Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 123 of 328
Found at i:35105580 original size:159 final size:159
Alignment explanation
Indices: 35105411--35105728 Score: 609
Period size: 159 Copynumber: 2.0 Consensus size: 159
35105401 TGTGTTATGT
35105411 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCCGA
*
35105476 ATGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATA
66 ATGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCAGAATGGCTAATGTGAAATA
*
35105541 CATGTGTGATATGTATATGTGGTAAAGCC
131 CATGTGTGATATGAATATGTGGTAAAGCC
*
35105570 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGTTATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCCGA
35105635 ATGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCAGAATGGCTAATGTGAAATA
66 ATGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCAGAATGGCTAATGTGAAATA
35105700 CATGTGTGATATGAATATGTGGTAAAGCC
131 CATGTGTGATATGAATATGTGGTAAAGCC
35105729 GAATGGCTAA
Statistics
Matches: 156, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
159 156 1.00
ACGTcount: A:0.34, C:0.08, G:0.27, T:0.31
Consensus pattern (159 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCAGAATGGCTAATGTGAAATA
CATGTGTGATATGAATATGTGGTAAAGCC
Found at i:35105583 original size:111 final size:111
Alignment explanation
Indices: 35105459--35105679 Score: 433
Period size: 111 Copynumber: 2.0 Consensus size: 111
35105449 TGTGATATGT
35105459 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCCGA
35105524 ATGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCC
66 ATGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCC
*
35105570 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGTTATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCCGA
35105635 ATGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGC
66 ATGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGC
35105680 AGAATGGCTA
Statistics
Matches: 109, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
111 109 1.00
ACGTcount: A:0.33, C:0.09, G:0.27, T:0.31
Consensus pattern (111 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCC
Found at i:35105720 original size:207 final size:207
Alignment explanation
Indices: 35105363--35105744 Score: 737
Period size: 207 Copynumber: 1.8 Consensus size: 207
35105353 TGTGATATGT
*
35105363 ATATGTGGTAAAGCTGAATGGCTAATGTGAAATACATGTGTGTTATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGTTATGTATATGTGGTAAAGCCGA
*
35105428 ATGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATA
66 ATGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCAGAATGGCTAATGTGAAATA
*
35105493 CATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTATA
131 CATGTGTGATATGAATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTATA
35105558 TGTGGTAAAGCC
196 TGTGGTAAAGCC
35105570 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGTTATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGTTATGTATATGTGGTAAAGCCGA
35105635 ATGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCAGAATGGCTAATGTGAAATA
66 ATGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCAGAATGGCTAATGTGAAATA
35105700 CATGTGTGATATGAATATGTGGTAAAGCCGAATGGCTAATGTGAA
131 CATGTGTGATATGAATATGTGGTAAAGCCGAATGGCTAATGTGAA
35105745 TGTTGTAACA
Statistics
Matches: 172, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
207 172 1.00
ACGTcount: A:0.34, C:0.08, G:0.27, T:0.31
Consensus pattern (207 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGTTATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCAGAATGGCTAATGTGAAATA
CATGTGTGATATGAATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTATA
TGTGGTAAAGCC
Found at i:35105843 original size:37 final size:37
Alignment explanation
Indices: 35105793--35105911 Score: 229
Period size: 37 Copynumber: 3.2 Consensus size: 37
35105783 ATATATTCCC
35105793 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
35105830 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
*
35105867 GGTAAGACCCGATGACTACGTGTAGAGATTATGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
35105904 GGTAAGAC
1 GGTAAGAC
35105912 TTCGTAATAA
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
37 81 1.00
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.24
Consensus pattern (37 bp):
GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
Found at i:35107644 original size:17 final size:17
Alignment explanation
Indices: 35107622--35107655 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
35107612 ATTCCTTCTC
35107622 TTCATCATCACTTGGCA
1 TTCATCATCACTTGGCA
35107639 TTCATCATCACTTGGCA
1 TTCATCATCACTTGGCA
35107656 AATCTACTAG
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:0.24, C:0.29, G:0.12, T:0.35
Consensus pattern (17 bp):
TTCATCATCACTTGGCA
Found at i:35109074 original size:48 final size:48
Alignment explanation
Indices: 35109018--35109113 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
35109008 TCTTGCCATG
*
35109018 TATTTATAGAAGCGAACGGTAGGGAGTTTAACCACGCTTGTGCTCTAT
1 TATTTATAGAAGCGAACGGTAGGGAGTTTAACCACGCTCGTGCTCTAT
35109066 TATTTATAGAAGCGAACGGTAGGGAGTTTAACCACGCTCGTGCTCTAT
1 TATTTATAGAAGCGAACGGTAGGGAGTTTAACCACGCTCGTGCTCTAT
35109114 CTCTTAAGGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (48 bp):
TATTTATAGAAGCGAACGGTAGGGAGTTTAACCACGCTCGTGCTCTAT
Found at i:35111260 original size:21 final size:23
Alignment explanation
Indices: 35111217--35111260 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
35111207 AACACTACTC
*
35111217 AAATATGTACATGGGACAATATA
1 AAATATATACATGGGACAATATA
35111240 AAATATATACAT-GGA-AATATA
1 AAATATATACATGGGACAATATA
35111261 TAAGTAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
22 3 0.15
23 11 0.55
ACGTcount: A:0.52, C:0.07, G:0.14, T:0.27
Consensus pattern (23 bp):
AAATATATACATGGGACAATATA
Found at i:35111261 original size:23 final size:23
Alignment explanation
Indices: 35111217--35111273 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 23
35111207 AACACTACTC
* *
35111217 AAATATGTACATGGGACAATATA
1 AAATATATACATGGGAAAATATA
35111240 AAATATATACAT-GGAAATATATA
1 AAATATATACATGGGAAA-ATATA
35111263 AGTAATATATA
1 A--AATATATA
35111274 ACTAATAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 4 0.14
23 17 0.59
25 8 0.28
ACGTcount: A:0.53, C:0.05, G:0.12, T:0.30
Consensus pattern (23 bp):
AAATATATACATGGGAAAATATA
Found at i:35111362 original size:22 final size:22
Alignment explanation
Indices: 35111267--35111381 Score: 81
Period size: 21 Copynumber: 5.0 Consensus size: 22
35111257 TATATAAGTA
*
35111267 ATATATAACTAATAATATCAAAAT
1 ATATATAA-T-ATAATATTAAAAT
* * *
35111291 ATACA-CATAGTAATATATAAAAG
1 ATATATAATA-TAATAT-TAAAAT
*
35111314 ATATATGAATATAATATAATAGGAAT
1 ATATAT-AATATAATAT--TA-AAAT
35111340 ATATATAATATAATATTAAAAT
1 ATATATAATATAATATTAAAAT
* *
35111362 ATA-ATAATGTAACATTAAAA
1 ATATATAATATAATATTAAAA
35111382 AATACATGAT
Statistics
Matches: 74, Mismatches: 11, Indels: 15
0.74 0.11 0.15
Matches are distributed among these distances:
21 16 0.22
22 13 0.18
23 11 0.15
24 10 0.14
25 16 0.22
26 8 0.11
ACGTcount: A:0.57, C:0.04, G:0.05, T:0.33
Consensus pattern (22 bp):
ATATATAATATAATATTAAAAT
Found at i:35111363 original size:18 final size:19
Alignment explanation
Indices: 35111321--35111367 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
35111311 AAGATATATG
35111321 AATATAATATAATAGGAAT
1 AATATAATATAATAGGAAT
**
35111340 ATATATAATATAATATTAA-
1 A-ATATAATATAATAGGAAT
35111359 AATATAATA
1 AATATAATA
35111368 ATGTAACATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 8 0.32
19 2 0.08
20 15 0.60
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (19 bp):
AATATAATATAATAGGAAT
Found at i:35111363 original size:33 final size:33
Alignment explanation
Indices: 35111267--35111367 Score: 85
Period size: 35 Copynumber: 2.8 Consensus size: 33
35111257 TATATAAGTA
* *
35111267 ATATATAACTAATAATATCAAAATATACACATAGTAAT
1 ATATATAA-T-ATAATATTAAAATAT--A-ATAGGAAT
* * * *
35111305 ATATAAAAGATATATGAATATAATATAATAGGAAT
1 ATATATAATATA-AT-ATTAAAATATAATAGGAAT
35111340 ATATATAATATAATATTAAAATATAATA
1 ATATATAATATAATATTAAAATATAATA
35111368 ATGTAACATT
Statistics
Matches: 51, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
33 12 0.24
34 2 0.04
35 17 0.33
36 4 0.08
37 2 0.04
38 14 0.27
ACGTcount: A:0.57, C:0.04, G:0.05, T:0.34
Consensus pattern (33 bp):
ATATATAATATAATATTAAAATATAATAGGAAT
Found at i:35111459 original size:26 final size:24
Alignment explanation
Indices: 35111411--35111459 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
35111401 GTATAGTATT
*
35111411 AAGAATACACATATATAATATATG
1 AAGAATACACATATATAAAATATG
*
35111435 AAGAATATACATAATACTAAAATAT
1 AAGAATACACAT-ATA-TAAAATAT
35111460 TTAGGTAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 11 0.52
25 3 0.14
26 7 0.33
ACGTcount: A:0.57, C:0.08, G:0.06, T:0.29
Consensus pattern (24 bp):
AAGAATACACATATATAAAATATG
Found at i:35111723 original size:2 final size:2
Alignment explanation
Indices: 35111679--35111704 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
35111669 AAATATGAAA
35111679 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
35111705 TTACATAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:35111723 original size:23 final size:23
Alignment explanation
Indices: 35111706--35111758 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
35111696 TATATATATT
35111706 TACATAATAAAAATATATACTAA
1 TACATAATAAAAATATATACTAA
* *
35111729 TACATAATAATAATA-ATAATAA
1 TACATAATAAAAATATATACTAA
35111751 TA-ATAATA
1 TACATAATA
35111759 GTAATACTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 6 0.21
22 8 0.29
23 14 0.50
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (23 bp):
TACATAATAAAAATATATACTAA
Found at i:35111740 original size:3 final size:3
Alignment explanation
Indices: 35111709--35111780 Score: 81
Period size: 3 Copynumber: 23.3 Consensus size: 3
35111699 ATATATTTAC
* *
35111709 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* * *
35111756 ATA GTA ATA CTA ATA ATA CTA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
35111781 CATAAAAATA
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
3 51 0.89
4 6 0.11
ACGTcount: A:0.61, C:0.06, G:0.01, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:35115506 original size:47 final size:45
Alignment explanation
Indices: 35115396--35115568 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 45
35115386 TCATGTGTGA
35115396 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATT-ATGA-GAG
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGG---CATTGA-GACGAG
* * *
35115443 TC-GGTATAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGG
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATTGAGACGA-G
* *
35115490 GCTAGTGTAAGACATGTCTGGGACATGCAAT-GGCCTTGAGACGTAA
1 GCTAGTGTAAGACATGTCTGGGACATGC-ATCGGCATTGAGACG-AG
*
35115536 GCCAGTGTAAGACATGTCTGGGACATGGCATCG
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCG
35115569 ACTTGTGATA
Statistics
Matches: 107, Mismatches: 9, Indels: 20
0.79 0.07 0.15
Matches are distributed among these distances:
45 6 0.06
46 50 0.47
47 37 0.35
48 14 0.13
ACGTcount: A:0.27, C:0.19, G:0.32, T:0.23
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACGAG
Found at i:35115585 original size:46 final size:45
Alignment explanation
Indices: 35115393--35115607 Score: 139
Period size: 46 Copynumber: 4.6 Consensus size: 45
35115383 CATTCATGTG
* * * *
35115393 TGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGC--CACATTA
1 TGAGCCAGTGTAAGACATGTCTGGGACATGCATCGACTTGAGA-TA
* * * * *
35115437 TGAGAGTCGGTATAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGA
1 T--GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGAC-TTGAGA-TA
* * * * **
35115488 -GGGCTAGTGTAAGACATGTCTGGGACATGCAATGGCCTTGAGACG
1 TGAGCCAGTGTAAGACATGTCTGGGACATGC-ATCGACTTGAGATA
* *
35115533 TAAGCCAGTGTAAGACATGTCTGGGACATGGCATCGACTTGTGATA
1 TGAGCCAGTGTAAGACATGTCTGGGACAT-GCATCGACTTGAGATA
* * *
35115579 TGAGCCAGTATAAGATCGTGTCTAGGACA
1 TGAGCCAGTGTAAGA-CATGTCTGGGACA
35115608 AGGCGTCGGC
Statistics
Matches: 131, Mismatches: 29, Indels: 19
0.73 0.16 0.11
Matches are distributed among these distances:
44 1 0.01
46 65 0.50
47 45 0.34
48 17 0.13
51 3 0.02
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (45 bp):
TGAGCCAGTGTAAGACATGTCTGGGACATGCATCGACTTGAGATA
Found at i:35122913 original size:47 final size:45
Alignment explanation
Indices: 35122848--35123064 Score: 197
Period size: 46 Copynumber: 4.6 Consensus size: 45
35122838 TGTGTGAGCT
* *
35122848 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATTATGAGAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGA-GATGA-AGTC
* * * *
35122894 AGTGTAAGACCATGTCTGGGACATGGCATCGG-TATTGAGA-CAAGGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA-CGAGATGAA-GTC
* * * * *
35122941 TAGTGTAAGACATGTCTGGGACATGTAACGGCCTCGAGACGTAAGCC
1 -AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATG-AAGTC
* *
35122988 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAGTT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGA-AGTC
35123034 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCG
35123065 ACTTGAGATA
Statistics
Matches: 139, Mismatches: 20, Indels: 22
0.77 0.11 0.12
Matches are distributed among these distances:
45 1 0.01
46 65 0.47
47 48 0.35
48 24 0.17
49 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGAAGTC
Found at i:35123073 original size:47 final size:46
Alignment explanation
Indices: 35122843--35123112 Score: 191
Period size: 47 Copynumber: 5.8 Consensus size: 46
35122833 ATTCATGTGT
*
35122843 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATT---ATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATC-G-GAC-TTGAGATGA
**
35122889 GAG-TCAGTGTAAGACCATGTCTGGGACATGGCATCGGTA-TTGAGACAA
1 GAGCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGG-ACTTGAGATGA
* * * * * *
35122937 GGGCTAGTGTAAGACATGTCTGGGACATGTAACGGCCTCGAGACGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGACTTGAGATG-A
* *
35122984 -AGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGACT-TGAGATGA
* *
35123029 TAGTTAGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGAGAT-A
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGACTTGAGATGA
* * *
35123075 TGAGCCAGTATAAGAC-TGTGACTAGGACATGGCATCGG
1 -GAGCTAGTGTAAGACATGT--CTGGGACAT-GCATCGG
35123113 CACCTTACCC
Statistics
Matches: 183, Mismatches: 22, Indels: 36
0.76 0.09 0.15
Matches are distributed among these distances:
45 9 0.05
46 72 0.39
47 75 0.41
48 26 0.14
49 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGACTTGAGATGA
Found at i:35123081 original size:93 final size:94
Alignment explanation
Indices: 35122843--35123113 Score: 234
Period size: 94 Copynumber: 2.9 Consensus size: 94
35122833 ATTCATGTGT
* * * * *
35122843 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAG-C-C-ACATTATGAGAGTCAGTGTAAGACC
1 GAGCTAGTGTAAGACATGTCTGGGACATGCAACGGACTCGAGA-CAT-A-AGCCAGTGTAAGA-C
*
35122905 ATGTCTGGGACATGGCATCGG-TATTGAGACAA
62 ATGTCTGGGACATGGCATCGGCTATCGAGACAA
* * * *
35122937 GGGCTAGTGTAAGACATGTCTGGGACATGTAACGGCCTCGAGACGTAAGCCAGTGTAAGACATGT
1 GAGCTAGTGTAAGACATGTCTGGGACATGCAACGGACTCGAGACATAAGCCAGTGTAAGACATGT
**
35123002 CTGGGACAT-GCATCGGCTA-CGAGATGA
66 CTGGGACATGGCATCGGCTATCGAGACAA
* * * * * * *
35123029 TAGTTAGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGAGATATGAGCCAGTATAAGAC-T
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCAACGGACTCGAGACATAAGCCAGTGTAAGACAT
*
35123092 GTGACTAGGACATGGCATCGGC
64 GT--CTGGGACATGGCATCGGC
35123114 ACCTTACCCT
Statistics
Matches: 145, Mismatches: 23, Indels: 17
0.78 0.12 0.09
Matches are distributed among these distances:
92 26 0.18
93 51 0.35
94 54 0.37
95 10 0.07
96 2 0.01
97 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.23
Consensus pattern (94 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCAACGGACTCGAGACATAAGCCAGTGTAAGACATGT
CTGGGACATGGCATCGGCTATCGAGACAA
Found at i:35123103 original size:140 final size:140
Alignment explanation
Indices: 35122848--35123105 Score: 353
Period size: 140 Copynumber: 1.8 Consensus size: 140
35122838 TGTGTGAGCT
*
35122848 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGTCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGAGAGTCAGTGTAAGACCATGTCTGG
* * * *
35122913 GACATGGCATCGGTATTGAGACAAGGGCTAGTGTAAGACATGTCTGGGACATGTAACGGCCTCGA
66 GACATGGCATCGGTATTGAGACAAGAGCCAGTATAAGACATGTCTAGGACATGTAACGGCCTCGA
35122978 GACGTAAGCC
131 GACGTAAGCC
* * * *
35122988 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GATGATAGTTAGTGTAAGACCATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATGATGAGAGTCAGTGTAAGACCATGTCTG
* *
35123052 GGACATGGCATC-G-ACTTGAGATATGAGCCAGTATAAGAC-TGTGACTAGGACATG
65 GGACATGGCATCGGTA-TTGAGACAAGAGCCAGTATAAGACATGT--CTAGGACATG
35123106 GCATCGGCAC
Statistics
Matches: 103, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
138 4 0.04
139 20 0.19
140 78 0.76
141 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (140 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGAGAGTCAGTGTAAGACCATGTCTGG
GACATGGCATCGGTATTGAGACAAGAGCCAGTATAAGACATGTCTAGGACATGTAACGGCCTCGA
GACGTAAGCC
Found at i:35124475 original size:28 final size:28
Alignment explanation
Indices: 35124447--35124499 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
35124437 ATTTATTATA
35124447 AAAATAAGT-AAAATTAAATATTTTAAT
1 AAAATAAGTGAAAATTAAATATTTTAAT
** *
35124474 AATTTAAGTGAAAATTAATTATTTTA
1 AAAATAAGTGAAAATTAAATATTTTA
35124500 TAATTAAAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 7 0.32
28 15 0.68
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.42
Consensus pattern (28 bp):
AAAATAAGTGAAAATTAAATATTTTAAT
Found at i:35124516 original size:27 final size:28
Alignment explanation
Indices: 35124452--35124509 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 28
35124442 TTATAAAAAT
*
35124452 AAGT-AAAATTAAATATTTTAATAATTT
1 AAGTGAAAATTAAATATTTTAATAATTA
*
35124479 AAGTGAAAATTAATTATTTT-ATAATTA
1 AAGTGAAAATTAAATATTTTAATAATTA
35124506 AAGT
1 AAGT
35124510 TTGAATTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 14 0.50
28 14 0.50
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (28 bp):
AAGTGAAAATTAAATATTTTAATAATTA
Found at i:35125045 original size:26 final size:26
Alignment explanation
Indices: 35125009--35125066 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
35124999 CAAAAGGTTG
35125009 AGCCATGTAAATGGTCTCATCAAGAT
1 AGCCATGTAAATGGTCTCATCAAGAT
** *
35125035 AGCCATGTAAATTTTCTCATGAAGAT
1 AGCCATGTAAATGGTCTCATCAAGAT
35125061 AGCCAT
1 AGCCAT
35125067 TCGAGAATGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.29
Consensus pattern (26 bp):
AGCCATGTAAATGGTCTCATCAAGAT
Found at i:35127610 original size:40 final size:39
Alignment explanation
Indices: 35127519--35127620 Score: 127
Period size: 40 Copynumber: 2.5 Consensus size: 39
35127509 ATCACGATTT
*
35127519 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
*
35127559 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
35127599 GCACAATTGCCTTCGGGTCTTA
1 GCACAA-TGCCTTCGGGTCTTA
35127621 ACCCAGTTAT
Statistics
Matches: 56, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 51 0.91
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:35131571 original size:2 final size:2
Alignment explanation
Indices: 35131564--35131590 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
35131554 TGAACACATT
35131564 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
35131591 TTATCATAGT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:35132445 original size:31 final size:31
Alignment explanation
Indices: 35132410--35132557 Score: 215
Period size: 31 Copynumber: 4.8 Consensus size: 31
35132400 TTGTCACTTT
*
35132410 TAGCCGAAGCTACCACTATTCACTGATCAGG
1 TAGCCGAAGCTACCACTTTTCACTGATCAGG
* *
35132441 TAGCCGGAGCTACCATTTTTCACTGATCAGG
1 TAGCCGAAGCTACCACTTTTCACTGATCAGG
*
35132472 TAGCCGAAGCTACCACTTTTCATTGATCAGG
1 TAGCCGAAGCTACCACTTTTCACTGATCAGG
* * *
35132503 TACCCGAAACTACCACTTTTCACTGATTAGG
1 TAGCCGAAGCTACCACTTTTCACTGATCAGG
* *
35132534 TAACCGAAACTACCACTTTTCACT
1 TAGCCGAAGCTACCACTTTTCACT
35132558 TGTCATTTGT
Statistics
Matches: 106, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 106 1.00
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (31 bp):
TAGCCGAAGCTACCACTTTTCACTGATCAGG
Found at i:35132624 original size:50 final size:51
Alignment explanation
Indices: 35132547--35132661 Score: 187
Period size: 50 Copynumber: 2.3 Consensus size: 51
35132537 CCGAAACTAC
* * *
35132547 CACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCACTTGTCACTTGTCCTTGATCAGATAAGTGTAGCCAAAGCTAT
*
35132598 CATTTATCACTT-TCACTTGTCCTTGATCAGATAAGTGTAGCCAAAGCTAT
1 CACTTATCACTTGTCACTTGTCCTTGATCAGATAAGTGTAGCCAAAGCTAT
35132648 CACTTATCACTTGT
1 CACTTATCACTTGT
35132662 TGCCATGGTG
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
50 47 0.81
51 11 0.19
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (51 bp):
CACTTATCACTTGTCACTTGTCCTTGATCAGATAAGTGTAGCCAAAGCTAT
Found at i:35134988 original size:29 final size:29
Alignment explanation
Indices: 35134946--35135005 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
35134936 CTCGAAGGAC
35134946 CAGGTGGAGTCCAACATTCTAATAAAGAA
1 CAGGTGGAGTCCAACATTCTAATAAAGAA
35134975 CAGGTGGAGTCCAACATTCTAATAAAGAA
1 CAGGTGGAGTCCAACATTCTAATAAAGAA
35135004 CA
1 CA
35135006 TTCACCTTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.42, C:0.18, G:0.20, T:0.20
Consensus pattern (29 bp):
CAGGTGGAGTCCAACATTCTAATAAAGAA
Found at i:35136357 original size:5 final size:5
Alignment explanation
Indices: 35136344--35136375 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
35136334 AGAAAACTAT
*
35136344 AAATA AAATG AAATA AAATA AAATA AAATA AA
1 AAATA AAATA AAATA AAATA AAATA AAATA AA
35136376 GAACACACAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:35137147 original size:18 final size:15
Alignment explanation
Indices: 35137108--35137138 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
35137098 TACTCAGCTT
35137108 CAGTAGTAGACAAAG
1 CAGTAGTAGACAAAG
35137123 CAGTAGTAGACAAAG
1 CAGTAGTAGACAAAG
35137138 C
1 C
35137139 GACTGTAGTT
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:0.45, C:0.16, G:0.26, T:0.13
Consensus pattern (15 bp):
CAGTAGTAGACAAAG
Found at i:35143184 original size:19 final size:18
Alignment explanation
Indices: 35143160--35143202 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 18
35143150 AATATGAATA
35143160 AAATTTATCTACCTAAAT
1 AAATTTATCTACCTAAAT
*
35143178 AAGATTTATTTACCTAAAT
1 AA-ATTTATCTACCTAAAT
35143197 AAATTT
1 AAATTT
35143203 TCAACAAGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.42
Consensus pattern (18 bp):
AAATTTATCTACCTAAAT
Found at i:35150762 original size:19 final size:19
Alignment explanation
Indices: 35150716--35150763 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
35150706 ATATATATTT
35150716 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
* *
35150734 TAAATCTTATTTTGGTAGA
1 TAAATTTTATTTAGGTAGA
35150753 TAAATTTTATT
1 TAAATTTTATT
35150764 CATATTCTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.50
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:35151074 original size:21 final size:21
Alignment explanation
Indices: 35151050--35151117 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
35151040 CTGCAGGAAG
35151050 AGGTTAGCCATCTTCAATAGA
1 AGGTTAGCCATCTTCAATAGA
* *
35151071 AGG-TGGCCAAGCTTCAA-ACTG-
1 AGGTTAGCC-ATCTTCAATA--GA
*
35151092 AGTTTTAGCCATCTTCAATAGA
1 AG-GTTAGCCATCTTCAATAGA
35151114 AGGT
1 AGGT
35151118 GGCCAAGCTT
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
20 5 0.15
21 14 0.41
22 10 0.29
23 5 0.15
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (21 bp):
AGGTTAGCCATCTTCAATAGA
Found at i:35151101 original size:43 final size:43
Alignment explanation
Indices: 35151053--35151140 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
35151043 CAGGAAGAGG
35151053 TTAGCCATCTTCAATAGAAGGTGGCCAAGCTTCAAACTGAGTT
1 TTAGCCATCTTCAATAGAAGGTGGCCAAGCTTCAAACTGAGTT
35151096 TTAGCCATCTTCAATAGAAGGTGGCCAAGCTTCAAACTGAGTT
1 TTAGCCATCTTCAATAGAAGGTGGCCAAGCTTCAAACTGAGTT
35151139 TT
1 TT
35151141 CTTAATAGGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (43 bp):
TTAGCCATCTTCAATAGAAGGTGGCCAAGCTTCAAACTGAGTT
Found at i:35151130 original size:21 final size:21
Alignment explanation
Indices: 35151061--35151130 Score: 56
Period size: 21 Copynumber: 3.3 Consensus size: 21
35151051 GGTTAGCCAT
35151061 CTTCAATAGAAGGTGGCCAAG
1 CTTCAATAGAAGGTGGCCAAG
* * *
35151082 CTTCAA-ACTG-AGTTTTAGCC-AT
1 CTTCAATA--GAAG--GTGGCCAAG
35151104 CTTCAATAGAAGGTGGCCAAG
1 CTTCAATAGAAGGTGGCCAAG
35151125 CTTCAA
1 CTTCAA
35151131 ACTGAGTTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 14
0.64 0.11 0.25
Matches are distributed among these distances:
20 5 0.14
21 16 0.44
22 10 0.28
23 5 0.14
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26
Consensus pattern (21 bp):
CTTCAATAGAAGGTGGCCAAG
Found at i:35152772 original size:20 final size:20
Alignment explanation
Indices: 35152747--35152788 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
35152737 TGTGTAAGCA
35152747 TCATTGCTAATGGTTGCTCT
1 TCATTGCTAATGGTTGCTCT
35152767 TCATTGCTAATGGTTGCTCT
1 TCATTGCTAATGGTTGCTCT
35152787 TC
1 TC
35152789 TATTCCTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.45
Consensus pattern (20 bp):
TCATTGCTAATGGTTGCTCT
Found at i:35153692 original size:196 final size:196
Alignment explanation
Indices: 35153352--35153753 Score: 687
Period size: 196 Copynumber: 2.0 Consensus size: 196
35153342 GTCTGTGCCG
*
35153352 ATTTTCTTTGATGACATTTTTGTTTACTCCATGTCTTGGTTAGATCATTTGCTGCATCTCAGAGT
1 ATTTT-TTTGATGACATTTTTGTTTACTCCATGTCTTGGTTAGATCATTTGCTGCATCTCAAAGT
*
35153417 AAATGCCAATTTGGTTCCCCTCGAACTAAGTACCTTGGTTATGTAATTTCCCAAGGAACTATGGC
65 AAATGCCAATTTGGTTCCCCTCGAACTAAGTACCTTGGTCATGTAATTTCCCAAGGAACTATGGC
* *
35153482 CATGGACCAATCTAAAGTGAAAAGTGTGATTTTTTGGCAAACTCCACAATCAGTTAAAGAGCTTT
130 CATGGACAAATCTAAAGTGAAAAGTGTGATTTTTTGGCAAACTCCACAATCAATTAAAGAGCTTT
35153547 GA
195 GA
* **
35153549 ATTTTTTTGATGGCATTTTTGTTTACTCCATGTCTTGGTTCTATCATTTGCTGCATCTCAAAGTA
1 ATTTTTTTGATGACATTTTTGTTTACTCCATGTCTTGGTTAGATCATTTGCTGCATCTCAAAGTA
* *
35153614 AATGCTAATTTGGTTCCCCTTGAACTAAGTACCTTGGTCATGTAATTTCCCAAGGAACTATGGCC
66 AATGCCAATTTGGTTCCCCTCGAACTAAGTACCTTGGTCATGTAATTTCCCAAGGAACTATGGCC
*
35153679 ATGGACAAATCTAAAGTGAAAAGTGTGATTTTTTGGCAAACTCCACAATCAATTAAAGGGCTTTG
131 ATGGACAAATCTAAAGTGAAAAGTGTGATTTTTTGGCAAACTCCACAATCAATTAAAGAGCTTTG
35153744 A
196 A
**
35153745 GGTTTTTTG
1 ATTTTTTTG
35153754 GGCCTTTCAG
Statistics
Matches: 193, Mismatches: 12, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
196 188 0.97
197 5 0.03
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (196 bp):
ATTTTTTTGATGACATTTTTGTTTACTCCATGTCTTGGTTAGATCATTTGCTGCATCTCAAAGTA
AATGCCAATTTGGTTCCCCTCGAACTAAGTACCTTGGTCATGTAATTTCCCAAGGAACTATGGCC
ATGGACAAATCTAAAGTGAAAAGTGTGATTTTTTGGCAAACTCCACAATCAATTAAAGAGCTTTG
A
Found at i:35154194 original size:21 final size:21
Alignment explanation
Indices: 35154166--35154224 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 21
35154156 AAACTGACAG
*
35154166 GGGC-ACACGCCCTTGTGGAA
1 GGGCGACACGCCCGTGTGGAA
*
35154186 GGGCGACACACCCGTGTGGAA
1 GGGCGACACGCCCGTGTGGAA
*
35154207 GGGCGATACGCCCGTGTG
1 GGGCGACACGCCCGTGTG
35154225 TCTTCTTAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 4 0.12
21 30 0.88
ACGTcount: A:0.19, C:0.29, G:0.39, T:0.14
Consensus pattern (21 bp):
GGGCGACACGCCCGTGTGGAA
Found at i:35155463 original size:48 final size:48
Alignment explanation
Indices: 35155408--35155593 Score: 196
Period size: 48 Copynumber: 3.9 Consensus size: 48
35155398 GTGAATTGCT
* * *
35155408 GATGCCATGTTCC-AAACATGGTCTTACACTAGCTCACATGTCGAGGCC
1 GATGCCATG-TCCTAGACATGGTCTTACACTAGCACACATATCGAGGCC
* * * * * * *
35155456 GATGCCATGTCCCAGATATGGCCTTACACTAGCAGACATATCAATGCT
1 GATGCCATGTCCTAGACATGGTCTTACACTAGCACACATATCGAGGCC
* * * * *
35155504 AATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCC
1 GATGCCATGTCCTAGACATGGTCTTACACTAGCACACAT-ATCGAGGCC
*
35155552 GATGCCATGTCCTAGACATGGTCTTACACTGGCACACATATC
1 GATGCCATGTCCTAGACATGGTCTTACACTAGCACACATATC
35155594 ACCCAAATGG
Statistics
Matches: 111, Mismatches: 24, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
47 5 0.05
48 104 0.94
49 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (48 bp):
GATGCCATGTCCTAGACATGGTCTTACACTAGCACACATATCGAGGCC
Found at i:35155578 original size:96 final size:96
Alignment explanation
Indices: 35155404--35155594 Score: 251
Period size: 96 Copynumber: 2.0 Consensus size: 96
35155394 GAGGGTGAAT
* *
35155404 TGCTGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATGTCGAGGCCGATGCCATGTCCC
1 TGCTAATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCCGATGCCATGTCCC
* *
35155469 AGATATGGCCTTACACTAGCAGACATATCAA
66 AGACATGGCCTTACACTAGCACACATATCAA
* * * *
35155500 TGCTAATGCCATG-TCCTAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATGCCATGTC
1 TGCTAATGCCATGTTCC-AAACATGGTCTTACACTAGCTCACAT-ATCGAGGCCGATGCCATGTC
* * *
35155563 CTAGACATGGTCTTACACTGGCACACATATCA
64 CCAGACATGGCCTTACACTAGCACACATATCA
35155595 CCCAAATGGC
Statistics
Matches: 82, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
95 3 0.04
96 78 0.95
97 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.27
Consensus pattern (96 bp):
TGCTAATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCCGATGCCATGTCCC
AGACATGGCCTTACACTAGCACACATATCAA
Found at i:35157421 original size:40 final size:40
Alignment explanation
Indices: 35157355--35157505 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
35157345 AAATTGAATG
* * *
35157355 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
35157394 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
35157434 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
35157474 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
35157506 ACGTGATTAA
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:35165431 original size:40 final size:40
Alignment explanation
Indices: 35165365--35165515 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
35165355 AAATTGAATG
* * *
35165365 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
35165404 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
35165444 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
35165484 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
35165516 ACGTGATTAA
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:35174617 original size:40 final size:40
Alignment explanation
Indices: 35174551--35174717 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
35174541 AAATTGAATG
* * *
35174551 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
35174590 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
35174630 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
35174670 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
35174710 ATATCCGG
1 ATATCCGG
35174718 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:35192564 original size:85 final size:85
Alignment explanation
Indices: 35192410--35192569 Score: 194
Period size: 85 Copynumber: 1.9 Consensus size: 85
35192400 GATGCTCTAC
* * * * * * * *
35192410 ATACTTGTGTTGTTTCAGGTATGTCATAGGATCATCAGGAATTGAATTTTGACTTTATCTCTAAT
1 ATACTTGTATTGTTGCAGGTATGTCACAGGATCATCAGAAATTGAATTCTAACATTATCTCTAAC
*
35192475 ATTGTCTTACATATAGTAAA
66 ATTGTATTACATATAGTAAA
* * * * *
35192495 ATACTTGTATTGTTGCAGGTATGTCACGGGATTATCCGAAATTGGATTCTAACATTATCTCTGAC
1 ATACTTGTATTGTTGCAGGTATGTCACAGGATCATCAGAAATTGAATTCTAACATTATCTCTAAC
35192560 ATTGTATTAC
66 ATTGTATTAC
35192570 TTATGATGAA
Statistics
Matches: 61, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
85 61 1.00
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (85 bp):
ATACTTGTATTGTTGCAGGTATGTCACAGGATCATCAGAAATTGAATTCTAACATTATCTCTAAC
ATTGTATTACATATAGTAAA
Found at i:35194967 original size:22 final size:22
Alignment explanation
Indices: 35194940--35194991 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
35194930 ACACAAGGTC
35194940 ACACGCCCGTGCGGACACAGGG
1 ACACGCCCGTGCGGACACAGGG
35194962 ACACGCCCGTGCGGACACAGGG
1 ACACGCCCGTGCGGACACAGGG
35194984 ACACGCCC
1 ACACGCCC
35194992 CTGTGCCTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.23, C:0.40, G:0.33, T:0.04
Consensus pattern (22 bp):
ACACGCCCGTGCGGACACAGGG
Found at i:35196885 original size:48 final size:45
Alignment explanation
Indices: 35196814--35197135 Score: 258
Period size: 48 Copynumber: 6.9 Consensus size: 45
35196804 GTGAATTGCT
35196814 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCGAGGCC
1 GATGCCATGT-CCA-ACATGGTCTTACACTGGCTCACATGTC-AGGCC
* ** * * *
35196862 GATGCCATGTCCCAGACATGGTCTTACACTAGCTTTCGTCTCAATGCC
1 GATGCCATGT-CCA-ACATGGTCTTACACTGGCTCACATGTC-AGGCC
* * * *
35196910 GAGGCCATGTCCAACATGTTCTTATACTGGCTCTTATATGGT--GGCC
1 GATGCCATGTCCAACATGGTCTTACACTGGCTC--ACAT-GTCAGGCC
* *
35196956 GATGCCATGTCCAACATGGTCTTACACTGGCTCACA-GTCAACGTC
1 GATGCCATGTCCAACATGGTCTTACACTGGCTCACATGTC-AGGCC
* * * * ** *
35197001 GATGCCATGTCCAAGATGGTCTTACACTAGCTCTCGTAACATAGCC
1 GATGCCATGTCCAACATGGTCTTACACTGGCTCACATGTCA-GGCC
* *
35197047 GATGCCATGTTCCAAACATGGTCTTACACTAGCATACGAAATGT--GGCC
1 GATGCCATG-TCC-AACATGGTCTTACACTGGC-T-C-ACATGTCAGGCC
35197095 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGT
1 GATGCCATGT-CCA-ACATGGTCTTACACTGGCTCACATGT
35197136 TACCCTAAAT
Statistics
Matches: 219, Mismatches: 40, Indels: 33
0.75 0.14 0.11
Matches are distributed among these distances:
42 2 0.01
44 2 0.01
45 40 0.18
46 62 0.28
47 9 0.04
48 100 0.46
49 2 0.01
50 1 0.00
51 1 0.00
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (45 bp):
GATGCCATGTCCAACATGGTCTTACACTGGCTCACATGTCAGGCC
Found at i:35197048 original size:91 final size:91
Alignment explanation
Indices: 35196817--35197079 Score: 242
Period size: 91 Copynumber: 2.8 Consensus size: 91
35196807 AATTGCTGAT
* * ** *
35196817 GCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCGA-GGCCGATGCCATGTCCCAGACAT
1 GCCATGT-CCA-ACATGGTCTTACACTAGCTCTCATAAC-ATAGCCGATGCCATGT-CCA-ACAT
** *
35196881 GGTCTTACACTAGCTTTCGTCTCAATGCCGAG
61 GGTCTTACACTAGCTCACG-CTCAACGCCGAG
* * * * *** *
35196913 GCCATGTCCAACATGTTCTTATACTGGCTCTTATATGGTGGCCGATGCCATGTCCAACATGGTCT
1 GCCATGTCCAACATGGTCTTACACTAGCTCTCATAACATAGCCGATGCCATGTCCAACATGGTCT
* * *
35196978 TACACTGGCTCACAG-TCAACGTCGAT
66 TACACTAGCTCAC-GCTCAACGCCGAG
* *
35197004 GCCATGTCCAAGATGGTCTTACACTAGCTCTCGTAACATAGCCGATGCCATGTTCCAAACATGGT
1 GCCATGTCCAACATGGTCTTACACTAGCTCTCATAACATAGCCGATGCCATG-TCC-AACATGGT
35197069 CTTACACTAGC
64 CTTACACTAGC
35197080 ATACGAAATG
Statistics
Matches: 139, Mismatches: 24, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
91 50 0.36
92 22 0.16
93 22 0.16
94 35 0.25
95 3 0.02
96 7 0.05
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (91 bp):
GCCATGTCCAACATGGTCTTACACTAGCTCTCATAACATAGCCGATGCCATGTCCAACATGGTCT
TACACTAGCTCACGCTCAACGCCGAG
Found at i:35198153 original size:5 final size:5
Alignment explanation
Indices: 35198145--35198171 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
35198135 TCATTCTCTC
35198145 TTTAT TTTAT TTTAT TTTAT TTTAT TT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TT
35198172 CTAGCCAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:35199955 original size:51 final size:51
Alignment explanation
Indices: 35199879--35199982 Score: 190
Period size: 51 Copynumber: 2.0 Consensus size: 51
35199869 GGGACATAGT
*
35199879 AAGACAACATGTCCACATTTTGGGGCAACATTGAGGTGATGATGGAATTAA
1 AAGACAACATGTCCACATTTTGGGGCAACAATGAGGTGATGATGGAATTAA
*
35199930 AAGACAACATGTCCACATTTTGGGGCAACAATGAGGTGCTGATGGAATTAA
1 AAGACAACATGTCCACATTTTGGGGCAACAATGAGGTGATGATGGAATTAA
35199981 AA
1 AA
35199983 AAATATTCTT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24
Consensus pattern (51 bp):
AAGACAACATGTCCACATTTTGGGGCAACAATGAGGTGATGATGGAATTAA
Found at i:35200093 original size:64 final size:64
Alignment explanation
Indices: 35200015--35200143 Score: 197
Period size: 64 Copynumber: 2.0 Consensus size: 64
35200005 TACAAAAAAT
*
35200015 AAACAATTTATTTATTTATTAATAAAATGTAAATAAGTATATTATTGATGTAA-AATTACAATAC
1 AAACAATTTATTTATTTATTAATAAAATGTAAATAAGTAGATTATTGATGTAACAA-TACAATAC
* * **
35200079 AAACAATTTGTTTATTTTTTGGTAAAATGTAAATAAGTAGATTATTGATGTAACAATACAATAC
1 AAACAATTTATTTATTTATTAATAAAATGTAAATAAGTAGATTATTGATGTAACAATACAATAC
35200143 A
1 A
35200144 TTTTTTTTTC
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
64 57 0.97
65 2 0.03
ACGTcount: A:0.46, C:0.05, G:0.09, T:0.40
Consensus pattern (64 bp):
AAACAATTTATTTATTTATTAATAAAATGTAAATAAGTAGATTATTGATGTAACAATACAATAC
Found at i:35200406 original size:6 final size:6
Alignment explanation
Indices: 35200395--35200419 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
35200385 CATCATTTTT
35200395 ATCTCC ATCTCC ATCTCC ATCTCC A
1 ATCTCC ATCTCC ATCTCC ATCTCC A
35200420 CCCCCATCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.48, G:0.00, T:0.32
Consensus pattern (6 bp):
ATCTCC
Found at i:35201306 original size:46 final size:46
Alignment explanation
Indices: 35201246--35201595 Score: 446
Period size: 46 Copynumber: 8.0 Consensus size: 46
35201236 TTTGACATGA
* * * * * *
35201246 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
35201292 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
35201338 TGCCATGGTATCTTTCAACCATAGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
35201384 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
35201430 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
35201468 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
35201514 TGCCATGGTATCTTTCAACCATGGT-TT-TACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
35201552 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
35201596 AGAGCACACT
Statistics
Matches: 270, Mismatches: 17, Indels: 34
0.84 0.05 0.11
Matches are distributed among these distances:
38 63 0.23
39 4 0.01
40 6 0.02
41 2 0.01
43 2 0.01
44 6 0.02
45 8 0.03
46 179 0.66
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:35201476 original size:38 final size:38
Alignment explanation
Indices: 35201425--35201584 Score: 239
Period size: 38 Copynumber: 4.0 Consensus size: 38
35201415 CATTTCATAT
35201425 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
35201463 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A
*
35201508 TCAGGTTGCCATGGTATCTTTCAACCATGGTTTTACACA
1 -CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
35201547 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
35201585 TTTCATATCA
Statistics
Matches: 112, Mismatches: 2, Indels: 16
0.86 0.02 0.12
Matches are distributed among these distances:
38 70 0.62
39 1 0.01
40 3 0.03
41 1 0.01
43 1 0.01
44 3 0.03
45 1 0.01
46 32 0.29
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:35201520 original size:84 final size:84
Alignment explanation
Indices: 35201379--35201595 Score: 425
Period size: 84 Copynumber: 2.6 Consensus size: 84
35201369 CATCTCATAT
35201379 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
35201444 TCAACCATGGTCTTACACA
66 TCAACCATGGTCTTACACA
35201463 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
*
35201528 TCAACCATGGTTTTACACA
66 TCAACCATGGTCTTACACA
35201547 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
35201596 AGAGCACACT
Statistics
Matches: 132, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 132 1.00
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (84 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
TCAACCATGGTCTTACACA
Found at i:35204085 original size:30 final size:30
Alignment explanation
Indices: 35204018--35204085 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
35204008 CACCCTTAAA
* * *
35204018 ATATTTGCACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTC
*
35204048 ATATTTACACT-TTAATCCTTCAAATTTTG
1 ATATTTACACTATTAATCCTTCAAATTTTC
35204077 AGTATTTAC
1 A-TATTTAC
35204086 TCTTGGGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTC
Found at i:35204185 original size:26 final size:26
Alignment explanation
Indices: 35204155--35204211 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
35204145 CATAATATAC
35204155 TTCCCAATATTGACA-TAACTCAAAAT
1 TTCCC-ATATTGACACTAACTCAAAAT
* * *
35204181 TTCCCTTTTTGTCACTAACTCAAAAT
1 TTCCCATATTGACACTAACTCAAAAT
35204207 TTCCC
1 TTCCC
35204212 TTTTTGTCAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 6 0.22
26 21 0.78
ACGTcount: A:0.32, C:0.28, G:0.04, T:0.37
Consensus pattern (26 bp):
TTCCCATATTGACACTAACTCAAAAT
Found at i:35204212 original size:26 final size:26
Alignment explanation
Indices: 35204170--35204222 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
35204160 AATATTGACA
35204170 TAACTCAAAATTTCCCTTTTTGTCAC
1 TAACTCAAAATTTCCCTTTTTGTCAC
35204196 TAACTCAAAATTTCCCTTTTTGTCAC
1 TAACTCAAAATTTCCCTTTTTGTCAC
35204222 T
1 T
35204223 TTATTTCCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.26, G:0.04, T:0.43
Consensus pattern (26 bp):
TAACTCAAAATTTCCCTTTTTGTCAC
Found at i:35206167 original size:20 final size:20
Alignment explanation
Indices: 35206142--35206180 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
35206132 AACATATAAA
35206142 AATTTAAAAATAATATTAAC
1 AATTTAAAAATAATATTAAC
* *
35206162 AATTTAATAATTATATTAA
1 AATTTAAAAATAATATTAA
35206181 TTAAATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (20 bp):
AATTTAAAAATAATATTAAC
Found at i:35210330 original size:42 final size:42
Alignment explanation
Indices: 35210283--35210365 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
35210273 GACTAATGGG
* *
35210283 TTCCATTGATGCAGAAGGCATCAGTGATGGCATGGCCATTGA
1 TTCCATTGATGCAGAAGACATCAGTGATGGCATGACCATTGA
* * * *
35210325 TTCCATTGATGGAGAAGATATTAGTGATTGCATGACCATTG
1 TTCCATTGATGCAGAAGACATCAGTGATGGCATGACCATTG
35210366 TAGGTTGACT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.30
Consensus pattern (42 bp):
TTCCATTGATGCAGAAGACATCAGTGATGGCATGACCATTGA
Found at i:35217811 original size:6 final size:6
Alignment explanation
Indices: 35217797--35217830 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
35217787 TGATGACATA
*
35217797 ATAAAC ATAATC ATAAAC ATAAAC ATAAAC ATAA
1 ATAAAC ATAAAC ATAAAC ATAAAC ATAAAC ATAA
35217831 GTTTATTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.65, C:0.15, G:0.00, T:0.21
Consensus pattern (6 bp):
ATAAAC
Found at i:35218432 original size:15 final size:15
Alignment explanation
Indices: 35218412--35218444 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
35218402 ATTCCTAAGG
35218412 TTCAAACGGGATTCT
1 TTCAAACGGGATTCT
35218427 TTCAAACGGGATTCT
1 TTCAAACGGGATTCT
35218442 TTC
1 TTC
35218445 TCACATGTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.36
Consensus pattern (15 bp):
TTCAAACGGGATTCT
Found at i:35225292 original size:17 final size:17
Alignment explanation
Indices: 35225270--35225335 Score: 53
Period size: 17 Copynumber: 3.7 Consensus size: 17
35225260 TATTTTAATT
35225270 AATAAAACATAAAATAA
1 AATAAAACATAAAATAA
** *
35225287 AATAAAAGGTTAATATAA
1 AATAAAA-CATAAAATAA
35225305 TAATGAAAACATAATAA-AA
1 -AAT-AAAACATAA-AATAA
*
35225324 AGTAAAACATAA
1 AATAAAACATAA
35225336 GTGAATATTC
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
17 16 0.42
18 9 0.24
19 8 0.21
20 5 0.13
ACGTcount: A:0.68, C:0.05, G:0.06, T:0.21
Consensus pattern (17 bp):
AATAAAACATAAAATAA
Found at i:35225579 original size:17 final size:15
Alignment explanation
Indices: 35225547--35225576 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
35225537 TCTATTGATG
35225547 AATCTAGTGATTTTT
1 AATCTAGTGATTTTT
35225562 AATCTAGTGATTTTT
1 AATCTAGTGATTTTT
35225577 TTATGTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.07, G:0.13, T:0.53
Consensus pattern (15 bp):
AATCTAGTGATTTTT
Found at i:35226904 original size:67 final size:67
Alignment explanation
Indices: 35226824--35226957 Score: 250
Period size: 67 Copynumber: 2.0 Consensus size: 67
35226814 TCTAGTATAA
35226824 TGGTTATCTATGTTAAGTTCACATGAATTATATTCAATTATGCTAACACGTGTTGTTGTTGGTGC
1 TGGTTATCTATGTTAAGTTCACATGAATTATATTCAATTATGCTAACACGTGTTGTTGTTGGTGC
35226889 TT
66 TT
* *
35226891 TGGTTATGTATGTTAAGTTCACATGAATTATATTCAATTATGCTAACATGTGTTGTTGTTGGTGC
1 TGGTTATCTATGTTAAGTTCACATGAATTATATTCAATTATGCTAACACGTGTTGTTGTTGGTGC
35226956 TT
66 TT
35226958 AGGCTTGTGC
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 65 1.00
ACGTcount: A:0.24, C:0.10, G:0.20, T:0.46
Consensus pattern (67 bp):
TGGTTATCTATGTTAAGTTCACATGAATTATATTCAATTATGCTAACACGTGTTGTTGTTGGTGC
TT
Found at i:35228311 original size:13 final size:13
Alignment explanation
Indices: 35228293--35228332 Score: 80
Period size: 13 Copynumber: 3.1 Consensus size: 13
35228283 GCCAAGCACA
35228293 CGCCCGTGTCCCT
1 CGCCCGTGTCCCT
35228306 CGCCCGTGTCCCT
1 CGCCCGTGTCCCT
35228319 CGCCCGTGTCCCT
1 CGCCCGTGTCCCT
35228332 C
1 C
35228333 ACACGGCCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.00, C:0.55, G:0.23, T:0.23
Consensus pattern (13 bp):
CGCCCGTGTCCCT
Found at i:35231089 original size:23 final size:23
Alignment explanation
Indices: 35231063--35231110 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
35231053 TGATGAAATT
35231063 TTTACATTTTGGTGCTTAAATGG
1 TTTACATTTTGGTGCTTAAATGG
35231086 TTTACATTTTGGTGCTTAAATGG
1 TTTACATTTTGGTGCTTAAATGG
35231109 TT
1 TT
35231111 AATGTTGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.21, C:0.08, G:0.21, T:0.50
Consensus pattern (23 bp):
TTTACATTTTGGTGCTTAAATGG
Found at i:35231826 original size:16 final size:15
Alignment explanation
Indices: 35231805--35231835 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
35231795 AATTATGTGT
35231805 ATTAATTTATAATTTA
1 ATTAATTT-TAATTTA
35231821 ATTAATTTTAATTTA
1 ATTAATTTTAATTTA
35231836 TATCCAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATTAATTTTAATTTA
Found at i:35239915 original size:15 final size:15
Alignment explanation
Indices: 35239895--35239927 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
35239885 TTTAATTTCC
35239895 ATTACTATATAATAT
1 ATTACTATATAATAT
35239910 ATTACTATATAATAT
1 ATTACTATATAATAT
35239925 ATT
1 ATT
35239928 CATCGAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTACTATATAATAT
Found at i:35245969 original size:10 final size:10
Alignment explanation
Indices: 35245954--35245980 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
35245944 TACTCTTTCA
35245954 AGCTCAAATC
1 AGCTCAAATC
35245964 AGCTCAAATC
1 AGCTCAAATC
35245974 AGCTCAA
1 AGCTCAA
35245981 CTTCAACTTA
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:0.41, C:0.30, G:0.11, T:0.19
Consensus pattern (10 bp):
AGCTCAAATC
Found at i:35251728 original size:13 final size:13
Alignment explanation
Indices: 35251710--35251737 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
35251700 TGAGAATGTG
35251710 TATAGATTACCGT
1 TATAGATTACCGT
35251723 TATAGATTACCGT
1 TATAGATTACCGT
35251736 TA
1 TA
35251738 GTTGAACAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (13 bp):
TATAGATTACCGT
Found at i:35258118 original size:45 final size:45
Alignment explanation
Indices: 35258047--35258137 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 45
35258037 GAACTGTGTG
* * *
35258047 ATCTGAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTGAC
1 ATCTGAACTCATTAAGTTATGATCTGAGTTCATGATATATGTGAC
* * *
35258092 ATCTGAACTTATTAAGTTATGATCTGAGTTCATTATGTATGTGAC
1 ATCTGAACTCATTAAGTTATGATCTGAGTTCATGATATATGTGAC
35258137 A
1 A
35258138 CATGTTTTGG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.27, C:0.12, G:0.21, T:0.40
Consensus pattern (45 bp):
ATCTGAACTCATTAAGTTATGATCTGAGTTCATGATATATGTGAC
Found at i:35258499 original size:2 final size:2
Alignment explanation
Indices: 35258492--35258527 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
35258482 GAGAATATGA
35258492 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35258528 GAAGAATGAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:35265029 original size:17 final size:17
Alignment explanation
Indices: 35265009--35265063 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
35264999 AAATTTGATA
35265009 ATGATCTCAATTTATGT
1 ATGATCTCAATTTATGT
** *
35265026 ATGAT-AAAATTTGAT-A
1 ATGATCTCAATTT-ATGT
35265042 ATGATCTCAATTTATGT
1 ATGATCTCAATTTATGT
35265059 ATGAT
1 ATGAT
35265064 ACCCATGGTT
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
16 12 0.41
17 17 0.59
ACGTcount: A:0.36, C:0.07, G:0.13, T:0.44
Consensus pattern (17 bp):
ATGATCTCAATTTATGT
Found at i:35265036 original size:33 final size:33
Alignment explanation
Indices: 35264999--35265064 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
35264989 GTTTAGAACT
35264999 AAATTTGATAATGATCTCAATTTATGTATGATA
1 AAATTTGATAATGATCTCAATTTATGTATGATA
35265032 AAATTTGATAATGATCTCAATTTATGTATGATA
1 AAATTTGATAATGATCTCAATTTATGTATGATA
35265065 CCCATGGTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.39, C:0.06, G:0.12, T:0.42
Consensus pattern (33 bp):
AAATTTGATAATGATCTCAATTTATGTATGATA
Found at i:35265806 original size:21 final size:22
Alignment explanation
Indices: 35265765--35265806 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
35265755 TAAATATTAG
*
35265765 ATTAAATTTAATATTAAATTTT
1 ATTAAATTTAATATGAAATTTT
35265787 ATTAAA-TTAATA-GAATATTT
1 ATTAAATTTAATATGAA-ATTT
35265807 ATCTACAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
20 2 0.11
21 10 0.56
22 6 0.33
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
ATTAAATTTAATATGAAATTTT
Found at i:35271691 original size:16 final size:17
Alignment explanation
Indices: 35271670--35271702 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
35271660 TTTTCAAATA
35271670 TAACATT-CAATTTAAT
1 TAACATTACAATTTAAT
*
35271686 TAACATTATAATTTAAT
1 TAACATTACAATTTAAT
35271703 CTATGATACC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.45
Consensus pattern (17 bp):
TAACATTACAATTTAAT
Found at i:35272661 original size:18 final size:17
Alignment explanation
Indices: 35272640--35272673 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
35272630 TTACATAACC
35272640 ATTTAATACCTTTTTACG
1 ATTTAAT-CCTTTTTACG
*
35272658 ATTTAATTCTTTTTAC
1 ATTTAATCCTTTTTAC
35272674 TTAATTAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.26, C:0.15, G:0.03, T:0.56
Consensus pattern (17 bp):
ATTTAATCCTTTTTACG
Found at i:35273518 original size:2 final size:2
Alignment explanation
Indices: 35273511--35273547 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
35273501 ATCAACCATA
35273511 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
35273548 ACATCTTATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:35273883 original size:23 final size:23
Alignment explanation
Indices: 35273856--35273899 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
35273846 TACGTTCTTT
*
35273856 ACATATGCTCAAACCA-AAATCAC
1 ACATATGCAC-AACCATAAATCAC
35273879 ACATATGCACAACCATAAATC
1 ACATATGCACAACCATAAATC
35273900 TCATGAACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.48, C:0.30, G:0.05, T:0.18
Consensus pattern (23 bp):
ACATATGCACAACCATAAATCAC
Found at i:35275656 original size:25 final size:24
Alignment explanation
Indices: 35275610--35275660 Score: 68
Period size: 26 Copynumber: 2.1 Consensus size: 24
35275600 TCACATTTTG
*
35275610 TTTATTTTGCATTTTAGTCCTTCAA
1 TTTATTTTGCAATTTAGTCCTT-AA
35275635 TTTATTTTTGCAATTTAG-CCTTAA
1 TTTA-TTTTGCAATTTAGTCCTTAA
35275659 TT
1 TT
35275661 ACTCAAATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 4 0.17
25 8 0.33
26 12 0.50
ACGTcount: A:0.22, C:0.14, G:0.08, T:0.57
Consensus pattern (24 bp):
TTTATTTTGCAATTTAGTCCTTAA
Found at i:35277478 original size:47 final size:47
Alignment explanation
Indices: 35277404--35277719 Score: 228
Period size: 47 Copynumber: 6.7 Consensus size: 47
35277394 GGTTAAGTGC
* *
35277404 CGATGCCATGTCCCAAACATGGACTTACACTGGCTCATAG-CTCAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TAGTCTCAAGT
* * *
35277451 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCA-TCTCTTAG-
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-AGTCTC-AAGT
* *
35277498 CTGATG-CATGTCCCAGACAT-GTCTTACATTGGCT-TACGTCTCAAGG
1 C-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTA-GTCTCAAGT
* * * *
35277544 CTGATG-CATGTCCCAAACAT-GTCTTACACTAGCACTCGTCTCATTA-T
1 C-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTAGTCTCA--AGT
* * * *
35277591 CGATGCCATGTCCTAGACATGGTTTTACACTAGCTCT--TAT-AATGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTAGTCTCAA-GT
* * * *
35277636 GGCTGTTG-CATGTCCCAGACAT-GTCTTACACTAGCCCTCGTCTCAATGT
1 --C-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTAGTCTCAA-GT
* *
35277685 TGATGCCATGTCCCGGACATGGTCTTACACTGGCT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCT
35277720 TACACGAGTG
Statistics
Matches: 218, Mismatches: 29, Indels: 43
0.75 0.10 0.15
Matches are distributed among these distances:
43 1 0.00
44 1 0.00
45 5 0.02
46 76 0.35
47 92 0.42
48 38 0.17
49 5 0.02
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTAGTCTCAAGT
Found at i:35277611 original size:140 final size:142
Alignment explanation
Indices: 35277405--35277715 Score: 350
Period size: 140 Copynumber: 2.2 Consensus size: 142
35277395 GTTAAGTGCC
* * * *
35277405 GATGCCATGTCCCAAACATGGACTTACACTGGCTCATAG-CTCA--AGTCGATGCCATGTCCCAG
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCAC-TCGTCTCATTA-TCGATGCCATGTCCCAG
* * *
35277467 ACATGGTCTTACACT-GACTATCAT-CTCTTAGCTGATGCATGTCCCAGACATGTCTTACA-TTG
64 ACATGGTCTTACACTAG-CTATCATAAT-GTAGCTGATGCATGTCCCAGACATGTCTTACACTAG
* *
35277529 GCTTACGTCTCAAGGCT
127 CCCT-CGTCTCAAGGCT
*
35277546 GATG-CATGTCCCAAACAT-GTCTTACACTAGCACTCGTCTCATTATCGATGCCATGTCCTAGAC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCACTCGTCTCATTATCGATGCCATGTCCCAGAC
* * * * *
35277609 ATGGTTTTACACTAGCTCTTATAATGTGGCTGTTGCATGTCCCAGACATGTCTTACACTAGCCCT
66 ATGGTCTTACACTAGCTATCATAATGTAGCTGATGCATGTCCCAGACATGTCTTACACTAGCCCT
* *
35277674 CGTCTCAATGTT
131 CGTCTCAAGGCT
**
35277686 GATGCCATGTCCCGGACATGGTCTTACACT
1 GATGCCATGTCCCAAACATGGTCTTACACT
35277716 GGCTTACACG
Statistics
Matches: 143, Mismatches: 19, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
138 2 0.01
139 16 0.11
140 92 0.64
141 23 0.16
142 10 0.07
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (142 bp):
GATGCCATGTCCCAAACATGGTCTTACACTAGCACTCGTCTCATTATCGATGCCATGTCCCAGAC
ATGGTCTTACACTAGCTATCATAATGTAGCTGATGCATGTCCCAGACATGTCTTACACTAGCCCT
CGTCTCAAGGCT
Found at i:35277651 original size:94 final size:94
Alignment explanation
Indices: 35277542--35277715 Score: 267
Period size: 94 Copynumber: 1.9 Consensus size: 94
35277532 TACGTCTCAA
* *
35277542 GGCTGATGCATGTCCCAAACATGTCTTACACTAGCACTCGTCTCATTATCGATGCCATGTCCTAG
1 GGCTGATGCATGTCCCAAACATGTCTTACACTAGCACTCGTCTCAATATCGATGCCATGTCCCAG
*
35277607 ACATGGTTTTACACTAGCTCTTATAATGT
66 ACATGGTCTTACACTAGCTCTTATAATGT
* * * * * *
35277636 GGCTGTTGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCAATGTTGATGCCATGTCCCGG
1 GGCTGATGCATGTCCCAAACATGTCTTACACTAGCACTCGTCTCAATATCGATGCCATGTCCCAG
35277701 ACATGGTCTTACACT
66 ACATGGTCTTACACT
35277716 GGCTTACACG
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
94 71 1.00
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.32
Consensus pattern (94 bp):
GGCTGATGCATGTCCCAAACATGTCTTACACTAGCACTCGTCTCAATATCGATGCCATGTCCCAG
ACATGGTCTTACACTAGCTCTTATAATGT
Found at i:35287102 original size:15 final size:15
Alignment explanation
Indices: 35287084--35287124 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
35287074 ACTTATTGCC
35287084 TATTTTT-TTATATTA
1 TATTTTTATTAT-TTA
35287099 TATTTTTATTATTTA
1 TATTTTTATTATTTA
35287114 T-TTATTTATTA
1 TATT-TTTATTA
35287125 ACCCGTATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 2 0.08
15 18 0.75
16 4 0.17
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TATTTTTATTATTTA
Found at i:35292947 original size:14 final size:14
Alignment explanation
Indices: 35292928--35292956 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
35292918 ATATTATAAT
35292928 ATTATTAAAACTTA
1 ATTATTAAAACTTA
35292942 ATTATTAAAACTTA
1 ATTATTAAAACTTA
35292956 A
1 A
35292957 AAGTTAAGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (14 bp):
ATTATTAAAACTTA
Found at i:35293018 original size:12 final size:12
Alignment explanation
Indices: 35293001--35293041 Score: 68
Period size: 12 Copynumber: 3.6 Consensus size: 12
35292991 TATTTACATA
35293001 AAAGAAAAAGAG
1 AAAGAAAAAGAG
35293013 AAAG-AAAAG-G
1 AAAGAAAAAGAG
35293023 AAAGAAAAAGAG
1 AAAGAAAAAGAG
35293035 AAAGAAA
1 AAAGAAA
35293042 GAAGGAGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 5 0.19
11 10 0.37
12 12 0.44
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AAAGAAAAAGAG
Found at i:35293032 original size:16 final size:16
Alignment explanation
Indices: 35293007--35293044 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
35292997 CATAAAAGAA
*
35293007 AAAGAGAAAGA-AAAGG
1 AAAGAAAAAGAGAAA-G
35293023 AAAGAAAAAGAGAAAG
1 AAAGAAAAAGAGAAAG
35293039 AAAGAA
1 AAAGAA
35293045 GGAGAATTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 17 0.85
17 3 0.15
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (16 bp):
AAAGAAAAAGAGAAAG
Found at i:35293096 original size:9 final size:9
Alignment explanation
Indices: 35293082--35293110 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
35293072 GCTCAAACGG
35293082 TTAGTCAAT
1 TTAGTCAAT
35293091 TTAGTCAAT
1 TTAGTCAAT
35293100 TTAGTCAAT
1 TTAGTCAAT
35293109 TT
1 TT
35293111 TCTTGTAATT
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:0.10, G:0.10, T:0.48
Consensus pattern (9 bp):
TTAGTCAAT
Found at i:35293333 original size:30 final size:28
Alignment explanation
Indices: 35293279--35293335 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 28
35293269 AATTGTAAGA
*
35293279 TAAATTGTAAATTTTGAGTATTAGGGAC
1 TAAATTGTAAATTTTGAATATTAGGGAC
35293307 TAAATTGTGAAAATTTTGAA-ATTTAGGGA
1 TAAATTGT--AAATTTTGAATA-TTAGGGA
35293336 TTTAACTGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 8 0.32
29 1 0.04
30 16 0.64
ACGTcount: A:0.39, C:0.02, G:0.21, T:0.39
Consensus pattern (28 bp):
TAAATTGTAAATTTTGAATATTAGGGAC
Found at i:35295382 original size:40 final size:38
Alignment explanation
Indices: 35295325--35295475 Score: 126
Period size: 40 Copynumber: 3.8 Consensus size: 38
35295315 TCGAATGATG
* * *
35295325 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATA
1 TCCGGACTAA-TCCCGAAGGCTTTGTGC-AAGTTACTAAA
* * *
35295365 TCCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGACTA--ATCCCGAAGGC-TTTGTGCAAGTTACTAAA
*
35295405 TCCGGGCTAATCCCGAAGGCTTTGTGCAAGTTACTAAA
1 TCCGGACTAATCCCGAAGGCTTTGTGCAAGTTACTAAA
** *
35295443 -CCAGGGTTAAGTCCCGAAGGCATTCGTGCAAGT
1 TCC-GGACTAA-TCCCGAAGGC-TTTGTGCAAGT
35295476 CGCTATAACC
Statistics
Matches: 92, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
37 2 0.02
38 23 0.25
39 18 0.20
40 41 0.45
41 7 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (38 bp):
TCCGGACTAATCCCGAAGGCTTTGTGCAAGTTACTAAA
Found at i:35295490 original size:78 final size:79
Alignment explanation
Indices: 35295325--35295476 Score: 193
Period size: 78 Copynumber: 1.9 Consensus size: 79
35295315 TCGAATGATG
* *
35295325 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAA-TCCCGAAGGCTTTGTGCTAAGTGACTATAACCGGACTAAGATCCGAAGGCATTC
* *
35295390 GTGCGAGTTAATAAA
65 GTGCAAGTCAATAAA
* **
35295405 TCCGGGCTAATCCCGAAGGCTTTGTGC-AAGTTACTA-AACCAGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTATAACC-GGACTAAGAT-CCGAAGGCATT
35295467 CGTGCAAGTC
64 CGTGCAAGTC
35295477 GCTATAACCG
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
77 4 0.06
78 32 0.51
79 17 0.27
80 10 0.16
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTATAACCGGACTAAGATCCGAAGGCATTCG
TGCAAGTCAATAAA
Found at i:35295497 original size:40 final size:40
Alignment explanation
Indices: 35295378--35295506 Score: 124
Period size: 40 Copynumber: 3.3 Consensus size: 40
35295368 GGACTAGGAT
* * * *
35295378 CCGAAGGCATTCGTGCGAGTTAATAAATCC-GGGCTAA-TC
1 CCGAAGGCATTCGTGCAAGTCACTAAA-CCAGGGTTAAGTC
* *
35295417 CCGAAGGC-TTTGTGCAAGTTACTAAACCAGGGTTAAGTC
1 CCGAAGGCATTCGTGCAAGTCACTAAACCAGGGTTAAGTC
* *
35295456 CCGAAGGCATTCGTGCAAGTCGCTATAACC-GGGCTT-CGTC
1 CCGAAGGCATTCGTGCAAGTCACTA-AACCAGGG-TTAAGTC
35295496 CCGAAGGCATT
1 CCGAAGGCATT
35295507 TGAGCGAGTC
Statistics
Matches: 77, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
37 2 0.03
38 21 0.27
39 18 0.23
40 30 0.39
41 6 0.08
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCAAGTCACTAAACCAGGGTTAAGTC
Found at i:35297269 original size:40 final size:39
Alignment explanation
Indices: 35297139--35297272 Score: 114
Period size: 40 Copynumber: 3.4 Consensus size: 39
35297129 ACCTCGAGTC
*
35297139 GATGAGACACTGGGTGTCAATCTATTACTTC-AGATTAATTT
1 GATGAGACACTGGGTGTCAAT-TATTACTTCGA-ATT-ATCT
* * ** * *
35297180 GAT-AAAGCACTGGGTGCCAA-T-TTACTTCGGTTTAGCC
1 GATGAGA-CACTGGGTGTCAATTATTACTTCGAATTATCT
*
35297217 GATGAGACACTGGGTGTCAATTTATTATTTCGAATTATCT
1 GATGAGACACTGGGTGTCAA-TTATTACTTCGAATTATCT
*
35297257 GATGAGGCACTGGGTG
1 GATGAGACACTGGGTG
35297273 CCAAACTAGT
Statistics
Matches: 72, Mismatches: 15, Indels: 13
0.72 0.15 0.13
Matches are distributed among these distances:
37 16 0.22
38 11 0.15
39 2 0.03
40 28 0.39
41 15 0.21
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.34
Consensus pattern (39 bp):
GATGAGACACTGGGTGTCAATTATTACTTCGAATTATCT
Found at i:35300728 original size:46 final size:47
Alignment explanation
Indices: 35300582--35300799 Score: 202
Period size: 46 Copynumber: 4.6 Consensus size: 47
35300572 GGTAAGGTGC
* *
35300582 CGATGCCATGTCCCAGACATGGTCTTACACAGGCTCTAGCATATCTG-TGT
1 CGATGCCATGTCCCAGACATGGTCTTACACA-G-ACTA-CATCTC-GATGT
* *
35300632 CGATGCCATGTCCCAGACATGGTCTTACACTGAC-ACATCTCG-TAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACAGACTACATCTCGAT-GT
* *
35300678 CGATG-CATGTCCCAGACAT-GTCTTACACAGACTTACGTCTCGAGGT
1 CGATGCCATGTCCCAGACATGGTCTTACACAGAC-TACATCTCGATGT
* *
35300724 CGATG-CATGCCCCAGACAT-GTCTTACACTAGCACT-CGTCTC-ATTGT
1 CGATGCCATGTCCCAGACATGGTCTTACAC-AG-ACTACATCTCGA-TGT
* *
35300770 CGATGCCATGTCCTAGACATGGTTTTACAC
1 CGATGCCATGTCCCAGACATGGTCTTACAC
35300800 TAGCTCTCAT
Statistics
Matches: 146, Mismatches: 13, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
44 12 0.08
45 17 0.12
46 59 0.40
47 16 0.11
48 11 0.08
49 1 0.01
50 30 0.21
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACAGACTACATCTCGATGT
Found at i:35304053 original size:13 final size:13
Alignment explanation
Indices: 35304035--35304059 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35304025 GGGCCATGTG
35304035 AGGGACACGGGCT
1 AGGGACACGGGCT
35304048 AGGGACACGGGC
1 AGGGACACGGGC
35304060 GTGTGCTTGG
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:0.24, C:0.24, G:0.48, T:0.04
Consensus pattern (13 bp):
AGGGACACGGGCT
Found at i:35317974 original size:26 final size:26
Alignment explanation
Indices: 35317938--35317989 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
35317928 GCTGAAAAAC
35317938 AATGACCTCTAATTGTCAAGGGACAG
1 AATGACCTCTAATTGTCAAGGGACAG
35317964 AATGACCTCTAATTGTCAAGGGACAG
1 AATGACCTCTAATTGTCAAGGGACAG
35317990 TTTCTGCATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (26 bp):
AATGACCTCTAATTGTCAAGGGACAG
Found at i:35321243 original size:49 final size:47
Alignment explanation
Indices: 35321136--35321418 Score: 216
Period size: 49 Copynumber: 5.9 Consensus size: 47
35321126 AGGGTACAAT
* * *
35321136 GCCGACGCCATGTTCCAA-ACATGGTCTTACACTGGCTCTCACATCGAA
1 GCCGATGCCATG-TCCAAGACA-GGTCTTACACTAGCTCACACATCGAA
** * *
35321184 GTTGATGCCATGTCCAAGACAGGTCTTACACTAACTTCCACACATCGAG
1 GCCGATGCCATGTCCAAGACAGGTCTTACACTAGC-T-CACACATCGAA
* *
35321233 GCCGATGCCATGTCCCAA-ACAGGTCTTACACT-G-ACACACCTC-AA
1 GCCGATGCCATGT-CCAAGACAGGTCTTACACTAGCTCACACATCGAA
* * ** * *
35321277 GCCGATGCCATGTCCCATACAGGTCTTACACTAGCTTGCATATCTTGAG
1 GCCGATGCCATGTCCAAGACAGGTCTTACACTAGCTCACACATC--GAA
* * * * * * **
35321326 GTCGATGCGATGTCCCAGATAGGTCTTACACTGGCTCTCATCTATCGTT
1 GCCGATGCCATGTCCAAGACAGGTCTTACACTAGCTCACA-C-ATCGAA
* * *
35321375 GCTGATGCCATGTCCCAGACAGGTCTTACACTAGCACACACATC
1 GCCGATGCCATGTCCAAGACAGGTCTTACACTAGCTCACACATC
35321419 ATCCAAATGT
Statistics
Matches: 186, Mismatches: 37, Indels: 25
0.75 0.15 0.10
Matches are distributed among these distances:
43 3 0.02
44 28 0.15
45 8 0.04
46 4 0.02
47 20 0.11
48 14 0.08
49 102 0.55
50 4 0.02
51 3 0.02
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (47 bp):
GCCGATGCCATGTCCAAGACAGGTCTTACACTAGCTCACACATCGAA
Found at i:35321301 original size:93 final size:95
Alignment explanation
Indices: 35321136--35321407 Score: 262
Period size: 93 Copynumber: 2.8 Consensus size: 95
35321126 AGGGTACAAT
* * * * **
35321136 GCCGACGCCATGTTCCAAACATGGTCTTACACTGGCTCTCACATCGAAGTTGATGCCATGTCCAA
1 GCCGATGCCATGTCCCAAACA-GGTCTTACACT-GCACACACATCGAAGCCGATGCCATGTCCAA
35321201 GACAGGTCTTACACTAACTTCCACA-CATCGAG
64 GACAGGTCTTACACTAACTTCCACATC-TCGAG
* * *
35321233 GCCGATGCCATGTCCCAAACAGGTCTTACACTG-ACACACCTC-AAGCCGATGCCATGTCCCATA
1 GCCGATGCCATGTCCCAAACAGGTCTTACACTGCACACACATCGAAGCCGATGCCATGTCCAAGA
* * * *
35321296 CAGGTCTTACACTAGCTTGCATATCTTGAG
66 CAGGTCTTACACTAACTTCCACATCTCGAG
* * * * * * ** * *
35321326 GTCGATGCGATGTCCCAGATAGGTCTTACACTGGCTCTCATCTATCGTTGCTGATGCCATGTCCC
1 GCCGATGCCATGTCCCAAACAGGTCTTACACT-GCACACA-C-ATCGAAGCCGATGCCATGTCCA
35321391 AGACAGGTCTTACACTA
63 AGACAGGTCTTACACTA
35321408 GCACACACAT
Statistics
Matches: 145, Mismatches: 24, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
93 69 0.48
94 8 0.06
95 4 0.03
96 12 0.08
97 21 0.14
98 31 0.21
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (95 bp):
GCCGATGCCATGTCCCAAACAGGTCTTACACTGCACACACATCGAAGCCGATGCCATGTCCAAGA
CAGGTCTTACACTAACTTCCACATCTCGAG
Found at i:35324122 original size:20 final size:21
Alignment explanation
Indices: 35324097--35324136 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
35324087 GGGGCGTATG
35324097 TGAAAGGGG-AGAGAAAACCA
1 TGAAAGGGGAAGAGAAAACCA
35324117 TGAAAGGGGAAGAGAAAACC
1 TGAAAGGGGAAGAGAAAACC
35324137 CAACAACATG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.50, C:0.10, G:0.35, T:0.05
Consensus pattern (21 bp):
TGAAAGGGGAAGAGAAAACCA
Found at i:35325038 original size:20 final size:20
Alignment explanation
Indices: 35325013--35325058 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
35325003 AGGGACTAAA
35325013 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAGTTGTAAAATTTG
* * *
35325033 ATGAAAATTTTTAAAATTTT
1 ATGAAAAGTTGTAAAATTTG
35325053 ATGAAA
1 ATGAAA
35325059 GCATGTGCTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.13, T:0.39
Consensus pattern (20 bp):
ATGAAAAGTTGTAAAATTTG
Found at i:35330410 original size:2 final size:2
Alignment explanation
Indices: 35330403--35330435 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
35330393 CTCGTTTGAA
35330403 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
35330436 GGATTTATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:35337299 original size:21 final size:18
Alignment explanation
Indices: 35337259--35337302 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 18
35337249 TAATAATTGT
35337259 TATAAGTTTTTATATTTA
1 TATAAGTTTTTATATTTA
35337277 TATAAGTTATTTATATGTTTA
1 TATAAGTT-TTTATA--TTTA
35337298 TATAA
1 TATAA
35337303 AATTTAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.35
19 6 0.26
21 9 0.39
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (18 bp):
TATAAGTTTTTATATTTA
Found at i:35337353 original size:8 final size:9
Alignment explanation
Indices: 35337243--35337356 Score: 63
Period size: 9 Copynumber: 12.0 Consensus size: 9
35337233 TTTTATATAA
35337243 AATTTTTAAT
1 AATTTTT-AT
*
35337253 AATTGTTAT
1 AATTTTTAT
35337262 AAGTTTTTAT
1 AA-TTTTTAT
*
35337272 -ATTTATAT
1 AATTTTTAT
35337280 AAGTTATTTAT
1 AA-TT-TTTAT
35337291 -ATGTTTATAT
1 AAT-TTT-TAT
**
35337301 AAAATTTA-
1 AATTTTTAT
35337309 ATATTTTTAT
1 A-ATTTTTAT
* **
35337319 CATACTTAT
1 AATTTTTAT
35337328 AATTTTTTTAT
1 AA--TTTTTAT
35337339 AATTTTTAT
1 AATTTTTAT
35337348 AATTTTTAT
1 AATTTTTAT
35337357 TAGAAATGTA
Statistics
Matches: 79, Mismatches: 14, Indels: 23
0.68 0.12 0.20
Matches are distributed among these distances:
8 7 0.09
9 39 0.49
10 21 0.27
11 12 0.15
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.60
Consensus pattern (9 bp):
AATTTTTAT
Found at i:35347958 original size:40 final size:40
Alignment explanation
Indices: 35347832--35347960 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 40
35347822 TTGCTGGAAA
* * *
35347832 TTATATCC-GGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
35347871 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
35347911 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
35347951 TTATATCCGG
1 TTATATCCGG
35347961 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
39 10 0.13
40 66 0.87
ACGTcount: A:0.22, C:0.26, G:0.29, T:0.23
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:35352020 original size:33 final size:35
Alignment explanation
Indices: 35351983--35352052 Score: 117
Period size: 33 Copynumber: 2.0 Consensus size: 35
35351973 GAATAAAATT
35351983 CAGCCATACTTAA-TGGAAGCCTCC-GAAATATTA
1 CAGCCATACTTAATTGGAAGCCTCCAGAAATATTA
35352016 CAGCCATACTTAATTGGAAGCCTCCGAGAAATATTA
1 CAGCCATACTTAATTGGAAGCCTCC-AGAAATATTA
35352052 C
1 C
35352053 TGAGGTTCGG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
33 13 0.38
34 11 0.32
36 10 0.29
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (35 bp):
CAGCCATACTTAATTGGAAGCCTCCAGAAATATTA
Found at i:35356047 original size:40 final size:39
Alignment explanation
Indices: 35355921--35356049 Score: 136
Period size: 40 Copynumber: 3.2 Consensus size: 39
35355911 GCTGGAAATA
* * *
35355921 TATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
35355960 CTACATCCGGGCTAAGACCCGAAGGCATTCGCGGCGAGTCG
1 -TATATCCGGGCTAAGACCCGAAGGCATTCG-TGCGAGTGG
*
35356001 TCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
35356040 TTATATCCGG
1 -TATATCCGG
35356050 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
38 1 0.01
39 8 0.11
40 60 0.81
41 5 0.07
ACGTcount: A:0.22, C:0.26, G:0.30, T:0.21
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:35359035 original size:93 final size:93
Alignment explanation
Indices: 35358923--35359094 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
35358913 GCCCATAAGT
* *
35358923 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
35358988 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
35359016 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
35359081 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
35359095 AAATCCCAGT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:35359090 original size:46 final size:46
Alignment explanation
Indices: 35358915--35359090 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
35358905 TGTAACCCGC
* * *
35358915 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
35358961 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
35359011 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
35359054 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
35359091 TGCCAAATCC
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:35361513 original size:30 final size:30
Alignment explanation
Indices: 35361479--35361557 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 30
35361469 ACAAGAAAAC
*
35361479 GAATAAAGAAATCCAAGATAGAGAAACCCA
1 GAATAAAGAAATCCAAGATAAAGAAACCCA
* *
35361509 GAATAAAGAAATCC-AGAATAAAGAGATCCA
1 GAATAAAGAAATCCAAG-ATAAAGAAACCCA
*
35361539 G-ATAAAGAAACCCAAGATA
1 GAATAAAGAAATCCAAGATA
35361558 CGATACTATG
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
29 16 0.37
30 27 0.63
ACGTcount: A:0.57, C:0.15, G:0.16, T:0.11
Consensus pattern (30 bp):
GAATAAAGAAATCCAAGATAAAGAAACCCA
Found at i:35361557 original size:15 final size:14
Alignment explanation
Indices: 35361481--35361548 Score: 82
Period size: 15 Copynumber: 4.6 Consensus size: 14
35361471 AAGAAAACGA
35361481 ATAAAGAAATCCAAG
1 ATAAAGAAATCC-AG
* *
35361496 ATAGAGAAACCCAG
1 ATAAAGAAATCCAG
35361510 AATAAAGAAATCCAG
1 -ATAAAGAAATCCAG
*
35361525 AATAAAGAGATCCAG
1 -ATAAAGAAATCCAG
35361540 ATAAAGAAA
1 ATAAAGAAA
35361549 CCCAAGATAC
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
14 10 0.22
15 36 0.78
ACGTcount: A:0.59, C:0.13, G:0.16, T:0.12
Consensus pattern (14 bp):
ATAAAGAAATCCAG
Found at i:35364616 original size:93 final size:93
Alignment explanation
Indices: 35364504--35364675 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
35364494 GCCCATAAGT
* *
35364504 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
35364569 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
35364597 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
35364662 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
35364676 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:35364671 original size:46 final size:46
Alignment explanation
Indices: 35364496--35364671 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
35364486 TGTAACCCGC
* * *
35364496 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
35364542 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
35364592 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
35364635 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
35364672 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:35371996 original size:55 final size:55
Alignment explanation
Indices: 35371912--35372020 Score: 200
Period size: 55 Copynumber: 2.0 Consensus size: 55
35371902 GGTATCCCAT
* *
35371912 TTACCATCAAATTGTGTAAGTGGCCATTTTAAGTATGCACTCCTGTGAACCTCGG
1 TTACCATAAAATTGTGTAAGTGACCATTTTAAGTATGCACTCCTGTGAACCTCGG
35371967 TTACCATAAAATTGTGTAAGTGACCATTTTAAGTATGCACTCCTGTGAACCTCG
1 TTACCATAAAATTGTGTAAGTGACCATTTTAAGTATGCACTCCTGTGAACCTCG
35372021 CTCTTACGGC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (55 bp):
TTACCATAAAATTGTGTAAGTGACCATTTTAAGTATGCACTCCTGTGAACCTCGG
Found at i:35376529 original size:24 final size:24
Alignment explanation
Indices: 35376497--35376550 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
35376487 TTGCAAATTT
*
35376497 TGCCTTAAACCCTAGTATGTGACA
1 TGCCTTAAACCCTAGTATATGACA
35376521 TGCCTTAAACCCTAGTATATGACA
1 TGCCTTAAACCCTAGTATATGACA
*
35376545 TACCTT
1 TGCCTT
35376551 GTTTGAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (24 bp):
TGCCTTAAACCCTAGTATATGACA
Found at i:35385558 original size:6 final size:6
Alignment explanation
Indices: 35385543--35385684 Score: 261
Period size: 6 Copynumber: 24.0 Consensus size: 6
35385533 TTCATCCTTA
*
35385543 ACATAT ACATAA ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
35385591 ACATAT ACATAT ACATAT ACATAT --ATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
35385637 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
35385685 GACTCATTTC
Statistics
Matches: 132, Mismatches: 2, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
4 4 0.03
6 128 0.97
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.33
Consensus pattern (6 bp):
ACATAT
Found at i:35386638 original size:47 final size:47
Alignment explanation
Indices: 35386555--35386664 Score: 148
Period size: 47 Copynumber: 2.3 Consensus size: 47
35386545 TCTGAACAAA
* * * * *
35386555 GACATATTAAAATGCTGTACTAAGTAAGACATAATTATTAAACTTAG
1 GACACATTAAAATGTTGTACTAAATAAGACACAATTAGTAAACTTAG
* *
35386602 GACACATTAAAATGTTGTACTAAATAGGACACAATTAGTAAACTTAT
1 GACACATTAAAATGTTGTACTAAATAAGACACAATTAGTAAACTTAG
35386649 GACACATTAAAGATGT
1 GACACATTAAA-ATGT
35386665 ATATATTAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
47 51 0.93
48 4 0.07
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.30
Consensus pattern (47 bp):
GACACATTAAAATGTTGTACTAAATAAGACACAATTAGTAAACTTAG
Found at i:35389906 original size:16 final size:15
Alignment explanation
Indices: 35389879--35389912 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
35389869 ATAACTAGTA
*
35389879 TATAATTATATTTAT
1 TATAATTATATTAAT
35389894 TATAATGTATATTAAT
1 TATAAT-TATATTAAT
35389910 TAT
1 TAT
35389913 TATAAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:35396700 original size:2 final size:2
Alignment explanation
Indices: 35396693--35396724 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
35396683 TCAAGTATTC
35396693 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35396725 GAATGTACTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:35407432 original size:40 final size:40
Alignment explanation
Indices: 35407373--35407474 Score: 123
Period size: 40 Copynumber: 2.5 Consensus size: 40
35407363 AAATTGAATA
* * * *
35407373 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGTTAAGACCCGAAGACAATTATGCTAGAAACT
* * ***
35407413 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGTTAAGACCCGAAGACAATTATGCTAGAAACT
35407453 ATATCCGGGTTAAGACCCGAAG
1 ATATCCGGGTTAAGACCCGAAG
35407475 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGTTAAGACCCGAAGACAATTATGCTAGAAACT
Done.