Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 23 of 208
Found at i:8909628 original size:15 final size:17
Alignment explanation
Indices: 8909597--8909628 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8909587 TTTTTTCCAT
8909597 ATCAATATAATACAAAA
1 ATCAATATAATACAAAA
8909614 ATCAATA-AATA-AAAA
1 ATCAATATAATACAAAA
8909629 GCTCCCATCC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 4 0.27
17 7 0.47
ACGTcount: A:0.69, C:0.09, G:0.00, T:0.22
Consensus pattern (17 bp):
ATCAATATAATACAAAA
Found at i:8912151 original size:30 final size:29
Alignment explanation
Indices: 8912110--8912179 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 29
8912100 ATTTTAATAG
*
8912110 TTTATATTTTTATAAATTTTAAAATATTAA
1 TTTAAATTTTTATAAATTTTAAAA-ATTAA
* *
8912140 TTTAAATTTTTATTATTTTTAAAAATTAA
1 TTTAAATTTTTATAAATTTTAAAAATTAA
*
8912169 ATTATAATTTT
1 TTTA-AATTTT
8912180 ACCATTATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 8 0.23
30 27 0.77
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (29 bp):
TTTAAATTTTTATAAATTTTAAAAATTAA
Found at i:8916669 original size:3 final size:3
Alignment explanation
Indices: 8916661--8916688 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
8916651 AAACAATTCG
8916661 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
8916689 TTGTTTTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:8919857 original size:15 final size:15
Alignment explanation
Indices: 8919833--8919862 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8919823 TTTTTCCTTT
*
8919833 TAAATTATTTTTTTA
1 TAAATAATTTTTTTA
8919848 TAAATAATTTTTTTA
1 TAAATAATTTTTTTA
8919863 ATTAATTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TAAATAATTTTTTTA
Found at i:8920487 original size:17 final size:18
Alignment explanation
Indices: 8920455--8920490 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
8920445 ATCGGTTTTT
8920455 ATATTAAAAGAAAAAGAA
1 ATATTAAAAGAAAAAGAA
*
8920473 ATATTAGAA-AAAAAGAA
1 ATATTAAAAGAAAAAGAA
8920490 A
1 A
8920491 AAAAGAGCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.72, C:0.00, G:0.11, T:0.17
Consensus pattern (18 bp):
ATATTAAAAGAAAAAGAA
Found at i:8921840 original size:29 final size:29
Alignment explanation
Indices: 8921798--8921912 Score: 137
Period size: 29 Copynumber: 4.0 Consensus size: 29
8921788 AATATATTTG
8921798 TTTTTAAAT-TTTTTTAATTTTAAAATAC
1 TTTTTAAATATTTTTTAATTTTAAAATAC
* *
8921826 TCTTTTTATTATTTTTTTAATTTTAAAATAC
1 T-TTTTAAATA-TTTTTTAATTTTAAAATAC
** *
8921857 TTTTTAAA-AAATTTTAATTTTACAATA-
1 TTTTTAAATATTTTTTAATTTTAAAATAC
8921884 TTTTTAAAATATTTTTTAATTTTAAAATA
1 TTTTT-AAATATTTTTTAATTTTAAAATA
8921913 AATTTTTGGT
Statistics
Matches: 72, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
27 5 0.07
28 19 0.26
29 23 0.32
30 5 0.07
31 20 0.28
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.59
Consensus pattern (29 bp):
TTTTTAAATATTTTTTAATTTTAAAATAC
Found at i:8921872 original size:28 final size:29
Alignment explanation
Indices: 8921809--8921912 Score: 106
Period size: 31 Copynumber: 3.6 Consensus size: 29
8921799 TTTTAAATTT
* * *
8921809 TTTTAATTTTAAAATACTCTTTT-TATTATTT
1 TTTTAATTTTAAAATA-T-TTTTAAAATA-TA
8921840 TTTTAATTTTAAAATACTTTTTAAAA-A-A
1 TTTTAATTTTAAAATA-TTTTTAAAATATA
* *
8921868 TTTTAATTTTACAATATTTTTAAAATATT
1 TTTTAATTTTAAAATATTTTTAAAATATA
8921897 TTTTAATTTTAAAATA
1 TTTTAATTTTAAAATA
8921913 AATTTTTGGT
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
27 9 0.14
28 16 0.25
29 15 0.23
30 5 0.08
31 19 0.30
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (29 bp):
TTTTAATTTTAAAATATTTTTAAAATATA
Found at i:8923273 original size:17 final size:17
Alignment explanation
Indices: 8923237--8923283 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
8923227 AATTTAGAAT
*
8923237 AATTTT-TGAATTAGTG
1 AATTTTGTGATTTAGTG
*
8923253 AATTTTGTGATTTATTG
1 AATTTTGTGATTTAGTG
8923270 AATTTTGTGATTTA
1 AATTTTGTGATTTA
8923284 AAAAAATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
16 6 0.21
17 22 0.79
ACGTcount: A:0.28, C:0.00, G:0.17, T:0.55
Consensus pattern (17 bp):
AATTTTGTGATTTAGTG
Found at i:8924098 original size:46 final size:46
Alignment explanation
Indices: 8924028--8924166 Score: 242
Period size: 46 Copynumber: 3.0 Consensus size: 46
8924018 CATGGCAAAG
*
8924028 TGTGAAACGTAGGTATGGTATTTCAGTGAAGAAAACCATATTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATATTGAGT
* *
8924074 TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATATTGAGT
*
8924120 TGTGAAAAGTAGGTATGGTATTTCCGTGAAGAAAACCATATTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATATTGAGT
8924166 T
1 T
8924167 ATAGCAATGT
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 87 1.00
ACGTcount: A:0.35, C:0.09, G:0.27, T:0.30
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATATTGAGT
Found at i:8925439 original size:15 final size:15
Alignment explanation
Indices: 8925419--8925449 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
8925409 TAAAAGTAAA
8925419 TTTTATGCCCCGAAC
1 TTTTATGCCCCGAAC
8925434 TTTTATGCCCCGAAC
1 TTTTATGCCCCGAAC
8925449 T
1 T
8925450 CTGGAAACGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.32, G:0.13, T:0.35
Consensus pattern (15 bp):
TTTTATGCCCCGAAC
Found at i:8930252 original size:9 final size:9
Alignment explanation
Indices: 8930238--8930268 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
8930228 GTTAAACGAA
8930238 TCGAGTTAT
1 TCGAGTTAT
*
8930247 TCGAGTTAA
1 TCGAGTTAT
8930256 TCGAGTTAT
1 TCGAGTTAT
8930265 TCGA
1 TCGA
8930269 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:8930340 original size:9 final size:9
Alignment explanation
Indices: 8930323--8930359 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
8930313 TGAGTTTTCA
8930323 AATTCGAAT
1 AATTCGAAT
*
8930332 AACTCGAAT
1 AATTCGAAT
8930341 AATTCGAAT
1 AATTCGAAT
8930350 AATTCGAAT
1 AATTCGAAT
8930359 A
1 A
8930360 TAAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:8930905 original size:9 final size:9
Alignment explanation
Indices: 8930891--8930919 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
8930881 AATTTCACAT
8930891 TTTATATTA
1 TTTATATTA
8930900 TTTATATTA
1 TTTATATTA
8930909 TTTATATTA
1 TTTATATTA
8930918 TT
1 TT
8930920 GAATTGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTATATTA
Found at i:8931405 original size:5 final size:5
Alignment explanation
Indices: 8931395--8931420 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
8931385 CTCGAAAATT
8931395 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
8931421 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:8953459 original size:17 final size:18
Alignment explanation
Indices: 8953432--8953469 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
8953422 TCTGTTTACA
8953432 ATTTTTAATAAT-TTTATG
1 ATTTTTAATAATATTT-TG
8953450 ATTTTT-ATAATATTTTG
1 ATTTTTAATAATATTTTG
8953467 ATT
1 ATT
8953470 CTCATCCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (18 bp):
ATTTTTAATAATATTTTG
Found at i:8954916 original size:13 final size:13
Alignment explanation
Indices: 8954898--8954922 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8954888 GGGTATAGTA
8954898 AAATATTTAAAAT
1 AAATATTTAAAAT
8954911 AAATATTTAAAA
1 AAATATTTAAAA
8954923 AAAGAGTATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AAATATTTAAAAT
Found at i:8955160 original size:19 final size:20
Alignment explanation
Indices: 8955125--8955167 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
8955115 TTCCAATATC
8955125 TTTT-ATAATATTCTATAAT
1 TTTTAATAATATTCTATAAT
* *
8955144 TTTTAATAAT-TTTTATATT
1 TTTTAATAATATTCTATAAT
8955163 TTTTA
1 TTTTA
8955168 CAAGTTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTAATAATATTCTATAAT
Found at i:8957975 original size:90 final size:90
Alignment explanation
Indices: 8957359--8957963 Score: 978
Period size: 90 Copynumber: 6.7 Consensus size: 90
8957349 GTGGACCCAT
* * * *
8957359 GGTTTGTGCATTGACTAGAGCAGGAGAAACAGTTCGCAT-GCTAGTAGCTGAGCCAGTTGAAGGG
1 GGTTTGTGCATTGACTACAGCAGGTGAAACAGTTTGCATAG-TAGAAGCTGAGCCAGTTGAAGGG
* *
8957423 ATCCCTGAAGCAGTGGAAGGCTGCAA
65 ATCCCTGAAGCAGTAGAACGCTGCAA
* * * *
8957449 GGTTTCTGCATTGCCTACAGCAGGTGAAACAGTTTGCATACTAGAAGCTGAGCCAGTTGGAGGGA
1 GGTTTGTGCATTGACTACAGCAGGTGAAACAGTTTGCATAGTAGAAGCTGAGCCAGTTGAAGGGA
* *
8957514 TCCCTGAAGCAGTGGAAGGCTGCAA
66 TCCCTGAAGCAGTAGAACGCTGCAA
* * * * * *
8957539 GGTTTGTGCATTGACTGCAGCAAGTGAAACAGTTTGCAGAGTAGAAGTTGAGCTACTTGAAGGGA
1 GGTTTGTGCATTGACTACAGCAGGTGAAACAGTTTGCATAGTAGAAGCTGAGCCAGTTGAAGGGA
8957604 TCCCTGAAGCAGTAGAACGCTGCAA
66 TCCCTGAAGCAGTAGAACGCTGCAA
*
8957629 AGTTTGTGCATTGACTACAGCAGGTGAAACAGTTTGCATAGTAGAAGCTGAGCCAGTTGAAGGGA
1 GGTTTGTGCATTGACTACAGCAGGTGAAACAGTTTGCATAGTAGAAGCTGAGCCAGTTGAAGGGA
8957694 TCCCTGAAGCAGTAGAACGCTGCAA
66 TCCCTGAAGCAGTAGAACGCTGCAA
*
8957719 GGTTTGTGCATTGACTACAGCAGGTGAAACAGTTTGCATAGTAGAAGCTGAGCCAGTTGAAGGAA
1 GGTTTGTGCATTGACTACAGCAGGTGAAACAGTTTGCATAGTAGAAGCTGAGCCAGTTGAAGGGA
*
8957784 TCCCTGAAGCAGTAGAAAGCTGCAA
66 TCCCTGAAGCAGTAGAACGCTGCAA
* * *
8957809 TGTTTGCGCATTGACTACAGCAGGTGAAACAATTTGCATAGTAGAAGCTGAGCCAGTTGAAGGGA
1 GGTTTGTGCATTGACTACAGCAGGTGAAACAGTTTGCATAGTAGAAGCTGAGCCAGTTGAAGGGA
8957874 TCCCTGAAGCAGTAGAACGCTGCAA
66 TCCCTGAAGCAGTAGAACGCTGCAA
8957899 GGTTTGTGCATTGACTACAGCAGGTGAAACAGTTTGCATAGTAGAAGCTGAGCCAGTTGAAGGGA
1 GGTTTGTGCATTGACTACAGCAGGTGAAACAGTTTGCATAGTAGAAGCTGAGCCAGTTGAAGGGA
8957964 GACCAGAAGC
Statistics
Matches: 476, Mismatches: 38, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
90 476 1.00
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.22
Consensus pattern (90 bp):
GGTTTGTGCATTGACTACAGCAGGTGAAACAGTTTGCATAGTAGAAGCTGAGCCAGTTGAAGGGA
TCCCTGAAGCAGTAGAACGCTGCAA
Found at i:8966580 original size:16 final size:16
Alignment explanation
Indices: 8966561--8966591 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
8966551 AATTCAAGTA
8966561 AACCCATAACCTAAAT
1 AACCCATAACCTAAAT
8966577 AACCCATAACCTAAA
1 AACCCATAACCTAAA
8966592 ACAAGATGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.32, G:0.00, T:0.16
Consensus pattern (16 bp):
AACCCATAACCTAAAT
Found at i:8973647 original size:42 final size:42
Alignment explanation
Indices: 8973399--8973639 Score: 365
Period size: 42 Copynumber: 5.7 Consensus size: 42
8973389 TTAAATCATT
*
8973399 ATCTCCATCATCCTTAGCTTTCCTACTAGAAGATCTAGTACC
1 ATCTCCATCATCCTTAGCTTTCCTACTAGACGATCTAGTACC
* ** *
8973441 ATCTCCATCATCCTTAGTTTTCCTACTAGTTGATCTGGTACC
1 ATCTCCATCATCCTTAGCTTTCCTACTAGACGATCTAGTACC
* * *
8973483 ATCTCCATCATTCTTAGCTTTCCTACTAGAGGATCTGGTACC
1 ATCTCCATCATCCTTAGCTTTCCTACTAGACGATCTAGTACC
* * *
8973525 ACCTCCATCATCCTCAGCTTTCCTACTAGACGATCTAATACC
1 ATCTCCATCATCCTTAGCTTTCCTACTAGACGATCTAGTACC
* *
8973567 ATCTCCGTCATCCTTAGCTTTCCTACCAGACGATCTAGTACC
1 ATCTCCATCATCCTTAGCTTTCCTACTAGACGATCTAGTACC
8973609 ATCTCCATCATCCTTAGCTTTCCTACTAGAC
1 ATCTCCATCATCCTTAGCTTTCCTACTAGAC
8973640 AGCCTAGTGC
Statistics
Matches: 178, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 178 1.00
ACGTcount: A:0.23, C:0.33, G:0.10, T:0.34
Consensus pattern (42 bp):
ATCTCCATCATCCTTAGCTTTCCTACTAGACGATCTAGTACC
Found at i:8974568 original size:24 final size:24
Alignment explanation
Indices: 8974541--8974594 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 24
8974531 TAAACATACC
* *
8974541 TATTTTATTATTTATATTTATTAA
1 TATTTTATAATTTATATTTAATAA
** *
8974565 TATTACATAATTTATTTTTAATAA
1 TATTTTATAATTTATATTTAATAA
8974589 -ATTTTA
1 TATTTTA
8974595 AAAATAATAT
Statistics
Matches: 23, Mismatches: 7, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
23 4 0.17
24 19 0.83
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (24 bp):
TATTTTATAATTTATATTTAATAA
Found at i:8974715 original size:23 final size:23
Alignment explanation
Indices: 8974682--8974738 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
8974672 ATTTTTAATA
8974682 ATAAATATTTT-A-TAGTATCAAAT
1 ATAAATATTTTAATTA-TAT-AAAT
*
8974705 ATGAATATTTTAATTATATAAAT
1 ATAAATATTTTAATTATATAAAT
8974728 ATAAATATTTT
1 ATAAATATTTT
8974739 TTAAATCTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 24 0.80
24 4 0.13
25 2 0.07
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (23 bp):
ATAAATATTTTAATTATATAAAT
Found at i:8976895 original size:30 final size:30
Alignment explanation
Indices: 8976861--8976923 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
8976851 ACTTAACAAG
*
8976861 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
*
8976891 CAAATACCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
8976921 CAA
1 CAA
8976924 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.59, C:0.16, G:0.02, T:0.24
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:8977289 original size:12 final size:11
Alignment explanation
Indices: 8977263--8977300 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
8977253 ATTTTAAAAA
8977263 TAAAAA-ATTT
1 TAAAAATATTT
*
8977273 AAAAAAGTATTT
1 TAAAAA-TATTT
8977285 TAAAAATATTT
1 TAAAAATATTT
8977296 TAAAA
1 TAAAA
8977301 TTAGAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 5 0.21
11 10 0.42
12 9 0.38
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
TAAAAATATTT
Found at i:8978122 original size:30 final size:28
Alignment explanation
Indices: 8978083--8978144 Score: 97
Period size: 28 Copynumber: 2.1 Consensus size: 28
8978073 ATGGATTTAA
8978083 ATTACTTATTATTTAAGTAAATATATATTT
1 ATTACTTATTA-TTAAGTAAA-ATATATTT
*
8978113 ATTATTTATTATTAAGTAAAATATATTT
1 ATTACTTATTATTAAGTAAAATATATTT
8978141 ATTA
1 ATTA
8978145 ATTAAATAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 12 0.39
29 9 0.29
30 10 0.32
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (28 bp):
ATTACTTATTATTAAGTAAAATATATTT
Found at i:8978807 original size:17 final size:18
Alignment explanation
Indices: 8978785--8978820 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
8978775 TAAATGAGTT
8978785 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
8978802 AATTAGGGTATAAATTGG
1 AATTAGGATATAAATTGG
8978820 A
1 A
8978821 TAAAAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:8979292 original size:21 final size:22
Alignment explanation
Indices: 8979266--8979329 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 22
8979256 GCTTTGCCGA
8979266 TCAGGCACTATATGTGTTGTAT
1 TCAGGCACTATATGTGTTGTAT
* ** *
8979288 T-AGGCACCACGTGTGTCGT-T
1 TCAGGCACTATATGTGTTGTAT
*
8979308 TCAGGCACTTTATGTGTTGTAT
1 TCAGGCACTATATGTGTTGTAT
8979330 ACTGCTTCTG
Statistics
Matches: 31, Mismatches: 9, Indels: 4
0.70 0.20 0.09
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
22 2 0.06
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.39
Consensus pattern (22 bp):
TCAGGCACTATATGTGTTGTAT
Found at i:8981942 original size:50 final size:50
Alignment explanation
Indices: 8981818--8982066 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
8981808 AATAATAACA
* * ** * *
8981818 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
8981869 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
8981919 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
8981969 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
8982024 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
8982067 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:8981996 original size:100 final size:104
Alignment explanation
Indices: 8981817--8982066 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
8981807 TAATAATAAC
**
8981817 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
8981882 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
8981919 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
8981982 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
8982024 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
8982067 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:8982182 original size:13 final size:13
Alignment explanation
Indices: 8982161--8982192 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
8982151 GCTTGGATCA
*
8982161 TCATCAAATAAAT
1 TCATAAAATAAAT
8982174 TCATAAAATAAAT
1 TCATAAAATAAAT
8982187 TCATAA
1 TCATAA
8982193 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:8982440 original size:29 final size:30
Alignment explanation
Indices: 8982402--8982461 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
8982392 GCCCTCGACT
*
8982402 CTAAA-TTTTTCAAAATTACAATTTTGCCC
1 CTAAACTTTTACAAAATTACAATTTTGCCC
* *
8982431 CTAAACTTTTACATAATTACATTTTTGCCC
1 CTAAACTTTTACAAAATTACAATTTTGCCC
8982461 C
1 C
8982462 AAGGCTCGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 5 0.19
30 22 0.81
ACGTcount: A:0.32, C:0.23, G:0.03, T:0.42
Consensus pattern (30 bp):
CTAAACTTTTACAAAATTACAATTTTGCCC
Found at i:8989540 original size:50 final size:50
Alignment explanation
Indices: 8989416--8989664 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
8989406 AATAATAACA
* * ** * *
8989416 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
8989467 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
8989517 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
8989567 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
8989622 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
8989665 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:8989594 original size:100 final size:104
Alignment explanation
Indices: 8989415--8989664 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
8989405 TAATAATAAC
**
8989415 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
8989480 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
8989517 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
8989580 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
8989622 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
8989665 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:8989780 original size:13 final size:13
Alignment explanation
Indices: 8989759--8989790 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
8989749 GCTTGGATCA
*
8989759 TCATCAAATAAAT
1 TCATAAAATAAAT
8989772 TCATAAAATAAAT
1 TCATAAAATAAAT
8989785 TCATAA
1 TCATAA
8989791 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:8990038 original size:29 final size:30
Alignment explanation
Indices: 8990000--8990059 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
8989990 GCCCTCGACT
* *
8990000 CTAAA-TTTTTCAAAATTATAATTTTGCCC
1 CTAAACTTTTACAAAATTACAATTTTGCCC
* *
8990029 CTAAACTTTTACATAATTACATTTTTGCCC
1 CTAAACTTTTACAAAATTACAATTTTGCCC
8990059 C
1 C
8990060 AAGGCTCGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 5 0.19
30 21 0.81
ACGTcount: A:0.32, C:0.22, G:0.03, T:0.43
Consensus pattern (30 bp):
CTAAACTTTTACAAAATTACAATTTTGCCC
Found at i:8991172 original size:2 final size:2
Alignment explanation
Indices: 8991167--8991196 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
8991157 TCAAAATTAC
8991167 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
8991197 TATATATCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:9001539 original size:16 final size:16
Alignment explanation
Indices: 9001515--9001555 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
9001505 AATTTATTAC
*
9001515 AATATAATTTTTTTAG
1 AATATAATTTTTTTAA
*
9001531 AATACAATTTTTTTAA
1 AATATAATTTTTTTAA
9001547 AATATAATT
1 AATATAATT
9001556 AATAGTGTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (16 bp):
AATATAATTTTTTTAA
Found at i:9002252 original size:12 final size:12
Alignment explanation
Indices: 9002220--9002257 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
9002210 ATTTAAATTA
9002220 ATTTATAAATAT
1 ATTTATAAATAT
**
9002232 -TAAATAAATAT
1 ATTTATAAATAT
9002243 ATTTATAAATAT
1 ATTTATAAATAT
9002255 ATT
1 ATT
9002258 CGTGTCAACC
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
ATTTATAAATAT
Found at i:9014332 original size:46 final size:46
Alignment explanation
Indices: 9014264--9014485 Score: 374
Period size: 46 Copynumber: 4.8 Consensus size: 46
9014254 AGTGTGGAAC
* *
9014264 GTAGGTATGGTATTTCATTAAAGAAAAACATACTGAGTTGTGAAAA
1 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAA
9014310 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAA
1 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAA
* * *
9014356 GTAGGTATGATATTTCAATAAAGAAAACCATACTGAGTTGTGAGAA
1 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAA
*
9014402 GTAGGTATGGTATTTCAGTAACGAAAACCATACTGAGTTGTGAAAA
1 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAA
*
9014448 GTA-GTATGGTATTTCAGTGAAGAAAACCATACTGAGTT
1 GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTT
9014486 ATAGCATTGT
Statistics
Matches: 165, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
45 33 0.20
46 132 0.80
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.29
Consensus pattern (46 bp):
GTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAA
Found at i:9017877 original size:42 final size:42
Alignment explanation
Indices: 9017796--9017893 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 42
9017786 CTATACGAAT
** * **
9017796 GGCACTAAGTGTGCAAAATTAAAATGACAATGTTGAATAAAG
1 GGCACTAAGTGTGCAAAACAAAAATAACAATGTCAAATAAAG
** *
9017838 GGCACTAAGTGTGCAAAACAAAAATAATGATGTCAAATAACG
1 GGCACTAAGTGTGCAAAACAAAAATAACAATGTCAAATAAAG
*
9017880 GGCACTAAATGTGC
1 GGCACTAAGTGTGC
9017894 GATACCAAGA
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.44, C:0.13, G:0.21, T:0.21
Consensus pattern (42 bp):
GGCACTAAGTGTGCAAAACAAAAATAACAATGTCAAATAAAG
Found at i:9019059 original size:40 final size:40
Alignment explanation
Indices: 9018999--9019085 Score: 113
Period size: 40 Copynumber: 2.2 Consensus size: 40
9018989 AATTCGTAAC
* * * *
9018999 TTCAGTAATTTCACAGTTCAA-TGCAGTACACATAACAATA
1 TTCAATAACTTCACAATTCAACT-CAGTACACAAAACAATA
*
9019039 TTCAATAACTTCACAATTCAACTCAGTACTCAAAACAATA
1 TTCAATAACTTCACAATTCAACTCAGTACACAAAACAATA
9019079 TTCAATA
1 TTCAATA
9019086 TTTCATAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
40 40 0.98
41 1 0.02
ACGTcount: A:0.43, C:0.22, G:0.06, T:0.30
Consensus pattern (40 bp):
TTCAATAACTTCACAATTCAACTCAGTACACAAAACAATA
Found at i:9019886 original size:5 final size:5
Alignment explanation
Indices: 9019876--9019901 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
9019866 TACCTATTTG
9019876 TATAA TATAA TATAA TATAA TATAA T
1 TATAA TATAA TATAA TATAA TATAA T
9019902 CTTATTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:9020891 original size:21 final size:21
Alignment explanation
Indices: 9020851--9020947 Score: 126
Period size: 21 Copynumber: 4.7 Consensus size: 21
9020841 ATACGCCAAT
*
9020851 AGAAGCTCG-AA-AGCTGAAC
1 AGAAGCTCGTAAGAGTTGAAC
*
9020870 AGAAGCTCATAAGAGTTGAAC
1 AGAAGCTCGTAAGAGTTGAAC
*
9020891 AGAAGCTCGTAAGAGTTTAAC
1 AGAAGCTCGTAAGAGTTGAAC
* *
9020912 AGAAGCTCGTAAGAGCTGAGC
1 AGAAGCTCGTAAGAGTTGAAC
*
9020933 AGAAGCTCGAAAGAG
1 AGAAGCTCGTAAGAG
9020948 CTAAACCGAA
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
19 8 0.12
20 2 0.03
21 58 0.85
ACGTcount: A:0.40, C:0.16, G:0.28, T:0.15
Consensus pattern (21 bp):
AGAAGCTCGTAAGAGTTGAAC
Found at i:9027951 original size:41 final size:41
Alignment explanation
Indices: 9027891--9027977 Score: 129
Period size: 41 Copynumber: 2.1 Consensus size: 41
9027881 GCATAGCACT
*
9027891 TAGCAGACTTATTGCCGGTGAAACACTTCAGACTATATGTC
1 TAGCAGACTTAATGCCGGTGAAACACTTCAGACTATATGTC
* * * *
9027932 TAGCAGGCTTAATGTCGGTGAAATATTTCAGACTATATGTC
1 TAGCAGACTTAATGCCGGTGAAACACTTCAGACTATATGTC
9027973 TAGCA
1 TAGCA
9027978 AGCTAAGTGC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (41 bp):
TAGCAGACTTAATGCCGGTGAAACACTTCAGACTATATGTC
Found at i:9042841 original size:23 final size:23
Alignment explanation
Indices: 9042809--9042853 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
9042799 CCGATTTGCT
* *
9042809 CCCTCCGTTTCTTTTCTTTTCTG
1 CCCTCCGTTTATTTTCTGTTCTG
*
9042832 CCCTCTGTTTATTTTCTGTTCT
1 CCCTCCGTTTATTTTCTGTTCT
9042854 TTTCTTCCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.02, C:0.31, G:0.09, T:0.58
Consensus pattern (23 bp):
CCCTCCGTTTATTTTCTGTTCTG
Found at i:9042909 original size:66 final size:66
Alignment explanation
Indices: 9042816--9042965 Score: 257
Period size: 66 Copynumber: 2.3 Consensus size: 66
9042806 GCTCCCTCCG
9042816 TTTCTTTTCTTTTCTGCCCTCTGTTTATTTTCTGTTCTTTTCT-TCCAATTTGCTCCCTTCGTTT
1 TTTCTTTTCTTTTCTGCCCTCTGTTTATTTTCTGTTCTTTTCTGT-CAATTTGCTCCCTTCGTTT
9042880 CT
65 CT
* * *
9042882 TTTCTTTTCTTTTCTGCCCTCTGTTTATTTTCTTTTCTTTTCTGTCGATTTGCTCCCTTTGTTTC
1 TTTCTTTTCTTTTCTGCCCTCTGTTTATTTTCTGTTCTTTTCTGTCAATTTGCTCCCTTCGTTTC
9042947 T
66 T
9042948 TTTCTTTTCTTTTCTGCC
1 TTTCTTTTCTTTTCTGCC
9042966 GATTTGCCAG
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
66 79 0.99
67 1 0.01
ACGTcount: A:0.03, C:0.26, G:0.08, T:0.63
Consensus pattern (66 bp):
TTTCTTTTCTTTTCTGCCCTCTGTTTATTTTCTGTTCTTTTCTGTCAATTTGCTCCCTTCGTTTC
T
Found at i:9042963 original size:38 final size:38
Alignment explanation
Indices: 9042832--9042972 Score: 133
Period size: 38 Copynumber: 4.0 Consensus size: 38
9042822 TTCTTTTCTG
* * *
9042832 CCCTCTGTTTATTTTCTGTTCTTTTCTTCCAATTTGCT
1 CCCTCTGTTTATTTTCTTTTCTTTTCTGCCGATTTGCT
*
9042870 CCCT-TCGTTTCTTTTCTTTTC-TTT-T--C----TG--
1 CCCTCT-GTTTATTTTCTTTTCTTTTCTGCCGATTTGCT
*
9042898 CCCTCTGTTTATTTTCTTTTCTTTTCTGTCGATTTGCT
1 CCCTCTGTTTATTTTCTTTTCTTTTCTGCCGATTTGCT
* *
9042936 CCCTTTGTTTCTTTTCTTTTCTTTTCTGCCGATTTGC
1 CCCTCTGTTTATTTTCTTTTCTTTTCTGCCGATTTGC
9042973 CAGTTTCTGC
Statistics
Matches: 85, Mismatches: 6, Indels: 24
0.74 0.05 0.21
Matches are distributed among these distances:
28 18 0.21
29 4 0.05
30 3 0.04
32 1 0.01
34 1 0.01
36 3 0.04
37 4 0.05
38 51 0.60
ACGTcount: A:0.04, C:0.26, G:0.09, T:0.60
Consensus pattern (38 bp):
CCCTCTGTTTATTTTCTTTTCTTTTCTGCCGATTTGCT
Found at i:9042990 original size:66 final size:66
Alignment explanation
Indices: 9042816--9042991 Score: 167
Period size: 66 Copynumber: 2.7 Consensus size: 66
9042806 GCTCCCTCCG
* ** * * * *
9042816 TTTCTTTTCTTTTCTGCCCTCTGTTTATTTTCTGTTCTTTTCT-TCCAATTTGCTCCCTTCGTTT
1 TTTCTTTTCTTTTCTGCCATCTGTCCAGTTTCTGCTCATTTCTGT-CGATTTGCTCCCTTCGTTT
9042880 CT
65 CT
* ** * ** * *
9042882 TTTCTTTTCTTTTCTGCCCTCTGTTTATTTTCTTTTCTTTTCTGTCGATTTGCTCCCTTTGTTTC
1 TTTCTTTTCTTTTCTGCCATCTGTCCAGTTTCTGCTCATTTCTGTCGATTTGCTCCCTTCGTTTC
9042947 T
66 T
* *
9042948 TTTCTTTTCTTTTCTGCCGATTTG-CCAGTTTCTGCTGATTTCTG
1 TTTCTTTTCTTTTCTGCC-ATCTGTCCAGTTTCTGCTCATTTCTG
9042992 AGTTACTGCA
Statistics
Matches: 96, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
66 92 0.96
67 4 0.04
ACGTcount: A:0.05, C:0.25, G:0.10, T:0.60
Consensus pattern (66 bp):
TTTCTTTTCTTTTCTGCCATCTGTCCAGTTTCTGCTCATTTCTGTCGATTTGCTCCCTTCGTTTC
T
Found at i:9043381 original size:42 final size:39
Alignment explanation
Indices: 9043314--9043428 Score: 128
Period size: 42 Copynumber: 2.9 Consensus size: 39
9043304 AATTTTTGGA
*
9043314 TTAGGCTTAAGAATTGATGATTGTTGTTTGTTGATAAGG
1 TTAGGCTTAAGAATTGATGACTGTTGTTTGTTGATAAGG
* * *
9043353 TGCCTTGGCTTAAGAATTGATGACTGTTGTCTGTTG-T-TGG
1 T---TAGGCTTAAGAATTGATGACTGTTGTTTGTTGATAAGG
*
9043393 TTAGGCTTAAGAAATGCAT-ACTGTTGTTTGTTGATA
1 TTAGGCTTAAGAATTG-ATGACTGTTGTTTGTTGATA
9043429 GTGTTGTTTG
Statistics
Matches: 63, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
37 26 0.41
38 3 0.05
39 1 0.02
40 3 0.05
41 1 0.02
42 29 0.46
ACGTcount: A:0.23, C:0.08, G:0.27, T:0.43
Consensus pattern (39 bp):
TTAGGCTTAAGAATTGATGACTGTTGTTTGTTGATAAGG
Found at i:9044901 original size:21 final size:21
Alignment explanation
Indices: 9044877--9044924 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
9044867 CATCTTAAAG
9044877 GCTGCAGAACAGTTTGTCATC
1 GCTGCAGAACAGTTTGTCATC
*
9044898 GCTGCGGAACAGTTTGTCATC
1 GCTGCAGAACAGTTTGTCATC
*
9044919 ACTGCA
1 GCTGCA
9044925 AAGAAGCTGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (21 bp):
GCTGCAGAACAGTTTGTCATC
Found at i:9047347 original size:41 final size:39
Alignment explanation
Indices: 9047302--9047438 Score: 118
Period size: 41 Copynumber: 3.4 Consensus size: 39
9047292 ATTTTATAGT
* *
9047302 ATTATATATTATGATTTTAGTAAATTATATATTTTTGTTAA
1 ATTATATATTATAATTTTAATAAATTATATA-TTTT-TTAA
** *
9047343 ATTATAT-TTAATAATAATTATTTTAAA-T-TATATTTTATAA
1 ATTATATATT-ATAAT--TT-TAATAAATTATATATTTTTTAA
*
9047383 TATTATATATTATAATTTTAATAAATTCATATATTTTATCAA
1 -ATTATATATTATAATTTTAATAAATT-ATATATTTT-TTAA
9047425 ATTATATATTATAA
1 ATTATATATTATAA
9047439 AAAATATATT
Statistics
Matches: 78, Mismatches: 8, Indels: 20
0.74 0.08 0.19
Matches are distributed among these distances:
38 5 0.06
39 3 0.04
40 5 0.06
41 49 0.63
42 8 0.10
43 3 0.04
44 5 0.06
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.54
Consensus pattern (39 bp):
ATTATATATTATAATTTTAATAAATTATATATTTTTTAA
Found at i:9047373 original size:26 final size:25
Alignment explanation
Indices: 9047330--9047388 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
9047320 AGTAAATTAT
*
9047330 ATATTTTTGTTAAATTATATTTAATA
1 ATATTATT-TTAAATTATATTTAATA
*
9047356 ATAATTATTTTAAATTATATTTTATA
1 AT-ATTATTTTAAATTATATTTAATA
9047382 ATATTAT
1 ATATTAT
9047389 ATATTATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 5 0.17
26 20 0.67
27 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (25 bp):
ATATTATTTTAAATTATATTTAATA
Found at i:9047414 original size:24 final size:22
Alignment explanation
Indices: 9047369--9047437 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
9047359 ATTATTTTAA
9047369 ATTATATTTTATAATATTATAT
1 ATTATATTTTATAATATTATAT
* *
9047391 ATTATAATTT-TAATA-AAT-T
1 ATTATATTTTATAATATTATAT
9047410 CA-TATATTTTATCAA-ATTATAT
1 -ATTATATTTTAT-AATATTATAT
9047432 ATTATA
1 ATTATA
9047438 AAAAATATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
19 8 0.22
20 5 0.14
21 10 0.27
22 14 0.38
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (22 bp):
ATTATATTTTATAATATTATAT
Found at i:9047418 original size:67 final size:69
Alignment explanation
Indices: 9047238--9047414 Score: 195
Period size: 70 Copynumber: 2.6 Consensus size: 69
9047228 AATCATAAGA
* * **
9047238 ATATT-TAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAATAATAATTTTATAGT
1 ATATTATAATATTAGTAAATTATATATTTTTAATAAATTATATTTAATAATAATAATTTTATAG-
9047302 ATTAT
65 ATTAT
* * ** *
9047307 ATATTATGATTTTAGTAAATTATATATTTTTGTTAAATTATATTTAATAATAATTATTTTA-A-A
1 ATATTATAATATTAGTAAATTATATATTTTTAATAAATTATATTTAATAATAATAATTTTATAGA
9047370 TTAT
66 TTAT
* *
9047374 ATTTTATAATATTA-TATATTATA-A-TTTTAATAAATTCATAT
1 ATATTATAATATTAGTAAATTATATATTTTTAATAAATT-ATAT
9047415 ATTTTATCAA
Statistics
Matches: 97, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
64 10 0.10
65 5 0.05
66 8 0.08
67 16 0.16
69 6 0.06
70 52 0.54
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (69 bp):
ATATTATAATATTAGTAAATTATATATTTTTAATAAATTATATTTAATAATAATAATTTTATAGA
TTAT
Found at i:9047420 original size:18 final size:17
Alignment explanation
Indices: 9047391--9047434 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
9047381 AATATTATAT
9047391 ATTATA-ATTTTAAT-AA
1 ATTATATATTTT-ATCAA
9047407 ATTCATATATTTTATCAA
1 ATT-ATATATTTTATCAA
9047425 ATTATATATT
1 ATTATATATT
9047435 ATAAAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 3 0.12
17 12 0.48
18 10 0.40
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (17 bp):
ATTATATATTTTATCAA
Found at i:9047433 original size:17 final size:17
Alignment explanation
Indices: 9047245--9047454 Score: 63
Period size: 18 Copynumber: 12.6 Consensus size: 17
9047235 AGAATATTTA
*
9047245 ATTTTATTAAATTATAT
1 ATTTTAATAAATTATAT
**
9047262 ATTTTTGTTAAATTATAT
1 A-TTTTAATAAATTATAT
* *
9047280 -TTAATAATAATAATTTTAT
1 ATT-TTAAT-A-AATTATAT
* * *
9047299 AGTATT-ATATATTAT-G
1 A-TTTTAATAAATTATAT
*
9047315 ATTTTAGTAAATTATAT
1 ATTTTAATAAATTATAT
**
9047332 ATTTTTGTTAAA-T-TAT
1 A-TTTTAATAAATTATAT
*
9047348 A-TTTAAT-AATAAT-T
1 ATTTTAATAAATTATAT
* *
9047362 ATTTTAAATTATATTTTAT
1 ATTTT-AA-TAAATTATAT
* *
9047381 AATATT-ATATATTATA-
1 -ATTTTAATAAATTATAT
9047397 ATTTTAATAAATTCATAT
1 ATTTTAATAAATT-ATAT
9047415 ATTTT-ATCAAATTATAT
1 ATTTTAAT-AAATTATAT
*
9047432 ATTATAA-AAA--ATAT
1 ATTTTAATAAATTATAT
9047446 A-TTTAATAA
1 ATTTTAATAA
9047455 TAATTATGTT
Statistics
Matches: 142, Mismatches: 28, Indels: 49
0.65 0.13 0.22
Matches are distributed among these distances:
13 6 0.04
14 13 0.09
15 11 0.08
16 25 0.18
17 31 0.22
18 40 0.28
19 10 0.07
20 5 0.04
21 1 0.01
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.53
Consensus pattern (17 bp):
ATTTTAATAAATTATAT
Found at i:9047703 original size:16 final size:16
Alignment explanation
Indices: 9047682--9047749 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
9047672 GATTTGCTAT
9047682 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
* *
9047698 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
9047714 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
9047730 TACACCTCTAATTCAA
1 TACACCTCTAATCCAA
9047746 TACA
1 TACA
9047750 GCGAACCAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:9050263 original size:31 final size:29
Alignment explanation
Indices: 9050208--9050270 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 29
9050198 TATTTAAATG
* *
9050208 TGTACAATTGAATCCAAATTAAAGTTTCA
1 TGTACAATTGAATCCAAATCAAAGTTCCA
9050237 TGTACACATTTGAA-CCACAATCAAAGTTCCA
1 TGTACA-A-TTGAATCCA-AATCAAAGTTCCA
9050268 TGT
1 TGT
9050271 GTATTAATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 6 0.21
30 4 0.14
31 19 0.66
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (29 bp):
TGTACAATTGAATCCAAATCAAAGTTCCA
Found at i:9055119 original size:6 final size:6
Alignment explanation
Indices: 9055108--9055139 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
9055098 CTTTATAGAA
*
9055108 GGGCAG GGGCAG GGGCAG GGGCAG GGACAG GG
1 GGGCAG GGGCAG GGGCAG GGGCAG GGGCAG GG
9055140 CACAAGAGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.19, C:0.16, G:0.66, T:0.00
Consensus pattern (6 bp):
GGGCAG
Found at i:9064475 original size:27 final size:27
Alignment explanation
Indices: 9064444--9064499 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
9064434 TAATTTAAAA
9064444 TGAAAATTTTAAAGAAAAATAAAAAGT
1 TGAAAATTTTAAAGAAAAATAAAAAGT
** *
9064471 TGAAAATTTTAAATTAAAATAAAAGGT
1 TGAAAATTTTAAAGAAAAATAAAAAGT
9064498 TG
1 TG
9064500 TTGCATAACT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.57, C:0.00, G:0.12, T:0.30
Consensus pattern (27 bp):
TGAAAATTTTAAAGAAAAATAAAAAGT
Found at i:9065279 original size:17 final size:18
Alignment explanation
Indices: 9065248--9065286 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
9065238 AAATTTTATA
* *
9065248 AAAATATTTACAAAATTT
1 AAAATATTTAAAAAAATT
9065266 AAAAT-TTTAAAAAAATT
1 AAAATATTTAAAAAAATT
9065283 AAAA
1 AAAA
9065287 AAAAGAATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAATATTTAAAAAAATT
Found at i:9065287 original size:18 final size:18
Alignment explanation
Indices: 9065246--9065287 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
9065236 TTAAATTTTA
*
9065246 TAAAAATATTTACAAAAT
1 TAAAAATATTTAAAAAAT
*
9065264 TTAAAAT-TTTAAAAAAAT
1 TAAAAATATTT-AAAAAAT
9065282 TAAAAA
1 TAAAAA
9065288 AAAGAATGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 3 0.15
18 17 0.85
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAAAATATTTAAAAAAT
Found at i:9065290 original size:28 final size:28
Alignment explanation
Indices: 9065233--9065289 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
9065223 GTTAATGATT
* *
9065233 AATTTAAATTTTATAAAAATATTTACAA
1 AATTTAAATTTTATAAAAATATTAAAAA
9065261 AATTTAAAATTTTA-AAAAA-ATTAAAAA
1 AATTT-AAATTTTATAAAAATATTAAAAA
9065288 AA
1 AA
9065290 AGAATGAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 8 0.31
28 10 0.38
29 8 0.31
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (28 bp):
AATTTAAATTTTATAAAAATATTAAAAA
Found at i:9069796 original size:3 final size:3
Alignment explanation
Indices: 9069788--9069822 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
9069778 TTTGGAACTT
*
9069788 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTA TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
9069823 TTTTTTTTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.03, C:0.29, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:9094539 original size:23 final size:23
Alignment explanation
Indices: 9094513--9094564 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
9094503 AATTAAAAAG
9094513 ATGAAAGCAT-TATAGCTATCATT
1 ATGAAAGCATAT-TAGCTATCATT
*
9094536 ATGAAAGCATATTAGCTATTATT
1 ATGAAAGCATATTAGCTATCATT
9094559 ATGAAA
1 ATGAAA
9094565 CCAAGTTGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (23 bp):
ATGAAAGCATATTAGCTATCATT
Found at i:9094627 original size:9 final size:9
Alignment explanation
Indices: 9094615--9094646 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
9094605 ACAAATATTA
9094615 AAAATAAAC
1 AAAATAAAC
9094624 AAAATAAAC
1 AAAATAAAC
9094633 AAAATAAAC
1 AAAATAAAC
9094642 AAAAT
1 AAAAT
9094647 GCACCAAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.78, C:0.09, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAATAAAC
Found at i:9099002 original size:23 final size:23
Alignment explanation
Indices: 9098976--9099027 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
9098966 AATTAAAAAG
9098976 ATGAAAGCAT-TATAGCTATCATT
1 ATGAAAGCATAT-TAGCTATCATT
*
9098999 ATGAAAGCATATTAGCTATTATT
1 ATGAAAGCATATTAGCTATCATT
9099022 ATGAAA
1 ATGAAA
9099028 CCAAGTTGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (23 bp):
ATGAAAGCATATTAGCTATCATT
Found at i:9099090 original size:9 final size:9
Alignment explanation
Indices: 9099078--9099109 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
9099068 ACAAATATTA
9099078 AAAATAAAC
1 AAAATAAAC
9099087 AAAATAAAC
1 AAAATAAAC
9099096 AAAATAAAC
1 AAAATAAAC
9099105 AAAAT
1 AAAAT
9099110 GCACGAAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.78, C:0.09, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAATAAAC
Found at i:9103143 original size:40 final size:39
Alignment explanation
Indices: 9103076--9103153 Score: 129
Period size: 40 Copynumber: 2.0 Consensus size: 39
9103066 CGAATATAAT
*
9103076 AAATATATATTTTTATTTTTTAATTTTAAAATACTTTTA
1 AAATATATATTTTTATTTTTTAATTTTAAAATAATTTTA
*
9103115 AAATATATATTTTTTATTTTTTATTTTTAAAATAATTTT
1 AAATATATA-TTTTTATTTTTTAATTTTAAAATAATTTT
9103154 TTAATGTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
39 9 0.25
40 27 0.75
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (39 bp):
AAATATATATTTTTATTTTTTAATTTTAAAATAATTTTA
Found at i:9103607 original size:24 final size:24
Alignment explanation
Indices: 9103575--9103630 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
9103565 CATTCGATCA
9103575 AATCGAGTGGAAAACTTTCAAGAT
1 AATCGAGTGGAAAACTTTCAAGAT
*
9103599 AATCGAGTGGAAAATTTTCAAGAT
1 AATCGAGTGGAAAACTTTCAAGAT
9103623 AATCGAGT
1 AATCGAGT
9103631 TGACAAATCC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.41, C:0.11, G:0.21, T:0.27
Consensus pattern (24 bp):
AATCGAGTGGAAAACTTTCAAGAT
Found at i:9103969 original size:18 final size:18
Alignment explanation
Indices: 9103946--9103984 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
9103936 ACATCAATTT
9103946 ATTATTCAAATTATTAGA
1 ATTATTCAAATTATTAGA
* * *
9103964 ATTATTTAAGTTATTCGA
1 ATTATTCAAATTATTAGA
9103982 ATT
1 ATT
9103985 GTAAAATTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.49
Consensus pattern (18 bp):
ATTATTCAAATTATTAGA
Found at i:9106469 original size:22 final size:23
Alignment explanation
Indices: 9106444--9106491 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
9106434 ATAATAATAA
9106444 TTTTGTA-AAATAAATAAGATAT
1 TTTTGTACAAATAAATAAGATAT
* *
9106466 TTTTTTACAAATAAATGAGATAT
1 TTTTGTACAAATAAATAAGATAT
9106489 TTT
1 TTT
9106492 GACTTTATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 6 0.26
23 17 0.74
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.46
Consensus pattern (23 bp):
TTTTGTACAAATAAATAAGATAT
Found at i:9112720 original size:23 final size:24
Alignment explanation
Indices: 9112672--9112720 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
9112662 ATCGCGTTTA
*
9112672 TTCTATTTTCATTTTTACTTTTTT
1 TTCTATTTTCATTTTTACTTTGTT
* *
9112696 TTCTCTTTTCTTTTTTA-TTTGTT
1 TTCTATTTTCATTTTTACTTTGTT
9112719 TT
1 TT
9112721 GTGAAATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.08, C:0.12, G:0.02, T:0.78
Consensus pattern (24 bp):
TTCTATTTTCATTTTTACTTTGTT
Found at i:9113239 original size:10 final size:10
Alignment explanation
Indices: 9113224--9113250 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
9113214 ATTATTACTA
9113224 TATTATTTAT
1 TATTATTTAT
9113234 TATTATTTAT
1 TATTATTTAT
9113244 TATTATT
1 TATTATT
9113251 CCTATATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
TATTATTTAT
Found at i:9113330 original size:27 final size:27
Alignment explanation
Indices: 9113273--9113330 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
9113263 CACGCATTTT
* ***
9113273 CTTTATATAGTATATATATACATATTT
1 CTTTATATAATATATATATACATAAAC
* *
9113300 CTTTATATAATATATATATTCTTAAAC
1 CTTTATATAATATATATATACATAAAC
9113327 CTTT
1 CTTT
9113331 TTAAATACAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.36, C:0.10, G:0.02, T:0.52
Consensus pattern (27 bp):
CTTTATATAATATATATATACATAAAC
Found at i:9113636 original size:30 final size:31
Alignment explanation
Indices: 9113602--9113666 Score: 80
Period size: 30 Copynumber: 2.1 Consensus size: 31
9113592 GAATAAGTAT
9113602 ATATGTATGTACACTTATATTT-TACA-ATAC
1 ATATGTATGTAC-CTTATATTTGTACATATAC
* * *
9113632 ATATGTATTTTCCTTATTTTTGTACATATAC
1 ATATGTATGTACCTTATATTTGTACATATAC
9113663 ATAT
1 ATAT
9113667 TTTCTTTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 8 0.27
30 14 0.47
31 8 0.27
ACGTcount: A:0.32, C:0.12, G:0.06, T:0.49
Consensus pattern (31 bp):
ATATGTATGTACCTTATATTTGTACATATAC
Found at i:9114854 original size:9 final size:9
Alignment explanation
Indices: 9114842--9114902 Score: 61
Period size: 9 Copynumber: 6.6 Consensus size: 9
9114832 AAACATTGAA
9114842 AAAAATATT
1 AAAAATATT
9114851 AAAAATATAT
1 AAAAATAT-T
9114861 AAAAAT-TGT
1 AAAAATAT-T
9114870 AAAGAATATT
1 AAA-AATATT
* *
9114880 TAAATTATT
1 AAAAATATT
*
9114889 AAAAACATT
1 AAAAATATT
9114898 AAAAA
1 AAAAA
9114903 CCGTATAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
9 29 0.67
10 13 0.30
11 1 0.02
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (9 bp):
AAAAATATT
Found at i:9114877 original size:29 final size:28
Alignment explanation
Indices: 9114831--9114893 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 28
9114821 TGACCGTATC
9114831 AAAACATTGAAAAAAATATTAAAAATATAT
1 AAAA-ATTGAAAAAAATATTAAAAATAT-T
* * * *
9114861 AAAAATTGTAAAGAATATTTAAATTATT
1 AAAAATTGAAAAAAATATTAAAAATATT
9114889 AAAAA
1 AAAAA
9114894 CATTAAAAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 6 0.21
29 19 0.66
30 4 0.14
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (28 bp):
AAAAATTGAAAAAAATATTAAAAATATT
Found at i:9115282 original size:22 final size:21
Alignment explanation
Indices: 9115231--9115286 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
9115221 AAATGCTACT
*
9115231 TATTCACAA-TTTTTTATAAT
1 TATTCACAATTTTTTTATAAA
*
9115251 TATTCGCAATTTTTTTAAATAAA
1 TATTCACAATTTTTTT--ATAAA
9115274 T-TTCACAATTTTT
1 TATTCACAATTTTT
9115287 GATGATCTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 8 0.27
21 6 0.20
22 11 0.37
23 5 0.17
ACGTcount: A:0.34, C:0.11, G:0.02, T:0.54
Consensus pattern (21 bp):
TATTCACAATTTTTTTATAAA
Found at i:9115356 original size:20 final size:20
Alignment explanation
Indices: 9115294--9115368 Score: 55
Period size: 20 Copynumber: 3.6 Consensus size: 20
9115284 TTTGATGATC
9115294 TTTACAAATTTTAAATAGTATTT
1 TTTAC-AATTTTAAA-A-TATTT
* * *
9115317 TATA-ATTTTTAATAA-CTTT
1 TTTACAATTTTAA-AATATTT
9115336 TTTACAATTTTAAAATATTT
1 TTTACAATTTTAAAATATTT
*
9115356 TTAACAATATTTA
1 TTTACAAT-TTTA
9115369 TTTTATTTAA
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
19 8 0.20
20 17 0.41
21 12 0.29
22 1 0.02
23 3 0.07
ACGTcount: A:0.40, C:0.05, G:0.01, T:0.53
Consensus pattern (20 bp):
TTTACAATTTTAAAATATTT
Found at i:9115357 original size:21 final size:20
Alignment explanation
Indices: 9115294--9115368 Score: 62
Period size: 21 Copynumber: 3.6 Consensus size: 20
9115284 TTTGATGATC
* *
9115294 TTTACAAATTTTAAATAGTAT
1 TTTAC-AATTTTAAATACTTT
* *
9115315 TTTATAATTTTTAATAACTTT
1 TTTACAATTTTAAAT-ACTTT
9115336 TTTACAATTTTAAAATA-TTT
1 TTTACAATTTT-AAATACTTT
*
9115356 TTAACAATATTTA
1 TTTACAAT-TTTA
9115369 TTTTATTTAA
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
20 20 0.45
21 21 0.48
22 3 0.07
ACGTcount: A:0.40, C:0.05, G:0.01, T:0.53
Consensus pattern (20 bp):
TTTACAATTTTAAATACTTT
Found at i:9115392 original size:20 final size:21
Alignment explanation
Indices: 9115367--9115416 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
9115357 TAACAATATT
9115367 TATTTTATTTAA-AGTTTTAA
1 TATTTTATTTAATAGTTTTAA
*
9115387 TATTTT-TTTAATATTTTTAA
1 TATTTTATTTAATAGTTTTAA
*
9115407 -ATATTATTTA
1 TATTTTATTTA
9115417 TGATTTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 9 0.35
20 17 0.65
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (21 bp):
TATTTTATTTAATAGTTTTAA
Found at i:9121490 original size:22 final size:22
Alignment explanation
Indices: 9121456--9121504 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
9121446 AGAATTTAGA
*
9121456 ATTTTCTAAAATTTTACCTTTT
1 ATTTTATAAAATTTTACCTTTT
* *
9121478 ATTTTATAGAATTTTACTTTTT
1 ATTTTATAAAATTTTACCTTTT
*
9121500 CTTTT
1 ATTTT
9121505 TGAATTATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.24, C:0.10, G:0.02, T:0.63
Consensus pattern (22 bp):
ATTTTATAAAATTTTACCTTTT
Found at i:9123360 original size:2 final size:2
Alignment explanation
Indices: 9123355--9123385 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
9123345 ATATATATAT
*
9123355 AG AG AG AG AG AG AG AG AG CG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
9123386 AAATACCCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:9126549 original size:21 final size:20
Alignment explanation
Indices: 9126509--9126565 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
9126499 ATATTAAGAA
*
9126509 TATTATTTAAAATTCAAAAT
1 TATTATTTAAAATTAAAAAT
9126529 TATTATATTAAAA-TAATAAAT
1 TATTAT-TTAAAATTAA-AAAT
9126550 TA-TA-TTAATAATTAAA
1 TATTATTTAA-AATTAAA
9126566 TATGTATGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
18 4 0.12
19 3 0.09
20 13 0.41
21 12 0.38
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
TATTATTTAAAATTAAAAAT
Found at i:9126672 original size:21 final size:22
Alignment explanation
Indices: 9126640--9126681 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
9126630 ATGTTTTATA
9126640 ATATTGAATA-TTATAATATTTG
1 ATATTGAATATTTA-AATATTTG
9126662 ATATT-AATATTTAAATATTT
1 ATATTGAATATTTAAATATTT
9126682 TTAAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (22 bp):
ATATTGAATATTTAAATATTTG
Found at i:9139163 original size:35 final size:35
Alignment explanation
Indices: 9139123--9139193 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
9139113 TGCAACAAGG
9139123 TGATGACAACATCTAAACATGAAGCTTTGGTTTAT
1 TGATGACAACATCTAAACATGAAGCTTTGGTTTAT
9139158 TGATGACAACATCTAAACATGAAGCTTTGGTTTAT
1 TGATGACAACATCTAAACATGAAGCTTTGGTTTAT
9139193 T
1 T
9139194 ATTGCACACT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (35 bp):
TGATGACAACATCTAAACATGAAGCTTTGGTTTAT
Found at i:9140728 original size:21 final size:21
Alignment explanation
Indices: 9140703--9140743 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
9140693 GTATCCATAT
9140703 CCAGGATAACTCGGCATGTAG
1 CCAGGATAACTCGGCATGTAG
* *
9140724 CCAGGGTAACTTGGCATGTA
1 CCAGGATAACTCGGCATGTA
9140744 TCCATATCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (21 bp):
CCAGGATAACTCGGCATGTAG
Found at i:9143397 original size:21 final size:20
Alignment explanation
Indices: 9143373--9143428 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 20
9143363 TTTATATATA
9143373 TTTTAAGAATATTTTTGAAAT
1 TTTTAA-AATATTTTTGAAAT
*
9143394 TTTTATAAATA-TTTTGAAGT
1 TTTTA-AAATATTTTTGAAAT
9143414 TTTTAAAATTATTTT
1 TTTTAAAA-TATTTT
9143429 ATATTTTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
19 3 0.10
20 15 0.48
21 12 0.39
22 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (20 bp):
TTTTAAAATATTTTTGAAAT
Found at i:9145557 original size:9 final size:9
Alignment explanation
Indices: 9145538--9145574 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
9145528 TGAGTTTTCG
*
9145538 AATTTGAAT
1 AATTCGAAT
*
9145547 AACTCGAAT
1 AATTCGAAT
9145556 AATTCGAAT
1 AATTCGAAT
9145565 AATTCGAAT
1 AATTCGAAT
9145574 A
1 A
9145575 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:9145957 original size:16 final size:16
Alignment explanation
Indices: 9145938--9145980 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
9145928 ACTTTCCCTC
9145938 AAACTTTTATTCCCCA
1 AAACTTTTATTCCCCA
* *
9145954 AAACTTTTTTTTTCCCCT
1 AAAC--TTTTATTCCCCA
9145972 AAACTTTTA
1 AAACTTTTA
9145981 CTTATCACCC
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
16 8 0.36
18 14 0.64
ACGTcount: A:0.28, C:0.26, G:0.00, T:0.47
Consensus pattern (16 bp):
AAACTTTTATTCCCCA
Found at i:9145963 original size:18 final size:18
Alignment explanation
Indices: 9145942--9145979 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
9145932 TCCCTCAAAC
9145942 TTTTATTCCCCAAAACTT
1 TTTTATTCCCCAAAACTT
* *
9145960 TTTTTTTCCCCTAAACTT
1 TTTTATTCCCCAAAACTT
9145978 TT
1 TT
9145980 ACTTATCACC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.26, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTTATTCCCCAAAACTT
Found at i:9146287 original size:38 final size:37
Alignment explanation
Indices: 9146217--9146292 Score: 89
Period size: 38 Copynumber: 2.0 Consensus size: 37
9146207 CAATTTCACA
*
9146217 TTTTATTTTTAAAATAATTTTTATTAAAAAAATCATAT
1 TTTTATATTTAAAATAATTTTTATTAAAAAAAT-ATAT
* * *
9146255 TTTTATATTTAATATATTTTTTAATTCAAAAATATATA
1 TTTTATATTTAAAATAATTTTT-ATT-AAAAAAATATA
9146293 GTGATAAGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
38 19 0.59
39 6 0.19
40 7 0.22
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (37 bp):
TTTTATATTTAAAATAATTTTTATTAAAAAAATATAT
Found at i:9146499 original size:5 final size:5
Alignment explanation
Indices: 9146489--9146556 Score: 50
Period size: 5 Copynumber: 13.2 Consensus size: 5
9146479 GAACAAATAT
* * *
9146489 ATTCG ATTCG ATTCG AATTCC ATCTC- ACTCG ATTCG ATTCG AATTCC
1 ATTCG ATTCG ATTCG -ATTCG AT-TCG ATTCG ATTCG ATTCG -ATTCG
*
9146536 ATCTC- ACTCG ATTCG ATTCG A
1 AT-TCG ATTCG ATTCG ATTCG A
9146557 GAAAACTTCA
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
4 4 0.08
5 35 0.69
6 12 0.24
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.35
Consensus pattern (5 bp):
ATTCG
Found at i:9146521 original size:26 final size:26
Alignment explanation
Indices: 9146491--9146556 Score: 132
Period size: 26 Copynumber: 2.5 Consensus size: 26
9146481 ACAAATATAT
9146491 TCGATTCGATTCGAATTCCATCTCAC
1 TCGATTCGATTCGAATTCCATCTCAC
9146517 TCGATTCGATTCGAATTCCATCTCAC
1 TCGATTCGATTCGAATTCCATCTCAC
9146543 TCGATTCGATTCGA
1 TCGATTCGATTCGA
9146557 GAAAACTTCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.35
Consensus pattern (26 bp):
TCGATTCGATTCGAATTCCATCTCAC
Found at i:9147063 original size:3 final size:3
Alignment explanation
Indices: 9147055--9147087 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
9147045 TACAATGAAG
9147055 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
9147088 TTCTTTTTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:9152369 original size:22 final size:23
Alignment explanation
Indices: 9152338--9152380 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
9152328 TTTCTATTTT
*
9152338 TAAATTTAAA-AAAAAGATTTGG
1 TAAATATAAATAAAAAGATTTGG
*
9152360 TAAATATAAATAAAAATATTT
1 TAAATATAAATAAAAAGATTT
9152381 TTATGAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (23 bp):
TAAATATAAATAAAAAGATTTGG
Found at i:9153252 original size:47 final size:47
Alignment explanation
Indices: 9153182--9153276 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
9153172 ATAATTAGAT
*
9153182 GACCATTTGTATAGTAAGTTGGATCATGGGCTGAACCACCCACCCAG
1 GACCATTTGTATAGTAAGCTGGATCATGGGCTGAACCACCCACCCAG
9153229 GACCATTTGTATAGTAAGCTGGATCATGGGCTGAACCACCCACCCAG
1 GACCATTTGTATAGTAAGCTGGATCATGGGCTGAACCACCCACCCAG
9153276 G
1 G
9153277 CCTGAAAGTC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.27, C:0.26, G:0.24, T:0.22
Consensus pattern (47 bp):
GACCATTTGTATAGTAAGCTGGATCATGGGCTGAACCACCCACCCAG
Found at i:9156110 original size:15 final size:14
Alignment explanation
Indices: 9156089--9156124 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
9156079 ACAATCCTTA
*
9156089 ATAATTATCTTAAT
1 ATAATTATCCTAAT
9156103 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
9156118 ATAATTA
1 ATAATTA
9156125 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:9159416 original size:2 final size:2
Alignment explanation
Indices: 9159409--9159435 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9159399 GCTCTCCCCA
9159409 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
9159436 TTCAGTCTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:9171470 original size:2 final size:2
Alignment explanation
Indices: 9171463--9171491 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9171453 AAAAACTTTT
9171463 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
9171492 GGAAAAGATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:9187039 original size:14 final size:14
Alignment explanation
Indices: 9187016--9187046 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
9187006 TGTCGCGTTC
*
9187016 TTAGTTAATTTAGA
1 TTAGTAAATTTAGA
9187030 TTAGTAAATTTAGA
1 TTAGTAAATTTAGA
9187044 TTA
1 TTA
9187047 AAAACAATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (14 bp):
TTAGTAAATTTAGA
Found at i:9192059 original size:20 final size:21
Alignment explanation
Indices: 9192031--9192071 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
9192021 TAAGTTGTTA
9192031 TTTTATTTTT-ATTTTTGAAG
1 TTTTATTTTTAATTTTTGAAG
*
9192051 TTTTTTTTTTAATTTTTGAAG
1 TTTTATTTTTAATTTTTGAAG
9192072 AATGGTTGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.20, C:0.00, G:0.10, T:0.71
Consensus pattern (21 bp):
TTTTATTTTTAATTTTTGAAG
Found at i:9196884 original size:6 final size:7
Alignment explanation
Indices: 9196868--9196893 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
9196858 TAGAATTTAC
9196868 AAAAATA
1 AAAAATA
9196875 AAAAATA
1 AAAAATA
9196882 AAAAATA
1 AAAAATA
9196889 AAAAA
1 AAAAA
9196894 AGTTTCTTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:9230248 original size:2 final size:2
Alignment explanation
Indices: 9230241--9230271 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
9230231 CTTAATATTT
9230241 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
9230272 CGCTTACCTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:9235794 original size:221 final size:219
Alignment explanation
Indices: 9235405--9236050 Score: 802
Period size: 221 Copynumber: 2.9 Consensus size: 219
9235395 ATAATCATAT
* * * * **
9235405 TTTAACAATCATTACAATCATTATTATTATCGATCACTAAAAATAATATATATTTGACCACGGTA
1 TTTAACGATCATTAAAATCATCATTATTATCAATCACTAAAAATAATATATATTTGACCACAATA
* *
9235470 ATTAAAATTATCTACAACAAAATATATAAGGATATTTTAGTTGGCCGTTAAAACCGTTATCACTC
66 ATTAAAA-TATCTACAACAAAATATATAAGGATATTTTAGTTTGCCGTTAAAACCGTTATTACTC
* * *
9235535 TCACTCACTAAAATAAACGCATATCTTGATCGATAAATTGTTTGAATAAATTCACAATTATATTT
130 TCACTCACTAAAATAAACACATATTTTGATCGATAAATTGTTTAAATAAATTCACAATTATATTT
* *
9235600 TAATTGATCATTAAAATAAATTAGA
195 TAATTGACCATTAAAACAAATTAGA
* *
9235625 TTTAACGATCATTAAAATCATCATTATTATCTATCACTAAAAATAATATATATTTGGCCACAATA
1 TTTAACGATCATTAAAATCATCATTATTATCAATCACTAAAAATAATATATATTTGACCACAATA
* *
9235690 ATTAAAATCATCTATAACAAAATATAGTAAGGATATTTTAGTTTGCCGTTAAAACCTTTATTACT
66 ATTAAAAT-ATCTACAACAAAATATA-TAAGGATATTTTAGTTTGCCGTTAAAACCGTTATTACT
9235755 CTCACTCACTAAAATAAACACATATTTTGATCGATAAATTGTTTAAATAAATTCACAATTATATT
129 CTCACTCACTAAAATAAACACATATTTTGATCGATAAATTGTTTAAATAAATTCACAATTATATT
* *
9235820 TTAATTAACCGTTAAAACAAATTAGA
194 TTAATTGACCATTAAAACAAATTAGA
* * * * * * * * * *
9235846 TTTATAAGATAAATGCATAATGA-CATT-TTAACAATCA-TTAAAATCAT-TATTATTATCTATC
1 TTTA-ACGAT-CAT-TAAAATCATCATTATTATCAATCACTAAAAATAATATA-TATT-T-GACC
* * *
9235907 ACTAA-AAATAATATATATCTACAACAAAATATATAAGAATATTTTAG-TTGACCGTTTAAACCG
60 AC-AATAATTAA-A-ATATCTACAACAAAATATATAAGGATATTTTAGTTTG-CCGTTAAAACCG
* * *
9235970 TTATTACTATCTA-TCACTAAAATAAACACATATTTTTATCGATAAATTGTTTAAATAAGTTCAC
121 TTATTACTCTC-ACTCACTAAAATAAACACATATTTTGATCGATAAATTGTTTAAATAAATTCAC
9236034 AATTATATTTTAATTGA
185 AATTATATTTTAATTGA
9236051 AAATGCATTA
Statistics
Matches: 374, Mismatches: 39, Indels: 23
0.86 0.09 0.05
Matches are distributed among these distances:
219 1 0.00
220 83 0.22
221 135 0.36
222 16 0.04
223 112 0.30
224 25 0.07
225 2 0.01
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (219 bp):
TTTAACGATCATTAAAATCATCATTATTATCAATCACTAAAAATAATATATATTTGACCACAATA
ATTAAAATATCTACAACAAAATATATAAGGATATTTTAGTTTGCCGTTAAAACCGTTATTACTCT
CACTCACTAAAATAAACACATATTTTGATCGATAAATTGTTTAAATAAATTCACAATTATATTTT
AATTGACCATTAAAACAAATTAGA
Found at i:9239613 original size:35 final size:34
Alignment explanation
Indices: 9239574--9239640 Score: 80
Period size: 35 Copynumber: 1.9 Consensus size: 34
9239564 TTTTCCTTTA
* *
9239574 AACCTCAAATTCTAAACCTAAACCCTTAAATTTTG
1 AACCTCAAACTCGAAACCTAAACCC-TAAATTTTG
** *
9239609 AACCTTGAACTCGAATCCTAAACCCTAAATTT
1 AACCTCAAACTCGAAACCTAAACCCTAAATTT
9239641 GGAGTTTGGG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 7 0.26
35 20 0.74
ACGTcount: A:0.39, C:0.27, G:0.04, T:0.30
Consensus pattern (34 bp):
AACCTCAAACTCGAAACCTAAACCCTAAATTTTG
Found at i:9240895 original size:22 final size:19
Alignment explanation
Indices: 9240844--9240896 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 19
9240834 TACCATGTTT
*
9240844 ATTAAAATATTTATTTTTA
1 ATTAAAATATTGATTTTTA
9240863 ATTAATCAATATTGATTTTATA
1 ATTAA--AATATTGATTTT-TA
9240885 ATCATAAAATAT
1 AT--TAAAATAT
9240897 ATATAACTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
19 5 0.18
21 11 0.39
22 9 0.32
24 3 0.11
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (19 bp):
ATTAAAATATTGATTTTTA
Found at i:9250473 original size:103 final size:103
Alignment explanation
Indices: 9250294--9250503 Score: 420
Period size: 103 Copynumber: 2.0 Consensus size: 103
9250284 CGATGTTCCT
9250294 AAGAATGAGAAGATATCATGAAGCAAATGGGTAATAATAAATAAGGAAATGAGAGTTTGCTTAAA
1 AAGAATGAGAAGATATCATGAAGCAAATGGGTAATAATAAATAAGGAAATGAGAGTTTGCTTAAA
9250359 CTTGAGAATTGGAGCCATGAAAGATATAAAGAAATACA
66 CTTGAGAATTGGAGCCATGAAAGATATAAAGAAATACA
9250397 AAGAATGAGAAGATATCATGAAGCAAATGGGTAATAATAAATAAGGAAATGAGAGTTTGCTTAAA
1 AAGAATGAGAAGATATCATGAAGCAAATGGGTAATAATAAATAAGGAAATGAGAGTTTGCTTAAA
9250462 CTTGAGAATTGGAGCCATGAAAGATATAAAGAAATACA
66 CTTGAGAATTGGAGCCATGAAAGATATAAAGAAATACA
9250500 AAGA
1 AAGA
9250504 GACAGATCCT
Statistics
Matches: 107, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
103 107 1.00
ACGTcount: A:0.49, C:0.07, G:0.22, T:0.22
Consensus pattern (103 bp):
AAGAATGAGAAGATATCATGAAGCAAATGGGTAATAATAAATAAGGAAATGAGAGTTTGCTTAAA
CTTGAGAATTGGAGCCATGAAAGATATAAAGAAATACA
Found at i:9253922 original size:32 final size:33
Alignment explanation
Indices: 9253883--9253946 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
9253873 ACTTGAATGC
9253883 TGCTTCTAGT-CTAGGTGTTGGCTTATGAGTAA
1 TGCTTCTAGTCCTAGGTGTTGGCTTATGAGTAA
9253915 TGCTTCTAGTCCTAGGTGTTGGCTTATGAGTA
1 TGCTTCTAGTCCTAGGTGTTGGCTTATGAGTA
9253947 GAGTCGGAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 10 0.32
33 21 0.68
ACGTcount: A:0.17, C:0.14, G:0.28, T:0.41
Consensus pattern (33 bp):
TGCTTCTAGTCCTAGGTGTTGGCTTATGAGTAA
Found at i:9254551 original size:29 final size:29
Alignment explanation
Indices: 9254496--9254551 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
9254486 ATAATACAAA
* **
9254496 AATATTTACCAAACTAATATATGTTTTAC
1 AATACTTACCAAACTAATATAAATTTTAC
* *
9254525 AATACTTACCAAATTAGTATAAATTTT
1 AATACTTACCAAACTAATATAAATTTT
9254552 GTTGGAGGAG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 22 1.00
ACGTcount: A:0.43, C:0.12, G:0.04, T:0.41
Consensus pattern (29 bp):
AATACTTACCAAACTAATATAAATTTTAC
Found at i:9258663 original size:116 final size:116
Alignment explanation
Indices: 9258459--9258692 Score: 405
Period size: 116 Copynumber: 2.0 Consensus size: 116
9258449 CTAAATGTGT
9258459 ATAACACATTAAAACAACATTATCCATACTATCACTATTTTCCTCTATGTCAATTCAAACTATCT
1 ATAACACATTAAAACAACATTATCCATACTATCACTATTTTCCTCTATGTCAATTCAAACTATCT
*
9258524 GTCTGAGTCTGAGTCACTAATTTATTTATATCTCGAGCTACAGAGCTCCAA
66 GTCTGAGTCAGAGTCACTAATTTATTTATATCTCGAGCTACAGAGCTCCAA
* * * ** *
9258575 ATAACACATTGAAACAACATTATCCATACTATCATTATTTTCCTGTATGTCAATTCAAGTTGTCT
1 ATAACACATTAAAACAACATTATCCATACTATCACTATTTTCCTCTATGTCAATTCAAACTATCT
9258640 GTCTGAGTCAGAGTCACTAATTTATTTATATCTCGAGCTACAGAGCTCCAA
66 GTCTGAGTCAGAGTCACTAATTTATTTATATCTCGAGCTACAGAGCTCCAA
9258691 AT
1 AT
9258693 TAAGATCCGT
Statistics
Matches: 111, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
116 111 1.00
ACGTcount: A:0.33, C:0.22, G:0.10, T:0.35
Consensus pattern (116 bp):
ATAACACATTAAAACAACATTATCCATACTATCACTATTTTCCTCTATGTCAATTCAAACTATCT
GTCTGAGTCAGAGTCACTAATTTATTTATATCTCGAGCTACAGAGCTCCAA
Found at i:9260929 original size:22 final size:22
Alignment explanation
Indices: 9260904--9260952 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
9260894 TTTTTAAAAT
*
9260904 TTTTAAATAT-ATATTTATATTA
1 TTTTAAATATAATATTTA-ATGA
* *
9260926 TTTTTAATTTAATATTTAATGA
1 TTTTAAATATAATATTTAATGA
9260948 TTTTA
1 TTTTA
9260953 TGTTTATTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (22 bp):
TTTTAAATATAATATTTAATGA
Found at i:9267497 original size:29 final size:28
Alignment explanation
Indices: 9267464--9267526 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 28
9267454 CAAAAAAAGC
*
9267464 CATTTTTTCAAAATTTATCGAAATGGGT
1 CATTTTTTCAAAATTTACCGAAATGGGT
* **
9267492 CGATTTTTTGATTATTTACCGAAATGGGT
1 C-ATTTTTTCAAAATTTACCGAAATGGGT
9267521 CATTTT
1 CATTTT
9267527 CCGCGAAATC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 6 0.20
29 24 0.80
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.46
Consensus pattern (28 bp):
CATTTTTTCAAAATTTACCGAAATGGGT
Found at i:9268467 original size:29 final size:29
Alignment explanation
Indices: 9268413--9268469 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
9268403 TTCGCGGAAA
* *
9268413 TGACCCATTCCTATAAATAATTAAAAATG
1 TGACCCATTCCGATAAATAATAAAAAATG
* *
9268442 TGACCCATTTCGATAAATTAAAAAAAAA
1 TGACCCATTCCGATAAA-TAATAAAAAA
9268470 AGATTTTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 15 0.65
30 8 0.35
ACGTcount: A:0.49, C:0.16, G:0.07, T:0.28
Consensus pattern (29 bp):
TGACCCATTCCGATAAATAATAAAAAATG
Found at i:9270176 original size:16 final size:16
Alignment explanation
Indices: 9270155--9270185 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9270145 TTAATGAAAG
9270155 ATTTAGATAGCTTAGA
1 ATTTAGATAGCTTAGA
*
9270171 ATTTAGATAGTTTAG
1 ATTTAGATAGCTTAG
9270186 GCAGAGCCCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.03, G:0.19, T:0.42
Consensus pattern (16 bp):
ATTTAGATAGCTTAGA
Found at i:9276510 original size:5 final size:5
Alignment explanation
Indices: 9276500--9276528 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
9276490 ATCACTATAT
9276500 ATGTA ATGTA ATGTA ATGTA ATGT- ATGTA
1 ATGTA ATGTA ATGTA ATGTA ATGTA ATGTA
9276529 GGTATAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (5 bp):
ATGTA
Found at i:9277178 original size:3 final size:3
Alignment explanation
Indices: 9277170--9277198 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
9277160 CCATCCTTAC
9277170 GGT GGT GGT GGT GGT GGT GGT GGT GGT GG
1 GGT GGT GGT GGT GGT GGT GGT GGT GGT GG
9277199 AAATAGCGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.69, T:0.31
Consensus pattern (3 bp):
GGT
Found at i:9290044 original size:17 final size:17
Alignment explanation
Indices: 9290022--9290106 Score: 57
Period size: 17 Copynumber: 4.8 Consensus size: 17
9290012 AAAAAGTATT
*
9290022 TTAAAAATATTTTAAAA
1 TTAAAAATATTTAAAAA
*
9290039 TTAAAAA-ATAATAAAAA
1 TTAAAAATAT-TTAAAAA
*
9290056 TTATTTTAAAATATTTTAAAAT
1 TTA----AAAATA-TTTAAAAA
9290078 TTAAAAA-ATTTAAAAA
1 TTAAAAATATTTAAAAA
* *
9290094 ATAAATATATTTA
1 TTAAAAATATTTA
9290107 TTATATCGGG
Statistics
Matches: 53, Mismatches: 7, Indels: 16
0.70 0.09 0.21
Matches are distributed among these distances:
16 14 0.26
17 21 0.40
18 4 0.08
21 4 0.08
22 9 0.17
23 1 0.02
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
TTAAAAATATTTAAAAA
Found at i:9290055 original size:39 final size:38
Alignment explanation
Indices: 9290000--9290086 Score: 131
Period size: 38 Copynumber: 2.3 Consensus size: 38
9289990 AAAAATTTAT
*
9290000 TTTAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAA
1 TTTAAAAAATAAAAAAAGTATTTT-AAAATATTTTAAAA
*
9290039 -TTAAAAAATAATAAAAATTATTTTAAAATATTTTAAAA
1 TTTAAAAAATAA-AAAAAGTATTTTAAAATATTTTAAAA
9290077 TTTAAAAAAT
1 TTTAAAAAAT
9290087 TTAAAAAATA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
38 24 0.55
39 20 0.45
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (38 bp):
TTTAAAAAATAAAAAAAGTATTTTAAAATATTTTAAAA
Done.