Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 24 of 210
Found at i:8707700 original size:24 final size:24
Alignment explanation
Indices: 8707656--8707701 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
8707646 GATGACTTGA
* *
8707656 AGGGCTTAATTGGTTTTTTTTATG
1 AGGGCTTAATTGATTTATTTTATG
*
8707680 AGGGCTTAATTTATTTATTTTA
1 AGGGCTTAATTGATTTATTTTA
8707702 ATTATTTTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.22, C:0.04, G:0.20, T:0.54
Consensus pattern (24 bp):
AGGGCTTAATTGATTTATTTTATG
Found at i:8708452 original size:30 final size:30
Alignment explanation
Indices: 8708418--8708496 Score: 117
Period size: 30 Copynumber: 2.7 Consensus size: 30
8708408 CATATAATCC
8708418 TTAAAAATCAATTAAGCTCTCCTAAAATAA
1 TTAAAAATCAATTAAGCTCTCCTAAAATAA
*
8708448 TTAAAAATCAATTAAGCCCTCCTAAAATAA
1 TTAAAAATCAATTAAGCTCTCCTAAAATAA
*
8708478 --AGAAAATTAATTAAGCTCT
1 TTA-AAAATCAATTAAGCTCT
8708497 TCACATCAAC
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
28 1 0.02
29 15 0.33
30 29 0.64
ACGTcount: A:0.49, C:0.16, G:0.05, T:0.29
Consensus pattern (30 bp):
TTAAAAATCAATTAAGCTCTCCTAAAATAA
Found at i:8708804 original size:25 final size:25
Alignment explanation
Indices: 8708776--8708827 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
8708766 TTACAATCTG
8708776 CAGATTAAAACTCGTGACAAATGCA
1 CAGATTAAAACTCGTGACAAATGCA
8708801 CAGATTAAAACTCGTGACAAATGCA
1 CAGATTAAAACTCGTGACAAATGCA
8708826 CA
1 CA
8708828 CAGAACGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.19
Consensus pattern (25 bp):
CAGATTAAAACTCGTGACAAATGCA
Found at i:8722797 original size:27 final size:27
Alignment explanation
Indices: 8722759--8722835 Score: 120
Period size: 27 Copynumber: 2.9 Consensus size: 27
8722749 TAGTATTGGC
8722759 GCCTATCTGGGAGGCGCCAATGGTGGT
1 GCCTATCTGGGAGGCGCCAATGGTGGT
*
8722786 GCCTACCTGGGAGGCGCCAATGGTGGT
1 GCCTATCTGGGAGGCGCCAATGGTGGT
*
8722813 GCC-ATTCTGAGAGGCGCCAATGG
1 GCCTA-TCTGGGAGGCGCCAATGG
8722836 GTCGGGCTGG
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
26 1 0.02
27 45 0.98
ACGTcount: A:0.17, C:0.25, G:0.39, T:0.19
Consensus pattern (27 bp):
GCCTATCTGGGAGGCGCCAATGGTGGT
Found at i:8723077 original size:19 final size:19
Alignment explanation
Indices: 8723055--8723092 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
8723045 AATTTAATTT
*
8723055 ATTAGTAATAAATTACTAA
1 ATTACTAATAAATTACTAA
*
8723074 ATTACTAATAAGTTACTAA
1 ATTACTAATAAATTACTAA
8723093 TAAATTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.37
Consensus pattern (19 bp):
ATTACTAATAAATTACTAA
Found at i:8723292 original size:19 final size:19
Alignment explanation
Indices: 8723270--8723307 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
8723260 TATAAATTTA
*
8723270 TTAGTAACTTATTAGTAAT
1 TTAGTAACTTATTACTAAT
*
8723289 TTAGTAATTTATTACTAAT
1 TTAGTAACTTATTACTAAT
8723308 AAATTAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.05, G:0.08, T:0.50
Consensus pattern (19 bp):
TTAGTAACTTATTACTAAT
Found at i:8723499 original size:23 final size:24
Alignment explanation
Indices: 8723455--8723507 Score: 81
Period size: 23 Copynumber: 2.2 Consensus size: 24
8723445 CCGAATACAA
*
8723455 TAAATATATTTTTATTTTTTATTTT
1 TAAA-ATACTTTTATTTTTTATTTT
8723480 TAAAATACTTTT-TTTTTTATTTT
1 TAAAATACTTTTATTTTTTATTTT
8723503 TAAAA
1 TAAAA
8723508 ATTTTTGGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 16 0.59
24 7 0.26
25 4 0.15
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (24 bp):
TAAAATACTTTTATTTTTTATTTT
Found at i:8723689 original size:27 final size:27
Alignment explanation
Indices: 8723617--8723678 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
8723607 GGTCTAGTAA
*
8723617 TGGCGCCTCTCTATAAGGCACCTTCAT
1 TGGCGCCTCTCTATGAGGCACCTTCAT
8723644 TGGCGCCTCTCTATGAGGCACCTTCAT
1 TGGCGCCTCTCTATGAGGCACCTTCAT
8723671 TGGCGCCT
1 TGGCGCCT
8723679 ACCTGATAGG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.15, C:0.34, G:0.23, T:0.29
Consensus pattern (27 bp):
TGGCGCCTCTCTATGAGGCACCTTCAT
Found at i:8723786 original size:17 final size:17
Alignment explanation
Indices: 8723763--8723796 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
8723753 TAAAAAATAT
*
8723763 AAAAAAAATATTTTATTC
1 AAAAAAAAT-TATTATTC
8723781 AAAAAAAATTATTATT
1 AAAAAAAATTATTATT
8723797 TTTTTATTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
AAAAAAAATTATTATTC
Found at i:8736242 original size:29 final size:29
Alignment explanation
Indices: 8736209--8736265 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
8736199 TGTCTAAAAG
* *
8736209 TACTTAATTGGTACCTGAACTTTTTTTTT
1 TACTTAATTGATACCTAAACTTTTTTTTT
*
8736238 TACTTAGTTGATACCTAAACTTTTTTTT
1 TACTTAATTGATACCTAAACTTTTTTTT
8736266 AGTACCTAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.23, C:0.14, G:0.09, T:0.54
Consensus pattern (29 bp):
TACTTAATTGATACCTAAACTTTTTTTTT
Found at i:8736288 original size:29 final size:29
Alignment explanation
Indices: 8736220--8736277 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
8736210 ACTTAATTGG
* * *
8736220 TACCTGAACTTTTTTTTTTACTTAGTTGA
1 TACCTAAACTTTTTTTTGTACCTAGTTGA
8736249 TACCTAAACTTTTTTTTAGTACCTAGTTG
1 TACCTAAACTTTTTTTT-GTACCTAGTTG
8736278 TTACTTAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 16 0.64
30 9 0.36
ACGTcount: A:0.22, C:0.16, G:0.10, T:0.52
Consensus pattern (29 bp):
TACCTAAACTTTTTTTTGTACCTAGTTGA
Found at i:8740328 original size:76 final size:76
Alignment explanation
Indices: 8740242--8740527 Score: 563
Period size: 76 Copynumber: 3.8 Consensus size: 76
8740232 CGAACCGAAT
8740242 TTTTTTCGGTTAACCGACCGAGTTCGGTTAATCGGTCGGTTAACCGAAAAAAATTCGGTTCGGTT
1 TTTTTTCGGTTAACCGACCGAGTTCGGTTAATCGGTCGGTTAACCGAAAAAAATTCGGTTCGGTT
8740307 AATTTTTTTTA
66 AATTTTTTTTA
8740318 TTTTTTCGGTTAACCGACCGAGTTCGGTTAATCGGTCGGTTAACCGAAAAAAATTCGGTTCGGTT
1 TTTTTTCGGTTAACCGACCGAGTTCGGTTAATCGGTCGGTTAACCGAAAAAAATTCGGTTCGGTT
8740383 AATTTTTTTTA
66 AATTTTTTTTA
8740394 TTTTTTCGGTTAACCGACCGAGTTCGGTTAATCGGTCGGTTAACCGAAAAAAATTCGGTTCGGTT
1 TTTTTTCGGTTAACCGACCGAGTTCGGTTAATCGGTCGGTTAACCGAAAAAAATTCGGTTCGGTT
8740459 AATTTTTTTTA
66 AATTTTTTTTA
*
8740470 TTTTTTCGGTTAACCGACCGAGTTCGGTTAATCGGTCGGTTAACCGAAAAAAAATCGG
1 TTTTTTCGGTTAACCGACCGAGTTCGGTTAATCGGTCGGTTAACCGAAAAAAATTCGG
8740528 GTTAACCGAA
Statistics
Matches: 209, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 209 1.00
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.37
Consensus pattern (76 bp):
TTTTTTCGGTTAACCGACCGAGTTCGGTTAATCGGTCGGTTAACCGAAAAAAATTCGGTTCGGTT
AATTTTTTTTA
Found at i:8740758 original size:12 final size:11
Alignment explanation
Indices: 8740727--8740769 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
8740717 AACACCAATT
*
8740727 TTTTAAAAAAA
1 TTTTAAAAATA
*
8740738 TTTAAAAAAAGTA
1 TTT-TAAAAA-TA
8740751 TTTTAAAAATA
1 TTTTAAAAATA
8740762 TTTTAAAA
1 TTTTAAAA
8740770 TTTAAAAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 13 0.48
12 10 0.37
13 4 0.15
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (11 bp):
TTTTAAAAATA
Found at i:8749173 original size:3 final size:3
Alignment explanation
Indices: 8749165--8749200 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
8749155 TTTAGCAATT
8749165 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
8749201 GTAGTAGTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:8751054 original size:16 final size:15
Alignment explanation
Indices: 8751029--8751058 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
8751019 CAAACAACCC
8751029 AAAAAAAGAAAAAGA
1 AAAAAAAGAAAAAGA
8751044 AAAATAAAGAAAAAG
1 AAAA-AAAGAAAAAG
8751059 TAGCTAGTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.03
Consensus pattern (15 bp):
AAAAAAAGAAAAAGA
Found at i:8753436 original size:27 final size:26
Alignment explanation
Indices: 8753353--8753447 Score: 113
Period size: 25 Copynumber: 3.7 Consensus size: 26
8753343 ATGTACATGT
*
8753353 ATGCTCACACGAGCTGT-AAATCAGA
1 ATGCTCACACGAGCTGTGAAATTAGA
*
8753378 ATGCTCATACGAGCTGTG-AATTAGA
1 ATGCTCACACGAGCTGTGAAATTAGA
*
8753403 ATGCTCACACGAGCTGTGAAAATTAGC
1 ATGCTCACACGAGCTGTG-AAATTAGA
* * *
8753430 TTACTCACACAAGCTGTG
1 ATGCTCACACGAGCTGTG
8753448 GGTCGAAACG
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
25 39 0.65
27 21 0.35
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (26 bp):
ATGCTCACACGAGCTGTGAAATTAGA
Found at i:8754950 original size:24 final size:25
Alignment explanation
Indices: 8754904--8754956 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 25
8754894 ATAACGGAAA
*
8754904 GCTCATGAGAGCCAAATATCGAGAT
1 GCTCATGAGAGCCAAATAACGAGAT
*
8754929 GCTCATGAGAG-CTAATAACGAGAT
1 GCTCATGAGAGCCAAATAACGAGAT
8754953 GCTC
1 GCTC
8754957 TTTCGAGCTG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 15 0.58
25 11 0.42
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.21
Consensus pattern (25 bp):
GCTCATGAGAGCCAAATAACGAGAT
Found at i:8763456 original size:16 final size:16
Alignment explanation
Indices: 8763435--8763504 Score: 113
Period size: 16 Copynumber: 4.4 Consensus size: 16
8763425 TTGATTTGCT
*
8763435 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
8763451 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
8763467 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
8763483 AATACACCTCTAATCC
1 ATTACACCTCTAATCC
*
8763499 AATACA
1 ATTACA
8763505 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 52 1.00
ACGTcount: A:0.34, C:0.36, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:8763595 original size:23 final size:23
Alignment explanation
Indices: 8763568--8763625 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
8763558 CTAGACATTA
* *
8763568 CCTAAATATTGTCACTAAATCAT
1 CCTAAATATTATCACTAAATAAT
8763591 CCTAAATATTATCACTAAATAAT
1 CCTAAATATTATCACTAAATAAT
*
8763614 TCTAAATATTAT
1 CCTAAATATTAT
8763626 TAGGTATTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.38
Consensus pattern (23 bp):
CCTAAATATTATCACTAAATAAT
Found at i:8763691 original size:13 final size:12
Alignment explanation
Indices: 8763673--8763743 Score: 53
Period size: 13 Copynumber: 6.0 Consensus size: 12
8763663 TAGACATTAC
8763673 CTAAATATTGTCA
1 CTAAATATT-TCA
8763686 CTAAATCA--TC-
1 CTAAAT-ATTTCA
8763696 CTAAATATTATCA
1 CTAAATATT-TCA
*
8763709 CTAAATAATT--
1 CTAAATATTTCA
8763719 CTAAATATTATCA
1 CTAAATATT-TCA
*
8763732 CTAAATAATTCA
1 CTAAATATTTCA
8763744 AAGTTTAAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 17
0.70 0.04 0.25
Matches are distributed among these distances:
9 1 0.02
10 14 0.30
11 3 0.06
12 6 0.13
13 22 0.47
14 1 0.02
ACGTcount: A:0.45, C:0.17, G:0.01, T:0.37
Consensus pattern (12 bp):
CTAAATATTTCA
Found at i:8763702 original size:104 final size:104
Alignment explanation
Indices: 8763522--8763729 Score: 416
Period size: 104 Copynumber: 2.0 Consensus size: 104
8763512 AAACGTGCTC
8763522 TAGGTATTTATATACACTTTTAATGCTAAAATTCAACTAGACATTACCTAAATATTGTCACTAAA
1 TAGGTATTTATATACACTTTTAATGCTAAAATTCAACTAGACATTACCTAAATATTGTCACTAAA
8763587 TCATCCTAAATATTATCACTAAATAATTCTAAATATTAT
66 TCATCCTAAATATTATCACTAAATAATTCTAAATATTAT
8763626 TAGGTATTTATATACACTTTTAATGCTAAAATTCAACTAGACATTACCTAAATATTGTCACTAAA
1 TAGGTATTTATATACACTTTTAATGCTAAAATTCAACTAGACATTACCTAAATATTGTCACTAAA
8763691 TCATCCTAAATATTATCACTAAATAATTCTAAATATTAT
66 TCATCCTAAATATTATCACTAAATAATTCTAAATATTAT
8763730 CACTAAATAA
Statistics
Matches: 104, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 104 1.00
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.38
Consensus pattern (104 bp):
TAGGTATTTATATACACTTTTAATGCTAAAATTCAACTAGACATTACCTAAATATTGTCACTAAA
TCATCCTAAATATTATCACTAAATAATTCTAAATATTAT
Found at i:8763741 original size:23 final size:23
Alignment explanation
Indices: 8763673--8763742 Score: 113
Period size: 23 Copynumber: 3.0 Consensus size: 23
8763663 TAGACATTAC
* * *
8763673 CTAAATATTGTCACTAAATCATC
1 CTAAATATTATCACTAAATAATT
8763696 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
8763719 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
8763742 C
1 C
8763743 AAAGTTTAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.44, C:0.17, G:0.01, T:0.37
Consensus pattern (23 bp):
CTAAATATTATCACTAAATAATT
Found at i:8763768 original size:104 final size:104
Alignment explanation
Indices: 8763547--8763775 Score: 300
Period size: 104 Copynumber: 2.2 Consensus size: 104
8763537 ACTTTTAATG
*
8763547 CTAAAATTCAACTAGACATTACCTAAATATTGTCACTAAATCATCCTAAATATTATCACTAAATA
1 CTAAAATTAAACTAGACATTACCTAAATATTGTCACTAAATCATCCTAAATATTATCACTAAATA
* * * * * * **
8763612 ATTCTAAATATTATTAGGTATTTATATACACTTTTAATG
66 ATTCTAAATATTATCAGCTAATAATATAAACTTTAAAAA
*
8763651 CTAAAATTCAACTAGACATTACCTAAATATTGTCACTAAATCATCCTAAATATTATCACTAAATA
1 CTAAAATTAAACTAGACATTACCTAAATATTGTCACTAAATCATCCTAAATATTATCACTAAATA
*
8763716 ATTCTAAATATTATCA-CTAAATAAT-TCAAAGTTTAAAAA
66 ATTCTAAATATTATCAGCT-AATAATAT-AAACTTTAAAAA
* * *
8763755 TTAAATTTAAACTAGAGATTA
1 CTAAAATTAAACTAGACATTA
8763776 AATTTAAACT
Statistics
Matches: 110, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
103 2 0.02
104 108 0.98
ACGTcount: A:0.45, C:0.15, G:0.04, T:0.36
Consensus pattern (104 bp):
CTAAAATTAAACTAGACATTACCTAAATATTGTCACTAAATCATCCTAAATATTATCACTAAATA
ATTCTAAATATTATCAGCTAATAATATAAACTTTAAAAA
Found at i:8768155 original size:61 final size:61
Alignment explanation
Indices: 8768055--8768201 Score: 138
Period size: 61 Copynumber: 2.4 Consensus size: 61
8768045 GCTTACATAT
* * * * *
8768055 TCTATCAATTT-GATCCCAAATATAAAAAATTTAACAAATTTAGCCCTC-ACTATTTACAGAA
1 TCTATCAATTTAG-TCCTAACTCTAAAAAATTTAACAAATTTAGCCATCAAC-ATTTACAAAA
* * * * * * *
8768116 TTTGTCATTTTAGTTCTAATTCTAAAAGAA-TTAATAAATTTGGCCATCAACATTTACAAAA
1 TCTATCAATTTAGTCCTAACTCTAAAA-AATTTAACAAATTTAGCCATCAACATTTACAAAA
8768177 TCTATCAATTTAGTCCTAACTCTAA
1 TCTATCAATTTAGTCCTAACTCTAA
8768202 CAATTTTTGA
Statistics
Matches: 67, Mismatches: 16, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
61 62 0.93
62 5 0.07
ACGTcount: A:0.39, C:0.18, G:0.06, T:0.37
Consensus pattern (61 bp):
TCTATCAATTTAGTCCTAACTCTAAAAAATTTAACAAATTTAGCCATCAACATTTACAAAA
Found at i:8769443 original size:62 final size:61
Alignment explanation
Indices: 8769286--8769465 Score: 184
Period size: 61 Copynumber: 2.9 Consensus size: 61
8769276 TTTTTAAAAT
* * * * * * *
8769286 TTTTAGAGTTAGGACTAAATTGACAGAATTTGTAAATATTGAGGAATAAATTTATTGATTT
1 TTTTAGAATTAGAACTAAATTGATAGAATTTGTAAACATTGAGGACTAAATTTGTTGATTA
*
8769347 TTTTAGAATTAGAACTAAAATGATA-AATTTTGTAAACATTGAGGACTAAATTTGTTGAATTA
1 TTTTAGAATTAGAACTAAATTGATAGAA-TTTGTAAACATTGAGGACTAAATTTGTTG-ATTA
* * * * * *
8769409 TTTTATATTTAGTA-TCAAATTGATAGAATATGTAAACATTAGAGGGCTAATTTTGTT
1 TTTTAGAATTAGAACT-AAATTGATAGAATTTGTAAACATT-GAGGACTAAATTTGTT
8769466 ACAAGACCAA
Statistics
Matches: 99, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
60 2 0.02
61 48 0.48
62 33 0.33
63 16 0.16
ACGTcount: A:0.38, C:0.04, G:0.16, T:0.41
Consensus pattern (61 bp):
TTTTAGAATTAGAACTAAATTGATAGAATTTGTAAACATTGAGGACTAAATTTGTTGATTA
Found at i:8772550 original size:23 final size:23
Alignment explanation
Indices: 8772460--8772551 Score: 98
Period size: 23 Copynumber: 3.9 Consensus size: 23
8772450 GAGCCATGAT
*
8772460 CGGTAAGCTCATTCCGAGCTGATAAA
1 CGGTAAGCTCA-TACGAGCTG--AAA
8772486 CGGTAAGCTC-TATCGAGCTGAAA
1 CGGTAAGCTCATA-CGAGCTGAAA
*
8772509 CGGTAAGCTCCGTA-GAGCTGAAA
1 CGGTAAGCT-CATACGAGCTGAAA
*
8772532 CGGTAAGCTCATACAAGCTG
1 CGGTAAGCTCATACGAGCTG
8772552 TGGTGAGTCC
Statistics
Matches: 59, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
22 3 0.05
23 35 0.59
24 2 0.03
25 9 0.15
26 10 0.17
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (23 bp):
CGGTAAGCTCATACGAGCTGAAA
Found at i:8778492 original size:228 final size:227
Alignment explanation
Indices: 8778089--8778771 Score: 983
Period size: 229 Copynumber: 3.0 Consensus size: 227
8778079 GCAACCGATT
* *
8778089 GAGTATTAGCGGCGTTTCTATAAAAACGCCGTAAAAACTAAACCCAGACGACGTCGTTTGGAGAA
1 GAGTATTAGCGGCGTTTCTATAAAAACGCCGCAAAAACTAAACCCAGACGACGTCGTTTGGAGAC
* * *
8778154 ACTTAGGTGACATTAGTGGCGTTTTTCGAATAGCACCGCTAATAATATGAGTATTAGCGGCGTTT
66 ACTTCGGTGACATTAGTGGCGTTTTTCTAATAGCGCCGCTAATAATATGAGTATTAGCGGCGTTT
* * * *
8778219 CTGTAAAAATACAGCAAAAACTAAAACCCATACGACGTT-GTTTGGAGACACTTCGGTGACATTA
131 CTATAAAAATGCCGCAAAAACTAAAACCCAAACGAC-TTCGTTTGGAGACACTTCGGTGACATTA
*
8778283 GTGGCGTTTTTTGAATAGCGCCGCTAATAATAC
195 GTGGCGTTTTTAGAATAGCGCCGCTAATAATAC
* *
8778316 GAGTATTAGCGGCGTTTCTATAAAAATGCTGCAAAAACTAAACCCCAGACGACGTCGTTTGGAGA
1 GAGTATTAGCGGCGTTTCTATAAAAACGCCGCAAAAACTAAA-CCCAGACGACGTCGTTTGGAGA
* * *
8778381 CACTTCGGTGACTTTAGTGGCCTTTTTCTAACAGCGCCGCTAATAATATGAGTATTAGCGGCGTT
65 CACTTCGGTGACATTAGTGGCGTTTTTCTAATAGCGCCGCTAATAATATGAGTATTAGCGGCGTT
* * * *
8778446 TCTACAAAAACGCCGGAAAAACTAAAACCCAAACGACTTCGTTTGGAGACATTTCGGTGACATTA
130 TCTATAAAAATGCCGCAAAAACTAAAACCCAAACGACTTCGTTTGGAGACACTTCGGTGACATTA
** * *
8778511 GTGGCGTTTTCCGAGTAGCGCCGCTAATAATAT
195 GTGGCGTTTTTAGAATAGCGCCGCTAATAATAC
* *
8778544 GAGTATTAGCGGCGTTTTGTATAAAAACGCCGCAAAAACTAAAACCCAGACGACGTCGTCTGGAG
1 GAGTATTAGCGGCG-TTTCTATAAAAACGCCGCAAAAACT-AAACCCAGACGACGTCGTTTGGAG
* *
8778609 ACACTTCGGTGACACTAGTGGTGTTTTT-TGAATAGCGCCGCTAATAATATGAGTATTAGCGGCG
64 ACACTTCGGTGACATTAGTGGCGTTTTTCT-AATAGCGCCGCTAATAATATGAGTATTAGCGGCG
* * ** * *
8778673 TTTCTATAAAAATGCCTCAAAAACTAAACCCCAGGCGACATCGTTTGGAGACACTTCGGTGACTT
128 TTTCTATAAAAATGCCGCAAAAACTAAAACCCAAACGACTTCGTTTGGAGACACTTCGGTGACAT
* * *
8778738 TAGTGGCGTTTTTAGATTAGCGTCGCGAATAATA
193 TAGTGGCGTTTTTAGAATAGCGCCGCTAATAATA
8778772 AAGGTTTTAG
Statistics
Matches: 405, Mismatches: 46, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
227 41 0.10
228 178 0.44
229 183 0.45
230 3 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (227 bp):
GAGTATTAGCGGCGTTTCTATAAAAACGCCGCAAAAACTAAACCCAGACGACGTCGTTTGGAGAC
ACTTCGGTGACATTAGTGGCGTTTTTCTAATAGCGCCGCTAATAATATGAGTATTAGCGGCGTTT
CTATAAAAATGCCGCAAAAACTAAAACCCAAACGACTTCGTTTGGAGACACTTCGGTGACATTAG
TGGCGTTTTTAGAATAGCGCCGCTAATAATAC
Found at i:8778719 original size:343 final size:341
Alignment explanation
Indices: 8778088--8778750 Score: 1080
Period size: 343 Copynumber: 1.9 Consensus size: 341
8778078 CGCAACCGAT
* * *
8778088 TGAGTATTAGCGGCGTTTCTATAAAAACGCCGTAAAAACTAAACCCAGACGACGTCGTTTGGAGA
1 TGAGTATTAGCGGCGTTTCTACAAAAACGCCGGAAAAACTAAACCCAAACGACGTCGTTTGGAGA
*
8778153 AACTTAGGTGACATTAGTGGCGTTTTTCGAATAGCACCGCTAATAATATGAGTATTAGCGGCGTT
66 AACTTAGGTGACATTAGTGGCGTTTTCCGAATAGCACCGCTAATAATATGAGTATTAGCGGCGTT
* * * *
8778218 TCTGTAAAAATACAGCAAAAACTAAAACCCATACGACGTTGTTTGGAGACACTTCGGTGACATTA
131 TCTGTAAAAATACAGCAAAAACTAAAACCCAGACGACGTCGTCTGGAGACACTTCGGTGACACTA
8778283 GTGGCGTTTTTTGAATAGCGCCGCTAATAATACGAGTATTAGCGGCGTTTCTATAAAAATGCTGC
196 GTGGCGTTTTTTGAATAGCGCCGCTAATAATACGAGTATTAGCGGCGTTTCTATAAAAATGCTGC
*
8778348 AAAAACTAAACCCCAGACGACGTCGTTTGGAGACACTTCGGTGACTTTAGTGGCCTTTTTCTAAC
261 AAAAACTAAACCCCAGACGACATCGTTTGGAGACACTTCGGTGACTTTAGTGGCCTTTTTCTAAC
8778413 AGCGCCGCTAATAATA
326 AGCGCCGCTAATAATA
*
8778429 TGAGTATTAGCGGCGTTTCTACAAAAACGCCGGAAAAACTAAAACCCAAACGACTTCGTTTGGAG
1 TGAGTATTAGCGGCGTTTCTACAAAAACGCCGGAAAAACT-AAACCCAAACGACGTCGTTTGGAG
* * * * *
8778494 ACATTTCGGTGACATTAGTGGCGTTTTCCGAGTAGCGCCGCTAATAATATGAGTATTAGCGGCGT
65 AAACTTAGGTGACATTAGTGGCGTTTTCCGAATAGCACCGCTAATAATATGAGTATTAGCGGCGT
*
8778559 TT-TGTATAAAA-ACGCCGCAAAAACTAAAACCCAGACGACGTCGTCTGGAGACACTTCGGTGAC
130 TTCTGTA-AAAATA--CAGCAAAAACTAAAACCCAGACGACGTCGTCTGGAGACACTTCGGTGAC
* *
8778622 ACTAGTGGTGTTTTTTGAATAGCGCCGCTAATAATATGAGTATTAGCGGCGTTTCTATAAAAATG
192 ACTAGTGGCGTTTTTTGAATAGCGCCGCTAATAATACGAGTATTAGCGGCGTTTCTATAAAAATG
* *
8778687 CCT-CAAAAACTAAACCCCAGGCGACATCGTTTGGAGACACTTCGGTGACTTTAGTGGCGTTTTT
257 -CTGCAAAAACTAAACCCCAGACGACATCGTTTGGAGACACTTCGGTGACTTTAGTGGCCTTTTT
8778751 AGATTAGCGT
Statistics
Matches: 297, Mismatches: 20, Indels: 8
0.91 0.06 0.02
Matches are distributed among these distances:
341 43 0.14
342 87 0.29
343 165 0.56
344 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (341 bp):
TGAGTATTAGCGGCGTTTCTACAAAAACGCCGGAAAAACTAAACCCAAACGACGTCGTTTGGAGA
AACTTAGGTGACATTAGTGGCGTTTTCCGAATAGCACCGCTAATAATATGAGTATTAGCGGCGTT
TCTGTAAAAATACAGCAAAAACTAAAACCCAGACGACGTCGTCTGGAGACACTTCGGTGACACTA
GTGGCGTTTTTTGAATAGCGCCGCTAATAATACGAGTATTAGCGGCGTTTCTATAAAAATGCTGC
AAAAACTAAACCCCAGACGACATCGTTTGGAGACACTTCGGTGACTTTAGTGGCCTTTTTCTAAC
AGCGCCGCTAATAATA
Found at i:8778785 original size:114 final size:114
Alignment explanation
Indices: 8778088--8778771 Score: 983
Period size: 114 Copynumber: 6.0 Consensus size: 114
8778078 CGCAACCGAT
*
8778088 TGAGTATTAGCGGCGTTTCTATAAAAACGCCGTAAAAACT-AAACCCAGACGACGTCGTTTGGAG
1 TGAGTATTAGCGGCGTTTCTATAAAAACGCCGCAAAAACTAAAACCCAGACGACGTCGTTTGGAG
* * *
8778152 AAACTTAGGTGACATTAGTGGCGTTTTTCGAATAGCACCGCTAATAATA
66 ACACTTCGGTGACATTAGTGGCGTTTTTCGAATAGCGCCGCTAATAATA
* ** * * *
8778201 TGAGTATTAGCGGCGTTTCTGTAAAAATACAGCAAAAACTAAAACCCATACGACGTTGTTTGGAG
1 TGAGTATTAGCGGCGTTTCTATAAAAACGCCGCAAAAACTAAAACCCAGACGACGTCGTTTGGAG
*
8778266 ACACTTCGGTGACATTAGTGGCGTTTTTTGAATAGCGCCGCTAATAATA
66 ACACTTCGGTGACATTAGTGGCGTTTTTCGAATAGCGCCGCTAATAATA
* * * *
8778315 CGAGTATTAGCGGCGTTTCTATAAAAATGCTGCAAAAACTAAACCCCAGACGACGTCGTTTGGAG
1 TGAGTATTAGCGGCGTTTCTATAAAAACGCCGCAAAAACTAAAACCCAGACGACGTCGTTTGGAG
* * * *
8778380 ACACTTCGGTGACTTTAGTGGCCTTTTTCTAACAGCGCCGCTAATAATA
66 ACACTTCGGTGACATTAGTGGCGTTTTTCGAATAGCGCCGCTAATAATA
* * * *
8778429 TGAGTATTAGCGGCGTTTCTACAAAAACGCCGGAAAAACTAAAACCCAAACGACTTCGTTTGGAG
1 TGAGTATTAGCGGCGTTTCTATAAAAACGCCGCAAAAACTAAAACCCAGACGACGTCGTTTGGAG
* * *
8778494 ACATTTCGGTGACATTAGTGGCGTTTTCCGAGTAGCGCCGCTAATAATA
66 ACACTTCGGTGACATTAGTGGCGTTTTTCGAATAGCGCCGCTAATAATA
* *
8778543 TGAGTATTAGCGGCGTTTTGTATAAAAACGCCGCAAAAACTAAAACCCAGACGACGTCGTCTGGA
1 TGAGTATTAGCGGCG-TTTCTATAAAAACGCCGCAAAAACTAAAACCCAGACGACGTCGTTTGGA
* * *
8778608 GACACTTCGGTGACACTAGTGGTGTTTTTTGAATAGCGCCGCTAATAATA
65 GACACTTCGGTGACATTAGTGGCGTTTTTCGAATAGCGCCGCTAATAATA
* * * * *
8778658 TGAGTATTAGCGGCGTTTCTATAAAAATGCCTCAAAAACTAAACCCCAGGCGACATCGTTTGGAG
1 TGAGTATTAGCGGCGTTTCTATAAAAACGCCGCAAAAACTAAAACCCAGACGACGTCGTTTGGAG
* * * * *
8778723 ACACTTCGGTGACTTTAGTGGCGTTTTTAGATTAGCGTCGCGAATAATA
66 ACACTTCGGTGACATTAGTGGCGTTTTTCGAATAGCGCCGCTAATAATA
8778772 AAGGTTTTAG
Statistics
Matches: 505, Mismatches: 64, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
113 35 0.07
114 368 0.73
115 102 0.20
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (114 bp):
TGAGTATTAGCGGCGTTTCTATAAAAACGCCGCAAAAACTAAAACCCAGACGACGTCGTTTGGAG
ACACTTCGGTGACATTAGTGGCGTTTTTCGAATAGCGCCGCTAATAATA
Found at i:8779580 original size:14 final size:15
Alignment explanation
Indices: 8779554--8779584 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
8779544 TATATATATA
8779554 TATGGATTTAGGGAT
1 TATGGATTTAGGGAT
8779569 TATGGA-TTAGGGAT
1 TATGGATTTAGGGAT
8779583 TA
1 TA
8779585 AGGGTTGGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.29, C:0.00, G:0.32, T:0.39
Consensus pattern (15 bp):
TATGGATTTAGGGAT
Found at i:8779667 original size:15 final size:16
Alignment explanation
Indices: 8779647--8779685 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
8779637 ACGTTAGTGG
8779647 TTAAGAG-TTAGGGAT
1 TTAAGAGTTTAGGGAT
*
8779662 TTAAGAGGTTTAGGGTT
1 TTAAGA-GTTTAGGGAT
8779679 TTAAGAG
1 TTAAGAG
8779686 GGTCGGGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 6 0.29
16 2 0.10
17 13 0.62
ACGTcount: A:0.31, C:0.00, G:0.33, T:0.36
Consensus pattern (16 bp):
TTAAGAGTTTAGGGAT
Found at i:8779676 original size:17 final size:17
Alignment explanation
Indices: 8779654--8779686 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8779644 TGGTTAAGAG
8779654 TTAGGGATTTAAGAGGT
1 TTAGGGATTTAAGAGGT
*
8779671 TTAGGGTTTTAAGAGG
1 TTAGGGATTTAAGAGG
8779687 GTCGGGTTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.36, T:0.36
Consensus pattern (17 bp):
TTAGGGATTTAAGAGGT
Found at i:8780056 original size:20 final size:20
Alignment explanation
Indices: 8780027--8780079 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
8780017 AAATAAAATT
*
8780027 AAAATTAAAATTAAA-ATACA
1 AAAATCAAAATTAAATATA-A
*
8780047 AAAATCAAAATGAAATATAA
1 AAAATCAAAATTAAATATAA
*
8780067 AAACTCTAAAATT
1 AAAATC-AAAATT
8780080 TTTAATTTNN
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 19 0.70
21 8 0.30
ACGTcount: A:0.66, C:0.08, G:0.02, T:0.25
Consensus pattern (20 bp):
AAAATCAAAATTAAATATAA
Found at i:8781442 original size:9 final size:9
Alignment explanation
Indices: 8781428--8781500 Score: 68
Period size: 9 Copynumber: 8.6 Consensus size: 9
8781418 ATTAATATTA
*
8781428 TACATAAAT
1 TACATAACT
8781437 TACATAACT
1 TACATAACT
8781446 TA-ATTAA-T
1 TACA-TAACT
*
8781454 TA-AT-ATT
1 TACATAACT
8781461 ATACATAACT
1 -TACATAACT
8781471 TACATAACT
1 TACATAACT
8781480 TAC--AACT
1 TACATAACT
8781487 TACATAACT
1 TACATAACT
8781496 TACAT
1 TACAT
8781501 TTTTATAATT
Statistics
Matches: 55, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
6 1 0.02
7 9 0.16
8 7 0.13
9 36 0.65
10 2 0.04
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (9 bp):
TACATAACT
Found at i:8781488 original size:16 final size:16
Alignment explanation
Indices: 8781467--8781499 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
8781457 TATTATACAT
8781467 AACTTACATAACTTAC
1 AACTTACATAACTTAC
8781483 AACTTACATAACTTAC
1 AACTTACATAACTTAC
8781499 A
1 A
8781500 TTTTTATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.30
Consensus pattern (16 bp):
AACTTACATAACTTAC
Found at i:8781512 original size:50 final size:50
Alignment explanation
Indices: 8781436--8781533 Score: 137
Period size: 50 Copynumber: 2.0 Consensus size: 50
8781426 TATACATAAA
*
8781436 TTACATAACTTAATTAATTAATATTATACATAACTTACATAACTTACAAC
1 TTACATAACTTAATTAATTAATATTATACATAAATTACATAACTTACAAC
* *
8781486 TTACATAACTTACATT--TTTATAATTATTCATAAATTACATAACTTACA
1 TTACATAACTTA-ATTAATTAAT-ATTATACATAAATTACATAACTTACA
8781534 TTAATATTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
49 4 0.09
50 36 0.84
51 3 0.07
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (50 bp):
TTACATAACTTAATTAATTAATATTATACATAAATTACATAACTTACAAC
Found at i:8788866 original size:21 final size:21
Alignment explanation
Indices: 8788848--8788902 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
8788838 TGCGGCAGTA
8788848 AGAGAAGCAGAGGCAGCAGCG
1 AGAGAAGCAGAGGCAGCAGCG
* * *
8788869 AGAGAAGTACAGGCTGCAGCG
1 AGAGAAGCAGAGGCAGCAGCG
*
8788890 AGGGAAGCAGAGG
1 AGAGAAGCAGAGG
8788903 ATAAAGCGAG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.36, C:0.16, G:0.44, T:0.04
Consensus pattern (21 bp):
AGAGAAGCAGAGGCAGCAGCG
Found at i:8788899 original size:42 final size:42
Alignment explanation
Indices: 8788851--8788947 Score: 108
Period size: 42 Copynumber: 2.3 Consensus size: 42
8788841 GGCAGTAAGA
* * * *
8788851 GAAGCAGAGGCAGCAGCGAGAGAAGTACAGGCTGCAGCGAGG
1 GAAGCAGAGGCAGCAGCGAGAGAAGCAAAAGCTACAGCGAGG
** *
8788893 GAAGCAGAGG-ATAAAGCGAGGGAAGCAAAAGCTACAGCGAGG
1 GAAGCAGAGGCA-GCAGCGAGAGAAGCAAAAGCTACAGCGAGG
8788935 GAAGCAGA-GCAGC
1 GAAGCAGAGGCAGC
8788948 GTCAAAAGTT
Statistics
Matches: 44, Mismatches: 9, Indels: 5
0.76 0.16 0.09
Matches are distributed among these distances:
41 2 0.05
42 42 0.95
ACGTcount: A:0.38, C:0.18, G:0.40, T:0.04
Consensus pattern (42 bp):
GAAGCAGAGGCAGCAGCGAGAGAAGCAAAAGCTACAGCGAGG
Found at i:8788910 original size:21 final size:21
Alignment explanation
Indices: 8788886--8788943 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
8788876 TACAGGCTGC
8788886 AGCGAGGGAAGCAGAGGATAA
1 AGCGAGGGAAGCAGAGGATAA
* * * *
8788907 AGCGAGGGAAGCAAAAGCTAC
1 AGCGAGGGAAGCAGAGGATAA
8788928 AGCGAGGGAAGCAGAG
1 AGCGAGGGAAGCAGAG
8788944 CAGCGTCAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.41, C:0.14, G:0.41, T:0.03
Consensus pattern (21 bp):
AGCGAGGGAAGCAGAGGATAA
Found at i:8790839 original size:23 final size:23
Alignment explanation
Indices: 8790786--8790867 Score: 94
Period size: 23 Copynumber: 3.4 Consensus size: 23
8790776 GAGCCATGAT
8790786 CGGTAAGCT-TATTCCGAGCTGATAAA
1 CGGTAAGCTCTA-T-CGAGCTG--AAA
8790812 CGGTAAGCTCTATCGAGCTGAAA
1 CGGTAAGCTCTATCGAGCTGAAA
* * *
8790835 CGGTAAGCTCTGTAGAGCTGACA
1 CGGTAAGCTCTATCGAGCTGAAA
8790858 CGGTAAGCTC
1 CGGTAAGCTC
8790868 ATACAAGTTG
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
23 33 0.63
25 7 0.13
26 10 0.19
27 2 0.04
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (23 bp):
CGGTAAGCTCTATCGAGCTGAAA
Found at i:8791933 original size:24 final size:24
Alignment explanation
Indices: 8791901--8791947 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
8791891 TCTAACATTC
* *
8791901 ACCGATCTTCCTTAACTTGAGGAT
1 ACCGATCTTCCCTAACTCGAGGAT
8791925 ACCGATCTTCCCTAACTCGAGGA
1 ACCGATCTTCCCTAACTCGAGGA
8791948 CACGAAGAAG
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:0.26, C:0.30, G:0.17, T:0.28
Consensus pattern (24 bp):
ACCGATCTTCCCTAACTCGAGGAT
Found at i:8792235 original size:37 final size:37
Alignment explanation
Indices: 8792187--8792259 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
8792177 GTAGCCACAA
8792187 CGACAGCACTAGAGTTATCACACCAAATAGTAGGTAG
1 CGACAGCACTAGAGTTATCACACCAAATAGTAGGTAG
8792224 CGACAGCACTAGAGTTATCACACCAAATAGTAGGTA
1 CGACAGCACTAGAGTTATCACACCAAATAGTAGGTA
8792260 TCAACGGAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (37 bp):
CGACAGCACTAGAGTTATCACACCAAATAGTAGGTAG
Found at i:8793263 original size:27 final size:27
Alignment explanation
Indices: 8793211--8793275 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
8793201 TGTTACACCC
* *
8793211 CGTGTTTAGTGTTCCGATAGACTATCT
1 CGTGTTTAGTGTCCCGATAGACTATCA
* *
8793238 TGTGTTTAGTGTCCCAGA-AGATTATCA
1 CGTGTTTAGTGTCCC-GATAGACTATCA
8793265 CGTGTTTAGTG
1 CGTGTTTAGTG
8793276 CCCTAGCAGG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 30 0.94
28 2 0.06
ACGTcount: A:0.20, C:0.15, G:0.25, T:0.40
Consensus pattern (27 bp):
CGTGTTTAGTGTCCCGATAGACTATCA
Found at i:8793482 original size:45 final size:45
Alignment explanation
Indices: 8793391--8793546 Score: 149
Period size: 45 Copynumber: 3.5 Consensus size: 45
8793381 CGACTACTAG
* * * *
8793391 GATGCCATAGCGTATTTCAACTATGGTCTTAGTTC-TGTTT-TCCAT
1 GATGCCATAGCATCTTTCAACTATGGTCTTA-CTCATATTTAT-CAT
* * *
8793436 GATGCCATAGCGTCTCTCAACCATGGTCTTACTCAT-TTATATCAT
1 GATGCCATAGCATCTTTCAACTATGGTCTTACTCATATT-TATCAT
* * *
8793481 GATGCCATAACATCTTTCAGCTATGGTTTTACTCATATTTAAT-AT
1 GATGCCATAGCATCTTTCAACTATGGTCTTACTCATATTT-ATCAT
*
8793526 GATACCATAGCATCTTTCAAC
1 GATGCCATAGCATCTTTCAAC
8793547 ATATAGCCCC
Statistics
Matches: 93, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
44 4 0.04
45 84 0.90
46 5 0.05
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.38
Consensus pattern (45 bp):
GATGCCATAGCATCTTTCAACTATGGTCTTACTCATATTTATCAT
Found at i:8795191 original size:31 final size:32
Alignment explanation
Indices: 8795144--8795209 Score: 125
Period size: 31 Copynumber: 2.1 Consensus size: 32
8795134 TTTTCCAAAG
8795144 TTAGAACAGGGGATTCCAAAATCATTCTGACA
1 TTAGAACAGGGGATTCCAAAATCATTCTGACA
8795176 TTAGAACA-GGGATTCCAAAATCATTCTGACA
1 TTAGAACAGGGGATTCCAAAATCATTCTGACA
8795207 TTA
1 TTA
8795210 TCTCACAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 26 0.76
32 8 0.24
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (32 bp):
TTAGAACAGGGGATTCCAAAATCATTCTGACA
Found at i:8795954 original size:43 final size:43
Alignment explanation
Indices: 8795892--8795998 Score: 153
Period size: 43 Copynumber: 2.5 Consensus size: 43
8795882 CATGTCCTAT
* ** *
8795892 ACATGGTCTTACATGGAAATCTCGTATTGATGCCAATAGCCCAG
1 ACATGGTCTTACA-CGAAATCTCAAATCGATGCCAATAGCCCAG
8795936 -CTATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAG
1 AC-ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAG
8795979 ACATGGTCTTACACGAAATC
1 ACATGGTCTTACACGAAATC
8795999 ACACATCGGA
Statistics
Matches: 57, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
43 45 0.79
44 12 0.21
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (43 bp):
ACATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAG
Found at i:8796162 original size:31 final size:31
Alignment explanation
Indices: 8796122--8796322 Score: 251
Period size: 31 Copynumber: 6.5 Consensus size: 31
8796112 TGCTCAAATT
* * * *
8796122 AATTAGGCAATATACATCCATATACGAATCA
1 AATTCGGCAATGTATATCCATATACAAATCA
* * *
8796153 AATTTGGCAATGTATATCTACATACAAATC-
1 AATTCGGCAATGTATATCCATATACAAATCA
*
8796183 AATTCGGCAATATATATCCATATACAAATCA
1 AATTCGGCAATGTATATCCATATACAAATCA
* * *
8796214 AATTCAGCAATTTATAACCATATACAAATCA
1 AATTCGGCAATGTATATCCATATACAAATCA
* * * *
8796245 AATTCGACAATGTATATCTATAAACAATTCA
1 AATTCGGCAATGTATATCCATATACAAATCA
*
8796276 AATTCGGCAATGTATATCTATATACAAATCA
1 AATTCGGCAATGTATATCCATATACAAATCA
8796307 AATTCGGCAATGTATA
1 AATTCGGCAATGTATA
8796323 AAACATATAC
Statistics
Matches: 146, Mismatches: 23, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
30 26 0.18
31 120 0.82
ACGTcount: A:0.44, C:0.17, G:0.08, T:0.30
Consensus pattern (31 bp):
AATTCGGCAATGTATATCCATATACAAATCA
Found at i:8807284 original size:28 final size:28
Alignment explanation
Indices: 8807234--8807287 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
8807224 ACATTTTTTA
** *
8807234 ATTTTTTAATTACGTAAATTATTATAAT
1 ATTTTTTAATTACACAAAATATTATAAT
*
8807262 ATTTTTTAATTATACAAAATATTATA
1 ATTTTTTAATTACACAAAATATTATA
8807288 TAAGTATAGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.52
Consensus pattern (28 bp):
ATTTTTTAATTACACAAAATATTATAAT
Found at i:8807599 original size:12 final size:12
Alignment explanation
Indices: 8807584--8807622 Score: 62
Period size: 12 Copynumber: 3.2 Consensus size: 12
8807574 TATTAAAATG
8807584 TTTATTTTCTTT
1 TTTATTTTCTTT
8807596 TTTA-TTTCTTT
1 TTTATTTTCTTT
8807607 ATTTATTTTCTTT
1 -TTTATTTTCTTT
8807620 TTT
1 TTT
8807623 TCTTTTTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 7 0.28
12 11 0.44
13 7 0.28
ACGTcount: A:0.10, C:0.08, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTATTTTCTTT
Found at i:8808537 original size:11 final size:11
Alignment explanation
Indices: 8808521--8808549 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
8808511 AATTCTACTT
8808521 TTTCTTTCAAA
1 TTTCTTTCAAA
8808532 TTTCTTTCAAA
1 TTTCTTTCAAA
8808543 TTTCTTT
1 TTTCTTT
8808550 TTCCACCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.21, C:0.17, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTCTTTCAAA
Found at i:8817840 original size:16 final size:16
Alignment explanation
Indices: 8817794--8817840 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
8817784 TTTTGGGACA
*
8817794 AAAAGTACTTTTGAAAT
1 AAAA-TACTTTTTAAAT
*
8817811 AAAA-ACATTGTTAAAT
1 AAAATAC-TTTTTAAAT
8817827 AAAATACTTTTTAA
1 AAAATACTTTTTAA
8817841 CTTTTTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 2 0.08
16 17 0.68
17 6 0.24
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.36
Consensus pattern (16 bp):
AAAATACTTTTTAAAT
Found at i:8817925 original size:17 final size:17
Alignment explanation
Indices: 8817884--8817925 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
8817874 AAAAATTTTA
8817884 ATTTTT-ACTCAAAAAT
1 ATTTTTAACTCAAAAAT
*
8817900 ACTTTTTAACTTAAAAAT
1 A-TTTTTAACTCAAAAAT
8817918 ATTTTTAA
1 ATTTTTAA
8817926 GAAATAATAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 1 0.04
17 12 0.52
18 10 0.43
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.48
Consensus pattern (17 bp):
ATTTTTAACTCAAAAAT
Found at i:8818801 original size:47 final size:47
Alignment explanation
Indices: 8818732--8818826 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
8818722 TTATATCACC
8818732 TAAGTGAAACCGGTGGTAAATGAAATGAAAAGGAATGGAGAAACTCT
1 TAAGTGAAACCGGTGGTAAATGAAATGAAAAGGAATGGAGAAACTCT
8818779 TAAGTGAAACCGGTGGTAAATGAAATGAAAAGGAATGGAGAAACTCT
1 TAAGTGAAACCGGTGGTAAATGAAATGAAAAGGAATGGAGAAACTCT
8818826 T
1 T
8818827 GATGATGTAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.44, C:0.08, G:0.27, T:0.20
Consensus pattern (47 bp):
TAAGTGAAACCGGTGGTAAATGAAATGAAAAGGAATGGAGAAACTCT
Found at i:8824680 original size:6 final size:6
Alignment explanation
Indices: 8824633--8824661 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
8824623 GCCCGTTTTT
8824633 AATTAA AATTAA AATTAA AATTAA AATTA
1 AATTAA AATTAA AATTAA AATTAA AATTA
8824662 TTTTTTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
AATTAA
Found at i:8824699 original size:22 final size:23
Alignment explanation
Indices: 8824646--8824701 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
8824636 TAAAATTAAA
* * *
8824646 ATTAAAATTAAAATTATTTTTTT
1 ATTAAAATTAAAACTATATTGTT
*
8824669 AATAAAATTAAAACTA-ATTGTT
1 ATTAAAATTAAAACTATATTGTT
8824691 ATTAAAATTAA
1 ATTAAAATTAA
8824702 TTGTTAGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATTAAAATTAAAACTATATTGTT
Found at i:8824714 original size:16 final size:16
Alignment explanation
Indices: 8824677--8824716 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
8824667 TTAATAAAAT
* *
8824677 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
8824693 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
8824709 TAAAATTA
1 TAAAATTA
8824717 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:8824786 original size:66 final size:59
Alignment explanation
Indices: 8824719--8824838 Score: 197
Period size: 59 Copynumber: 2.1 Consensus size: 59
8824709 TAAAATTATC
* * *
8824719 AAATTAT-TAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTA
1 AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
*
8824777 AATTTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
1 AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
8824836 AAA
1 AAA
8824839 CAAACTTGAT
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
58 6 0.11
59 50 0.89
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (59 bp):
AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
Found at i:8824944 original size:22 final size:24
Alignment explanation
Indices: 8824904--8824947 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
8824894 AAATAAACTT
8824904 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
8824928 AAAATAAAAAA-TA-TATATTT
1 AAAATAAAAAACTATTATATTT
8824948 AATATTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 2 0.10
24 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AAAATAAAAAACTATTATATTTTA
Found at i:8829941 original size:6 final size:6
Alignment explanation
Indices: 8829926--8829954 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
8829916 GTAGTTTATG
8829926 GAAAAA -AAAAA GAAAAA GAAAAA GAAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA
8829955 AAGAAGAGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:8829947 original size:12 final size:11
Alignment explanation
Indices: 8829926--8829961 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
8829916 GTAGTTTATG
8829926 GAAAAAAAAAA
1 GAAAAAAAAAA
8829937 GAAAAAGAAAAA
1 GAAAAA-AAAAA
*
8829949 GAAAAAAAGAA
1 GAAAAAAAAAA
8829960 GA
1 GA
8829962 GACAAATATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 12 0.52
12 11 0.48
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (11 bp):
GAAAAAAAAAA
Found at i:8831034 original size:18 final size:18
Alignment explanation
Indices: 8831011--8831045 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
8831001 ATTCAACTCG
8831011 AATCCCATGAAATTTCAA
1 AATCCCATGAAATTTCAA
*
8831029 AATCCCATGCAATTTCA
1 AATCCCATGAAATTTCA
8831046 TTTCCAGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.26, G:0.06, T:0.29
Consensus pattern (18 bp):
AATCCCATGAAATTTCAA
Found at i:8832136 original size:20 final size:19
Alignment explanation
Indices: 8832111--8832150 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
8832101 CCTGGAAGTG
8832111 AAACAAAGTTAAAAACAATT
1 AAACAAAGTTAAAAA-AATT
*
8832131 AAACAAAGTTACAAAAATT
1 AAACAAAGTTAAAAAAATT
8832150 A
1 A
8832151 GTAAATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.65, C:0.10, G:0.05, T:0.20
Consensus pattern (19 bp):
AAACAAAGTTAAAAAAATT
Found at i:8832751 original size:18 final size:18
Alignment explanation
Indices: 8832730--8832766 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
8832720 TAATTAATAT
8832730 TTTTAAAATATTAAATTA
1 TTTTAAAATATTAAATTA
8832748 TTTTAAAATATTAAATTA
1 TTTTAAAATATTAAATTA
8832766 T
1 T
8832767 ATAGTTGTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTTAAAATATTAAATTA
Found at i:8839285 original size:5 final size:5
Alignment explanation
Indices: 8839275--8839415 Score: 282
Period size: 5 Copynumber: 28.2 Consensus size: 5
8839265 CCAATCATGT
8839275 ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA
1 ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA
8839325 ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA
1 ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA
8839375 ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA A
1 ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA A
8839416 AATAATTTCT
Statistics
Matches: 136, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 136 1.00
ACGTcount: A:0.60, C:0.20, G:0.00, T:0.20
Consensus pattern (5 bp):
ATACA
Found at i:8845905 original size:531 final size:534
Alignment explanation
Indices: 8844899--8845907 Score: 1443
Period size: 531 Copynumber: 1.9 Consensus size: 534
8844889 CTCCACAAGA
* *
8844899 ATCAGATTAGGTATAGAAATTGTCAAGTTATGATAATGATTAATGTTATGGAAAAACTGAGTTAA
1 ATCAGATTAGGTATAAAAATGGTCAAGTTATGATAATGATTAATGTTATGGAAAAACTGAGTTAA
* * * * * *
8844964 TTACGCAATGGTAAATTAAAATAATATGGATTAGTGTAAAATGTATATTAACTAATATTGAAAAA
66 GTACGAAATGGTAAATTAAAATAATAAGGATAAGTGCAAAATGTATATTAACTAATATAGAAAAA
* * *
8845029 TGTTAAGTCAAAGCAAGAGTAAAAATGTAATGAAAATTACGAGAATAATTACGTGAATAAACTAC
131 TATTAAGACAAAGCAAGAGTAAAAATGCAATGAAAATTACGAGAATAATTACGTGAATAAACTAC
* * * * *
8845094 TAGTGAATAAATAAATAACTAAGAATGTTATAGAAAAGATACTATGATAAATGATAGGATGTCTA
196 GAGTGAATAAATAAATAACTAAGAATGTTATAGAAAAGATACTACGATAAAGGATAGAAGGTCTA
* * * * * * *
8845159 TGATGTTGATTAGAATGTTGGGGTTACTAAGAATTTGCCCTTACTTTCAATAATGCCTCAGTAAA
261 CGATGTTAATTAGAAGGTTGGGATTACTAAGAATCTGCCATTACTTTCAATAATGCCTCAGCAAA
* * * **
8845224 ATCGTACTTAACCTACTGCTCAGAAGAGACCTAAAGTGTCTTGTTTCTTTCGAGAGCAAGATATC
326 ATCGTACTTAACCTACTACTCAGAAGAGACCTAAAGTGACCTACTTCTTTCGAGAGCAAGATATC
** * **
8845289 AAGTTACTTGGCCTGTGTCTATAGGCCTTAGAATGACACCCTGGACTATTTTGTCTTCATTCTAT
391 AAGTTACCCGGCCTGTGTCTATAGGCCTTAGAACGACACCCTACACTATTTTGTCTTCATTCTAT
* *
8845354 ACAAATGCTGCTCTATGTCTAGAGTCTACTATAGGTATTCAATCGAATACCCACTTGTATAGAAA
456 ACAAAAGCTACTCTATGTCTAGAGTCTACTATAGGTATTCAATCGAATACCCACTTGTATAGAAA
8845419 TTGTCTCTACAGGG
521 TTGTCTCTACAGGG
* *
8845433 ATCAGATTAGGTATAAAAATGGTCAAGTTATGATAATGATTAATGTTATGGCAAAATTGAGTTAA
1 ATCAGATTAGGTATAAAAATGGTCAAGTTATGATAATGATTAATGTTATGGAAAAACTGAGTTAA
*
8845498 GTAC-AAAGTGGTAAATTAAAATAATAAGGATAAGTGCAAAGTGTATACTTAA-T-AT-TAG-AA
66 GTACGAAA-TGGTAAATTAAAATAATAAGGATAAGTGCAAAATGTATA-TTAACTAATATAGAAA
* * **
8845558 AATATTAAGACAAAGTAAGAGTAAACATGCAATGGTAATTACGAGAATAATTACGTGAATAAACT
129 AATATTAAGACAAAGCAAGAGTAAAAATGCAATGAAAATTACGAGAATAATTACGTGAATAAACT
* * * * *
8845623 ACGAGTGAATAAATAAATAACTAAGAATGTTATGGCAAAGCTATTACGGTAAAGGATAGAAGGTC
194 ACGAGTGAATAAATAAATAACTAAGAATGTTATAGAAAAGATACTACGATAAAGGATAGAAGGTC
* * *
8845688 TACGATGTTAATTGGAAGGTTGGGATTATTAAGAATCTGCCATTACTTTCAATAATGCCTTAGCA
259 TACGATGTTAATTAGAAGGTTGGGATTACTAAGAATCTGCCATTACTTTCAATAATGCCTCAGCA
** *
8845753 AAATCGTACTTAACCTACTACTTTGAAGAGACCTAAAGTGACCTACTTCTTTCGAGAGCAAGATC
324 AAATCGTACTTAACCTACTACTCAGAAGAGACCTAAAGTGACCTACTTCTTTCGAGAGCAAGATA
* * ** *
8845818 TTAAGTTACCCGGCTTGTGTCTATAGGCCTTAGCGCGACACCCTACACTGTTTTGTCTTCATTCT
389 TCAAGTTACCCGGCCTGTGTCTATAGGCCTTAGAACGACACCCTACACTATTTTGTCTTCATTCT
8845883 ATACAAAAGCTACTCTATGTCTAGA
454 ATACAAAAGCTACTCTATGTCTAGA
8845908 TTTGCTCGAG
Statistics
Matches: 415, Mismatches: 58, Indels: 7
0.86 0.12 0.01
Matches are distributed among these distances:
531 305 0.73
532 2 0.00
533 4 0.01
534 100 0.24
535 4 0.01
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.31
Consensus pattern (534 bp):
ATCAGATTAGGTATAAAAATGGTCAAGTTATGATAATGATTAATGTTATGGAAAAACTGAGTTAA
GTACGAAATGGTAAATTAAAATAATAAGGATAAGTGCAAAATGTATATTAACTAATATAGAAAAA
TATTAAGACAAAGCAAGAGTAAAAATGCAATGAAAATTACGAGAATAATTACGTGAATAAACTAC
GAGTGAATAAATAAATAACTAAGAATGTTATAGAAAAGATACTACGATAAAGGATAGAAGGTCTA
CGATGTTAATTAGAAGGTTGGGATTACTAAGAATCTGCCATTACTTTCAATAATGCCTCAGCAAA
ATCGTACTTAACCTACTACTCAGAAGAGACCTAAAGTGACCTACTTCTTTCGAGAGCAAGATATC
AAGTTACCCGGCCTGTGTCTATAGGCCTTAGAACGACACCCTACACTATTTTGTCTTCATTCTAT
ACAAAAGCTACTCTATGTCTAGAGTCTACTATAGGTATTCAATCGAATACCCACTTGTATAGAAA
TTGTCTCTACAGGG
Found at i:8852259 original size:22 final size:21
Alignment explanation
Indices: 8852229--8852286 Score: 71
Period size: 22 Copynumber: 2.7 Consensus size: 21
8852219 GAATGGTATC
8852229 TACAAATCAAATCTCTAAGAT
1 TACAAATCAAATCTCTAAGAT
* *
8852250 TACAAAATCATATCTTCTTAGAT
1 TAC-AAATCAAATC-TCTAAGAT
*
8852273 TACATATCAAATCT
1 TACAAATCAAATCT
8852287 ACGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 4 0.13
22 17 0.55
23 10 0.32
ACGTcount: A:0.43, C:0.19, G:0.03, T:0.34
Consensus pattern (21 bp):
TACAAATCAAATCTCTAAGAT
Found at i:8869250 original size:26 final size:26
Alignment explanation
Indices: 8869221--8869325 Score: 120
Period size: 26 Copynumber: 4.0 Consensus size: 26
8869211 AACACACCAA
* * * * *
8869221 TATCGCAGTAAAGCTGCTAGTAATAG
1 TATCGCAGCAAAGCTACCAATAACAG
* *
8869247 TATCGCAGCAAGGCTGCCAATAACAG
1 TATCGCAGCAAAGCTACCAATAACAG
8869273 TATCGCAGCAAAGCTACCAATAACAG
1 TATCGCAGCAAAGCTACCAATAACAG
* * *
8869299 TATCGCAGCAAAACTACTAGTAACAG
1 TATCGCAGCAAAGCTACCAATAACAG
8869325 T
1 T
8869326 GTACTTCCTC
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 69 1.00
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (26 bp):
TATCGCAGCAAAGCTACCAATAACAG
Found at i:8880016 original size:125 final size:124
Alignment explanation
Indices: 8879786--8880019 Score: 324
Period size: 125 Copynumber: 1.9 Consensus size: 124
8879776 GGCGTTACAG
* * *
8879786 TTTTTTAATCATTTTAAAGGAAAAGTTTAAAATTTTAAAATAAAGTTTTGATGTTTTCCAACTAT
1 TTTTTTAATCATTCTAAAGGAAAAGTTTAAAATTTTAAAATAAAGCTTTGATCTTTTCCAACTAT
* *
8879851 CTCGAAATAAAGCTTTGATTTTTTAGAAAAACAATGATTTTTTTAAAAAATAAAAATAT
66 CTCGAAATAAAGCTTTGATTTTTAAGAAAAACAATAATTTTTTTAAAAAATAAAAATAT
* * * * *
8879910 TTTTTTAGTCATTCTCAAGGAAAAAGTTTAAATTTTTAAAATAAAGCTTTGTTCTTTTTCAACTA
1 TTTTTTAATCATTCTAAAGG-AAAAGTTTAAAATTTTAAAATAAAGCTTTGATCTTTTCCAACTA
* * ** *
8879975 TTTTGAAATAAAGCTTTGATTTTTAAGAAAAGTAGTAATTTTTTT
65 TCTCGAAATAAAGCTTTGATTTTTAAGAAAAACAATAATTTTTTT
8880020 TAAAGAAAAC
Statistics
Matches: 94, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
124 17 0.18
125 77 0.82
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.44
Consensus pattern (124 bp):
TTTTTTAATCATTCTAAAGGAAAAGTTTAAAATTTTAAAATAAAGCTTTGATCTTTTCCAACTAT
CTCGAAATAAAGCTTTGATTTTTAAGAAAAACAATAATTTTTTTAAAAAATAAAAATAT
Found at i:8882388 original size:20 final size:20
Alignment explanation
Indices: 8882365--8882426 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
8882355 AGATAATTAT
*
8882365 CCCTGTTTGTACTTTGGTAC
1 CCCTGTTTGTACTTCGGTAC
* * *
8882385 CCCTGATTGCACATACGGT-C
1 CCCTGTTTGTAC-TTCGGTAC
8882405 CCCTGTTTGTACTTCGGTAC
1 CCCTGTTTGTACTTCGGTAC
8882425 CC
1 CC
8882427 TTGATTGCAC
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
19 5 0.15
20 24 0.73
21 4 0.12
ACGTcount: A:0.13, C:0.32, G:0.19, T:0.35
Consensus pattern (20 bp):
CCCTGTTTGTACTTCGGTAC
Found at i:8882424 original size:40 final size:40
Alignment explanation
Indices: 8882365--8882452 Score: 142
Period size: 40 Copynumber: 2.2 Consensus size: 40
8882355 AGATAATTAT
*
8882365 CCCTGTTTGTACTTTGGTACCCCTGATTGCACATACG-GTC
1 CCCTGTTTGTACTTCGGTACCCCTGATTGCACATACGTG-C
*
8882405 CCCTGTTTGTACTTCGGTACCCTTGATTGCACATACGTGC
1 CCCTGTTTGTACTTCGGTACCCCTGATTGCACATACGTGC
8882445 CCCTGTTT
1 CCCTGTTT
8882453 ATACATTGGT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
40 44 0.98
41 1 0.02
ACGTcount: A:0.14, C:0.31, G:0.19, T:0.36
Consensus pattern (40 bp):
CCCTGTTTGTACTTCGGTACCCCTGATTGCACATACGTGC
Found at i:8889350 original size:42 final size:42
Alignment explanation
Indices: 8889291--8889376 Score: 145
Period size: 42 Copynumber: 2.0 Consensus size: 42
8889281 AAGGAAAGCA
* *
8889291 TTCATTGCATTTAGAGGCTCAGGTGTGGAGGTTCATTTACTT
1 TTCATTACATTTAGAGGCCCAGGTGTGGAGGTTCATTTACTT
*
8889333 TTCATTACATTTAGAGGCCCAGGTGTGGAGGTTCATTTATTT
1 TTCATTACATTTAGAGGCCCAGGTGTGGAGGTTCATTTACTT
8889375 TT
1 TT
8889377 TCTTTGTATA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.20, C:0.14, G:0.24, T:0.42
Consensus pattern (42 bp):
TTCATTACATTTAGAGGCCCAGGTGTGGAGGTTCATTTACTT
Found at i:8889400 original size:43 final size:42
Alignment explanation
Indices: 8889291--8889428 Score: 127
Period size: 42 Copynumber: 3.3 Consensus size: 42
8889281 AAGGAAAGCA
* * *
8889291 TTCATTGCATTTAGAGGCTCAGGTGTGGAGGTTCATTTACTT
1 TTCATTACATTGAGAGGCACAGGTGTGGAGGTTCATTTACTT
* * *
8889333 TTCATTACATTTAGAGGCCCAGGTGTGGAGGTTCATTTATTTT
1 TTCATTACATTGAGAGGCACAGGTGTGGAGGTTCATTTA-CTT
* ** * *
8889376 TTCTTTGTATATGA-AGGCACAGGTGT-GAGGTTTATTTACAT
1 TTCATTACAT-TGAGAGGCACAGGTGTGGAGGTTCATTTACTT
*
8889417 TTCTTCTACATT
1 TTCAT-TACATT
8889429 CACATTTCAA
Statistics
Matches: 80, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
41 7 0.09
42 51 0.64
43 20 0.25
44 2 0.03
ACGTcount: A:0.21, C:0.14, G:0.22, T:0.43
Consensus pattern (42 bp):
TTCATTACATTGAGAGGCACAGGTGTGGAGGTTCATTTACTT
Found at i:8889652 original size:10 final size:10
Alignment explanation
Indices: 8889637--8889664 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
8889627 GGTTATGTGT
8889637 TTTGGGAGTG
1 TTTGGGAGTG
8889647 TTTGGGAGTG
1 TTTGGGAGTG
8889657 TTTGGGAG
1 TTTGGGAG
8889665 GTCCCAAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.11, C:0.00, G:0.50, T:0.39
Consensus pattern (10 bp):
TTTGGGAGTG
Found at i:8897271 original size:15 final size:15
Alignment explanation
Indices: 8897251--8897286 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
8897241 TATATATATT
*
8897251 ATAAATTTAGTAATA
1 ATAAATTTAATAATA
8897266 ATAAATTTAATAATA
1 ATAAATTTAATAATA
*
8897281 ACAAAT
1 ATAAAT
8897287 GAAATGAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (15 bp):
ATAAATTTAATAATA
Found at i:8898527 original size:43 final size:43
Alignment explanation
Indices: 8898451--8898536 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
8898441 TATGTGATTG
*
8898451 ATATTGAAATGAAAAAGATGATAAATGAATATGAGATGAGAAA
1 ATATTGAAATGAAAAAGATGAGAAATGAATATGAGATGAGAAA
* *
8898494 ATATTGAAATGGAAAATATGAGAAAT-AATTATGAGATGAGAAA
1 ATATTGAAATGAAAAAGATGAGAAATGAA-TATGAGATGAGAAA
8898537 TGAAATATGA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
42 2 0.05
43 37 0.95
ACGTcount: A:0.55, C:0.00, G:0.21, T:0.24
Consensus pattern (43 bp):
ATATTGAAATGAAAAAGATGAGAAATGAATATGAGATGAGAAA
Found at i:8900931 original size:49 final size:49
Alignment explanation
Indices: 8900840--8900933 Score: 136
Period size: 49 Copynumber: 1.9 Consensus size: 49
8900830 TCAAGAAGGG
* * *
8900840 ATAAATAGTGGTAAAATTGTAGACAGTGGAAGACTGAATTTAGCAATGT
1 ATAAATAGTGATAAAAGTGTAGACAGTGGAAGACTAAATTTAGCAATGT
*
8900889 ATAAATAGTGATAAGAGTGTAGACAGTGGAAGAC-AAAGTTTAGCA
1 ATAAATAGTGATAAAAGTGTAGACAGTGGAAGACTAAA-TTTAGCA
8900934 TCGCATAGCA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
48 2 0.05
49 38 0.95
ACGTcount: A:0.43, C:0.06, G:0.26, T:0.26
Consensus pattern (49 bp):
ATAAATAGTGATAAAAGTGTAGACAGTGGAAGACTAAATTTAGCAATGT
Found at i:8902123 original size:68 final size:66
Alignment explanation
Indices: 8902051--8902206 Score: 188
Period size: 68 Copynumber: 2.3 Consensus size: 66
8902041 CCAATAGGGC
*
8902051 AGTAAACATGAGATTATATTACATAAAACCATAGCTAGGCTAT-AACAGTATATGAAGTCTGCCA
1 AGTAAACAT-AGATTATATTACATAAAACCATAGCTAGGCTATGAA-A-TATATGAAGTCCGCCA
**
8902115 GGAT
63 CAAT
* * * * *
8902119 AGTAAACATAAGATTATATTACGTAAGACTATAGCTAGGTTATGGAAATATATGAAGTCCGCTAC
1 AGTAAACAT-AGATTATATTACATAAAACCATAGCTAGGCTAT-GAAATATATGAAGTCCGCCAC
8902184 AAT
64 AAT
8902187 AGTAAACATAGATTATATTA
1 AGTAAACATAGATTATATTA
8902207 TGTAAGACCA
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
67 11 0.14
68 63 0.82
69 1 0.01
70 2 0.03
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (66 bp):
AGTAAACATAGATTATATTACATAAAACCATAGCTAGGCTATGAAATATATGAAGTCCGCCACAA
T
Found at i:8903961 original size:41 final size:41
Alignment explanation
Indices: 8903872--8903962 Score: 96
Period size: 41 Copynumber: 2.2 Consensus size: 41
8903862 TAACATGTAA
* * *
8903872 ATAAAACTAAGGTACAACAAAAATGAACTTAATTAACAACT
1 ATAAAACTAAGGTACAACAAAAAAGAACTAAATTAACAACC
* *
8903913 ATGAAACTAA-TTACAACAAAAAAGAAACATAAATTAA-AACC
1 ATAAAACTAAGGTACAACAAAAAAG-AAC-TAAATTAACAACC
*
8903954 CTAAAACTA
1 ATAAAACTA
8903963 TAAAGAAGAA
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
40 12 0.29
41 22 0.54
42 7 0.17
ACGTcount: A:0.59, C:0.15, G:0.05, T:0.20
Consensus pattern (41 bp):
ATAAAACTAAGGTACAACAAAAAAGAACTAAATTAACAACC
Found at i:8906136 original size:23 final size:23
Alignment explanation
Indices: 8906106--8906152 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
8906096 ATCCATTGCC
8906106 AATAGTTGTGAGCTGTTCAGCTA
1 AATAGTTGTGAGCTGTTCAGCTA
8906129 AATAGTTGTGAGCTGTTCAGCTA
1 AATAGTTGTGAGCTGTTCAGCTA
8906152 A
1 A
8906153 CACTTCAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.34
Consensus pattern (23 bp):
AATAGTTGTGAGCTGTTCAGCTA
Found at i:8908316 original size:33 final size:33
Alignment explanation
Indices: 8908277--8908349 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 33
8908267 GAGAGCATGA
*
8908277 AAAAAGAAAGAGAGAC-TGAAAAATAAACGAGTG
1 AAAAAGAAAGAGA-ACTTGAAAAAGAAACGAGTG
* *
8908310 AAAAAGAAAGAGAACTTGTACAAGAAACGAGTG
1 AAAAAGAAAGAGAACTTGAAAAAGAAACGAGTG
8908343 AAGAAAG
1 AA-AAAG
8908350 TATTCAAACA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
32 2 0.06
33 29 0.83
34 4 0.11
ACGTcount: A:0.59, C:0.07, G:0.25, T:0.10
Consensus pattern (33 bp):
AAAAAGAAAGAGAACTTGAAAAAGAAACGAGTG
Found at i:8909019 original size:380 final size:380
Alignment explanation
Indices: 8908318--8909077 Score: 1412
Period size: 380 Copynumber: 2.0 Consensus size: 380
8908308 TGAAAAAGAA
8908318 AGAGAACTTGTACAAGAAACGAGTGAAGAAAGTATTCAAACACAAGGGAGGAATATTTTTGCTAA
1 AGAGAACTTGTACAAGAAACGAGTGAAGAAAGTATTCAAACACAAGGGAGGAATATTTTTGCTAA
8908383 CCCCCGTTCGAATTTACCTTGTGATTTCTTTTCATTTCAGGTTCATAAAATTCCAACCATAGACA
66 CCCCCGTTCGAATTTACCTTGTGATTTCTTTTCATTTCAGGTTCATAAAATTCCAACCATAGACA
* * * *
8908448 AGTTCTATCTTCACTACCTTATCGATGAACGACGATTTCAATTGATTGAAAATGGTAAGTTGGAG
131 AGTTCCAGCTTCACTACCTTATCGATGAACAACGATTTCAATTCATTGAAAATGGTAAGTTGGAG
8908513 AGTACAAATGCACTTAACATTCCCAAAGGTAAGCAAGGTAAGAAACCCCTTGACATTCAATCAGA
196 AGTACAAATGCACTTAACATTCCCAAAGGTAAGCAAGGTAAGAAACCCCTTGACATTCAATCAGA
* *
8908578 TTGTTATTCTTTAACTTCCATTGACAAGTTTTCCCATGTTTACCTTAAAGAAATTCTTTATAATG
261 TTGTTATTCTTTAACTTCCATTGACAAGTTTGCCAATGTTTACCTTAAAGAAATTCTTTATAATG
*
8908643 ACTTGTTTAGTTATTATACGTTGATTAGAGTTGTTGAATTTGTTTTGGATAGTGT
326 ACTTGTTTAGTTATTACACGTTGATTAGAGTTGTTGAATTTGTTTTGGATAGTGT
8908698 AGAGAACTTGTACAAGAAACGAGTGAAGAAAGTATTCAAACACAAGGGAGGAATATTTTTGCTAA
1 AGAGAACTTGTACAAGAAACGAGTGAAGAAAGTATTCAAACACAAGGGAGGAATATTTTTGCTAA
*
8908763 CCCCCGTTCGAATTTACCTTGTGATTTCTTTTCATTTCAGGTTCATAAAATTCCAACTATAGACA
66 CCCCCGTTCGAATTTACCTTGTGATTTCTTTTCATTTCAGGTTCATAAAATTCCAACCATAGACA
8908828 AGTTCCAGCTTCACTACCTTATCGATGAACAACGATTTCAATTCATTGAAAATGGTAAGTTGGAG
131 AGTTCCAGCTTCACTACCTTATCGATGAACAACGATTTCAATTCATTGAAAATGGTAAGTTGGAG
*
8908893 AGTACAAATGCACTTAACATTCCCGAAGGTAAGCAAGGTAAGAAACCCCTTGACATTCAATCAGA
196 AGTACAAATGCACTTAACATTCCCAAAGGTAAGCAAGGTAAGAAACCCCTTGACATTCAATCAGA
* *
8908958 TTGTTATTCTTTGACTTCCGTTGACAAGTTTGCCAATGTTTACCTTAAAGAAATTCTTTATAATG
261 TTGTTATTCTTTAACTTCCATTGACAAGTTTGCCAATGTTTACCTTAAAGAAATTCTTTATAATG
*
8909023 GCTTGTTTAGTTATTACACGTTGATTAGAGTTGTTGAATTTGTTTTGGATAGTGT
326 ACTTGTTTAGTTATTACACGTTGATTAGAGTTGTTGAATTTGTTTTGGATAGTGT
8909078 TATGAAATGT
Statistics
Matches: 368, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
380 368 1.00
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.34
Consensus pattern (380 bp):
AGAGAACTTGTACAAGAAACGAGTGAAGAAAGTATTCAAACACAAGGGAGGAATATTTTTGCTAA
CCCCCGTTCGAATTTACCTTGTGATTTCTTTTCATTTCAGGTTCATAAAATTCCAACCATAGACA
AGTTCCAGCTTCACTACCTTATCGATGAACAACGATTTCAATTCATTGAAAATGGTAAGTTGGAG
AGTACAAATGCACTTAACATTCCCAAAGGTAAGCAAGGTAAGAAACCCCTTGACATTCAATCAGA
TTGTTATTCTTTAACTTCCATTGACAAGTTTGCCAATGTTTACCTTAAAGAAATTCTTTATAATG
ACTTGTTTAGTTATTACACGTTGATTAGAGTTGTTGAATTTGTTTTGGATAGTGT
Found at i:8923541 original size:68 final size:68
Alignment explanation
Indices: 8923464--8923668 Score: 252
Period size: 68 Copynumber: 3.0 Consensus size: 68
8923454 GAAGTTCGAT
* ** *
8923464 AGGACAGTAAACATGAGATTATATTGCATAAGACCATAGCTAGGGTATGACAATAAATGAAGTCT
1 AGGATAGTAAACATGAGATTATATTGTGTAAGACCATAGCTAGGGTATGACAATATATGAAGTCT
8923529 GCC
66 GCC
* *
8923532 AGGATAGTAAACATGAGATTATATTGTGTAAGACTATAGCTAGGTTATGGA-AATATATGAAGTC
1 AGGATAGTAAACATGAGATTATATTGTGTAAGACCATAGCTAGGGTAT-GACAATATATGAAGTC
* *
8923596 CGCT
65 TGCC
** * * * *
8923600 ACAATAGTAAACATGAGATTATATTGTGTAAGACCATAACT-GGGCTATGGCAACATGTGAAGTC
1 AGGATAGTAAACATGAGATTATATTGTGTAAGACCATAGCTAGGG-TATGACAATATATGAAGTC
8923664 TGCC
65 TGCC
8923668 A
1 A
8923669 AGACAAAGAA
Statistics
Matches: 116, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
67 3 0.03
68 111 0.96
69 2 0.02
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (68 bp):
AGGATAGTAAACATGAGATTATATTGTGTAAGACCATAGCTAGGGTATGACAATATATGAAGTCT
GCC
Found at i:8931969 original size:18 final size:17
Alignment explanation
Indices: 8931948--8932001 Score: 58
Period size: 18 Copynumber: 3.2 Consensus size: 17
8931938 AAAATAGAAT
8931948 AGAGCATGAAAAAGAAAG
1 AGAG-ATGAAAAAGAAAG
*
8931966 AGAGACTGAAAAATAAA-
1 AGAGA-TGAAAAAGAAAG
*
8931983 CGAG-TGAAAAAGAAAG
1 AGAGATGAAAAAGAAAG
8931999 AGA
1 AGA
8932002 ACTTGTACAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
15 10 0.33
16 2 0.07
17 4 0.13
18 14 0.47
ACGTcount: A:0.61, C:0.06, G:0.26, T:0.07
Consensus pattern (17 bp):
AGAGATGAAAAAGAAAG
Found at i:8931992 original size:33 final size:33
Alignment explanation
Indices: 8931954--8932028 Score: 98
Period size: 33 Copynumber: 2.2 Consensus size: 33
8931944 GAATAGAGCA
*
8931954 TGAAAAAGAAAGAGAGAC-TGAAAAATAAACGAG
1 TGAAAAAGAAAGAGA-ACTTGAAAAAGAAACGAG
* *
8931987 TGAAAAAGAAAGAGAACTTGTACAAGAAACGAG
1 TGAAAAAGAAAGAGAACTTGAAAAAGAAACGAG
8932020 TGAAGAAAG
1 TGAA-AAAG
8932029 TATTCAAACA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
32 2 0.05
33 31 0.84
34 4 0.11
ACGTcount: A:0.57, C:0.07, G:0.25, T:0.11
Consensus pattern (33 bp):
TGAAAAAGAAAGAGAACTTGAAAAAGAAACGAG
Found at i:8932897 original size:37 final size:37
Alignment explanation
Indices: 8932846--8933003 Score: 307
Period size: 37 Copynumber: 4.2 Consensus size: 37
8932836 ATTATTTTTG
8932846 AAATCCAAATATGTGAACTTTGATGATGTACAAAGTCA
1 AAATCC-AATATGTGAACTTTGATGATGTACAAAGTCA
8932884 AAATCCAATATGTGAACTTTGATGATGTACAAAGTCA
1 AAATCCAATATGTGAACTTTGATGATGTACAAAGTCA
8932921 AAATCCAATATGTGAACTTTGATGATGTACAAAGTCA
1 AAATCCAATATGTGAACTTTGATGATGTACAAAGTCA
8932958 AAATCCAATATGTGAACTTTGATGATGTACAAAGTCA
1 AAATCCAATATGTGAACTTTGATGATGTACAAAGTCA
8932995 AAATCCAAT
1 AAATCCAAT
8933004 CTTTGATTTC
Statistics
Matches: 120, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
37 114 0.95
38 6 0.05
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.29
Consensus pattern (37 bp):
AAATCCAATATGTGAACTTTGATGATGTACAAAGTCA
Found at i:8954610 original size:24 final size:24
Alignment explanation
Indices: 8954563--8954618 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
8954553 TCCCATCTTC
* *
8954563 TCCATTTTTTTTCTTTTCTCCGTT
1 TCCATTTTTTTGCTTTTATCCGTT
8954587 TCCATTTTTTTGCTTGTTAT-CGTT
1 TCCATTTTTTTGCTT-TTATCCGTT
*
8954611 TCAATTTT
1 TCCATTTT
8954619 CTTCTGCATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 25 0.89
25 3 0.11
ACGTcount: A:0.09, C:0.20, G:0.07, T:0.64
Consensus pattern (24 bp):
TCCATTTTTTTGCTTTTATCCGTT
Found at i:8957292 original size:53 final size:54
Alignment explanation
Indices: 8957203--8957312 Score: 161
Period size: 53 Copynumber: 2.1 Consensus size: 54
8957193 CCATGACACC
*
8957203 AAAGAAGACCATATCATGTAAGATTGTATCTAGTGGGTTATGACATCATAT-GA
1 AAAGAAGACCATATCATGTAAGACTGTATCTAGTGGGTTATGACATCATATGGA
* * *
8957256 AAAGAAGATCATATTATGTAAGACTGTAAT-TGGTGGGTTATGACATCATATGGA
1 AAAGAAGACCATATCATGTAAGACTGT-ATCTAGTGGGTTATGACATCATATGGA
8957310 AAA
1 AAA
8957313 ATTTAAGGAA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
53 44 0.86
54 7 0.14
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.30
Consensus pattern (54 bp):
AAAGAAGACCATATCATGTAAGACTGTATCTAGTGGGTTATGACATCATATGGA
Found at i:8957522 original size:29 final size:28
Alignment explanation
Indices: 8957433--8957531 Score: 76
Period size: 29 Copynumber: 3.5 Consensus size: 28
8957423 AGAAGAACAA
*
8957433 CCTTTG-GGACAAAACTCTAGAAAGGTAAG
1 CCTTTGTGG-CAAAACTAT-GAAAGGTAAG
* ** * * *
8957462 CCTTTTTGGTGAACCTATTAAAGG-ACAA
1 CCTTTGTGGCAAAACTATGAAAGGTA-AG
8957490 CCTTTGTGGCAAAACTATGGAAAGGTAAG
1 CCTTTGTGGCAAAACTAT-GAAAGGTAAG
*
8957519 CCTTCGTGGCAAA
1 CCTTTGTGGCAAA
8957532 CCTCTTAAAG
Statistics
Matches: 52, Mismatches: 14, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
27 1 0.02
28 20 0.38
29 28 0.54
30 3 0.06
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.25
Consensus pattern (28 bp):
CCTTTGTGGCAAAACTATGAAAGGTAAG
Found at i:8957534 original size:57 final size:57
Alignment explanation
Indices: 8957425--8957550 Score: 155
Period size: 57 Copynumber: 2.2 Consensus size: 57
8957415 TCACCAGGAG
* ** **
8957425 AAGAACAACCTTTGGGACAAAACTCTAGAAAGGTAAGCCTTTTTGGTGAACCTATTA
1 AAGAACAACCTTTGGGACAAAACTATAGAAAGGTAAGCCTTCGTGGCAAACCTATTA
* * *
8957482 AAGGACAACCTTTGTGG-CAAAACTATGGAAAGGTAAGCCTTCGTGGCAAACCTCTTA
1 AAGAACAACCTTTG-GGACAAAACTATAGAAAGGTAAGCCTTCGTGGCAAACCTATTA
8957539 AAGAACGAACCT
1 AAGAAC-AACCT
8957551 CTAAAGAACT
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
57 51 0.88
58 7 0.12
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.23
Consensus pattern (57 bp):
AAGAACAACCTTTGGGACAAAACTATAGAAAGGTAAGCCTTCGTGGCAAACCTATTA
Found at i:8957557 original size:15 final size:16
Alignment explanation
Indices: 8957530--8957559 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
8957520 CTTCGTGGCA
8957530 AACCTCTTAAAGAACG
1 AACCTCTTAAAGAACG
8957546 AACCTC-TAAAGAAC
1 AACCTCTTAAAGAAC
8957560 TCCTTTGTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.47, C:0.27, G:0.10, T:0.17
Consensus pattern (16 bp):
AACCTCTTAAAGAACG
Found at i:8965052 original size:20 final size:20
Alignment explanation
Indices: 8964997--8965052 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
8964987 GAGTGCATTA
*
8964997 AAGGGCACGAATGTACTGTC
1 AAGGGCACGAATGTGCTGTC
8965017 AAGGGCACCGAA-GTGC-GTTC
1 AAGGGCA-CGAATGTGCTG-TC
*
8965037 AGGGGCACGAATGTGC
1 AAGGGCACGAATGTGC
8965053 AATCAGGGAC
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
19 5 0.16
20 22 0.71
21 4 0.13
ACGTcount: A:0.27, C:0.21, G:0.36, T:0.16
Consensus pattern (20 bp):
AAGGGCACGAATGTGCTGTC
Found at i:8965058 original size:20 final size:20
Alignment explanation
Indices: 8964999--8965060 Score: 54
Period size: 20 Copynumber: 3.1 Consensus size: 20
8964989 GTGCATTAAA
* ** *
8964999 GGGCACGAATGTACTGTCAA
1 GGGCACGAATGTGCAATCAG
**
8965019 GGGCACCGAA-GTGCGTTCAG
1 GGGCA-CGAATGTGCAATCAG
8965039 GGGCACGAATGTGCAATCAG
1 GGGCACGAATGTGCAATCAG
8965059 GG
1 GG
8965061 ACACCAAAGT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 4 0.12
20 26 0.76
21 4 0.12
ACGTcount: A:0.26, C:0.21, G:0.37, T:0.16
Consensus pattern (20 bp):
GGGCACGAATGTGCAATCAG
Found at i:8965071 original size:40 final size:40
Alignment explanation
Indices: 8964999--8965084 Score: 95
Period size: 40 Copynumber: 2.1 Consensus size: 40
8964989 GTGCATTAAA
** *
8964999 GGGCACGAATGTACTGTCAAGGGCACCGAAGTGCGTT-CAG
1 GGGCACGAATGTACAATCAAGGGCACCAAAGTG-GTTACAG
* *
8965039 GGGCACGAATGTGCAATC-AGGGACACCAAAGTGTTTACAG
1 GGGCACGAATGTACAATCAAGGG-CACCAAAGTGGTTACAG
8965079 GGGCAC
1 GGGCAC
8965085 CGAGGTGCAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
39 6 0.15
40 33 0.85
ACGTcount: A:0.28, C:0.22, G:0.34, T:0.16
Consensus pattern (40 bp):
GGGCACGAATGTACAATCAAGGGCACCAAAGTGGTTACAG
Found at i:8965682 original size:69 final size:69
Alignment explanation
Indices: 8965602--8965738 Score: 265
Period size: 69 Copynumber: 2.0 Consensus size: 69
8965592 AATTTCCAAA
8965602 TACCCTAAGCTTGTTGAATTCATATCCATATTAGTACAATACAAAACTATTCAAAATTCACAAGA
1 TACCCTAAGCTTGTTGAATTCATATCCATATTAGTACAATACAAAACTATTCAAAATTCACAAGA
8965667 ATAT
66 ATAT
*
8965671 TACCCTAAGCTTGTTGAATTCATATCCATATTAGTACAATCCAAAACTATTCAAAATTCACAAGA
1 TACCCTAAGCTTGTTGAATTCATATCCATATTAGTACAATACAAAACTATTCAAAATTCACAAGA
8965736 ATA
66 ATA
8965739 CCATGTCCAC
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (69 bp):
TACCCTAAGCTTGTTGAATTCATATCCATATTAGTACAATACAAAACTATTCAAAATTCACAAGA
ATAT
Found at i:8973301 original size:41 final size:41
Alignment explanation
Indices: 8973251--8973395 Score: 191
Period size: 41 Copynumber: 3.5 Consensus size: 41
8973241 AATTATTCCT
* * * *
8973251 TGAATTGCACATGCGTGCCTCTGTTTGTACTTCGGTACCCC
1 TGAATTGCACATACGTGCCCCTATTTGTACTTCGATACCCC
* ** * *
8973292 TAAATTGCACATATATGCCCCTATTTGTACCTCGACACCCC
1 TGAATTGCACATACGTGCCCCTATTTGTACTTCGATACCCC
*
8973333 TGAATTGCACATATGTGCCCCTATTTGTACTTCGATACCCC
1 TGAATTGCACATACGTGCCCCTATTTGTACTTCGATACCCC
*
8973374 TGAATTGCACCTACGTGCCCCT
1 TGAATTGCACATACGTGCCCCT
8973396 GTTTACACTC
Statistics
Matches: 89, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 89 1.00
ACGTcount: A:0.21, C:0.32, G:0.16, T:0.32
Consensus pattern (41 bp):
TGAATTGCACATACGTGCCCCTATTTGTACTTCGATACCCC
Found at i:8973396 original size:21 final size:21
Alignment explanation
Indices: 8973329--8973396 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
8973319 TACCTCGACA
* *
8973329 CCCCTGAATTGCACATATGTG
1 CCCCTGAATTGCACCTACGTG
* * * *
8973350 CCCCT-ATTTGTA-CTTCGATA
1 CCCCTGAATTGCACCTACG-TG
8973370 CCCCTGAATTGCACCTACGTG
1 CCCCTGAATTGCACCTACGTG
8973391 CCCCTG
1 CCCCTG
8973397 TTTACACTCT
Statistics
Matches: 34, Mismatches: 10, Indels: 6
0.68 0.20 0.12
Matches are distributed among these distances:
19 2 0.06
20 11 0.32
21 17 0.50
22 4 0.12
ACGTcount: A:0.19, C:0.35, G:0.16, T:0.29
Consensus pattern (21 bp):
CCCCTGAATTGCACCTACGTG
Found at i:8974737 original size:203 final size:204
Alignment explanation
Indices: 8974387--8974796 Score: 759
Period size: 203 Copynumber: 2.0 Consensus size: 204
8974377 ACCGTGTCCC
* * *
8974387 TATTTCGATTGTTACATGGCCTGAGATACAGGCGTGTGAGTCACACGGCCTGGCAATACAGTTAT
1 TATTTCGATTGTTACACGGCCTGAGATACAGGCGTGTGAGTCACACGGCCTGGAAATACAGCTAT
8974452 GTGACCCCCTGCAGTTCAAGTTTTCCAAGTTTTTCTTAAATGTTCCAAAAGTTTTTGATTTAGTC
66 GTGACCCCCTGCAGTTCAAGTTTTCCAAGTTTTTCTTAAATGTTCCAAAAGTTTTTGATTTAGTC
8974517 CCGAATTATTTCTAAAGTGTTTCTAGGGCCTTGGGGGCTCGATTAACGGACATTATGCATGTATA
131 CCGAATTATTTCTAAAGTGTTTCTAGGGCCTTGGGGGCTCGATTAACGGACATTATGCATGTATA
8974582 TGTATGAAT
196 TGTATGAAT
* *
8974591 TATTTCGATTGTTACACGGCCTGAGATACAGGCGTGTGAGTCACAGGGCCTGGAAATACGGCTAT
1 TATTTCGATTGTTACACGGCCTGAGATACAGGCGTGTGAGTCACACGGCCTGGAAATACAGCTAT
8974656 GTGA-CCCCTGCAGTTCAAGTTTTCCAAGTTTTTCTTAAATGTTCCAAAAGTTTTTGATTTAGTC
66 GTGACCCCCTGCAGTTCAAGTTTTCCAAGTTTTTCTTAAATGTTCCAAAAGTTTTTGATTTAGTC
*
8974720 CCGAATTATTTCTAAAGTGTTTCTAGGGCCTTGGGGGCTCGATTAACGGACGTTATGCATGTATA
131 CCGAATTATTTCTAAAGTGTTTCTAGGGCCTTGGGGGCTCGATTAACGGACATTATGCATGTATA
8974785 TGTATGAAT
196 TGTATGAAT
8974794 TAT
1 TAT
8974797 GCCATGTTTA
Statistics
Matches: 200, Mismatches: 6, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
203 136 0.68
204 64 0.32
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (204 bp):
TATTTCGATTGTTACACGGCCTGAGATACAGGCGTGTGAGTCACACGGCCTGGAAATACAGCTAT
GTGACCCCCTGCAGTTCAAGTTTTCCAAGTTTTTCTTAAATGTTCCAAAAGTTTTTGATTTAGTC
CCGAATTATTTCTAAAGTGTTTCTAGGGCCTTGGGGGCTCGATTAACGGACATTATGCATGTATA
TGTATGAAT
Found at i:8976999 original size:27 final size:27
Alignment explanation
Indices: 8976961--8977341 Score: 434
Period size: 27 Copynumber: 14.1 Consensus size: 27
8976951 AAAGGTTGTT
*
8976961 AAATGACCGAAATACCCTCGAAGGGTA
1 AAATTACCGAAATACCCTCGAAGGGTA
**
8976988 AAATTATTGAAATACCCTCGAAGGGTA
1 AAATTACCGAAATACCCTCGAAGGGTA
* *
8977015 AAATTATCGAAATACCCTCAAAGGGTA
1 AAATTACCGAAATACCCTCGAAGGGTA
* *
8977042 AAATTACTGAAATACCCCCGAAGGGTA
1 AAATTACCGAAATACCCTCGAAGGGTA
* * * *
8977069 AAATTACTGAAATACCCCCGAACGAT-
1 AAATTACCGAAATACCCTCGAAGGGTA
*
8977095 AAATTA-CGAAAATACCCTCAAAGGGTA
1 AAATTACCG-AAATACCCTCGAAGGGTA
*
8977122 AAATTACTGAAATACACC-CGAAGGGTA
1 AAATTACCGAAATAC-CCTCGAAGGGTA
* *
8977149 AAATTACTGAAATAACCTC-AAGGGGTA
1 AAATTACCGAAATACCCTCGAA-GGGTA
* * *
8977176 AAATTACAGAAATACCCTCAAAGAGTA
1 AAATTACCGAAATACCCTCGAAGGGTA
*
8977203 AAATTACCGAAATA-CCTCTGAAGGATA
1 AAATTACCGAAATACCCTC-GAAGGGTA
*
8977230 AAATTACCGAAATA-CCTCTGAAGGATA
1 AAATTACCGAAATACCCTC-GAAGGGTA
* *
8977257 AAATTATCGAAATACCCTCAAAGGGTA
1 AAATTACCGAAATACCCTCGAAGGGTA
* *
8977284 AAATTACCAAAATACCCTCAAAGGGTA
1 AAATTACCGAAATACCCTCGAAGGGTA
*
8977311 AAATTACTGAAATATCCCT-GAAGGGTA
1 AAATTACCGAAATA-CCCTCGAAGGGTA
8977338 AAAT
1 AAAT
8977342 GATCGTTATA
Statistics
Matches: 310, Mismatches: 34, Indels: 20
0.85 0.09 0.05
Matches are distributed among these distances:
25 1 0.00
26 27 0.09
27 269 0.87
28 13 0.04
ACGTcount: A:0.45, C:0.19, G:0.16, T:0.21
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGAAGGGTA
Found at i:8977354 original size:81 final size:80
Alignment explanation
Indices: 8976961--8977346 Score: 503
Period size: 81 Copynumber: 4.8 Consensus size: 80
8976951 AAAGGTTGTT
* *
8976961 AAATGACCGAAATACCCTCGAAGGGTAAAATTATTGAAATACCCTCGAAGGGTAAAATTATCGAA
1 AAATTACCGAAATACCCTCGAAGGGTAAAATTACTGAAATACCCT-GAAGGGTAAAATTATCGAA
8977026 ATACCCTCAAAGGGTA
65 ATACCCTCAAAGGGTA
* * * * *
8977042 AAATTACTGAAATACCCCCGAAGGGTAAAATTACTGAAATACCCCCGAACGAT-AAATTA-CGAA
1 AAATTACCGAAATACCCTCGAAGGGTAAAATTACTGAAATA-CCCTGAAGGGTAAAATTATCG-A
8977105 AATACCCTCAAAGGGTA
64 AATACCCTCAAAGGGTA
* * *
8977122 AAATTACTGAAATACACC-CGAAGGGTAAAATTACTGAAATAACCTCAAGGGGTAAAATTA-CAG
1 AAATTACCGAAATAC-CCTCGAAGGGTAAAATTACTGAAATACCCTGAA-GGGTAAAATTATC-G
*
8977185 AAATACCCTCAAAGAGTA
63 AAATACCCTCAAAGGGTA
* * *
8977203 AAATTACCGAAATA-CCTCTGAAGGATAAAATTACCGAAATACCTCTGAAGGATAAAATTATCGA
1 AAATTACCGAAATACCCTC-GAAGGGTAAAATTACTGAAATACC-CTGAAGGGTAAAATTATCGA
8977267 AATACCCTCAAAGGGTA
64 AATACCCTCAAAGGGTA
* * *
8977284 AAATTACCAAAATACCCTCAAAGGGTAAAATTACTGAAATATCCCTGAAGGGTAAAATGATCG
1 AAATTACCGAAATACCCTCGAAGGGTAAAATTACTGAAATA-CCCTGAAGGGTAAAATTATCG
8977347 TTATACCCCT
Statistics
Matches: 267, Mismatches: 26, Indels: 24
0.84 0.08 0.08
Matches are distributed among these distances:
79 8 0.03
80 65 0.24
81 179 0.67
82 15 0.06
ACGTcount: A:0.44, C:0.19, G:0.16, T:0.21
Consensus pattern (80 bp):
AAATTACCGAAATACCCTCGAAGGGTAAAATTACTGAAATACCCTGAAGGGTAAAATTATCGAAA
TACCCTCAAAGGGTA
Found at i:8977796 original size:28 final size:27
Alignment explanation
Indices: 8977745--8977798 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
8977735 CTGATACTAA
*
8977745 TTCTGTAATGGGCTTAGGTCCACCTGG
1 TTCTGTAATGGGCTAAGGTCCACCTGG
8977772 TTCTGTTAATGGGCTAAGG-CTCACCTG
1 TTCTG-TAATGGGCTAAGGTC-CACCTG
8977799 ATACTATGTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 6 0.25
28 18 0.75
ACGTcount: A:0.17, C:0.22, G:0.28, T:0.33
Consensus pattern (27 bp):
TTCTGTAATGGGCTAAGGTCCACCTGG
Found at i:8978148 original size:20 final size:20
Alignment explanation
Indices: 8978125--8978164 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
8978115 CAAACATAAC
8978125 AACTATTTTCCAAAAACACT
1 AACTATTTTCCAAAAACACT
8978145 AACTATTTTCCAAAAACACT
1 AACTATTTTCCAAAAACACT
8978165 TAAAAACAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.30
Consensus pattern (20 bp):
AACTATTTTCCAAAAACACT
Found at i:8983947 original size:40 final size:40
Alignment explanation
Indices: 8983901--8983977 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
8983891 TGCAAAACAT
8983901 GGGCACCAAAGTGCAATCAGGAGCAC-AAGTGTGCAATCAA
1 GGGCACCAAAGTGCAATCAGGAGCACGAA-TGTGCAATCAA
** * *
8983941 GGGCACCGGAGTGCATTCAGGGGCACGAATGTGCAAT
1 GGGCACCAAAGTGCAATCAGGAGCACGAATGTGCAAT
8983978 TAGGGACACT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 30 0.94
41 2 0.06
ACGTcount: A:0.31, C:0.22, G:0.32, T:0.14
Consensus pattern (40 bp):
GGGCACCAAAGTGCAATCAGGAGCACGAATGTGCAATCAA
Found at i:8983982 original size:20 final size:20
Alignment explanation
Indices: 8983901--8983982 Score: 69
Period size: 20 Copynumber: 4.1 Consensus size: 20
8983891 TGCAAAACAT
* *
8983901 GGGCACCAAAGTGCAATCAG
1 GGGCACGAATGTGCAATCAG
* *
8983921 GAGCAC-AAGTGTGCAATCAA
1 GGGCACGAA-TGTGCAATCAG
* *
8983941 GGGCACCGGA-GTGCATTCAG
1 GGGCA-CGAATGTGCAATCAG
*
8983961 GGGCACGAATGTGCAATTAG
1 GGGCACGAATGTGCAATCAG
8983981 GG
1 GG
8983983 ACACTGAAGT
Statistics
Matches: 48, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
19 5 0.10
20 41 0.85
21 1 0.02
22 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.34, T:0.15
Consensus pattern (20 bp):
GGGCACGAATGTGCAATCAG
Found at i:8992379 original size:143 final size:144
Alignment explanation
Indices: 8992110--8992396 Score: 567
Period size: 143 Copynumber: 2.0 Consensus size: 144
8992100 CATTGCTAAA
8992110 ACCATTTTCCGTTTAGAACTTATCATTATCTTTCATTAATTCTCAAACCGTGATTCATTTTCAAA
1 ACCATTTTCCGTTTAGAACTTATCATTATCTTTCATTAATTCTCAAACCGTGATTCATTTTCAAA
8992175 ATGCTATACTTTGCAGAAGCTTTTAAAATAGTTTTCATGTGCGTGGTATTTTGATAAAACATTCA
66 ATGCTATACTTTGCAGAAGCTTTTAAAATAGTTTTCATGTGCGTGGTATTTTGATAAAACATTCA
8992240 TCTCTTTTGAAAAC
131 TCTCTTTTGAAAAC
8992254 ACCATTTTCC-TTTAGAACTTATCATTATCTTTCATTAATTCTCAAACCGTGATTCATTTTCAAA
1 ACCATTTTCCGTTTAGAACTTATCATTATCTTTCATTAATTCTCAAACCGTGATTCATTTTCAAA
8992318 ATGCTATACTTTGCAGAAGCTTTTAAAATAGTTTTCATGTGCGTGGTATTTTGATAAAACATTCA
66 ATGCTATACTTTGCAGAAGCTTTTAAAATAGTTTTCATGTGCGTGGTATTTTGATAAAACATTCA
8992383 TCTCTTTTGAAAAC
131 TCTCTTTTGAAAAC
8992397 CCGAGTTTTA
Statistics
Matches: 143, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
143 133 0.93
144 10 0.07
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.42
Consensus pattern (144 bp):
ACCATTTTCCGTTTAGAACTTATCATTATCTTTCATTAATTCTCAAACCGTGATTCATTTTCAAA
ATGCTATACTTTGCAGAAGCTTTTAAAATAGTTTTCATGTGCGTGGTATTTTGATAAAACATTCA
TCTCTTTTGAAAAC
Found at i:8993256 original size:17 final size:17
Alignment explanation
Indices: 8993234--8993274 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
8993224 GCCCATGTAA
8993234 GCCCACACACTTGTGTG
1 GCCCACACACTTGTGTG
*
8993251 GCCCACACGCTTGTGTG
1 GCCCACACACTTGTGTG
8993268 GCCCACA
1 GCCCACA
8993275 TGGCTCAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.17, C:0.39, G:0.24, T:0.20
Consensus pattern (17 bp):
GCCCACACACTTGTGTG
Found at i:8993532 original size:17 final size:17
Alignment explanation
Indices: 8993510--8993548 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
8993500 GAGTAGCGCT
8993510 AAAACCTAAATTCAACC
1 AAAACCTAAATTCAACC
8993527 AAAACCTAAATTCAACC
1 AAAACCTAAATTCAACC
8993544 AAAAC
1 AAAAC
8993549 ATCGTTCAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.56, C:0.28, G:0.00, T:0.15
Consensus pattern (17 bp):
AAAACCTAAATTCAACC
Found at i:9001593 original size:23 final size:23
Alignment explanation
Indices: 9001567--9001620 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
9001557 TACTAAATAA
* *
9001567 ATTAATAACAAT-AAAATAATAT
1 ATTAATAAAAATCAAAATAAAAT
*
9001589 CATTAA-AAAAATCAAATTAAAAT
1 -ATTAATAAAAATCAAAATAAAAT
9001612 ATTAATAAA
1 ATTAATAAA
9001621 CTAATATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 10 0.38
23 16 0.62
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.30
Consensus pattern (23 bp):
ATTAATAAAAATCAAAATAAAAT
Found at i:9002374 original size:32 final size:32
Alignment explanation
Indices: 9002338--9002403 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
9002328 TTCATTAATT
9002338 CTCAAACCGAGATTCATTTTCAAAATGCTATA
1 CTCAAACCGAGATTCATTTTCAAAATGCTATA
9002370 CTCAAACCGAGATTCATTTTCAAAATGCTATA
1 CTCAAACCGAGATTCATTTTCAAAATGCTATA
9002402 CT
1 CT
9002404 TTGCGGAAGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.36, C:0.23, G:0.09, T:0.32
Consensus pattern (32 bp):
CTCAAACCGAGATTCATTTTCAAAATGCTATA
Found at i:9005839 original size:23 final size:21
Alignment explanation
Indices: 9005794--9005836 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
9005784 GGTACGGTTG
9005794 ATATTGTTTTATTATGTTAAA
1 ATATTGTTTTATTATGTTAAA
9005815 ATATATGTTTTATTA-GTTAAA
1 ATAT-TGTTTTATTATGTTAAA
9005836 A
1 A
9005837 AATTAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.53
Consensus pattern (21 bp):
ATATTGTTTTATTATGTTAAA
Found at i:9006707 original size:26 final size:26
Alignment explanation
Indices: 9006678--9006861 Score: 190
Period size: 26 Copynumber: 7.1 Consensus size: 26
9006668 TGTACCTGAA
* *
9006678 TAGCAGGCTTTGAGCCGATGAGTATT
1 TAGCAGGCTTTGAGCCGGTGATTATT
* * *
9006704 TAGCTA-GCCTTGAGACGGTGATTACT
1 TAGC-AGGCTTTGAGCCGGTGATTATT
* *
9006730 TAGCAGGCTATGAGCCGATGATTATT
1 TAGCAGGCTTTGAGCCGGTGATTATT
* ** *
9006756 TAGCAGGCCTTGCTCCGGTGATTACT
1 TAGCAGGCTTTGAGCCGGTGATTATT
* * * *
9006782 TAGCAGGCTATGAGTCAGTGTTTATT
1 TAGCAGGCTTTGAGCCGGTGATTATT
* *
9006808 TAGCAGGCTTTGAACCGGTGTTTATT
1 TAGCAGGCTTTGAGCCGGTGATTATT
*
9006834 TAGCAGGCTTTGAGCCGGTGAATATT
1 TAGCAGGCTTTGAGCCGGTGATTATT
9006860 TA
1 TA
9006862 ACAAGTATTA
Statistics
Matches: 125, Mismatches: 31, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
25 1 0.01
26 123 0.98
27 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (26 bp):
TAGCAGGCTTTGAGCCGGTGATTATT
Found at i:9014925 original size:57 final size:57
Alignment explanation
Indices: 9014830--9014945 Score: 189
Period size: 57 Copynumber: 2.0 Consensus size: 57
9014820 TTAATGTGTG
* * *
9014830 TAAGTCCCTCAGAAAGGTTCAGTTGTACTATTAGTAATATTTTGTA-TGATATTCTTT
1 TAAGTCCCTCAGAAAGGTTCAGTTGTACTATCAATAATATTATGTATTG-TATTCTTT
9014887 TAAGTCCCTCAGAAAGGTTCAGTTGTACTATCAATAATATTATGTATTGTATTCTTT
1 TAAGTCCCTCAGAAAGGTTCAGTTGTACTATCAATAATATTATGTATTGTATTCTTT
9014944 TA
1 TA
9014946 GGAACTCACT
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
57 53 0.96
58 2 0.04
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.43
Consensus pattern (57 bp):
TAAGTCCCTCAGAAAGGTTCAGTTGTACTATCAATAATATTATGTATTGTATTCTTT
Found at i:9016096 original size:6 final size:6
Alignment explanation
Indices: 9016053--9016088 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
9016043 TGTTTTATTC
* *
9016053 ATTTTT CTTTTT ATTTTT ATTTTT ACTTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
9016089 TTTATTTTCC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.14, C:0.06, G:0.00, T:0.81
Consensus pattern (6 bp):
ATTTTT
Found at i:9016881 original size:25 final size:25
Alignment explanation
Indices: 9016853--9016965 Score: 64
Period size: 25 Copynumber: 5.2 Consensus size: 25
9016843 CTACTTAACC
9016853 TTTAACACAACTTAGGCACTTAGGA
1 TTTAACACAACTTAGGCACTTAGGA
* *
9016878 TTTAAC-CTACTTA---AC-----C
1 TTTAACACAACTTAGGCACTTAGGA
9016894 TTTAACACAACTTAGGCACTTAGGA
1 TTTAACACAACTTAGGCACTTAGGA
* *
9016919 TTTAAC-CTACTTA---AC-----C
1 TTTAACACAACTTAGGCACTTAGGA
9016935 TTTAACACAACTTAGGCACTTAGGA
1 TTTAACACAACTTAGGCACTTAGGA
9016960 TTTAAC
1 TTTAAC
9016966 CTACTTAACC
Statistics
Matches: 62, Mismatches: 8, Indels: 36
0.58 0.08 0.34
Matches are distributed among these distances:
16 12 0.19
17 12 0.19
20 4 0.06
21 4 0.06
24 12 0.19
25 18 0.29
ACGTcount: A:0.35, C:0.23, G:0.11, T:0.32
Consensus pattern (25 bp):
TTTAACACAACTTAGGCACTTAGGA
Found at i:9016882 original size:41 final size:41
Alignment explanation
Indices: 9016825--9016989 Score: 330
Period size: 41 Copynumber: 4.0 Consensus size: 41
9016815 AAGATGATAG
9016825 AGGCACTTAGGATTTAACCTACTTAACCTTTAACACAACTT
1 AGGCACTTAGGATTTAACCTACTTAACCTTTAACACAACTT
9016866 AGGCACTTAGGATTTAACCTACTTAACCTTTAACACAACTT
1 AGGCACTTAGGATTTAACCTACTTAACCTTTAACACAACTT
9016907 AGGCACTTAGGATTTAACCTACTTAACCTTTAACACAACTT
1 AGGCACTTAGGATTTAACCTACTTAACCTTTAACACAACTT
9016948 AGGCACTTAGGATTTAACCTACTTAACCTTTAACACAACTT
1 AGGCACTTAGGATTTAACCTACTTAACCTTTAACACAACTT
9016989 A
1 A
9016990 CCTATTGAAT
Statistics
Matches: 124, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 124 1.00
ACGTcount: A:0.35, C:0.24, G:0.10, T:0.32
Consensus pattern (41 bp):
AGGCACTTAGGATTTAACCTACTTAACCTTTAACACAACTT
Found at i:9020162 original size:19 final size:19
Alignment explanation
Indices: 9020129--9020192 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
9020119 TAATAAATAA
9020129 TAAATTTTAGA-AAAATTAT
1 TAAATTTTAGATAAAATT-T
*
9020148 TAAATTTTA-ATAAAAATT
1 TAAATTTTAGATAAAATTT
* **
9020166 TAAAATTTATTTAAAATTT
1 TAAATTTTAGATAAAATTT
*
9020185 TATATTTT
1 TAAATTTT
9020193 TTATAAAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
18 10 0.27
19 27 0.73
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (19 bp):
TAAATTTTAGATAAAATTT
Found at i:9020693 original size:1 final size:1
Alignment explanation
Indices: 9020687--9020732 Score: 65
Period size: 1 Copynumber: 46.0 Consensus size: 1
9020677 TACAAACAGC
* * *
9020687 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACAAGAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
9020733 GCCCAGTCCC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.93, C:0.02, G:0.04, T:0.00
Consensus pattern (1 bp):
A
Found at i:9026579 original size:25 final size:23
Alignment explanation
Indices: 9026533--9026579 Score: 58
Period size: 25 Copynumber: 2.0 Consensus size: 23
9026523 TAAACTTAAT
**
9026533 TAAAATTAAAATTTTATCTAGAG
1 TAAAATTAAAATTTTAAATAGAG
9026556 TAAAATTCAAAATTTTTAAATAGA
1 TAAAATT-AAAA-TTTTAAATAGA
9026580 TGACATAGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 7 0.35
24 4 0.20
25 9 0.45
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.38
Consensus pattern (23 bp):
TAAAATTAAAATTTTAAATAGAG
Found at i:9045122 original size:1 final size:1
Alignment explanation
Indices: 9045111--9045140 Score: 51
Period size: 1 Copynumber: 30.0 Consensus size: 1
9045101 TCTTTAAACC
*
9045111 TTTTGTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
9045141 GTATTTGGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.03, T:0.97
Consensus pattern (1 bp):
T
Found at i:9049778 original size:17 final size:17
Alignment explanation
Indices: 9049745--9049776 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9049735 ATTTTATAAG
9049745 ATTTTATAACATATTTA
1 ATTTTATAACATATTTA
9049762 ATTTTATAA-ATATTT
1 ATTTTATAACATATTT
9049777 TATTATAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTTATAACATATTTA
Found at i:9049794 original size:24 final size:23
Alignment explanation
Indices: 9049757--9049818 Score: 83
Period size: 24 Copynumber: 2.7 Consensus size: 23
9049747 TTTATAACAT
9049757 ATTTAATTTTATAAATAT-TTT-
1 ATTTAATTTTATAAATATATTTG
9049778 ATTATAACATTTTATAAATATATTTG
1 ATT-T-A-ATTTTATAAATATATTTG
9049804 ATTTAATTTTATAAA
1 ATTTAATTTTATAAA
9049819 AAATCAACAT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
21 3 0.08
22 1 0.03
23 11 0.31
24 14 0.39
25 4 0.11
26 3 0.08
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (23 bp):
ATTTAATTTTATAAATATATTTG
Done.