGTTCAGAATTTAGTCTATAAGGTTTAGAGTATT
* * * *
62912996 GGGTATTAGGTTTAGGATTTAGTCTATAGGGTTTAGGGTATT
1 GGGTATTAGGTTCAGAATTTAGTCTATAAGGTTTAGAGTATT
* * **
62913038 GGGTATTTGGTTTAGGGTTTAGTCTAT-AGGATTTA-AGGTATT
1 GGGTATTAGGTTCAGAATTTAGTCTATAAGG-TTTAGA-GTATT
62913080 GGG
1 GGG
62913083 GTTTAGTCTA
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
41 2 0.03
42 73 0.97
ACGTcount: A:0.22, C:0.02, G:0.33, T:0.43
Consensus pattern (42 bp):
GGGTATTAGGTTCAGAATTTAGTCTATAAGGTTTAGAGTATT
Found at i:62913054 original size:21 final size:21
Alignment explanation
Indices: 62912982--62913055 Score: 71
Period size: 21 Copynumber: 3.5 Consensus size: 21
62912972 TTAGTTTATA
*
62912982 AGGTTTAGAGTATTGGGTATT
1 AGGTTTAGGGTATTGGGTATT
** *
62913003 AGGTTTA-GG-ATTTAGTCTAT
1 AGGTTTAGGGTATTGGGTAT-T
62913023 AGGGTTTAGGGTATTGGGTATT
1 A-GGTTTAGGGTATTGGGTATT
*
62913045 TGGTTTAGGGT
1 AGGTTTAGGGT
62913056 TTAGTCTATA
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
19 6 0.15
20 3 0.07
21 23 0.56
22 3 0.07
23 6 0.15
ACGTcount: A:0.20, C:0.01, G:0.35, T:0.43
Consensus pattern (21 bp):
AGGTTTAGGGTATTGGGTATT
Found at i:62913072 original size:21 final size:20
Alignment explanation
Indices: 62913002--62913072 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 20
62912992 TATTGGGTAT
*
62913002 TAGGTTTAGGATTTAGTCTA
1 TAGGTTTAGGGTTTAGTCTA
**
62913022 TAGGGTTTAGGGTATT-GGGTA
1 TA-GGTTTAGGGT-TTAGTCTA
*
62913043 TTTGGTTTAGGGTTTAGTCTA
1 -TAGGTTTAGGGTTTAGTCTA
62913064 TAGGATTTA
1 TAGG-TTTA
62913073 AGGTATTGGG
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
20 7 0.18
21 29 0.74
22 3 0.08
ACGTcount: A:0.21, C:0.03, G:0.31, T:0.45
Consensus pattern (20 bp):
TAGGTTTAGGGTTTAGTCTA
Found at i:62913446 original size:83 final size:84
Alignment explanation
Indices: 62913336--62913618 Score: 243
Period size: 84 Copynumber: 3.4 Consensus size: 84
62913326 TTGGAGGGAC
* * ** * * * ** *
62913336 AGTGGAGTTAGTGGCGCTAGGTCATAAACGCCGCTAAAAGTATGAGAAATTGTAA-GGAAACGT-
1 AGTGGAATTAGTGGTGCTACCTTATAAACGCCACTAAAAATATGAGAAACCG-AATGAAAAC-TA
* * *
62913399 CATCGTTTTATTTTGTG-GGT
64 CATCGTTTTATGTGGCGCGGT
* * * *
62913419 AGTGGATTTAGTGGTGCTACCTTATAAACACCACTAAAAATATGTGAAACCGAATGAAAACTACG
1 AGTGGAATTAGTGGTGCTACCTTATAAACGCCACTAAAAATATGAGAAACCGAATGAAAACTACA
62913484 TCGTTTTATGTGGCGCGGT
66 TCGTTTTATGTGGCGCGGT
* * * * *
62913503 -TTAGGAATTAGTGGTGCTATCTTATAAACGCCACTAAAAATATGAGAAACCAAATGAAAGCTAT
1 AGT-GGAATTAGTGGTGCTACCTTATAAACGCCACTAAAAATATGAGAAACCGAATGAAAACTAC
* *
62913567 ATCGTTTTATTTTGCGCGGT
65 ATCGTTTTATGTGGCGCGGT
* * * *
62913587 -TTAGGAATTAGTGGCGCTATCTTAGAAACGCC
1 AGT-GGAATTAGTGGTGCTACCTTATAAACGCC
62913619 GCAAAAAAAC
Statistics
Matches: 167, Mismatches: 29, Indels: 7
0.82 0.14 0.03
Matches are distributed among these distances:
82 3 0.02
83 60 0.36
84 104 0.62
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (84 bp):
AGTGGAATTAGTGGTGCTACCTTATAAACGCCACTAAAAATATGAGAAACCGAATGAAAACTACA
TCGTTTTATGTGGCGCGGT
Found at i:62913626 original size:84 final size:84
Alignment explanation
Indices: 62913399--62913618 Score: 291
Period size: 84 Copynumber: 2.6 Consensus size: 84
62913389 AAGGAAACGT
* * * * *
62913399 CATCGTTTTATTTTGTG-GGTAGT-GGATTTAGTGGTGCTACCTTATAAACACCACTAAAAATAT
1 CATCGTTTTATTTTGCGCGGT-TTAGGAATTAGTGGTGCTATCTTATAAACGCCACTAAAAATAT
* *
62913462 GTGAAACCGAATGAAAACTA
65 GAGAAACCAAATGAAAACTA
* * *
62913482 CGTCGTTTTATGTGGCGCGGTTTAGGAATTAGTGGTGCTATCTTATAAACGCCACTAAAAATATG
1 CATCGTTTTATTTTGCGCGGTTTAGGAATTAGTGGTGCTATCTTATAAACGCCACTAAAAATATG
*
62913547 AGAAACCAAATGAAAGCTA
66 AGAAACCAAATGAAAACTA
* * *
62913566 TATCGTTTTATTTTGCGCGGTTTAGGAATTAGTGGCGCTATCTTAGAAACGCC
1 CATCGTTTTATTTTGCGCGGTTTAGGAATTAGTGGTGCTATCTTATAAACGCC
62913619 GCAAAAAAAC
Statistics
Matches: 118, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
83 14 0.12
84 104 0.88
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.32
Consensus pattern (84 bp):
CATCGTTTTATTTTGCGCGGTTTAGGAATTAGTGGTGCTATCTTATAAACGCCACTAAAAATATG
AGAAACCAAATGAAAACTA
Found at i:62914008 original size:16 final size:16
Alignment explanation
Indices: 62913983--62914015 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
62913973 GGAACGTAGA
62913983 TTTCTATTGTTAATGC
1 TTTCTATTGTTAATGC
*
62913999 TTTCTGTTGTTAATGC
1 TTTCTATTGTTAATGC
62914015 T
1 T
62914016 CAGCACTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.12, G:0.15, T:0.58
Consensus pattern (16 bp):
TTTCTATTGTTAATGC
Found at i:62916312 original size:16 final size:15
Alignment explanation
Indices: 62916272--62916314 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 15
62916262 TACACTTTTG
62916272 TAACTATTTATATAAT
1 TAACTATTTA-ATAAT
62916288 TAA-TAATTTAATAAT
1 TAACT-ATTTAATAAT
62916303 CTAACTATTTAA
1 -TAACTATTTAA
62916315 ATTTATATAC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
15 6 0.25
16 17 0.71
17 1 0.04
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (15 bp):
TAACTATTTAATAAT
Found at i:62916397 original size:3 final size:3
Alignment explanation
Indices: 62916384--62916430 Score: 85
Period size: 3 Copynumber: 15.3 Consensus size: 3
62916374 TTTTAAGCTT
62916384 TAA TAAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
62916430 T
1 T
62916431 TATTATTATT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 40 0.93
4 3 0.07
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:62916435 original size:3 final size:3
Alignment explanation
Indices: 62916429--62916455 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
62916419 AATAATAATA
62916429 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
62916456 GTTTGTTGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:62916904 original size:13 final size:13
Alignment explanation
Indices: 62916886--62916915 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
62916876 CCACATAATA
62916886 CATAAATATATAT
1 CATAAATATATAT
62916899 CATAAATATATAT
1 CATAAATATATAT
62916912 CATA
1 CATA
62916916 TCATAAGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (13 bp):
CATAAATATATAT
Found at i:62916975 original size:9 final size:9
Alignment explanation
Indices: 62916917--62916998 Score: 67
Period size: 9 Copynumber: 9.1 Consensus size: 9
62916907 TATATCATAT
*
62916917 CATAAGTTA
1 CATAACTTA
*
62916926 CATAAGTTA
1 CATAACTTA
*
62916935 CATACCTTA
1 CATAACTTA
*
62916944 CATAAATGTA
1 CATAACT-TA
* * *
62916954 TATCA-TAA
1 CATAACTTA
62916962 CATAACTTA
1 CATAACTTA
62916971 CATAACTTA
1 CATAACTTA
*
62916980 CAAAACTTA
1 CATAACTTA
*
62916989 CTTAACTTA
1 CATAACTTA
62916998 C
1 C
62916999 GTAATACATA
Statistics
Matches: 58, Mismatches: 13, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
8 4 0.07
9 49 0.84
10 5 0.09
ACGTcount: A:0.44, C:0.20, G:0.04, T:0.33
Consensus pattern (9 bp):
CATAACTTA
Found at i:62916989 original size:45 final size:45
Alignment explanation
Indices: 62916899--62916989 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 45
62916889 AAATATATAT
* * * * *
62916899 CATAAATATATATCATATCATAAGTTACATAAGTTACATACCTTA
1 CATAAATATATATCATAACATAACTTACATAACTTACAAAACTTA
*
62916944 CATAAATGTATATCATAACATAACTTACATAACTTACAAAACTTA
1 CATAAATATATATCATAACATAACTTACATAACTTACAAAACTTA
62916989 C
1 C
62916990 TTAACTTACG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.46, C:0.18, G:0.03, T:0.33
Consensus pattern (45 bp):
CATAAATATATATCATAACATAACTTACATAACTTACAAAACTTA
Found at i:62922136 original size:13 final size:14
Alignment explanation
Indices: 62922120--62922148 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
62922110 TTATAAATAT
62922120 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
62922133 TTATAATGGTTTAA
1 TTATAATGGTTTAA
62922147 TT
1 TT
62922149 CGTCATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Done.