Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 309 of 373
Found at i:104500831 original size:26 final size:26
Alignment explanation
Indices: 104500802--104500854 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
104500792 TGATTTGGGC
*
104500802 TTCGCGGGCTAATGTAAGGGACTATG
1 TTCGAGGGCTAATGTAAGGGACTATG
*
104500828 TTCGAGGGCTCATGTAAGGGACTATG
1 TTCGAGGGCTAATGTAAGGGACTATG
104500854 T
1 T
104500855 GGTGAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.23, C:0.15, G:0.34, T:0.28
Consensus pattern (26 bp):
TTCGAGGGCTAATGTAAGGGACTATG
Found at i:104507800 original size:23 final size:24
Alignment explanation
Indices: 104507770--104507825 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
104507760 AGCTCAGATA
* *
104507770 AGCTTCCCGATA-GACTCTTTATG
1 AGCTTCCCGAAATGACTCTGTATG
* *
104507793 AGCTTCCCGAAATGGCTCTGTGTG
1 AGCTTCCCGAAATGACTCTGTATG
104507817 AGCTTCCCG
1 AGCTTCCCG
104507826 TTACAAGGCT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 11 0.39
24 17 0.61
ACGTcount: A:0.18, C:0.29, G:0.23, T:0.30
Consensus pattern (24 bp):
AGCTTCCCGAAATGACTCTGTATG
Found at i:104509745 original size:22 final size:23
Alignment explanation
Indices: 104509717--104509835 Score: 80
Period size: 23 Copynumber: 5.2 Consensus size: 23
104509707 TCTCACACTA
104509717 GCCAAATAGAATATGCCA-AAAG
1 GCCAAATAGAATATGCCACAAAG
* * * *
104509739 GCCAAATGGATTACGCCATAAAG
1 GCCAAATAGAATATGCCACAAAG
* * *
104509762 GCCAAACAAAATATGCCACAAAT
1 GCCAAATAGAATATGCCACAAAG
*** ** *
104509785 GCCAAACCTAATACACCGCAAAG
1 GCCAAATAGAATATGCCACAAAG
* *
104509808 GCCAAACA-AATTACGCCACAAAG
1 GCCAAATAGAA-TATGCCACAAAG
104509831 GCCAA
1 GCCAA
104509836 CCAGAATGCG
Statistics
Matches: 76, Mismatches: 19, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
22 17 0.22
23 59 0.78
ACGTcount: A:0.46, C:0.27, G:0.15, T:0.12
Consensus pattern (23 bp):
GCCAAATAGAATATGCCACAAAG
Found at i:104509848 original size:23 final size:23
Alignment explanation
Indices: 104509731--104509835 Score: 97
Period size: 23 Copynumber: 4.6 Consensus size: 23
104509721 AATAGAATAT
***
104509731 GCCA-AAAGGCCAAATGGATTAC
1 GCCACAAAGGCCAAACAAATTAC
* * *
104509753 GCCATAAAGGCCAAACAAAATAT
1 GCCACAAAGGCCAAACAAATTAC
* *
104509776 GCCACAAATGCCAAACCTAA-TAC
1 GCCACAAAGGCCAAA-CAAATTAC
* *
104509799 ACCGCAAAGGCCAAACAAATTAC
1 GCCACAAAGGCCAAACAAATTAC
104509822 GCCACAAAGGCCAA
1 GCCACAAAGGCCAA
104509836 CCAGAATGCG
Statistics
Matches: 65, Mismatches: 15, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
22 7 0.11
23 55 0.85
24 3 0.05
ACGTcount: A:0.46, C:0.29, G:0.15, T:0.10
Consensus pattern (23 bp):
GCCACAAAGGCCAAACAAATTAC
Found at i:104526193 original size:98 final size:98
Alignment explanation
Indices: 104526024--104526221 Score: 387
Period size: 98 Copynumber: 2.0 Consensus size: 98
104526014 ATCACATGGG
*
104526024 GCTCCGAATCCGACCCATAAAACACCCCCCGTTCTGATATCCAGTTTTCTGCCCCTTCCAGAAAT
1 GCTCCGAATCCGACCCATAAAACACCCCCCGTACTGATATCCAGTTTTCTGCCCCTTCCAGAAAT
104526089 GCTTCGCCCAAGTCCTTAACTCTGTTCCCGATA
66 GCTTCGCCCAAGTCCTTAACTCTGTTCCCGATA
104526122 GCTCCGAATCCGACCCATAAAACACCCCCCGTACTGATATCCAGTTTTCTGCCCCTTCCAGAAAT
1 GCTCCGAATCCGACCCATAAAACACCCCCCGTACTGATATCCAGTTTTCTGCCCCTTCCAGAAAT
104526187 GCTTCGCCCAAGTCCTTAACTCTGTTCCCGATA
66 GCTTCGCCCAAGTCCTTAACTCTGTTCCCGATA
104526220 GC
1 GC
104526222 ATCTGCTGCA
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 99 1.00
ACGTcount: A:0.23, C:0.38, G:0.14, T:0.26
Consensus pattern (98 bp):
GCTCCGAATCCGACCCATAAAACACCCCCCGTACTGATATCCAGTTTTCTGCCCCTTCCAGAAAT
GCTTCGCCCAAGTCCTTAACTCTGTTCCCGATA
Found at i:104528811 original size:26 final size:27
Alignment explanation
Indices: 104528781--104528846 Score: 93
Period size: 26 Copynumber: 2.5 Consensus size: 27
104528771 TAAATAAAAG
104528781 GAAAGAAAGGAAAAGAA-A-AAAGGAAA
1 GAAAGAAAGGAAAAGAACATAAAGG-AA
*
104528807 GAAAGGAAGGAAAAGAACATAAAGGAA
1 GAAAGAAAGGAAAAGAACATAAAGGAA
104528834 -AAAGAAAGGAAAA
1 GAAAGAAAGGAAAA
104528847 TTTTCTCATG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
26 28 0.78
27 3 0.08
28 5 0.14
ACGTcount: A:0.70, C:0.02, G:0.27, T:0.02
Consensus pattern (27 bp):
GAAAGAAAGGAAAAGAACATAAAGGAA
Found at i:104530130 original size:27 final size:28
Alignment explanation
Indices: 104530066--104530134 Score: 79
Period size: 27 Copynumber: 2.4 Consensus size: 28
104530056 GAATATCCAA
*
104530066 CCCAAACACACCCGGAATATTATAAATCCT
1 CCCAAACACA-CCGG-ATATAATAAATCCT
*
104530096 -CCATAACACACCGG-TATAATATATCCT
1 CCCA-AACACACCGGATATAATAAATCCT
104530123 CCCAAACACACC
1 CCCAAACACACC
104530135 AATAAGGCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
27 19 0.54
28 3 0.09
29 7 0.20
30 6 0.17
ACGTcount: A:0.39, C:0.36, G:0.06, T:0.19
Consensus pattern (28 bp):
CCCAAACACACCGGATATAATAAATCCT
Found at i:104531202 original size:12 final size:12
Alignment explanation
Indices: 104531187--104531217 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
104531177 TTATCTTTTA
104531187 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
104531199 TTTTTCTTTCTC
1 TTTTTCTTTCCC
104531211 TTTTTCT
1 TTTTTCT
104531218 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:104531318 original size:16 final size:16
Alignment explanation
Indices: 104531297--104531327 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
104531287 TTTATTATTT
104531297 TATTAACATAATATAA
1 TATTAACATAATATAA
*
104531313 TATTAATATAATATA
1 TATTAACATAATATA
104531328 TTAAAATATC
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:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TATTAACATAATATAA
Found at i:104536665 original size:28 final size:28
Alignment explanation
Indices: 104536602--104536724 Score: 167
Period size: 28 Copynumber: 4.4 Consensus size: 28
104536592 ATATTAAGTC
*
104536602 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
104536629 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
104536657 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
104536685 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
104536714 CGCACACTTAG
1 CGCACACTTAG
104536725 CGCCAATCTC
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
27 21 0.25
28 48 0.56
29 16 0.19
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:104544147 original size:28 final size:28
Alignment explanation
Indices: 104544084--104544206 Score: 158
Period size: 28 Copynumber: 4.4 Consensus size: 28
104544074 ATATTAAGTC
*
104544084 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
104544111 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
104544139 CGCACACTTAGTGATACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
104544167 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
104544196 CGCACACTTAG
1 CGCACACTTAG
104544207 CGCCAATCTC
Statistics
Matches: 83, Mismatches: 11, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
27 21 0.25
28 46 0.55
29 16 0.19
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:104547265 original size:27 final size:27
Alignment explanation
Indices: 104547202--104547271 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 27
104547192 TATATGTGTT
* * * *
104547202 TTGGCGAACTATGGTCGCAGTTATGCT
1 TTGGCGAACTAAGTTCGCAGATATGCC
* *
104547229 TTTGCAAACTAAGTTCGCAGATATGCC
1 TTGGCGAACTAAGTTCGCAGATATGCC
*
104547256 TTGGCGAACTACGTTC
1 TTGGCGAACTAAGTTC
104547272 ACAGTTGTGT
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.31
Consensus pattern (27 bp):
TTGGCGAACTAAGTTCGCAGATATGCC
Found at i:104551048 original size:41 final size:41
Alignment explanation
Indices: 104550850--104551037 Score: 349
Period size: 41 Copynumber: 4.6 Consensus size: 41
104550840 AGTGAAATTA
*
104550850 TTCAGACTGTAAGTCTAGCAGGCTTAATGCCGGTGACACAT
1 TTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACAT
104550891 TTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACAT
1 TTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACAT
104550932 TTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACAT
1 TTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACAT
*
104550973 TTCAGACTATAAGTCTAGTAGGCTTAATGCCGGTGACACAT
1 TTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACAT
*
104551014 TTCGGACTATAAGTCTAGCAGGCT
1 TTCAGACTATAAGTCTAGCAGGCT
104551038 AAGAGCCGGT
Statistics
Matches: 143, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 143 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (41 bp):
TTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACAT
Found at i:104551299 original size:30 final size:32
Alignment explanation
Indices: 104551258--104551319 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
104551248 ATGTATATAT
*
104551258 ATATATATA-TGT-TGCATTCGGCATAGGTGG
1 ATATATATAGTGTATACATTCGGCATAGGTGG
*
104551288 ATATATTTATGTGTATACATTCGGCATAGGTG
1 ATATATATA-GTGTATACATTCGGCATAGGTG
104551320 AAAATAAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 8 0.30
32 3 0.11
33 16 0.59
ACGTcount: A:0.27, C:0.10, G:0.24, T:0.39
Consensus pattern (32 bp):
ATATATATAGTGTATACATTCGGCATAGGTGG
Found at i:104551336 original size:33 final size:33
Alignment explanation
Indices: 104551262--104551336 Score: 80
Period size: 33 Copynumber: 2.3 Consensus size: 33
104551252 ATATATATAT
* * * *
104551262 ATATATGT-TGCATTCGGCATAGGTGGATATAT
1 ATATATGTATACATTCGGCATAGGTGAAAATAA
* *
104551294 TTATGTGTATACATTCGGCATAGGTGAAAATAA
1 ATATATGTATACATTCGGCATAGGTGAAAATAA
*
104551327 ATGTATGTAT
1 ATATATGTAT
104551337 CTATGCATTC
Statistics
Matches: 33, Mismatches: 9, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
32 6 0.18
33 27 0.82
ACGTcount: A:0.32, C:0.08, G:0.23, T:0.37
Consensus pattern (33 bp):
ATATATGTATACATTCGGCATAGGTGAAAATAA
Found at i:104554043 original size:50 final size:52
Alignment explanation
Indices: 104553945--104554062 Score: 195
Period size: 50 Copynumber: 2.3 Consensus size: 52
104553935 ATGAACAAAT
* *
104553945 GAGTTACTTAATGCATAACTTAATTTAATGATGCAAACTTTAACTAACATGA
1 GAGTTACATAATGCATAACATAATTTAATGATGCAAACTTTAACTAACATGA
*
104553997 GAGTTACATAATGCATATCATAATTT-ATGATGCAAAC-TTAACTAACATGA
1 GAGTTACATAATGCATAACATAATTTAATGATGCAAACTTTAACTAACATGA
104554047 GAGTTACATAATGCAT
1 GAGTTACATAATGCAT
104554063 GACTTTATTA
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
50 29 0.46
51 11 0.17
52 23 0.37
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.33
Consensus pattern (52 bp):
GAGTTACATAATGCATAACATAATTTAATGATGCAAACTTTAACTAACATGA
Found at i:104555804 original size:29 final size:31
Alignment explanation
Indices: 104555756--104555819 Score: 80
Period size: 29 Copynumber: 2.1 Consensus size: 31
104555746 TTTATAATTA
*
104555756 TTTAATTAGATGATTATTATT-TATTTAATAT
1 TTTAATAAGATGATTATTATTAT-TTTAATAT
*
104555787 TTTAATAAGAT-ATT-TTATTATTTTATTAT
1 TTTAATAAGATGATTATTATTATTTTAATAT
104555816 TTTA
1 TTTA
104555820 TTTAGTCAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 16 0.53
30 4 0.13
31 10 0.33
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (31 bp):
TTTAATAAGATGATTATTATTATTTTAATAT
Found at i:104555808 original size:8 final size:8
Alignment explanation
Indices: 104555797--104555821 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
104555787 TTTAATAAGA
104555797 TATTTTAT
1 TATTTTAT
104555805 TATTTTAT
1 TATTTTAT
104555813 TATTTTAT
1 TATTTTAT
104555821 T
1 T
104555822 TAGTCAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:104555838 original size:2 final size:2
Alignment explanation
Indices: 104555831--104555862 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
104555821 TTAGTCAATA
*
104555831 TG TG TG TG TG TG TC TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
104555863 GAAAAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.03, G:0.47, T:0.50
Consensus pattern (2 bp):
TG
Found at i:104558526 original size:46 final size:46
Alignment explanation
Indices: 104558476--104558651 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
104558466 TGATTGAGCA
104558476 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
104558522 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
104558567 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
104558615 -CCTGAGCTCATTGTGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
104558652 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 59 0.54
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:104558633 original size:93 final size:93
Alignment explanation
Indices: 104558473--104558644 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
104558463 GGATGATTGA
* *
104558473 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAGT
104558538 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
104558566 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCATTGTG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCATTGAG
104558630 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
104558645 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:104560404 original size:8 final size:8
Alignment explanation
Indices: 104560391--104560421 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
104560381 CTAAAGCGGC
104560391 AAAAGCCG
1 AAAAGCCG
104560399 AAAAGCCG
1 AAAAGCCG
*
104560407 AAAAGCCA
1 AAAAGCCG
104560415 AAAAGCC
1 AAAAGCC
104560422 AGCATTTGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.55, C:0.26, G:0.19, T:0.00
Consensus pattern (8 bp):
AAAAGCCG
Found at i:104561042 original size:19 final size:19
Alignment explanation
Indices: 104561020--104561064 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
104561010 CTGTTTTGTT
*
104561020 ATGGGCTAACTGTATTGAA
1 ATGGGCCAACTGTATTGAA
* *
104561039 ATGGGCCCAACTGTGTTGAT
1 ATGGG-CCAACTGTATTGAA
104561059 ATGGGC
1 ATGGGC
104561065 AAGGCCCAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (19 bp):
ATGGGCCAACTGTATTGAA
Found at i:104561052 original size:20 final size:20
Alignment explanation
Indices: 104561027--104561064 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
104561017 GTTATGGGCT
104561027 AACTGTATTGAAATGGGCCC
1 AACTGTATTGAAATGGGCCC
* *
104561047 AACTGTGTTGATATGGGC
1 AACTGTATTGAAATGGGC
104561065 AAGGCCCAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (20 bp):
AACTGTATTGAAATGGGCCC
Found at i:104565786 original size:14 final size:14
Alignment explanation
Indices: 104565754--104565786 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
104565744 GTTAAAATTT
*
104565754 TAAAACACAACATG
1 TAAAATACAACATG
104565768 T-AAATACAACATG
1 TAAAATACAACATG
104565781 TAAAAT
1 TAAAAT
104565787 TTTGTGTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.58, C:0.15, G:0.06, T:0.21
Consensus pattern (14 bp):
TAAAATACAACATG
Found at i:104566366 original size:18 final size:19
Alignment explanation
Indices: 104566335--104566374 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
104566325 GCAAAACGAG
*
104566335 ATTATGTGAAAAGACTTGT
1 ATTATGTGAAAAGACCTGT
*
104566354 ATTA-GTGACAAGACCTGT
1 ATTATGTGAAAAGACCTGT
104566372 ATT
1 ATT
104566375 GAACAAGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (19 bp):
ATTATGTGAAAAGACCTGT
Found at i:104577060 original size:86 final size:85
Alignment explanation
Indices: 104576913--104577077 Score: 199
Period size: 86 Copynumber: 1.9 Consensus size: 85
104576903 CGAAAAGCAT
* * *
104576913 ATACAATGCCAACATCCCAGACGTGGTCTTACATGTAATCAAACATCGATGCCACTATCCCAGAC
1 ATACAATGCCAACATCCCAGACATGGTCTTACACGTAAACAAACATCGATGCCACTATCCCAGAC
104576978 AGGGTCTTACACGAAATCAG
66 AGGGTCTTACACGAAATCAG
* ** * *
104576998 ATACGATGCCAATGTCCTAGACATGGTCTTACACGTAAAACAAA-AGTCGATGCCAAC-GTCCCA
1 ATACAATGCCAACATCCCAGACATGGTCTTACACGT-AAACAAACA-TCGATGCC-ACTATCCCA
* *
104577061 TACATGGTCTTACACGA
63 GACAGGGTCTTACACGA
104577078 TACCACATAT
Statistics
Matches: 67, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
85 31 0.46
86 34 0.51
87 2 0.03
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (85 bp):
ATACAATGCCAACATCCCAGACATGGTCTTACACGTAAACAAACATCGATGCCACTATCCCAGAC
AGGGTCTTACACGAAATCAG
Found at i:104577066 original size:44 final size:43
Alignment explanation
Indices: 104576918--104577076 Score: 164
Period size: 43 Copynumber: 3.7 Consensus size: 43
104576908 AGCATATACA
* *
104576918 ATGCCAACATCCCAGACGTGGTCTTACATGT-AATCAAACATCG
1 ATGCCAACATCCCAGACATGGTCTTACACGTAAATCAAA-ATCG
* *
104576961 ATGCC-ACTATCCCAGACAGGGTCTTACACG-AAATC-AGATACG
1 ATGCCAAC-ATCCCAGACATGGTCTTACACGTAAATCAAAAT-CG
** * *
104577003 ATGCCAATGTCCTAGACATGGTCTTACACGTAAAACAAAAGTCG
1 ATGCCAACATCCCAGACATGGTCTTACACGTAAATCAAAA-TCG
* *
104577047 ATGCCAACGTCCCATACATGGTCTTACACG
1 ATGCCAACATCCCAGACATGGTCTTACACG
104577077 ATACCACATA
Statistics
Matches: 96, Mismatches: 13, Indels: 13
0.79 0.11 0.11
Matches are distributed among these distances:
41 2 0.02
42 29 0.30
43 33 0.34
44 31 0.32
45 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.22
Consensus pattern (43 bp):
ATGCCAACATCCCAGACATGGTCTTACACGTAAATCAAAATCG
Found at i:104579194 original size:19 final size:20
Alignment explanation
Indices: 104579170--104579207 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
104579160 GGTACCACCA
104579170 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
104579189 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
104579208 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:104579549 original size:93 final size:93
Alignment explanation
Indices: 104579437--104579607 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
104579427 GCCCCTAAGT
* * * *
104579437 GAACTCGGACTCACCTCAACAAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCAGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
104579502 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
104579530 GAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCAGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
104579595 CGAGTTCGGATGC
66 CGAGTTCGGATGC
104579608 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCAGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:104579597 original size:46 final size:46
Alignment explanation
Indices: 104579432--104579601 Score: 166
Period size: 46 Copynumber: 3.7 Consensus size: 46
104579422 AACCCGCCCC
* * * * * * *
104579432 TAAGTGAACTCGGACTCACCTCAACAAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCA
* * * *
104579478 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC--A-GAC-ATTTGCATCCA
* *
104579526 TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCA
104579571 TAAGTGAACTCGGACTCAACTCAACGAGTTC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC
104579602 GGATGCTCAA
Statistics
Matches: 100, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
43 6 0.06
44 3 0.03
45 3 0.03
46 53 0.53
47 26 0.26
48 2 0.02
49 3 0.03
50 4 0.04
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCA
Found at i:104579623 original size:46 final size:45
Alignment explanation
Indices: 104579482--104579623 Score: 123
Period size: 46 Copynumber: 3.1 Consensus size: 45
104579472 CATCCATAAA
104579482 TGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCA-
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT-AG
* * * * *
104579529 CGAACTCGGACTCAACTCAACGAGTTCAGACAT-TTGCATCCAT-AAG
1 TGAACTCGGACTCAACTCAACGAGTTC-G-GATGCT-CAACCATCTAG
104579575 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CTAG
104579621 TGA
1 TGA
104579624 CATGTCACTT
Statistics
Matches: 76, Mismatches: 10, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
44 8 0.11
45 3 0.04
46 31 0.41
47 29 0.38
48 1 0.01
49 3 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTAG
Found at i:104581897 original size:25 final size:25
Alignment explanation
Indices: 104581869--104581920 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
104581859 CGAAAACTTC
104581869 ATCATTCGTAGTAGCCTTAACTCAT
1 ATCATTCGTAGTAGCCTTAACTCAT
104581894 ATCATTCGTAGTAGCCTTAACTCAT
1 ATCATTCGTAGTAGCCTTAACTCAT
104581919 AT
1 AT
104581921 TCTCGATTTC
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:0.29, C:0.23, G:0.12, T:0.37
Consensus pattern (25 bp):
ATCATTCGTAGTAGCCTTAACTCAT
Found at i:104589697 original size:46 final size:46
Alignment explanation
Indices: 104589622--104589712 Score: 112
Period size: 46 Copynumber: 2.0 Consensus size: 46
104589612 CTCGTTTCTA
* * *
104589622 GTATGGTGCCATAATGTTTTACAAATATGGTCTTATTTATTTTCCG
1 GTATAGTGCCATAATGTTTTACAAATATGGTCTTAATCATTTTCCG
* * *
104589668 GTATAGTGCCATAGTGTCTTT-CAACTATGGTTTTAATCATTTTCC
1 GTATAGTGCCATAATGT-TTTACAAATATGGTCTTAATCATTTTCC
104589713 TTCATGTCAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
46 35 0.92
47 3 0.08
ACGTcount: A:0.23, C:0.15, G:0.16, T:0.45
Consensus pattern (46 bp):
GTATAGTGCCATAATGTTTTACAAATATGGTCTTAATCATTTTCCG
Found at i:104589758 original size:15 final size:16
Alignment explanation
Indices: 104589735--104589764 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
104589725 AACTCAATTC
104589735 ATATATAAACAATTAG
1 ATATATAAACAATTAG
104589751 ATAT-TAAACAATTA
1 ATATATAAACAATTA
104589765 AAACAACAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.57, C:0.07, G:0.03, T:0.33
Consensus pattern (16 bp):
ATATATAAACAATTAG
Found at i:104590272 original size:14 final size:13
Alignment explanation
Indices: 104590251--104590280 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
104590241 GTAAAATATT
104590251 TTTCGGAAAATGA
1 TTTCGGAAAATGA
104590264 TTTCTGGAAAATGA
1 TTTC-GGAAAATGA
104590278 TTT
1 TTT
104590281 ACTTTTCTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (13 bp):
TTTCGGAAAATGA
Found at i:104590296 original size:19 final size:20
Alignment explanation
Indices: 104590264--104590309 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
104590254 CGGAAAATGA
104590264 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
104590284 TTTCTGG-AAATGATTTACT
1 TTTCTGGAAAATGATTTACT
104590303 TTTCTGG
1 TTTCTGG
104590310 TGTTTGGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.24, C:0.11, G:0.17, T:0.48
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:104590424 original size:35 final size:36
Alignment explanation
Indices: 104590377--104590449 Score: 139
Period size: 35 Copynumber: 2.1 Consensus size: 36
104590367 TTTTCTGGAA
104590377 AATTTGTTTTTACATATATTAATAAATTTATATTTT
1 AATTTGTTTTTACATATATTAATAAATTTATATTTT
104590413 AATTT-TTTTTACATATATTAATAAATTTATATTTT
1 AATTTGTTTTTACATATATTAATAAATTTATATTTT
104590448 AA
1 AA
104590450 AAGAGGTTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 32 0.86
36 5 0.14
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (36 bp):
AATTTGTTTTTACATATATTAATAAATTTATATTTT
Found at i:104603617 original size:31 final size:31
Alignment explanation
Indices: 104603581--104603643 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
104603571 GGAGATGGAA
* *
104603581 AAAGTTGAAGAATGGAAGAAAAAGAAAGCTT
1 AAAGTTGAAGAAAGGAAGAAAAACAAAGCTT
* *
104603612 AAAGTTTAAGAAAGGAAGAAAAACAAGGCTT
1 AAAGTTGAAGAAAGGAAGAAAAACAAAGCTT
104603643 A
1 A
104603644 CTTGGATGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.56, C:0.05, G:0.24, T:0.16
Consensus pattern (31 bp):
AAAGTTGAAGAAAGGAAGAAAAACAAAGCTT
Found at i:104604843 original size:58 final size:59
Alignment explanation
Indices: 104604757--104604886 Score: 160
Period size: 58 Copynumber: 2.2 Consensus size: 59
104604747 ATATGTTATG
*
104604757 ATTTTTATT-AATTTATATTTTAATAATAATTATATTAAAA-ATGTTATTAAATTA-TATATT
1 ATTTTTATTAAATTT-CA-TTTAATAATAATTATATTAAAATATG--ATTAAATTATTATATT
* * *
104604817 A-TTTTATTAAATTTCATTTAATAATAATTATGTTAAAATATGATTAAATTATTTTTTT
1 ATTTTTATTAAATTTCATTTAATAATAATTATATTAAAATATGATTAAATTATTATATT
104604875 ATTTTTATTAAA
1 ATTTTTATTAAA
104604887 ATATATAGTA
Statistics
Matches: 62, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
57 9 0.15
58 26 0.42
59 21 0.34
60 6 0.10
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (59 bp):
ATTTTTATTAAATTTCATTTAATAATAATTATATTAAAATATGATTAAATTATTATATT
Found at i:104607343 original size:31 final size:31
Alignment explanation
Indices: 104607305--104607367 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
104607295 TCATATCCTT
104607305 ATTGCCAGAAAGACAATAGGAAGACAGAGAC
1 ATTGCCAGAAAGACAATAGGAAGACAGAGAC
104607336 ATTGCCAGAAAGACAATAGGAAGACAGAGAC
1 ATTGCCAGAAAGACAATAGGAAGACAGAGAC
104607367 A
1 A
104607368 ATCCAGCCTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.49, C:0.16, G:0.25, T:0.10
Consensus pattern (31 bp):
ATTGCCAGAAAGACAATAGGAAGACAGAGAC
Found at i:104609653 original size:29 final size:29
Alignment explanation
Indices: 104609620--104609688 Score: 120
Period size: 29 Copynumber: 2.4 Consensus size: 29
104609610 CAGAATTGGT
*
104609620 CAGACACAGATTTGGGCTTAAGCCTATTA
1 CAGACACAGATTTGGGCTTAAGCCCATTA
*
104609649 CAGACACAGATTTGGGCTTGAGCCCATTA
1 CAGACACAGATTTGGGCTTAAGCCCATTA
104609678 CAGACACAGAT
1 CAGACACAGAT
104609689 ATAGATACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (29 bp):
CAGACACAGATTTGGGCTTAAGCCCATTA
Found at i:104618484 original size:40 final size:41
Alignment explanation
Indices: 104618434--104618517 Score: 161
Period size: 40 Copynumber: 2.1 Consensus size: 41
104618424 TTTTGGAGTA
104618434 CTTTAAATTGTAGAATTAGATCTCT-ACTTTTTTTATACTT
1 CTTTAAATTGTAGAATTAGATCTCTAACTTTTTTTATACTT
104618474 CTTTAAATTGTAGAATTAGATCTCTAACTTTTTTTATACTT
1 CTTTAAATTGTAGAATTAGATCTCTAACTTTTTTTATACTT
104618515 CTT
1 CTT
104618518 ATGCCTATAA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 25 0.58
41 18 0.42
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.52
Consensus pattern (41 bp):
CTTTAAATTGTAGAATTAGATCTCTAACTTTTTTTATACTT
Found at i:104620553 original size:63 final size:63
Alignment explanation
Indices: 104620454--104620579 Score: 252
Period size: 63 Copynumber: 2.0 Consensus size: 63
104620444 CTAATAGTTA
104620454 AATCATTACTTATGAGAACTAAACTTTCTATTTCAGTATGAGATTATGTTGATTTATATGTTG
1 AATCATTACTTATGAGAACTAAACTTTCTATTTCAGTATGAGATTATGTTGATTTATATGTTG
104620517 AATCATTACTTATGAGAACTAAACTTTCTATTTCAGTATGAGATTATGTTGATTTATATGTTG
1 AATCATTACTTATGAGAACTAAACTTTCTATTTCAGTATGAGATTATGTTGATTTATATGTTG
104620580 TACGCATCAA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.44
Consensus pattern (63 bp):
AATCATTACTTATGAGAACTAAACTTTCTATTTCAGTATGAGATTATGTTGATTTATATGTTG
Found at i:104623468 original size:14 final size:15
Alignment explanation
Indices: 104623433--104623470 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
104623423 TTTATATGTT
104623433 ATAAATTT-TTTATA
1 ATAAATTTATTTATA
*
104623447 ATATATTTATTTATA
1 ATAAATTTATTTATA
104623462 A-AAATTTAT
1 ATAAATTTAT
104623471 GGTCAAGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 14 0.67
15 7 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATAAATTTATTTATA
Found at i:104623535 original size:21 final size:20
Alignment explanation
Indices: 104623507--104623545 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
104623497 CCATGCTATA
104623507 TATTATAAAAATAATATACT
1 TATTATAAAAATAATATACT
*
104623527 TATTCATAAAAATATTATA
1 TATT-ATAAAAATAATATA
104623546 ATTTTTTATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (20 bp):
TATTATAAAAATAATATACT
Found at i:104627789 original size:26 final size:26
Alignment explanation
Indices: 104627758--104627814 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
104627748 CTAGATTTAG
* *
104627758 AAGTAAAATCGCTTCCTGAACATTTC
1 AAGTAAAACCGCTTCCTGAACATCTC
*
104627784 AAGTAAAACCGCTTCTTGAACATCTC
1 AAGTAAAACCGCTTCCTGAACATCTC
104627810 AAGTA
1 AAGTA
104627815 TGCATTTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.28
Consensus pattern (26 bp):
AAGTAAAACCGCTTCCTGAACATCTC
Found at i:104630766 original size:7 final size:7
Alignment explanation
Indices: 104630756--104630793 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
104630746 TTTTTTCTTT
104630756 TTTATTA
1 TTTATTA
104630763 TTTATTA
1 TTTATTA
104630770 TTATATT-
1 TT-TATTA
*
104630777 TTAATTA
1 TTTATTA
104630784 TTTATTA
1 TTTATTA
104630791 TTT
1 TTT
104630794 TATCGTAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
6 3 0.11
7 20 0.74
8 4 0.15
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTATTA
Found at i:104630783 original size:21 final size:21
Alignment explanation
Indices: 104630754--104630810 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
104630744 CTTTTTTTCT
*
104630754 TTTTTATTATTTATTATTATA
1 TTTTAATTATTTATTATTATA
*
104630775 TTTTAATTATTTATTATTTTA
1 TTTTAATTATTTATTATTATA
** *
104630796 TCGTAATCATTTATT
1 TTTTAATTATTTATT
104630811 TTTTAATTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTTAATTATTTATTATTATA
Found at i:104630822 original size:15 final size:16
Alignment explanation
Indices: 104630788--104630833 Score: 58
Period size: 15 Copynumber: 2.8 Consensus size: 16
104630778 TAATTATTTA
104630788 TTATTTTATCGTAATCAT
1 TTATTTTAT--TAATCAT
*
104630806 TTATTTT-TTAATTAT
1 TTATTTTATTAATCAT
104630821 TTATTTTATTAAT
1 TTATTTTATTAAT
104630834 AAAATTTCTC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 13 0.50
16 5 0.19
17 1 0.04
18 7 0.27
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.65
Consensus pattern (16 bp):
TTATTTTATTAATCAT
Found at i:104631318 original size:5 final size:5
Alignment explanation
Indices: 104631310--104631342 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
104631300 AAAATTGTGA
104631310 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
104631343 GAACACACAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:104632872 original size:20 final size:20
Alignment explanation
Indices: 104632849--104632886 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
104632839 TTAAATTCCA
*
104632849 AAAGATAAATACAAATAATT
1 AAAGATAAATAAAAATAATT
104632869 AAAGATAAATAAAAATAA
1 AAAGATAAATAAAAATAA
104632887 ATCCTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.21
Consensus pattern (20 bp):
AAAGATAAATAAAAATAATT
Found at i:104635803 original size:24 final size:23
Alignment explanation
Indices: 104635757--104635810 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
104635747 AACCCTAATA
*
104635757 TAATATTAATCTAACATCAATCT
1 TAATATTAATATAACATCAATCT
* **
104635780 CTAATATTAATATAATATTTATCT
1 -TAATATTAATATAACATCAATCT
104635804 TAATATT
1 TAATATT
104635811 TTCGTCGGCA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 7 0.27
24 19 0.73
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (23 bp):
TAATATTAATATAACATCAATCT
Found at i:104641157 original size:30 final size:30
Alignment explanation
Indices: 104641121--104641235 Score: 144
Period size: 30 Copynumber: 3.8 Consensus size: 30
104641111 ACTTTTCTCA
*
104641121 ACTAGCCACACCTT-TTCCACCACCAACTCC
1 ACTAGCCACA-CTTGCTCCACCACCAACTCC
*
104641151 ACTAGCCACACCTT-CTCCACCACCAAATCC
1 ACTAGCCACA-CTTGCTCCACCACCAACTCC
** *
104641181 ACTAGCCACACTTGCTCCATTACCTACTCC
1 ACTAGCCACACTTGCTCCACCACCAACTCC
*
104641211 ACTAACCACACTTGCTCCACCACCA
1 ACTAGCCACACTTGCTCCACCACCA
104641236 CTTGTACCTA
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
29 3 0.04
30 71 0.96
ACGTcount: A:0.28, C:0.48, G:0.04, T:0.20
Consensus pattern (30 bp):
ACTAGCCACACTTGCTCCACCACCAACTCC
Found at i:104641792 original size:23 final size:24
Alignment explanation
Indices: 104641758--104641808 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
104641748 ATTCTTTTAA
* *
104641758 TATATTAGGTATATTTA-AAATTT
1 TATATTACGTATATATATAAATTT
*
104641781 TATATTACGTATATATATATATTT
1 TATATTACGTATATATATAAATTT
104641805 TATA
1 TATA
104641809 CTATTTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 15 0.62
24 9 0.38
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.53
Consensus pattern (24 bp):
TATATTACGTATATATATAAATTT
Found at i:104641822 original size:29 final size:29
Alignment explanation
Indices: 104641781--104641897 Score: 77
Period size: 27 Copynumber: 4.3 Consensus size: 29
104641771 TTTAAAATTT
**
104641781 TATATTACGTATATATATATATTTTATAC
1 TATATTATTTATATATATATATTTTATAC
* * * *
104641810 --TA-T-TTTATTTATATATCTTTAATAT
1 TATATTATTTATATATATATATTTTATAC
* *
104641835 TATATTATTTATATATATATTTTTTCTAC
1 TATATTATTTATATATATATATTTTATAC
* * * *
104641864 -ATGTTATCT-TATGTATATATCTTA-AC
1 TATATTATTTATATATATATATTTTATAC
104641890 TATATTAT
1 TATATTAT
104641898 GTATGTATTT
Statistics
Matches: 65, Mismatches: 18, Indels: 12
0.68 0.19 0.13
Matches are distributed among these distances:
25 16 0.25
26 3 0.05
27 21 0.32
28 8 0.12
29 17 0.26
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (29 bp):
TATATTATTTATATATATATATTTTATAC
Found at i:104641842 original size:25 final size:23
Alignment explanation
Indices: 104641796--104641850 Score: 74
Period size: 25 Copynumber: 2.3 Consensus size: 23
104641786 TACGTATATA
*
104641796 TATATATTTTATACTATTTTATT
1 TATATATTTTATACTATATTATT
*
104641819 TATATATCTTTAATATTATATTATT
1 TATATAT-TTT-ATACTATATTATT
104641844 TATATAT
1 TATATAT
104641851 ATATTTTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 7 0.25
24 3 0.11
25 18 0.64
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (23 bp):
TATATATTTTATACTATATTATT
Found at i:104641920 original size:25 final size:25
Alignment explanation
Indices: 104641872--104641957 Score: 83
Period size: 25 Copynumber: 3.6 Consensus size: 25
104641862 ACATGTTATC
*
104641872 TTATGTATATA-TCTT-A-ACTATA
1 TTATGTATATATTTTTAACACTATA
*
104641894 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATATTTTTAACACTATA
* *
104641919 TTATGTACATATTTTTAATA-T-TA
1 TTATGTATATATTTTTAACACTATA
* *
104641942 TCATGTATTTATTTTT
1 TTATGTATATATTTTT
104641958 TATATATGTA
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
22 10 0.19
23 18 0.34
24 2 0.04
25 23 0.43
ACGTcount: A:0.31, C:0.07, G:0.06, T:0.56
Consensus pattern (25 bp):
TTATGTATATATTTTTAACACTATA
Found at i:104641954 original size:23 final size:24
Alignment explanation
Indices: 104641874--104641964 Score: 73
Period size: 23 Copynumber: 3.9 Consensus size: 24
104641864 ATGTTATCTT
*
104641874 ATGTATATA-TCTTAACTATAT-T-
1 ATGTATATATTTTTAA-TATATATC
* * *
104641896 ATGTATGTATTTTTAACACTATATT
1 ATGTATATATTTTTAATA-TATATC
*
104641921 ATGTACATATTTTTAATAT-TATC
1 ATGTATATATTTTTAATATATATC
* *
104641944 ATGTATTTATTTTTTATATAT
1 ATGTATATATTTTTAATATAT
104641965 GTACATATTG
Statistics
Matches: 54, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
22 9 0.17
23 27 0.50
24 3 0.06
25 15 0.28
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (24 bp):
ATGTATATATTTTTAATATATATC
Found at i:104642110 original size:16 final size:15
Alignment explanation
Indices: 104642086--104642133 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
104642076 TAATTATTAT
*
104642086 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
104642102 TATTTTAATATTTTA
1 TATTTTAATATTTTA
104642117 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
104642133 T
1 T
104642134 TATTCCCATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:104642121 original size:7 final size:8
Alignment explanation
Indices: 104642086--104642137 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
104642076 TAATTATTAT
*
104642086 TATTCTAA
1 TATTTTAA
*
104642094 TATTTTGA
1 TATTTTAA
104642102 TATTTTAA
1 TATTTTAA
104642110 TATTTT-A
1 TATTTTAA
104642117 TATTTTATA
1 TATTTTA-A
*
104642126 TATTTTAT
1 TATTTTAA
104642134 TATT
1 TATT
104642138 CCCATCATTG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:104646529 original size:16 final size:15
Alignment explanation
Indices: 104646489--104646530 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
104646479 ATCAATCTAA
104646489 AATATTATTTATATT
1 AATATTATTTATATT
104646504 AATATATATTTAATAGTT
1 AATAT-TATTT-ATA-TT
104646522 AA-ATTATTT
1 AATATTATTT
104646531 TTTATTTTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 5 0.21
16 10 0.42
17 5 0.21
18 4 0.17
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (15 bp):
AATATTATTTATATT
Found at i:104654109 original size:17 final size:17
Alignment explanation
Indices: 104654087--104654120 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
104654077 AAAGGCAGTG
104654087 AACTTAATTAATTAAGA
1 AACTTAATTAATTAAGA
104654104 AACTTAATTAATTAAGA
1 AACTTAATTAATTAAGA
104654121 CCAAAAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (17 bp):
AACTTAATTAATTAAGA
Found at i:104654907 original size:18 final size:18
Alignment explanation
Indices: 104654884--104654932 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 18
104654874 TTATAAAATA
104654884 ATATTATATTAATTATAT
1 ATATTATATTAATTATAT
*
104654902 ATATTAAATAATAATTATAT
1 ATATT--ATATTAATTATAT
104654922 ATATTTATATT
1 ATA-TTATATT
104654933 TATATTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 5 0.19
19 4 0.15
20 15 0.58
21 2 0.08
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATATTATATTAATTATAT
Found at i:104655717 original size:6 final size:6
Alignment explanation
Indices: 104655700--104655731 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
104655690 ACACTTCTTC
104655700 TCCCCTT TCCCCT TCCCCT TCCCCT TCCCCT T
1 TCCCC-T TCCCCT TCCCCT TCCCCT TCCCCT T
104655732 TTGAAATCGG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.00, C:0.62, G:0.00, T:0.38
Consensus pattern (6 bp):
TCCCCT
Found at i:104657015 original size:17 final size:18
Alignment explanation
Indices: 104656982--104657018 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
104656972 TGTTTCCTTT
*
104656982 GAGGTCCATGATAATTGG
1 GAGGTCCAAGATAATTGG
104657000 GAGGTCCAAG-TAATTGG
1 GAGGTCCAAGATAATTGG
104657017 GA
1 GA
104657019 ATTCCATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.30, C:0.11, G:0.35, T:0.24
Consensus pattern (18 bp):
GAGGTCCAAGATAATTGG
Found at i:104659277 original size:14 final size:13
Alignment explanation
Indices: 104659258--104659287 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
104659248 CCAGAAAAGT
104659258 AAATTATTTTCCAG
1 AAATTATTTTCC-G
104659272 AAATTATTTTCCG
1 AAATTATTTTCCG
104659285 AAA
1 AAA
104659288 AACATTTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (13 bp):
AAATTATTTTCCG
Found at i:104662939 original size:23 final size:24
Alignment explanation
Indices: 104662897--104662941 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
104662887 TTGAGTTTTG
*
104662897 AATTTTGAAAAAATAGAGAAATTA
1 AATTTTGAAAAAAAAGAGAAATTA
*
104662921 AATTTT-AAAAAAAATAGAAAT
1 AATTTTGAAAAAAAAGAGAAAT
104662942 ATAGGGATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.29
Consensus pattern (24 bp):
AATTTTGAAAAAAAAGAGAAATTA
Found at i:104671541 original size:11 final size:12
Alignment explanation
Indices: 104671514--104671542 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
104671504 ACAATAAGAA
104671514 CATTCAAATATT
1 CATTCAAATATT
104671526 CATTCAAATA-T
1 CATTCAAATATT
104671537 CATTCA
1 CATTCA
104671543 CCATTAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.41
12 10 0.59
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.38
Consensus pattern (12 bp):
CATTCAAATATT
Found at i:104675685 original size:19 final size:19
Alignment explanation
Indices: 104675658--104675710 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
104675648 TATGAAAAAA
* *
104675658 AATAGAAATAAATAATATT
1 AATAAAAATAAATAATATG
104675677 AATAAAAATAAAATAA-ATG
1 AATAAAAAT-AAATAATATG
104675696 AAT-AAAAT-AATAATA
1 AATAAAAATAAATAATA
104675711 ACTAACGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
16 5 0.17
17 1 0.03
18 5 0.17
19 13 0.43
20 6 0.20
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (19 bp):
AATAAAAATAAATAATATG
Found at i:104675700 original size:13 final size:13
Alignment explanation
Indices: 104675658--104675710 Score: 51
Period size: 13 Copynumber: 4.3 Consensus size: 13
104675648 TATGAAAAAA
104675658 AATAGAAATAAAT
1 AATAGAAATAAAT
**
104675671 AATATTAATAAA-
1 AATAGAAATAAAT
104675683 AATA-AAATAAAT
1 AATAGAAATAAAT
104675695 GAATA-AAAT-AAT
1 -AATAGAAATAAAT
104675707 AATA
1 AATA
104675711 ACTAACGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
11 10 0.29
12 7 0.20
13 18 0.51
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (13 bp):
AATAGAAATAAAT
Found at i:104675704 original size:24 final size:24
Alignment explanation
Indices: 104675655--104675711 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 24
104675645 TACTATGAAA
*
104675655 AAAAATAGAAATAAATAATATTAAT
1 AAAAATA-AAATAAATAATATAAAT
104675680 AAAAATAAAATAAATGAATA-AAAT
1 AAAAATAAAATAAAT-AATATAAAT
*
104675704 AATAATAA
1 AAAAATAA
104675712 CTAACGAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 18 0.62
25 11 0.38
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.25
Consensus pattern (24 bp):
AAAAATAAAATAAATAATATAAAT
Found at i:104679378 original size:22 final size:22
Alignment explanation
Indices: 104679344--104679389 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
104679334 TCTTTTAAAA
*
104679344 CACAAACATTCAATTATATTGG
1 CACAAACAATCAATTATATTGG
*
104679366 CACAATCAATCAATTATATTGG
1 CACAAACAATCAATTATATTGG
104679388 CA
1 CA
104679390 TAATACATCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (22 bp):
CACAAACAATCAATTATATTGG
Found at i:104680990 original size:51 final size:51
Alignment explanation
Indices: 104680914--104681015 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
104680904 AAATGAGAGA
104680914 AAATGCTCCCAATTCGGGTGAAAAGTGAGGTAGTTGCAGAGTTCTTAAAAC
1 AAATGCTCCCAATTCGGGTGAAAAGTGAGGTAGTTGCAGAGTTCTTAAAAC
104680965 AAATGCTCCCAATTCGGGTGAAAAGTGAGGTAGTTGCAGAGTTCTTAAAAC
1 AAATGCTCCCAATTCGGGTGAAAAGTGAGGTAGTTGCAGAGTTCTTAAAAC
104681016 TGAAAATGCC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.25
Consensus pattern (51 bp):
AAATGCTCCCAATTCGGGTGAAAAGTGAGGTAGTTGCAGAGTTCTTAAAAC
Found at i:104705670 original size:22 final size:22
Alignment explanation
Indices: 104705644--104705689 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
104705634 TTGAGCTGGA
104705644 AATGGGAAGCTCTTTCGAGTTG
1 AATGGGAAGCTCTTTCGAGTTG
104705666 AATGGGAAGCTCTTTCGAGTTG
1 AATGGGAAGCTCTTTCGAGTTG
104705688 AA
1 AA
104705690 CGGGTGGTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.26, C:0.13, G:0.30, T:0.30
Consensus pattern (22 bp):
AATGGGAAGCTCTTTCGAGTTG
Found at i:104708417 original size:43 final size:43
Alignment explanation
Indices: 104708369--104708518 Score: 153
Period size: 43 Copynumber: 3.5 Consensus size: 43
104708359 GTCACCAAGA
*
104708369 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCTTTGTAT
1 TGTGATTACATGTAAGACCATGTCTAGGACATTGGCTTTGTAT
*
104708412 TGTGATTACGTGTAAGACCATGTCTAGGACATTGG-TATTGT-T
1 TGTGATTACATGTAAGACCATGTCTAGGACATTGGCT-TTGTAT
* * * * * * *
104708454 AGTCAATTACGTGTAAGACCTTGTCTAGGACAATGGCATCG-AT
1 TGT-GATTACATGTAAGACCATGTCTAGGACATTGGCTTTGTAT
* *
104708497 ATGTGATAATATGTAAGACCAT
1 -TGTGATTACATGTAAGACCAT
104708519 CTTTGGGATA
Statistics
Matches: 88, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
42 4 0.05
43 82 0.93
44 2 0.02
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTAGGACATTGGCTTTGTAT
Found at i:104709603 original size:22 final size:22
Alignment explanation
Indices: 104709578--104709619 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
104709568 GTTAGTAAAG
104709578 ATGTGAAGTTAGTTGAATTCAT
1 ATGTGAAGTTAGTTGAATTCAT
*
104709600 ATGTGGAGTTAGTTGAATTC
1 ATGTGAAGTTAGTTGAATTC
104709620 TTAAGTCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.29, C:0.05, G:0.26, T:0.40
Consensus pattern (22 bp):
ATGTGAAGTTAGTTGAATTCAT
Found at i:104711166 original size:21 final size:21
Alignment explanation
Indices: 104711137--104711186 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
104711127 TACACGTCTA
* * *
104711137 TGTGGAGGCCACACATGCCTG
1 TGTGAAGGCCACACACGCCCG
104711158 TGTGAAGGCCACACACGCCCG
1 TGTGAAGGCCACACACGCCCG
*
104711179 TGTAAAGG
1 TGTGAAGG
104711187 GGACACTCCC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.24, C:0.28, G:0.32, T:0.16
Consensus pattern (21 bp):
TGTGAAGGCCACACACGCCCG
Found at i:104713136 original size:27 final size:28
Alignment explanation
Indices: 104713074--104713136 Score: 85
Period size: 27 Copynumber: 2.3 Consensus size: 28
104713064 GATTTTATGC
104713074 ATTTAATTTTTAATTATTTTAATAAATG
1 ATTTAATTTTTAATTATTTTAATAAATG
* *
104713102 ATGT-ATTTTTAATTATTTTAATTAAT-
1 ATTTAATTTTTAATTATTTTAATAAATG
*
104713128 TTTTAATTT
1 ATTTAATTT
104713137 ATTATTCAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 2 0.07
27 25 0.83
28 3 0.10
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (28 bp):
ATTTAATTTTTAATTATTTTAATAAATG
Found at i:104721800 original size:21 final size:22
Alignment explanation
Indices: 104721776--104721818 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
104721766 TAAAAAATTA
*
104721776 AGTA-TGTTGCATTGCAAAAGC
1 AGTATTGTTGCACTGCAAAAGC
*
104721797 AGTATTGTTGTACTGCAAAAGC
1 AGTATTGTTGCACTGCAAAAGC
104721819 TGATTCTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (22 bp):
AGTATTGTTGCACTGCAAAAGC
Found at i:104725104 original size:39 final size:39
Alignment explanation
Indices: 104725045--104725124 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
104725035 GTCTGTGCCT
*
104725045 AAATGTGAGGGAGAAGTTAATGTGGCAACTGATTCTTCA
1 AAATCTGAGGGAGAAGTTAATGTGGCAACTGATTCTTCA
*
104725084 AAATCTGAGGGAGAGGTTAATGTGGCAACTGATTCTTCA
1 AAATCTGAGGGAGAAGTTAATGTGGCAACTGATTCTTCA
104725123 AA
1 AA
104725125 GGCTGCTGTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.28
Consensus pattern (39 bp):
AAATCTGAGGGAGAAGTTAATGTGGCAACTGATTCTTCA
Found at i:104745387 original size:24 final size:23
Alignment explanation
Indices: 104745352--104745396 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
104745342 GAATAAACAT
* *
104745352 AAGTGGAAATGGAGATGAAGAGG
1 AAGTAGAAATGGAGAAGAAGAGG
104745375 AAGTAGAAGATGGAGAAGAAGA
1 AAGTAGAA-ATGGAGAAGAAGA
104745397 ATGGGCGGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.49, C:0.00, G:0.40, T:0.11
Consensus pattern (23 bp):
AAGTAGAAATGGAGAAGAAGAGG
Found at i:104747525 original size:24 final size:24
Alignment explanation
Indices: 104747456--104747525 Score: 61
Period size: 24 Copynumber: 2.9 Consensus size: 24
104747446 TTTAACTTAA
* * *
104747456 ATAAAAAAAATTCAGATCTCAATCT
1 ATAAAAATAATT-AAATCTAAATCT
* *
104747481 ATAAAAATTATTAAATTTAAATCT
1 ATAAAAATAATTAAATCTAAATCT
*
104747505 -TAAATAATAATTTAATCTAAA
1 ATAAA-AATAATTAAATCTAAA
104747526 AATTAAAAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
23 4 0.11
24 22 0.61
25 10 0.28
ACGTcount: A:0.54, C:0.09, G:0.01, T:0.36
Consensus pattern (24 bp):
ATAAAAATAATTAAATCTAAATCT
Found at i:104752687 original size:20 final size:19
Alignment explanation
Indices: 104752657--104752694 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
104752647 TATAGGGGTG
104752657 ATTTAAAATTTTATCATTA
1 ATTTAAAATTTTATCATTA
104752676 ATTTATAAATTTTATCATT
1 ATTTA-AAATTTTATCATT
104752695 TTGGTCGGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (19 bp):
ATTTAAAATTTTATCATTA
Found at i:104762520 original size:3 final size:3
Alignment explanation
Indices: 104762506--104762537 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
104762496 AGCGATATTA
*
104762506 AAT AAA AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
104762538 ATCTAAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:104762718 original size:15 final size:14
Alignment explanation
Indices: 104762647--104762725 Score: 54
Period size: 15 Copynumber: 5.4 Consensus size: 14
104762637 ATTAATATAG
*
104762647 AAATAGAAATAGA-
1 AAATAAAAATAGAT
104762660 AATATAATAAATAGA-
1 AA-ATAA-AAATAGAT
** *
104762675 AATATAGCAATAGTAG
1 AA-ATAAAAATAG-AT
*
104762691 AAATATAAATAGAT
1 AAATAAAAATAGAT
104762705 AAATAAAAATTAGAT
1 AAATAAAAA-TAGAT
104762720 AAATAA
1 AAATAA
104762726 TAGTATTAGA
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
13 2 0.04
14 17 0.31
15 33 0.61
16 2 0.04
ACGTcount: A:0.65, C:0.01, G:0.10, T:0.24
Consensus pattern (14 bp):
AAATAAAAATAGAT
Found at i:104763474 original size:16 final size:15
Alignment explanation
Indices: 104763437--104763484 Score: 53
Period size: 16 Copynumber: 3.2 Consensus size: 15
104763427 TTAGTGAAAG
104763437 ATATTTAT-TAATAA
1 ATATTTATATAATAA
* *
104763451 ATAATTATATTATAA
1 ATATTTATATAATAA
*
104763466 TATATTTATATGATAA
1 -ATATTTATATAATAA
104763482 ATA
1 ATA
104763485 AATGTAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
14 7 0.25
15 8 0.29
16 13 0.46
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (15 bp):
ATATTTATATAATAA
Found at i:104765800 original size:45 final size:45
Alignment explanation
Indices: 104765736--104765928 Score: 271
Period size: 45 Copynumber: 4.3 Consensus size: 45
104765726 CTGTTACCGC
* *
104765736 TACTGCTACTGTTACCGATTCGACACTTCGTGTGTCGAATATTGT
1 TACTGTTACTGTTACCGATTCGACACTTTGTGTGTCGAATATTGT
* * *
104765781 TACTGCTACTGTTACCGATTCGGCACTGTGTGTGTCGAATATTGT
1 TACTGTTACTGTTACCGATTCGACACTTTGTGTGTCGAATATTGT
* * *
104765826 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCAAATATTGT
1 TACTGTTACTGTTACCGATTCGACACTTTGTGTGTCGAATATTGT
** *
104765871 TACTGTTACCATTACCGATTC-AGCACTTTGTGTGTTGAATATTGT
1 TACTGTTACTGTTACCGATTCGA-CACTTTGTGTGTCGAATATTGT
104765916 TACTGTTACTGTT
1 TACTGTTACTGTT
104765929 TCGGATTTGT
Statistics
Matches: 134, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 134 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (45 bp):
TACTGTTACTGTTACCGATTCGACACTTTGTGTGTCGAATATTGT
Found at i:104766119 original size:18 final size:18
Alignment explanation
Indices: 104766098--104766288 Score: 165
Period size: 18 Copynumber: 10.6 Consensus size: 18
104766088 TAACTGATTA
*
104766098 TTACTGAATAATTAACTG
1 TTACTGAATAATTGACTG
* *
104766116 TTACCGGATAATTGACTG
1 TTACTGAATAATTGACTG
*
104766134 TTACTGGATAATTGACTG
1 TTACTGAATAATTGACTG
* * *
104766152 TTACTGAATAACTGAATA
1 TTACTGAATAATTGACTG
*
104766170 TTACTGAATAATTGA-TCA
1 TTACTGAATAATTGACT-G
* *
104766188 TTACTGAATAACTGATTG
1 TTACTGAATAATTGACTG
*
104766206 TCACTGAATGAA-TGACTG
1 TTACTGAAT-AATTGACTG
* * *
104766224 CTACTGAATAACTT-AATAA
1 TTACTGAATAA-TTGACT-G
* *
104766243 TTACTGAATATTTGA-TT
1 TTACTGAATAATTGACTG
104766260 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
*
104766278 TTACTGGATAA
1 TTACTGAATAA
104766289 CCGATCAATT
Statistics
Matches: 142, Mismatches: 23, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
17 17 0.12
18 111 0.78
19 14 0.10
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:104766222 original size:72 final size:72
Alignment explanation
Indices: 104766086--104766288 Score: 214
Period size: 72 Copynumber: 2.8 Consensus size: 72
104766076 AAAGGTATAA
* * * * * * * *
104766086 AATAACTGATTATTACTGAATAATT-AACTGTTACCGGATAATTGACTGTTACTGGATAATTGAC
1 AATAACTGAATATTACTGAATAATTGATC-ATTACTGAATAACTGACTGTCACTGAATAATTGAC
*
104766150 TGTTACTG
65 TGCTACTG
*
104766158 AATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTGATTGTCACTGAATGAA-TGAC
1 AATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTGACTGTCACTGAAT-AATTGAC
104766222 TGCTACTG
65 TGCTACTG
* * * * * *
104766230 AATAACTTAATAATTACTGAATATTTGAT-TTTACTGAATAATTGACTGTTACTGGATAA
1 AATAACTGAAT-ATTACTGAATAATTGATCATTACTGAATAACTGACTGTCACTGAATAA
104766289 CCGATCAATT
Statistics
Matches: 111, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
71 2 0.02
72 89 0.80
73 20 0.18
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (72 bp):
AATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTGACTGTCACTGAATAATTGACT
GCTACTG
Found at i:104767538 original size:17 final size:16
Alignment explanation
Indices: 104767488--104767545 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 16
104767478 GGGCGAGAAG
104767488 TAAAAGTTTAGGAGAAAAA
1 TAAAAGTTTAGG-G--AAA
*
104767507 TAAAAAGTTTTGGGAAA
1 T-AAAAGTTTAGGGAAA
104767524 TAAAAGTTTGAGGGAAA
1 TAAAAGTTT-AGGGAAA
104767541 GTAAA
1 -TAAA
104767546 TAGGGGGAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
16 8 0.24
17 10 0.29
18 4 0.12
19 2 0.06
20 10 0.29
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (16 bp):
TAAAAGTTTAGGGAAA
Found at i:104772993 original size:35 final size:35
Alignment explanation
Indices: 104772954--104773023 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
104772944 TTGGATTTGG
104772954 TATGTTTATAATTTGGATTAAAATGATGCTTTGAT
1 TATGTTTATAATTTGGATTAAAATGATGCTTTGAT
104772989 TATGTTTATAATTTGGATTAAAATGATGCTTTGAT
1 TATGTTTATAATTTGGATTAAAATGATGCTTTGAT
104773024 GACTTGTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.31, C:0.03, G:0.17, T:0.49
Consensus pattern (35 bp):
TATGTTTATAATTTGGATTAAAATGATGCTTTGAT
Found at i:104773021 original size:18 final size:18
Alignment explanation
Indices: 104772965--104773021 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
104772955 ATGTTTATAA
104772965 TTTGGATTAAAATGATGC
1 TTTGGATTAAAATGATGC
*** * **
104772983 TTT-GATTATGTTTATAA
1 TTTGGATTAAAATGATGC
104773000 TTTGGATTAAAATGATGC
1 TTTGGATTAAAATGATGC
104773018 TTTG
1 TTTG
104773022 ATGACTTGTT
Statistics
Matches: 26, Mismatches: 12, Indels: 2
0.65 0.30 0.05
Matches are distributed among these distances:
17 11 0.42
18 15 0.58
ACGTcount: A:0.30, C:0.04, G:0.19, T:0.47
Consensus pattern (18 bp):
TTTGGATTAAAATGATGC
Found at i:104780101 original size:27 final size:28
Alignment explanation
Indices: 104780059--104780187 Score: 151
Period size: 27 Copynumber: 4.8 Consensus size: 28
104780049 AGGAAGCGTC
* *
104780059 CTGGTGGCTATGCCACAATTTATCT-AT
1 CTGGTGGCTCTGCCACAATATATCTGAT
* *
104780086 CTAGTGGCTCTACCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAATATATCTGAT
*
104780112 CCTGGTGGCTATGCCACAAT-TATCTGAT
1 -CTGGTGGCTCTGCCACAATATATCTGAT
*
104780140 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAATATATCTGAT
*
104780167 CTGGTGGCTCTACCACAATAT
1 CTGGTGGCTCTGCCACAATAT
104780188 CTGTATTTGG
Statistics
Matches: 86, Mismatches: 10, Indels: 11
0.80 0.09 0.10
Matches are distributed among these distances:
26 10 0.12
27 69 0.80
28 7 0.08
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (28 bp):
CTGGTGGCTCTGCCACAATATATCTGAT
Found at i:104780147 original size:54 final size:54
Alignment explanation
Indices: 104780056--104780199 Score: 202
Period size: 54 Copynumber: 2.7 Consensus size: 54
104780046 TGGAGGAAGC
*
104780056 GTCCTGGTGGCTATGCCACAATTTATCT-ATCTAGTGGCTCTACCACATATATCT
1 GTCCTGGTGGCTATGCCACAA-TTATCTGATCTGGTGGCTCTACCACATATATCT
*
104780110 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCT
* * * *
104780164 GTTCTGGTGGCTCTACCACAA-TATCTGTATTTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
104780200 ACTTCGTCAC
Statistics
Matches: 82, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
53 12 0.15
54 70 0.85
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.35
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCT
Found at i:104788506 original size:34 final size:34
Alignment explanation
Indices: 104788463--104788531 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
104788453 ATACTACAGG
* *
104788463 TAAAACTGCTTTTTCAGTTTCTTTTAGAAATCCT
1 TAAAACTGCTTTTTCAGTTCCTTCTAGAAATCCT
104788497 TAAAACTGCTTTTTCAGTTCCTTCTAGAAATCCT
1 TAAAACTGCTTTTTCAGTTCCTTCTAGAAATCCT
104788531 T
1 T
104788532 CTAAGTTCCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.26, C:0.20, G:0.09, T:0.45
Consensus pattern (34 bp):
TAAAACTGCTTTTTCAGTTCCTTCTAGAAATCCT
Found at i:104789642 original size:32 final size:32
Alignment explanation
Indices: 104789601--104789675 Score: 107
Period size: 32 Copynumber: 2.3 Consensus size: 32
104789591 ATATTATACT
*
104789601 AGCCGAAACCCTTTTACCCTA-TTTCCTCCCAA
1 AGCCCAAACCCTTTTACCCTATTTTCC-CCCAA
* *
104789633 AGCCCAAACCTTTTTACTCTATTTTCCCCCAA
1 AGCCCAAACCCTTTTACCCTATTTTCCCCCAA
104789665 AGCCCAAACCC
1 AGCCCAAACCC
104789676 CATTCCCCTT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
32 33 0.87
33 5 0.13
ACGTcount: A:0.27, C:0.41, G:0.05, T:0.27
Consensus pattern (32 bp):
AGCCCAAACCCTTTTACCCTATTTTCCCCCAA
Found at i:104789806 original size:42 final size:42
Alignment explanation
Indices: 104789759--104789849 Score: 128
Period size: 42 Copynumber: 2.2 Consensus size: 42
104789749 CCAACCACCC
* **
104789759 AAACCCTTAAATTTATGCTTCTTCTTCAAAAATCCCTAAATT
1 AAACCCTAAAATCCATGCTTCTTCTTCAAAAATCCCTAAATT
* **
104789801 AAACCCCAAAATCCATTTTTCTTCTTCAAAAATCCCTAAATT
1 AAACCCTAAAATCCATGCTTCTTCTTCAAAAATCCCTAAATT
104789843 AAACCCT
1 AAACCCT
104789850 CCATTCTTCT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.37, C:0.27, G:0.01, T:0.34
Consensus pattern (42 bp):
AAACCCTAAAATCCATGCTTCTTCTTCAAAAATCCCTAAATT
Found at i:104789854 original size:37 final size:39
Alignment explanation
Indices: 104789776--104789864 Score: 128
Period size: 42 Copynumber: 2.3 Consensus size: 39
104789766 TAAATTTATG
104789776 CTTCTTCTTCAAAAATCCCTAAATTAAACCCCAAAATCCATT
1 CTTCTTCTTCAAAAATCCCTAAATTAAACCCC---ATCCATT
*
104789818 TTTCTTCTTCAAAAATCCCTAAATTAAA-CCC-TCCATT
1 CTTCTTCTTCAAAAATCCCTAAATTAAACCCCATCCATT
104789855 CTTCTTCTTC
1 CTTCTTCTTC
104789865 TTCTTCTTCT
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
37 15 0.33
41 3 0.07
42 27 0.60
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.37
Consensus pattern (39 bp):
CTTCTTCTTCAAAAATCCCTAAATTAAACCCCATCCATT
Found at i:104789861 original size:3 final size:3
Alignment explanation
Indices: 104789853--104789878 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
104789843 AAACCCTCCA
104789853 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
104789879 TTTTTTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:104792331 original size:16 final size:16
Alignment explanation
Indices: 104792297--104792362 Score: 50
Period size: 16 Copynumber: 4.2 Consensus size: 16
104792287 ATTTTAATCC
* *
104792297 TTTTTTCTATATATATA
1 TTTTTTATATA-ATTTA
104792314 TTTTTTATATAATTTA
1 TTTTTTATATAATTTA
104792330 TTTATTT-TA-AA--TA
1 TTT-TTTATATAATTTA
* *
104792343 TTTTGTATATTATTTA
1 TTTTTTATATAATTTA
104792359 TTTT
1 TTTT
104792363 ACTTTAAACC
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
12 2 0.05
13 7 0.17
14 1 0.03
15 2 0.05
16 15 0.38
17 13 0.32
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (16 bp):
TTTTTTATATAATTTA
Found at i:104792344 original size:29 final size:30
Alignment explanation
Indices: 104792311--104792370 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 30
104792301 TTCTATATAT
* *
104792311 ATATTTTTTATATAATTTA-TTTATTTTAA
1 ATATTTTGTATATAATTTATTTTACTTTAA
*
104792340 ATATTTTGTATATTATTTATTTTACTTTAA
1 ATATTTTGTATATAATTTATTTTACTTTAA
104792370 A
1 A
104792371 CCTTATTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 17 0.63
30 10 0.37
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (30 bp):
ATATTTTGTATATAATTTATTTTACTTTAA
Found at i:104792382 original size:30 final size:28
Alignment explanation
Indices: 104792315--104792382 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 28
104792305 ATATATATAT
* *
104792315 TTTTTATATAATTTATTTATTTTAAATA
1 TTTTTATATAATTTATTTACTTTAAACA
* *
104792343 TTTTGTATATTATTTATTTTACTTTAAACC
1 TTTT-TATATAATTTA-TTTACTTTAAACA
104792373 TTATTTATAT
1 TT-TTTATAT
104792383 GTAAAAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 4 0.12
29 10 0.30
30 17 0.52
31 2 0.06
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.63
Consensus pattern (28 bp):
TTTTTATATAATTTATTTACTTTAAACA
Found at i:104792407 original size:12 final size:12
Alignment explanation
Indices: 104792392--104792437 Score: 65
Period size: 12 Copynumber: 3.6 Consensus size: 12
104792382 TGTAAAAAAA
104792392 TATTTATTTTAT
1 TATTTATTTTAT
104792404 TATTTTATTATGTAT
1 TA-TTTATT-T-TAT
104792419 TATTTATTTTAT
1 TATTTATTTTAT
104792431 TATTTAT
1 TATTTAT
104792438 ATTTTATTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
12 12 0.39
13 7 0.23
14 7 0.23
15 5 0.16
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (12 bp):
TATTTATTTTAT
Found at i:104792421 original size:15 final size:13
Alignment explanation
Indices: 104792394--104792445 Score: 70
Period size: 14 Copynumber: 3.8 Consensus size: 13
104792384 TAAAAAAATA
104792394 TTTATTTTATTAT
1 TTTATTTTATTAT
104792407 TTTATTATGTATTA-
1 TTTATT-T-TATTAT
104792421 TTTATTTTATTAT
1 TTTATTTTATTAT
104792434 TTATATTTTATT
1 TT-TATTTTATT
104792446 GTACATTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
12 5 0.14
13 9 0.26
14 16 0.46
15 5 0.14
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (13 bp):
TTTATTTTATTAT
Found at i:104792421 original size:23 final size:23
Alignment explanation
Indices: 104792395--104792445 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 23
104792385 AAAAAAATAT
104792395 TTATTTTATTATTTTATTATGTA
1 TTATTTTATTATTTTATTATGTA
*
104792418 TTA---T-TTATTTTATTATTTA
1 TTATTTTATTATTTTATTATGTA
104792437 -TATTTTATT
1 TTATTTTATT
104792446 GTACATTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 9
0.70 0.03 0.27
Matches are distributed among these distances:
18 2 0.09
19 14 0.61
20 1 0.04
21 1 0.04
22 2 0.09
23 3 0.13
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (23 bp):
TTATTTTATTATTTTATTATGTA
Found at i:104792427 original size:19 final size:19
Alignment explanation
Indices: 104792403--104792475 Score: 66
Period size: 19 Copynumber: 4.1 Consensus size: 19
104792393 ATTTATTTTA
104792403 TTATTTTATTATGTATTAT
1 TTATTTTATTATGTATTAT
104792422 TTATTTTATTA--T-TTA-
1 TTATTTTATTATGTATTAT
* **
104792437 -TATTTTATTGTACATTAT
1 TTATTTTATTATGTATTAT
* *
104792455 TTATTATATTATGTATAAT
1 TTATTTTATTATGTATTAT
104792474 TT
1 TT
104792476 TAAAATTTGT
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
14 9 0.21
16 3 0.07
17 4 0.10
19 26 0.62
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.66
Consensus pattern (19 bp):
TTATTTTATTATGTATTAT
Found at i:104792436 original size:7 final size:7
Alignment explanation
Indices: 104792399--104792466 Score: 52
Period size: 7 Copynumber: 9.7 Consensus size: 7
104792389 AAATATTTAT
104792399 TTTATTA
1 TTTATTA
104792406 TTTTATTA
1 -TTTATTA
*
104792414 TGTATTA
1 TTTATTA
104792421 TTTA-T-
1 TTTATTA
104792426 TTTATTA
1 TTTATTA
104792433 TTTA-TA
1 TTTATTA
*
104792439 TTTTATTG
1 -TTTATTA
**
104792447 TACATTA
1 TTTATTA
104792454 TTTATTA
1 TTTATTA
104792461 TATTAT
1 T-TTAT
104792467 GTATAATTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
5 4 0.09
6 4 0.09
7 27 0.57
8 12 0.26
ACGTcount: A:0.28, C:0.01, G:0.03, T:0.68
Consensus pattern (7 bp):
TTTATTA
Found at i:104792454 original size:33 final size:33
Alignment explanation
Indices: 104792399--104792477 Score: 95
Period size: 33 Copynumber: 2.3 Consensus size: 33
104792389 AAATATTTAT
** *
104792399 TTTATTATTTTATTATGTATTATTTATTTTATTA
1 TTTA-TATTTTATTATACATTATTTATTATATTA
*
104792433 TTTATATTTTATTGTACATTATTTATTATATTA
1 TTTATATTTTATTATACATTATTTATTATATTA
*
104792466 TGTATAATTTTA
1 TTTAT-ATTTTA
104792478 AAATTTGTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
33 29 0.74
34 10 0.26
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.66
Consensus pattern (33 bp):
TTTATATTTTATTATACATTATTTATTATATTA
Found at i:104792530 original size:15 final size:15
Alignment explanation
Indices: 104792491--104792531 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 15
104792481 TTTGTAAATT
104792491 ATTATTAAATATTAC
1 ATTATTAAATATTAC
* *
104792506 ATTTTTATATA-T-C
1 ATTATTAAATATTAC
104792519 ATTATTAAATATT
1 ATTATTAAATATT
104792532 TAGTATGTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
13 10 0.48
14 2 0.10
15 9 0.43
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (15 bp):
ATTATTAAATATTAC
Found at i:104792825 original size:22 final size:23
Alignment explanation
Indices: 104792783--104792840 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 23
104792773 ATAATTTGTT
* *
104792783 TATTTATTTTTGTATCTTTTTTG
1 TATTTATTTTAGTATCTTTTTAG
104792806 TATTTA-TTTAGTAT-TGTTTTAG
1 TATTTATTTTAGTATCT-TTTTAG
104792828 TATATTTATTTTA
1 --TATTTATTTTA
104792841 TCTCATAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
21 1 0.03
22 12 0.41
23 6 0.21
24 6 0.21
25 4 0.14
ACGTcount: A:0.21, C:0.02, G:0.09, T:0.69
Consensus pattern (23 bp):
TATTTATTTTAGTATCTTTTTAG
Found at i:104792873 original size:18 final size:18
Alignment explanation
Indices: 104792850--104792884 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
104792840 ATCTCATAAA
*
104792850 TTATTTGTTATTTTTATG
1 TTATTTATTATTTTTATG
*
104792868 TTATTTATTGTTTTTAT
1 TTATTTATTATTTTTAT
104792885 ATATTTGCAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (18 bp):
TTATTTATTATTTTTATG
Found at i:104793049 original size:119 final size:112
Alignment explanation
Indices: 104792926--104793139 Score: 266
Period size: 115 Copynumber: 1.8 Consensus size: 112
104792916 TTATTTTAAG
* * **
104792926 TTATATTTGCATGAAATATTATTGTATATATATTATGTAATTTATATTGTTATATTCATTGTTTT
1 TTATATCTGCATGAAATATTA----ATATATATTATGTAATTTATATCGTTAT-TT-ATCATTTT
* * *
104792991 CTATGTTGTATTTTGCATGAAATGTTAATGTATGTATATTTATGTTATTTATGA
60 CTATATTATA-TTTGCATGAAATGTTAAAGTATGTATATTTATGTTATTTATGA
* * *
104793045 TTATATCTGCATGAAATGTTAATGTATATTATGTAATTTATGTCGTTATTTATCATTTTCTATAT
1 TTATATCTGCATGAAATATTAATATATATTATGTAATTTATATCGTTATTTATCATTTTCTATAT
*
104793110 TATATTTGTATGAAATGTTAAAGTATGTAT
66 TATATTTGCATGAAATGTTAAAGTATGTAT
104793140 CATGTAGTTT
Statistics
Matches: 84, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
112 24 0.29
113 14 0.17
114 2 0.02
115 25 0.30
119 19 0.23
ACGTcount: A:0.30, C:0.04, G:0.13, T:0.53
Consensus pattern (112 bp):
TTATATCTGCATGAAATATTAATATATATTATGTAATTTATATCGTTATTTATCATTTTCTATAT
TATATTTGCATGAAATGTTAAAGTATGTATATTTATGTTATTTATGA
Found at i:104801451 original size:187 final size:187
Alignment explanation
Indices: 104801058--104801432 Score: 750
Period size: 187 Copynumber: 2.0 Consensus size: 187
104801048 CTTAAAAACC
104801058 AATTCAAAGCAATTCTAAATCAACCATTCTTAACCAATAATCATACCACATATGCATACACACAT
1 AATTCAAAGCAATTCTAAATCAACCATTCTTAACCAATAATCATACCACATATGCATACACACAT
104801123 TTAAACTCTTATTAATTCATTTCCAATAATGCTAAAGTACTTAATTAATTTACCCACAATAAGTA
66 TTAAACTCTTATTAATTCATTTCCAATAATGCTAAAGTACTTAATTAATTTACCCACAATAAGTA
104801188 AAACTTTTAAAGTTTACAAAATAACCTCTTTTTACCAAGTTAAATACCACACCACCT
131 AAACTTTTAAAGTTTACAAAATAACCTCTTTTTACCAAGTTAAATACCACACCACCT
104801245 AATTCAAAGCAATTCTAAATCAACCATTCTTAACCAATAATCATACCACATATGCATACACACAT
1 AATTCAAAGCAATTCTAAATCAACCATTCTTAACCAATAATCATACCACATATGCATACACACAT
104801310 TTAAACTCTTATTAATTCATTTCCAATAATGCTAAAGTACTTAATTAATTTACCCACAATAAGTA
66 TTAAACTCTTATTAATTCATTTCCAATAATGCTAAAGTACTTAATTAATTTACCCACAATAAGTA
104801375 AAACTTTTAAAGTTTACAAAATAACCTCTTTTTACCAAGTTAAATACCACACCACCT
131 AAACTTTTAAAGTTTACAAAATAACCTCTTTTTACCAAGTTAAATACCACACCACCT
104801432 A
1 A
104801433 TGTACATGTC
Statistics
Matches: 188, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
187 188 1.00
ACGTcount: A:0.42, C:0.22, G:0.04, T:0.32
Consensus pattern (187 bp):
AATTCAAAGCAATTCTAAATCAACCATTCTTAACCAATAATCATACCACATATGCATACACACAT
TTAAACTCTTATTAATTCATTTCCAATAATGCTAAAGTACTTAATTAATTTACCCACAATAAGTA
AAACTTTTAAAGTTTACAAAATAACCTCTTTTTACCAAGTTAAATACCACACCACCT
Found at i:104806815 original size:22 final size:22
Alignment explanation
Indices: 104806789--104806845 Score: 114
Period size: 22 Copynumber: 2.6 Consensus size: 22
104806779 ACAATTTTTA
104806789 TTTTATTTTTCTTCACTAACAT
1 TTTTATTTTTCTTCACTAACAT
104806811 TTTTATTTTTCTTCACTAACAT
1 TTTTATTTTTCTTCACTAACAT
104806833 TTTTATTTTTCTT
1 TTTTATTTTTCTT
104806846 TATGGTTTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.19, C:0.16, G:0.00, T:0.65
Consensus pattern (22 bp):
TTTTATTTTTCTTCACTAACAT
Found at i:104806841 original size:27 final size:27
Alignment explanation
Indices: 104806782--104806841 Score: 85
Period size: 22 Copynumber: 2.4 Consensus size: 27
104806772 TATAGATACA
104806782 ATTTTTATTTTATTTTTCTTCACTAAC
1 ATTTTTATTTTATTTTTCTTCACTAAC
104806809 A----T-TTTTATTTTTCTTCACTAAC
1 ATTTTTATTTTATTTTTCTTCACTAAC
104806831 ATTTTTATTTT
1 ATTTTTATTTT
104806842 TCTTTATGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
22 21 0.75
23 1 0.04
26 1 0.04
27 5 0.18
ACGTcount: A:0.22, C:0.13, G:0.00, T:0.65
Consensus pattern (27 bp):
ATTTTTATTTTATTTTTCTTCACTAAC
Found at i:104807739 original size:30 final size:30
Alignment explanation
Indices: 104807704--104807761 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
104807694 TAGGCAGTTC
* *
104807704 CACACGGGTA-ATCCACATGTCCGTGTGTGA
1 CACACGGGTAGA-CCACACGCCCGTGTGTGA
104807734 CACACGGGTAGACCACACGCCCGTGTGT
1 CACACGGGTAGACCACACGCCCGTGTGT
104807762 CATGGCCGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.22, C:0.31, G:0.28, T:0.19
Consensus pattern (30 bp):
CACACGGGTAGACCACACGCCCGTGTGTGA
Found at i:104808949 original size:3 final size:3
Alignment explanation
Indices: 104808941--104809014 Score: 148
Period size: 3 Copynumber: 24.7 Consensus size: 3
104808931 TATCAGACTT
104808941 ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC
1 ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC
104808989 ACC ACC ACC ACC ACC ACC ACC ACC AC
1 ACC ACC ACC ACC ACC ACC ACC ACC AC
104809015 AACTACCGTT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.34, C:0.66, G:0.00, T:0.00
Consensus pattern (3 bp):
ACC
Found at i:104811451 original size:26 final size:26
Alignment explanation
Indices: 104811422--104811529 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
104811412 TGGTACAAAT
*
104811422 TGATAATGGGTTGGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
104811448 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
104811474 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
104811500 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
104811526 TGAT
1 TGAT
104811530 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.31, C:0.07, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:104813000 original size:28 final size:26
Alignment explanation
Indices: 104812969--104813032 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
104812959 AATTACTTGA
* **
104812969 ATACCCCTATGTATGGAAAATTACTGTT
1 ATACCCCTA-G-ATGCAAAATTACCATT
*
104812997 ATACCCCTAGGTGCAAAATTACCATT
1 ATACCCCTAGATGCAAAATTACCATT
104813023 ATACCCCTAG
1 ATACCCCTAG
104813033 TGTTACTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 22 0.69
27 1 0.03
28 9 0.28
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (26 bp):
ATACCCCTAGATGCAAAATTACCATT
Done.