Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397257.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_95.0, whole genome shotgun sequence
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: 12062019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 103452 characters in sequence are not A, C, G, or T
File 17 of 26
Found at i:6762429 original size:28 final size:28
Alignment explanation
Indices: 6762393--6762453 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
6762383 TACTTAAATG
*
6762393 GAATACCCAATTCTACAATTTTTTTAGA
1 GAATACCCAATTCTACAATTTGTTTAGA
* * *
6762421 GAATGCCCAATTTTACACTTTGTTTAGA
1 GAATACCCAATTCTACAATTTGTTTAGA
*
6762449 AAATA
1 GAATA
6762454 TTTCATAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (28 bp):
GAATACCCAATTCTACAATTTGTTTAGA
Found at i:6764974 original size:995 final size:993
Alignment explanation
Indices: 6762444--6765400 Score: 4172
Period size: 995 Copynumber: 3.0 Consensus size: 993
6762434 TACACTTTGT
*
6762444 TTAGAAAATATTTCATAAATAGTCCACAAAATTTTGTTTAAACATTACTACTTAAATCTAAAATT
1 TTAGAAAATATTTCATAAATAGGCCACAAAATTTTGTTTAAACATTACTACTTAAATCTAAAATT
* * * * * *
6762509 TTATTCAAATATGATCTTATATATACTTTTTATCGTACCTAGGTGAGAAACAAATACCTAAACAT
66 TTATTCAAATATGATCTTATATATACTTTTTATCGTAACTGGGTGAGAAACAAGTATCTGAGCAT
* * * * *
6762574 TTGACTTATTAATTAATGTATATTTTTTTTATTTAAAGAATAATATTCGAATTCTTTCCCAGATA
131 TTGACTTATTAATTAATGTATAATTTTTTTATTTAAAGAATAAGATTTGAATTCTTTCCCAAACA
* * * * *
6762639 AAAAAATTAGGAACAAGAACAGGTATGCACTGGCCAC-AAACGTGACTCTCTTAGCCTTCTAAGA
196 AAAAAATGAGGAACAAGAACAGGTATGCATTGGCCACAAAACGTGGCTCTCTTGGCCTTCTAAGG
* * *
6762703 TGGTATGGGTCTTTTAATTACAAAGATATAACTTCAATATTCTAAACAATTCATCGTCTTTGCTC
261 TGGCACGGGTCTTTTAGTTACAAAGATATAACTTCAATATTCTAAACAATTCATCGTCTTTGCTC
* * * * * *
6762768 AACCTTATCGACACTAATAGTTAGACGTCTTTGAAATCCAATCTTTTTCTGATGTAC-AGGATCT
326 AACCTTATCAATACTAATAGTTAGACGTCTTTGAGATCCAATCATTTTCTGATGCACAAGG-TCC
* * * *
6762832 ATTAAAAATGGCAATTGTAAAGCATACTCAAGGATATGTGCTCAAGAGAGATTTGTACTTACATC
390 ATTAAAAATGGCAAATGTAAAGCATACTCAAGGATATGTACTCAAGAGAGATCTATACTTACATC
* * * *
6762897 TTCCTTGATAATTATT-AGGAAGGAAGAGAGAGGTTTTGAAAGTCATGTTGGAAGAAACACTCGA
455 TTCCTTGATAATTATTAAGAAAGG-GGAGAGAGGTTTAGAAAGTCATGTTGGAAGAAACACT-TA
* * *
6762961 TTTTTATTACTCTAGGGTGTTTTGCCTTTTATTACAAGAGGTCCTTTCCTTTTATAAGCAAAGGA
518 TTTTTATTACTCTAGGGTGTTTTGCCTTTCATTACAAAAGGTCCTTTCCTTTTATAAGTAAAGGA
* *
6763026 GTAGGAAACAATAAACTTTATACAGTTAAAAGATAAAGACGCACATTTTACACAATATACTGATC
583 GTAGGAAACAACAAACTTTATACAGTTAAAAGATAAAGACGCACATTTTACACAATACACTGATC
* * * *
6763091 ATAATGATAAAACTGACACTCTTAGCTGGTATACTTAAAGTAAAAGACAAGACAAAAGACATTTA
648 ATAGTGATAAAACTGACACTCTTAGCTGGCATACTTAAAGTAGAAGACAAGATAAAAGACATTTA
* * *
6763156 GTACAAACTTCTTTAGTAAAGAAAAATTATTGGCCTTCTTTAATCATAGTTTGTGTCAGGGTCTG
713 GTACAAACTTCTTTAGTAAAGGAAAATTATTGGCCTTCTTTAATCATAGTCTGTGTCAAGGTCTG
* * * * *
6763221 AAGTGAGTTTAAGTTCCACAATCTTTTGGTATTTTCTTTCCCTGCATATATACATCTGTAGAAAG
778 AAGTGAGGTTAAGTTCCACAATCTTTTGCTATTTT-TTTCCCTGCATATGTACA-GTGTAAAAAG
* * *
6763286 AATGTCTCAAGGTTTGTGTCACAGTGTCCTTTGCATGTTTCACATGGTGGCTTTATAGAAAGTTA
841 AGTGTCTCAAGGTTTGTATCACAGTGTCCTTTACATGTTTCACATGGTGGCTTTATAGAAAGTTA
* * * * *
6763351 AGCAAGTTTGTCTTCATTTGTCTCTCTATATT-CCTAAGGATCTTA-AAGCCACTCATGGGGATC
906 TGCAAGTTTATCTTCATTTGTCTCTCTATATTCCCAAAGG-TCTTAGGA-CCACTCATGAGGATC
* * *
6763414 ATTAGGGATGGTAATAGATACCCTA
969 ATTAAGGATAGCAATAGATACCCTA
* * *
6763439 TTAAAAAATATTTCATAAATAGGTCATAAAATTTTGTTTAAACATTACTACTTAAATCTAAAATT
1 TTAGAAAATATTTCATAAATAGGCCACAAAATTTTGTTTAAACATTACTACTTAAATCTAAAATT
*
6763504 TTCTTCAAATATGATCTTATATATACTTTTTATCGTAACTGGGTGAGAAACAAGTATCTGAGCAT
66 TTATTCAAATATGATCTTATATATACTTTTTATCGTAACTGGGTGAGAAACAAGTATCTGAGCAT
* * *
6763569 TTAACTTATTAATTAATGTATAATTTTTTTATTTAAAGAATAAGATTTGGATTTTTTTCCCAAAT
131 TTGACTTATTAATTAATGTATAATTTTTTTATTTAAAGAATAAGATTT-GAATTCTTTCCC--A-
* * *
6763634 AACAAAAAAATGAGGAACAAGAACAAGTATGCATTGACCACAAAACGTGGCTCTCCTGGCCTTCT
192 AACAAAAAAATGAGGAACAAGAACAGGTATGCATTGGCCACAAAACGTGGCTCTCTTGGCCTTCT
* * * * *
6763699 AAGGTGGCACGAGTCTTCTAGTTATAAAGATATAACTTCAATATTGTAAACAACTCATCGTCTTT
257 AAGGTGGCACGGGTCTTTTAGTTACAAAGATATAACTTCAATATTCTAAACAATTCATCGTCTTT
* * * *
6763764 GCTCAACCTTATCAATACTAATAGTTAGATGTCTTTGAGATCCAATCCTTTTCTGATGCATAGGG
322 GCTCAACCTTATCAATACTAATAGTTAGACGTCTTTGAGATCCAATCATTTTCTGATGCACAAGG
* * * * * * * *
6763829 TCCATTAAAACTAGCAAGTGTAGAGCATTCTCAAGGATATGTACTCATGAAAGATCTATAGTTAC
387 TCCATTAAAAATGGCAAATGTAAAGCATACTCAAGGATATGTACTCAAGAGAGATCTATACTTAC
* * * *
6763894 ATCTTCCTTGATAATTATTAGGAAGGGGGAAAGAGGTTTAGAAAGTCATGTTAGAAGAAACACTT
452 ATCTTCCTTGATAATTATTAAGAAAGGGGAGAGAGGTTTAGAAAGTCATGTTGGAAGAAACACTT
* *
6763959 GATTTTTATTACTTTAGGGTGTTTTGCCTTTCATTACAAAAGGTCATTTCCTTTTATAAGTAAAG
517 -ATTTTTATTACTCTAGGGTGTTTTGCCTTTCATTACAAAAGGTCCTTTCCTTTTATAAGTAAAG
* * * * **
6764024 GAGTAGAAAACAACAAACCTTATACAGTTAAAAGATAAAAACACATGTTTTACACAATACACTGA
581 GAGTAGGAAACAACAAACTTTATACAGTTAAAAGATAAAGACGCACATTTTACACAATACACTGA
* * * *
6764089 TCATAGTGATAAAACTGACACTCTTAGTTGGCCTTCTTAAAGTAGAAGATAAGATAAAAGACATT
646 TCATAGTGATAAAACTGACACTCTTAGCTGGCATACTTAAAGTAGAAGACAAGATAAAAGACATT
* * *
6764154 TAGTACAAACTTCTTTAGTAAAGGAAAATTATTGACCTTTTTTAATCATAGGCTGTGTCAAGGTC
711 TAGTACAAACTTCTTTAGTAAAGGAAAATTATTGGCCTTCTTTAATCATAGTCTGTGTCAAGGTC
* * * *
6764219 TGAAGTGAGGTTAAGTTCCACAATCTTTTGTTATTTTTTTTCTTACATATGTAC-GTGTAAAAAG
776 TGAAGTGAGGTTAAGTTCCACAATCTTTTGCTATTTTTTTCCCTGCATATGTACAGTGTAAAAAG
* * * *
6764283 AGTGCCTC-TGGTCTGTATCACAGTGTCCTTCACATGTTTCACATGGTGGCTTTATAGAAAGTTA
841 AGTGTCTCAAGGTTTGTATCACAGTGTCCTTTACATGTTTCACATGGTGGCTTTATAGAAAGTTA
*
6764347 TGCAAGTTTATTTTCATTTGTCTCGTC-ATATTCCCAAAGGTCTTAGGACCACTCATGAGGATCA
906 TGCAAGTTTATCTTCATTTGTCTC-TCTATATTCCCAAAGGTCTTAGGACCACTCATGAGGATCA
*
6764411 GTCTAAGGATAGCAATGGATACCCTA
970 -T-TAAGGATAGCAATAGATACCCTA
* *
6764437 TTAGAAAATATTTTATAAATAGGCCACAAAATTTTGTTTAAACATTATTACTTAAATCTAAAATT
1 TTAGAAAATATTTCATAAATAGGCCACAAAATTTTGTTTAAACATTACTACTTAAATCTAAAATT
* * * *
6764502 TTATCCAAATATGATCTTATATATTCCTTTTATCGTAACTGGGTGAGAAACAAGTATCTGAGTAT
66 TTATTCAAATATGATCTTATATATACTTTTTATCGTAACTGGGTGAGAAACAAGTATCTGAGCAT
* *
6764567 TTGATTTATTAATTAATATATAATTTTTTTATTTAAAGAATAAGATTTGAATTCTTTCCCAAACA
131 TTGACTTATTAATTAATGTATAATTTTTTTATTTAAAGAATAAGATTTGAATTCTTTCCCAAACA
* *
6764632 GAAAAAATGAGGAACAAGAACAGGTATGCATTGGCCACAAAACGTGGCTCTCTTGGCCTTTTAGG
196 -AAAAAATGAGGAACAAGAACAGGTATGCATTGGCCACAAAACGTGGCTCTCTTGGCCTTCTAAG
* * *
6764697 GTAGCACGGGTCTTTTAGTGACAAAGATATAACTTCAATATTCTAAACAATTCATCATCTTTGCT
260 GTGGCACGGGTCTTTTAGTTACAAAGATATAACTTCAATATTCTAAACAATTCATCGTCTTTGCT
* * * *
6764762 CAACCCTATCAATACTGATAATTAGACGTCTTTGAGATCCAATCATTTTATGATGCACAAGGTCC
325 CAACCTTATCAATACTAATAGTTAGACGTCTTTGAGATCCAATCATTTTCTGATGCACAAGGTCC
* * * *
6764827 ATTAAAAATGGCAAATGCAAAGCATACTCAAGGATATGTACTTAGGAGAGATCTATACTTATATC
390 ATTAAAAATGGCAAATGTAAAGCATACTCAAGGATATGTACTCAAGAGAGATCTATACTTACATC
* * *
6764892 TTTCTTGATAATTATTAAAAAAGGGGAGAGAAGTTTAGAAAGTCATGTTGGAAGAAACACATTAT
455 TTCCTTGATAATTATTAAGAAAGGGGAGAGAGGTTTAGAAAGTCATGTTGGAAGAAACAC-TTAT
*
6764957 TTTTATTACTCTAGGGTGTTTTGCCTTTCATTACAAGAA-GTCCTTTCCTTTTGTAAGTAAAGGA
519 TTTTATTACTCTAGGGTGTTTTGCCTTTCATTACAA-AAGGTCCTTTCCTTTTATAAGTAAAGGA
* * * *
6765021 GTAGGAGACAACAAACTTTATACAATTAAAAGATAAAGATGCACCTTTTACACAATACACTGATC
583 GTAGGAAACAACAAACTTTATACAGTTAAAAGATAAAGACGCACATTTTACACAATACACTGATC
* * * *
6765086 ATAGTGATAAAATTGACACTCTTAGCTAGCATACTTAAAGTAGAAAACAAGATAAAAGACATTTG
648 ATAGTGATAAAACTGACACTCTTAGCTGGCATACTTAAAGTAGAAGACAAGATAAAAGACATTTA
*
6765151 GTACAAACTTCTTTACTAAAGGAAAATTATTGGCCTTCTTTAATCATAGTCTGTGTC-AGTGTCT
713 GTACAAACTTCTTTAGTAAAGGAAAATTATTGGCCTTCTTTAATCATAGTCTGTGTCAAG-GTCT
* * * *
6765215 GAAGTGAAGTTAAGTTCCATAATCTTTTGCTGTTTTGTTCCCTGCATATGTACATGTGTAGAAAA
777 GAAGTGAGGTTAAGTTCCACAATCTTTTGCTATTTTTTTCCCTGCATATGTACA-GTGTA-AAAA
* * * *
6765280 -AGTGTCTCGAGGTTTGTATCACAGTGTCTTTTACATGCTTCACATGATGGCTTTATAGAAAGTT
840 GAGTGTCTCAAGGTTTGTATCACAGTGTCCTTTACATGTTTCACATGGTGGCTTTATAGAAAGTT
* * * *
6765344 ATGCAAGTATATCTTCATTTGTCTCTCTATATTCCCAAGGGTTTTGGGACCACTCAT
905 ATGCAAGTTTATCTTCATTTGTCTCTCTATATTCCCAAAGGTCTTAGGACCACTCAT
6765401 AAGGTTCGCT
Statistics
Matches: 1727, Mismatches: 213, Indels: 41
0.87 0.11 0.02
Matches are distributed among these distances:
994 6 0.00
995 719 0.42
996 111 0.06
997 48 0.03
998 287 0.17
999 48 0.03
1000 502 0.29
1001 6 0.00
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (993 bp):
TTAGAAAATATTTCATAAATAGGCCACAAAATTTTGTTTAAACATTACTACTTAAATCTAAAATT
TTATTCAAATATGATCTTATATATACTTTTTATCGTAACTGGGTGAGAAACAAGTATCTGAGCAT
TTGACTTATTAATTAATGTATAATTTTTTTATTTAAAGAATAAGATTTGAATTCTTTCCCAAACA
AAAAAATGAGGAACAAGAACAGGTATGCATTGGCCACAAAACGTGGCTCTCTTGGCCTTCTAAGG
TGGCACGGGTCTTTTAGTTACAAAGATATAACTTCAATATTCTAAACAATTCATCGTCTTTGCTC
AACCTTATCAATACTAATAGTTAGACGTCTTTGAGATCCAATCATTTTCTGATGCACAAGGTCCA
TTAAAAATGGCAAATGTAAAGCATACTCAAGGATATGTACTCAAGAGAGATCTATACTTACATCT
TCCTTGATAATTATTAAGAAAGGGGAGAGAGGTTTAGAAAGTCATGTTGGAAGAAACACTTATTT
TTATTACTCTAGGGTGTTTTGCCTTTCATTACAAAAGGTCCTTTCCTTTTATAAGTAAAGGAGTA
GGAAACAACAAACTTTATACAGTTAAAAGATAAAGACGCACATTTTACACAATACACTGATCATA
GTGATAAAACTGACACTCTTAGCTGGCATACTTAAAGTAGAAGACAAGATAAAAGACATTTAGTA
CAAACTTCTTTAGTAAAGGAAAATTATTGGCCTTCTTTAATCATAGTCTGTGTCAAGGTCTGAAG
TGAGGTTAAGTTCCACAATCTTTTGCTATTTTTTTCCCTGCATATGTACAGTGTAAAAAGAGTGT
CTCAAGGTTTGTATCACAGTGTCCTTTACATGTTTCACATGGTGGCTTTATAGAAAGTTATGCAA
GTTTATCTTCATTTGTCTCTCTATATTCCCAAAGGTCTTAGGACCACTCATGAGGATCATTAAGG
ATAGCAATAGATACCCTA
Found at i:6765799 original size:15 final size:16
Alignment explanation
Indices: 6765774--6765805 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
6765764 TATTTTGTGT
6765774 TAACATTATAAAATTA
1 TAACATTATAAAATTA
6765790 TAAC-TTATAAAATTA
1 TAACATTATAAAATTA
6765805 T
1 T
6765806 TAATTATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (16 bp):
TAACATTATAAAATTA
Found at i:6765812 original size:15 final size:14
Alignment explanation
Indices: 6765778--6765812 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
6765768 TTGTGTTAAC
6765778 ATTATAAAATTATA
1 ATTATAAAATTATA
6765792 ACTTATAAAATTATTA
1 A-TTATAAAATTA-TA
6765808 ATTAT
1 ATTAT
6765813 TATATATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 1 0.05
15 15 0.79
16 3 0.16
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (14 bp):
ATTATAAAATTATA
Found at i:6767820 original size:18 final size:18
Alignment explanation
Indices: 6767799--6767834 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6767789 TAAAAAATAA
*
6767799 AAAATATTTAAAATTTTT
1 AAAATAATTAAAATTTTT
*
6767817 AAAATAATTCAAATTTTT
1 AAAATAATTAAAATTTTT
6767835 TTTCAAACAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
AAAATAATTAAAATTTTT
Found at i:6770624 original size:24 final size:25
Alignment explanation
Indices: 6770583--6770629 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
6770573 ACATTGACTC
* * *
6770583 ATCTATAATTTGTCTAT-ATTTATA
1 ATCTATAATATATATATAATTTATA
6770607 ATCTATAATATATATATAATTTA
1 ATCTATAATATATATATAATTTA
6770630 CATATTAGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.51
Consensus pattern (25 bp):
ATCTATAATATATATATAATTTATA
Found at i:6771542 original size:3 final size:3
Alignment explanation
Indices: 6771534--6771568 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
6771524 ATATTATGTC
6771534 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
6771569 TCATTATGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:6776413 original size:252 final size:252
Alignment explanation
Indices: 6775937--6776444 Score: 662
Period size: 252 Copynumber: 2.0 Consensus size: 252
6775927 AGCAGTACTA
* * * * **
6775937 CTTTGAAGTTCTTTAGCAAGTGCATTTGTAAGCCATAAAAGAATTATTGCATTGCATTATATCCA
1 CTTTAAAGCTCTTTAACAAATGCATTTGTAAGCCATAAAAGAACCATTGCATTGCATTATATCCA
* * ** *
6776002 TAATTGTAAATCTAGAGAATCAATCTGGATTTTCTATCATTCTATCCACAAAACTTGTGCATTTA
66 TAATTGTAAATCCAGAGAATCAATCTGGATTTTCTATCATTCCATCCACAAAACTTACGCATTCA
* * **
6776067 TAAAGCTATGCCTCCGCATGAAATAATTATCTTCACTTTCACTAAGAGGGTGCGTCACAAAAATC
131 TAAAGCTACGCCTCCACATGAAATAATTATCTTCACTTTCACTAAGAGGGTGCACCACAAAAATC
* * * *
6776132 AAGACTAGATGATCAGACGAATGCAAGTAGTAT-AGAGAAATGGCATCAATGGCCTTG
196 AAGACTAGATGATCAGACGAATACAAGTAGTATGA-AAAAATGACATCAATGACCTTG
* * *
6776189 CTTTAAAGCTCTTTAACAAATGCATTTGTAAGCCATGAAAGAACCATTGCATTGCATTGTATCTA
1 CTTTAAAGCTCTTTAACAAATGCATTTGTAAGCCATAAAAGAACCATTGCATTGCATTATATCCA
* * *
6776254 TAATTGTAAATCCAGAGAATTAATCT-GATTTTTTTATCATTCCATCCACAAAACTTACGCGTTC
66 TAATTGTAAATCCAGAGAATCAATCTGGA-TTTTCTATCATTCCATCCACAAAACTTACGCATTC
* * * * *
6776318 ATAAAGCTACGTCTCCACATGAAATATTTATTTTCATTTTCACTGAGAGGGTGCACCACAAAAAT
130 ATAAAGCTACGCCTCCACATGAAATAATTATCTTCACTTTCACTAAGAGGGTGCACCACAAAAAT
* * * *
6776383 -TAGATCTGGATGATCAGATGAATACAAGTAGTATGAAAAAATGACATCAATGACCTTT
195 CAAGA-CTAGATGATCAGACGAATACAAGTAGTATGAAAAAATGACATCAATGACCTTG
6776441 CTTT
1 CTTT
6776445 GATTGGCATT
Statistics
Matches: 219, Mismatches: 34, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
251 5 0.02
252 213 0.97
253 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (252 bp):
CTTTAAAGCTCTTTAACAAATGCATTTGTAAGCCATAAAAGAACCATTGCATTGCATTATATCCA
TAATTGTAAATCCAGAGAATCAATCTGGATTTTCTATCATTCCATCCACAAAACTTACGCATTCA
TAAAGCTACGCCTCCACATGAAATAATTATCTTCACTTTCACTAAGAGGGTGCACCACAAAAATC
AAGACTAGATGATCAGACGAATACAAGTAGTATGAAAAAATGACATCAATGACCTTG
Found at i:6783990 original size:3 final size:3
Alignment explanation
Indices: 6783982--6784012 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
6783972 TTCTTTTCAG
6783982 ATT ATT ATT ATT ATT ATT ATT ATT ATT -TT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
6784013 ATATCGCCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:6787945 original size:2 final size:2
Alignment explanation
Indices: 6787938--6787970 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
6787928 TTTCTTTATC
*
6787938 AT AT AT AT AT AT AT AT AT AT AT AT AT AT CT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6787971 CCTGGTGTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6788132 original size:21 final size:21
Alignment explanation
Indices: 6788103--6788146 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
6788093 TCAAAAGTTT
*
6788103 AGTAATG-AAAGATAAGAGAAG
1 AGTAATGAAAAGAGAA-AGAAG
*
6788124 AGTAGTGAAAAGAGAAAGAAG
1 AGTAATGAAAAGAGAAAGAAG
6788145 AG
1 AG
6788147 AGATGGTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.57, C:0.00, G:0.32, T:0.11
Consensus pattern (21 bp):
AGTAATGAAAAGAGAAAGAAG
Found at i:6788319 original size:2 final size:2
Alignment explanation
Indices: 6788314--6788348 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
6788304 GAAGGGATAC
*
6788314 AG AG AG AG AG AG GG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
6788349 TAGTGTAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6801537 original size:5 final size:5
Alignment explanation
Indices: 6801527--6801551 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
6801517 AGCCTAATTA
6801527 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
6801552 CAGGATCCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:6802786 original size:48 final size:48
Alignment explanation
Indices: 6802731--6802827 Score: 167
Period size: 48 Copynumber: 2.0 Consensus size: 48
6802721 CCCAATGTCA
*
6802731 AAGTTAAGTCTTTATTCTTAATTTCTAGATAATGACAGACAAATAAAG
1 AAGTTAAGCCTTTATTCTTAATTTCTAGATAATGACAGACAAATAAAG
* *
6802779 AAGTTAAGCCTTTATTCTTAATTTCTAGATAATGATAGATAAATAAAG
1 AAGTTAAGCCTTTATTCTTAATTTCTAGATAATGACAGACAAATAAAG
6802827 A
1 A
6802828 TAAAATAATA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.36
Consensus pattern (48 bp):
AAGTTAAGCCTTTATTCTTAATTTCTAGATAATGACAGACAAATAAAG
Found at i:6820992 original size:15 final size:15
Alignment explanation
Indices: 6820968--6820999 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
6820958 TCAAAATTGG
*
6820968 AAAAGCAAAACTTCA
1 AAAAGAAAAACTTCA
6820983 AAAAGAAAAACTTCA
1 AAAAGAAAAACTTCA
6820998 AA
1 AA
6821000 GATAGAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.16, G:0.06, T:0.12
Consensus pattern (15 bp):
AAAAGAAAAACTTCA
Found at i:6827493 original size:24 final size:23
Alignment explanation
Indices: 6827466--6827510 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
6827456 ATTATATTAA
6827466 TATTA-CAATAATAATTTATTATAT
1 TATTATCAA-AATAATTT-TTATAT
*
6827490 TATTATTAAAATAATTTTTAT
1 TATTATCAAAATAATTTTTAT
6827511 GATATAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 4 0.21
24 13 0.68
25 2 0.11
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
TATTATCAAAATAATTTTTATAT
Found at i:6830966 original size:36 final size:36
Alignment explanation
Indices: 6830926--6830997 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
6830916 GTTGAGTTAA
6830926 CCTCCCAATCCTTAGTAAAGGCTGGATCTGACCCTG
1 CCTCCCAATCCTTAGTAAAGGCTGGATCTGACCCTG
*
6830962 CCTCCCAATCCTTAGTAAAGGCTGGATTTGACCCTG
1 CCTCCCAATCCTTAGTAAAGGCTGGATCTGACCCTG
6830998 GTTCTTTGTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.22, C:0.32, G:0.19, T:0.26
Consensus pattern (36 bp):
CCTCCCAATCCTTAGTAAAGGCTGGATCTGACCCTG
Found at i:6831247 original size:171 final size:169
Alignment explanation
Indices: 6830962--6831275 Score: 565
Period size: 171 Copynumber: 1.8 Consensus size: 169
6830952 TCTGACCCTG
* *
6830962 CCTCCCAATCCTTAGTAAAGGCTGGATTTGACCCTGGTTCTTTGTGTAGCAACCAAATGACTTTG
1 CCTCCCAATCCTTAGTAAAGGCTGGATTTGACCCTGGTTCTTGGTGTAGCAACCAAATGACTTTA
*
6831027 CTGGCTACAAAAGCTGGCACCATTTTCAAAGGTGACATTATGAGAAGTGATGGAGTATTTTTTTT
66 CTGGCTACAAAAGCTGGCACCATTTTCAAAGGTGACATTATGAGAAGTGATGGAGTA-TATTTTT
6831092 TTCCTATGGTGCGATTGAGTCCTTCCCTTTTCTTGAACTAA
130 TT-CTATGGTGCGATTGAGTCCTTCCCTTTTCTTGAACTAA
*
6831133 CCTCCCAATCCTTAGTAAAGGCTGGATTTGACCCTGGTTCTTGGTGTAGCAGCCAAATGACTTTA
1 CCTCCCAATCCTTAGTAAAGGCTGGATTTGACCCTGGTTCTTGGTGTAGCAACCAAATGACTTTA
*
6831198 CTGGCTAGAAAAGCTGGCACCATTTTCAAAGGTGACATTATGAGAAGTGATGGAGTATATTTTTT
66 CTGGCTACAAAAGCTGGCACCATTTTCAAAGGTGACATTATGAGAAGTGATGGAGTATATTTTTT
6831263 TCTATGGTGCGAT
131 TCTATGGTGCGAT
6831276 CTGACCCACC
Statistics
Matches: 138, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
169 12 0.09
170 8 0.06
171 118 0.86
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (169 bp):
CCTCCCAATCCTTAGTAAAGGCTGGATTTGACCCTGGTTCTTGGTGTAGCAACCAAATGACTTTA
CTGGCTACAAAAGCTGGCACCATTTTCAAAGGTGACATTATGAGAAGTGATGGAGTATATTTTTT
TCTATGGTGCGATTGAGTCCTTCCCTTTTCTTGAACTAA
Found at i:6838427 original size:249 final size:249
Alignment explanation
Indices: 6837989--6838465 Score: 837
Period size: 249 Copynumber: 1.9 Consensus size: 249
6837979 CGTAGTAACC
* *
6837989 AGCAATCCATATTCTTGCTTGATGTCAAAATGATCTCTCTTCTATGGGAAGTATGGTGCTATTTC
1 AGCAATCCATATTCTTGCTTGATGTCAAAATGATCTCTCTTCTATGGGAAATATGGTGCTATTCC
* * *
6838054 CATACTTTGAAGAGCTAAGCATTTAATCACTCAAGATACTTGTTTGAAAGCTCTTATTTTGCTAT
66 CATACTTAGAAGAGCTAAGCATTTAATCACTCAAGATACTTGTTTGAAAGCTATTATTTTCCTAT
*
6838119 TATCTAAAATGCTGAACACTTTGGGTTCCCTTGGAATATATTGTAGGCCCTTTCCCATTGTTGTC
131 TATCTAAAATGCTGAACACTTTGGGTACCCTTGGAATATATTGTAGGCCCTTTCCCATTGTTGTC
* *
6838184 TAGTATGCTAGTATGCCTTTTTTTTTTTTCAATCATTAGATAGAAGAGTTCATA
196 TAGTATACTAGTAGGCCTTTTTTTTTTTTCAATCATTAGATAGAAGAGTTCATA
*
6838238 AGCAATCCATATTCTTGCTTGATGTTAAAATGATCTCTCTTCTATGGGAAATATGGTGCTATTCC
1 AGCAATCCATATTCTTGCTTGATGTCAAAATGATCTCTCTTCTATGGGAAATATGGTGCTATTCC
* *
6838303 CATACTTAGAAGAGCTAAGCATTTAATCACTCAGGATACTTGTTTGAATGCTATTATTTTCCTAT
66 CATACTTAGAAGAGCTAAGCATTTAATCACTCAAGATACTTGTTTGAAAGCTATTATTTTCCTAT
*
6838368 TATCTAAAGTGCTGAACACTTTGGGTACCCTTGGAATATATTGTAGGCCCTTTCCCATTGTTGTC
131 TATCTAAAATGCTGAACACTTTGGGTACCCTTGGAATATATTGTAGGCCCTTTCCCATTGTTGTC
*
6838433 TAGTATACTAGTAGGCTTTTTTTTTTTTTCAAT
196 TAGTATACTAGTAGGCCTTTTTTTTTTTTCAAT
6838466 TACTAGAATA
Statistics
Matches: 215, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
249 215 1.00
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.40
Consensus pattern (249 bp):
AGCAATCCATATTCTTGCTTGATGTCAAAATGATCTCTCTTCTATGGGAAATATGGTGCTATTCC
CATACTTAGAAGAGCTAAGCATTTAATCACTCAAGATACTTGTTTGAAAGCTATTATTTTCCTAT
TATCTAAAATGCTGAACACTTTGGGTACCCTTGGAATATATTGTAGGCCCTTTCCCATTGTTGTC
TAGTATACTAGTAGGCCTTTTTTTTTTTTCAATCATTAGATAGAAGAGTTCATA
Found at i:6861583 original size:15 final size:15
Alignment explanation
Indices: 6861565--6861607 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
6861555 ATTTTATATT
6861565 GTAATATAATTA-TAA
1 GTAATATAATTACT-A
*
6861580 GTAATGTAATTACTA
1 GTAATATAATTACTA
*
6861595 GTAATATGATTAC
1 GTAATATAATTAC
6861608 AAGGAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 23 0.96
16 1 0.04
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.40
Consensus pattern (15 bp):
GTAATATAATTACTA
Found at i:6861640 original size:31 final size:31
Alignment explanation
Indices: 6861601--6861660 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
6861591 ACTAGTAATA
*
6861601 TGATTACAAGGAAAATAAT-ATTACAATATT
1 TGATTACAAGGAAAATAATAATTAAAATATT
*
6861631 TGATATACAAGTAAAATAATAATTAAAATA
1 TGAT-TACAAGGAAAATAATAATTAAAATA
6861661 CAAAAAAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 4 0.15
31 14 0.54
32 8 0.31
ACGTcount: A:0.55, C:0.05, G:0.08, T:0.32
Consensus pattern (31 bp):
TGATTACAAGGAAAATAATAATTAAAATATT
Found at i:6861896 original size:34 final size:33
Alignment explanation
Indices: 6861824--6861911 Score: 104
Period size: 34 Copynumber: 2.6 Consensus size: 33
6861814 TTTTAATATC
**
6861824 ATATATTTTATTTTTATTTTTTTTTATAATCTT
1 ATATATTTTATTTTTATTTTTTAATATAATCTT
*
6861857 ATATATTTTATTTTTATTTCTTTAATATAATTTT
1 ATATATTTTATTTTTATTT-TTTAATATAATCTT
* * *
6861891 TTATATTATATATTTTGTTTT
1 ATATATTTTAT-TTTTATTTT
6861912 AATTTTTTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
33 19 0.40
34 21 0.45
35 7 0.15
ACGTcount: A:0.26, C:0.02, G:0.01, T:0.70
Consensus pattern (33 bp):
ATATATTTTATTTTTATTTTTTAATATAATCTT
Found at i:6861966 original size:76 final size:73
Alignment explanation
Indices: 6861807--6861966 Score: 164
Period size: 76 Copynumber: 2.2 Consensus size: 73
6861797 TCATCTTTTA
* * *
6861807 AATA-TATTTTTAATATCATATATTTTATTTTTATTTTTTTTTATAATCTTATATATTTTATTTT
1 AATATTATTTTTAATATCATATATTTTATTTTAATTTTTTTTTATAATCATATAAATTTTATTTT
*
6861871 TATTTCTTT
66 TA-TTATTT
* * * *
6861880 AATATAATTTTTTATATTATATATTTTGTTTTAA-TTTTTTTTACCTATATCATATAAATTTTAA
1 AATATTATTTTTAATATCATATATTTTATTTTAATTTTTTTTTA--TA-ATCATATAAATTTT-A
6861944 TTTCTTA-TATTT
62 TTT-TTATTATTT
*
6861956 AATCTTATTTT
1 AATATTATTTT
6861967 AATTTTTAAT
Statistics
Matches: 71, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
73 13 0.18
74 24 0.34
75 2 0.03
76 25 0.35
77 4 0.06
78 3 0.04
ACGTcount: A:0.29, C:0.05, G:0.01, T:0.65
Consensus pattern (73 bp):
AATATTATTTTTAATATCATATATTTTATTTTAATTTTTTTTTATAATCATATAAATTTTATTTT
TATTATTT
Found at i:6869468 original size:15 final size:16
Alignment explanation
Indices: 6869443--6869472 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
6869433 AAATACACCA
6869443 AAAATAAAATAAATAG
1 AAAATAAAATAAATAG
6869459 AAAA-AAAATAAATA
1 AAAATAAAATAAATA
6869473 AATAAAGTAA
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:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (16 bp):
AAAATAAAATAAATAG
Found at i:6878249 original size:88 final size:84
Alignment explanation
Indices: 6878059--6878250 Score: 226
Period size: 86 Copynumber: 2.2 Consensus size: 84
6878049 TCGTTAAGCT
* * * ** * *
6878059 TGAGAGCAGAATTTGGGTTTTGCCTTTTTTTTTTTCCTCTTTTTTATTGATCTTTTAACAAATTT
1 TGAGAGCAAAATTTGGGTTTAGCCTTTTTTATTTTCCTCTTTTTTATTGATCTCATAAAAAATCT
*
6878124 GATCCCTTTCTTTGTATAC
66 AATCCCTTTCTTTGTATAC
* *
6878143 AGAGAGCAAAATTTGGGTTTAGCCTTTCTTTATTTTCCTTCTTTTTTATTGGTCTCATAATAAAA
1 TGAGAGCAAAATTTGGGTTTAGCCTTT-TTTATTTTCC-TCTTTTTTATTGATCTCATAA-AAAA
6878208 TCTAATCCC-TTCTTT-TATTATTC
63 TCTAATCCCTTTCTTTGTA-TA--C
6878231 TGAGAGCAAAATTTGGGTTT
1 TGAGAGCAAAATTTGGGTTT
6878251 TTGTTGATTT
Statistics
Matches: 91, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
84 24 0.26
85 11 0.12
86 26 0.29
87 10 0.11
88 20 0.22
ACGTcount: A:0.22, C:0.15, G:0.14, T:0.49
Consensus pattern (84 bp):
TGAGAGCAAAATTTGGGTTTAGCCTTTTTTATTTTCCTCTTTTTTATTGATCTCATAAAAAATCT
AATCCCTTTCTTTGTATAC
Found at i:6881345 original size:20 final size:20
Alignment explanation
Indices: 6881320--6881360 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
6881310 GCTGTTGGCC
*
6881320 ATAATAGAATGTGCTTGTTA
1 ATAATAGAACGTGCTTGTTA
6881340 ATAATAGAACGTGCTTGTTA
1 ATAATAGAACGTGCTTGTTA
6881360 A
1 A
6881361 AGCCGCAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.37, C:0.07, G:0.20, T:0.37
Consensus pattern (20 bp):
ATAATAGAACGTGCTTGTTA
Found at i:6890879 original size:13 final size:13
Alignment explanation
Indices: 6890861--6890885 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6890851 CGAAGTGGCG
6890861 GTGGGTGGGTGGT
1 GTGGGTGGGTGGT
6890874 GTGGGTGGGTGG
1 GTGGGTGGGTGG
6890886 GCTGAATAAT
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:0.00, C:0.00, G:0.72, T:0.28
Consensus pattern (13 bp):
GTGGGTGGGTGGT
Found at i:6907220 original size:43 final size:43
Alignment explanation
Indices: 6907159--6907240 Score: 155
Period size: 43 Copynumber: 1.9 Consensus size: 43
6907149 ATATTTCCCT
6907159 ACCAAGTCAAAGTAAATAGCAATACATATTCGAATTAAACGAG
1 ACCAAGTCAAAGTAAATAGCAATACATATTCGAATTAAACGAG
*
6907202 ACCAAGTCAAAGTAAATAGCAATACATATTCGTATTAAA
1 ACCAAGTCAAAGTAAATAGCAATACATATTCGAATTAAA
6907241 ATAAGCAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.49, C:0.16, G:0.12, T:0.23
Consensus pattern (43 bp):
ACCAAGTCAAAGTAAATAGCAATACATATTCGAATTAAACGAG
Found at i:6908412 original size:30 final size:29
Alignment explanation
Indices: 6908378--6908451 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 29
6908368 AATTATTAAT
*
6908378 TATAAAAATTTATTTGACT-TAAAATAAAAA
1 TATAAAAATTTATTTGAATGT--AATAAAAA
* *
6908408 TATAAAAATTTAATTGAATGTAATAAAAT
1 TATAAAAATTTATTTGAATGTAATAAAAA
*
6908437 TATAAATATTTATTT
1 TATAAAAATTTATTT
6908452 AAAATTTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
29 20 0.53
30 17 0.45
31 1 0.03
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.42
Consensus pattern (29 bp):
TATAAAAATTTATTTGAATGTAATAAAAA
Found at i:6908773 original size:19 final size:20
Alignment explanation
Indices: 6908735--6908773 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
6908725 AATGTTTGAA
* *
6908735 AAAAATTTAAAATTACTTAT
1 AAAAATTTAAAATAAATTAT
6908755 AAAAATTT-AAATAAATTAT
1 AAAAATTTAAAATAAATTAT
6908774 TATTATTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAAATTTAAAATAAATTAT
Found at i:6914579 original size:262 final size:262
Alignment explanation
Indices: 6914114--6914626 Score: 837
Period size: 262 Copynumber: 2.0 Consensus size: 262
6914104 GTATGTGTAC
* * * * * *** *
6914114 TTAGTCAAATGTACGTTGTAGCAAAATCAGGAAAGTCATCAGTAAGGTGGAGTATTTGGTCTTAC
1 TTAGTCAAATGTACGCTGTACCAAAATAAGAAAAGTCATCAATAAGGCAAAGTACTTGGTCTTAC
* * * *
6914179 TTGGTTAGATAGACATTGGAGAGTCATCAACGCGTTGAGGGAGTTAAGAAAAACTTGGTCAACAT
66 TTGGTCAGATAGACATTAGAGAGTCATCAACACATTGAGGGAGTTAAGAAAAACTTGGTCAACAT
* * *
6914244 CAGGGAATTGAGAGAAACTTGGTCAGCATGTATGCTTAGTCAAGTGTACGTAATAGCAAAATCAG
131 CAAGGAATTGAGAGAAACTTGGTCAACATGTATACTTAGTCAAGTGTACGTAATAGCAAAATCAG
*
6914309 GAAAGTCATCAGAATGGTAGAGTACTTGGTTATGTAGCAAAATCAAGAGAGTCATCAACATGTAT
196 GAAAGTCATCAGAATGGTAGAGTACTTGGTTATGTAACAAAATCAAGAGAGTCATCAACATGTAT
6914374 AT
261 AT
*
6914376 TTAGTCAAATGTACGCTGTACCAAAATAAGAAAAGTCATTAATAAGGCAAAGTACTTGGTCTTAC
1 TTAGTCAAATGTACGCTGTACCAAAATAAGAAAAGTCATCAATAAGGCAAAGTACTTGGTCTTAC
**
6914441 TTGGTCAGATAGATGTTAGAGAGTCATCAACACATTGAGGGAGTTAAGAAAAACTTGGTCAACAT
66 TTGGTCAGATAGACATTAGAGAGTCATCAACACATTGAGGGAGTTAAGAAAAACTTGGTCAACAT
*
6914506 CAAGGAATTGAGAGAAACTTGGTCAACATGTATACTTAGTCAAGTGTATGTAATAGCAAAATCAG
131 CAAGGAATTGAGAGAAACTTGGTCAACATGTATACTTAGTCAAGTGTACGTAATAGCAAAATCAG
6914571 GAAAGTCATCAGAATGGTAGAGTACTTGGTTATGTAACAAAATCAAGAGAGTCATC
196 GAAAGTCATCAGAATGGTAGAGTACTTGGTTATGTAACAAAATCAAGAGAGTCATC
6914627 GGTATGGTAG
Statistics
Matches: 230, Mismatches: 21, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
262 230 1.00
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (262 bp):
TTAGTCAAATGTACGCTGTACCAAAATAAGAAAAGTCATCAATAAGGCAAAGTACTTGGTCTTAC
TTGGTCAGATAGACATTAGAGAGTCATCAACACATTGAGGGAGTTAAGAAAAACTTGGTCAACAT
CAAGGAATTGAGAGAAACTTGGTCAACATGTATACTTAGTCAAGTGTACGTAATAGCAAAATCAG
GAAAGTCATCAGAATGGTAGAGTACTTGGTTATGTAACAAAATCAAGAGAGTCATCAACATGTAT
AT
Found at i:6929239 original size:10 final size:10
Alignment explanation
Indices: 6929224--6929250 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
6929214 TGATATAAAA
6929224 TCGGTTTCGG
1 TCGGTTTCGG
6929234 TCGGTTTCGG
1 TCGGTTTCGG
6929244 TCGGTTT
1 TCGGTTT
6929251 TTGATGATGA
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:0.00, C:0.19, G:0.37, T:0.44
Consensus pattern (10 bp):
TCGGTTTCGG
Found at i:6929457 original size:29 final size:30
Alignment explanation
Indices: 6929396--6929500 Score: 167
Period size: 30 Copynumber: 3.5 Consensus size: 30
6929386 AGGCCCAGGC
6929396 GGCAGGGGGGAATCGGGACTCGTGGGAGGGG
1 GGCA-GGGGGAATCGGGACTCGTGGGAGGGG
6929427 GGCAGGGGGAATCGGGACTCGTGGGAGGGG
1 GGCAGGGGGAATCGGGACTCGTGGGAGGGG
*
6929457 GGCAGGGGG-ATCGGGACTCGTGGAAGGGG
1 GGCAGGGGGAATCGGGACTCGTGGGAGGGG
* *
6929486 GCCGGGGGGAATCGG
1 GGCAGGGGGAATCGG
6929501 TAGGAGTGGG
Statistics
Matches: 70, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
29 26 0.37
30 40 0.57
31 4 0.06
ACGTcount: A:0.16, C:0.14, G:0.60, T:0.10
Consensus pattern (30 bp):
GGCAGGGGGAATCGGGACTCGTGGGAGGGG
Found at i:6929510 original size:59 final size:61
Alignment explanation
Indices: 6929396--6929530 Score: 166
Period size: 59 Copynumber: 2.2 Consensus size: 61
6929386 AGGCCCAGGC
* * **
6929396 GGCAGGGGGGAATCGGGACTCGTGGGAGGGGGGCAGGGGGAATCGGGACTCGTGGGAGG-GG
1 GGCA-GGGGGAATCGGGACTCGTGGAAGGGGGCCAGGGGGAATCGGGACGAGTGGGAGGCGG
* * *
6929457 GGCAGGGGG-ATCGGGACTCGTGGAAGGGGGCCGGGGGGAATCGGTAGGAGTGGGAGGCGG
1 GGCAGGGGGAATCGGGACTCGTGGAAGGGGGCCAGGGGGAATCGGGACGAGTGGGAGGCGG
*
6929517 GGCCGGGGGGAATC
1 GG-CAGGGGGAATC
6929531 AAGTCGGGTC
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
59 41 0.65
60 9 0.14
61 10 0.16
62 3 0.05
ACGTcount: A:0.16, C:0.14, G:0.60, T:0.10
Consensus pattern (61 bp):
GGCAGGGGGAATCGGGACTCGTGGAAGGGGGCCAGGGGGAATCGGGACGAGTGGGAGGCGG
Found at i:6929686 original size:9 final size:9
Alignment explanation
Indices: 6929672--6929701 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
6929662 GGCGGGCCAT
*
6929672 GGGTAGCCG
1 GGGTAGCTG
6929681 GGGTAGCTG
1 GGGTAGCTG
6929690 GGGTAGCTG
1 GGGTAGCTG
6929699 GGG
1 GGG
6929702 GGCTCAGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.10, C:0.13, G:0.60, T:0.17
Consensus pattern (9 bp):
GGGTAGCTG
Found at i:6931697 original size:8 final size:8
Alignment explanation
Indices: 6931684--6931714 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
6931674 CGATCACATT
*
6931684 TCTCTCTC
1 TCTCTCTG
6931692 TCTCTCTG
1 TCTCTCTG
6931700 TCTCTCTG
1 TCTCTCTG
6931708 TCTCTCT
1 TCTCTCT
6931715 TAAATAACAG
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:0.00, C:0.42, G:0.06, T:0.52
Consensus pattern (8 bp):
TCTCTCTG
Found at i:6948583 original size:22 final size:22
Alignment explanation
Indices: 6948558--6948607 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
6948548 TTGCATCTCC
6948558 TAGGCAGTGTTTTGCCTATTCT
1 TAGGCAGTGTTTTGCCTATTCT
6948580 TAGGCAGTGTTTTGCCTATTCT
1 TAGGCAGTGTTTTGCCTATTCT
6948602 TAGGCA
1 TAGGCA
6948608 TCATTTTGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.16, C:0.18, G:0.24, T:0.42
Consensus pattern (22 bp):
TAGGCAGTGTTTTGCCTATTCT
Found at i:6948614 original size:22 final size:22
Alignment explanation
Indices: 6948558--6948616 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 22
6948548 TTGCATCTCC
*
6948558 TAGGCAGTGTTTTGCCTATTCT
1 TAGGCAGTATTTTGCCTATTCT
*
6948580 TAGGCAGTGTTTTGCCTATTCT
1 TAGGCAGTATTTTGCCTATTCT
6948602 TAGGCA-TCATTTTGC
1 TAGGCAGT-ATTTTGC
6948617 ATGACCGCTC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
21 1 0.03
22 34 0.97
ACGTcount: A:0.15, C:0.19, G:0.22, T:0.44
Consensus pattern (22 bp):
TAGGCAGTATTTTGCCTATTCT
Found at i:6951346 original size:15 final size:15
Alignment explanation
Indices: 6951281--6951352 Score: 57
Period size: 15 Copynumber: 5.0 Consensus size: 15
6951271 GACATTACAA
6951281 AAAT-TATAACTTAT
1 AAATATATAACTTAT
6951295 AAA-ATTATTAA-TTAT
1 AAATA-TA-TAACTTAT
6951310 -AATATATATACTT-T
1 AAATATATA-ACTTAT
**
6951324 -GTTATATAACTTAT
1 AAATATATAACTTAT
6951338 AAATATATAACTTAT
1 AAATATATAACTTAT
6951353 TATGTAAAGT
Statistics
Matches: 46, Mismatches: 4, Indels: 15
0.71 0.06 0.23
Matches are distributed among these distances:
13 6 0.13
14 16 0.35
15 21 0.46
16 3 0.07
ACGTcount: A:0.47, C:0.06, G:0.01, T:0.46
Consensus pattern (15 bp):
AAATATATAACTTAT
Found at i:6951355 original size:27 final size:26
Alignment explanation
Indices: 6951298--6951355 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
6951288 AACTTATAAA
6951298 ATTATTAATTATAATATATATACTTT
1 ATTATTAATTATAATATATATACTTT
*
6951324 GTTATATAACTTATAA-ATATATAAC-TT
1 ATTAT-TAA-TTATAATATATAT-ACTTT
6951351 ATTAT
1 ATTAT
6951356 GTAAAGTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
26 4 0.15
27 15 0.56
28 8 0.30
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (26 bp):
ATTATTAATTATAATATATATACTTT
Found at i:6951642 original size:16 final size:16
Alignment explanation
Indices: 6951623--6951659 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
6951613 TGTGTTAACA
6951623 TTATATAAATTA-TAAT
1 TTATA-AAATTATTAAT
6951639 TTATAAAATTATTAA-
1 TTATAAAATTATTAAT
6951654 TTATAA
1 TTATAA
6951660 TATAGATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TTATAAAATTATTAAT
Found at i:6953987 original size:14 final size:14
Alignment explanation
Indices: 6953961--6954010 Score: 57
Period size: 15 Copynumber: 3.6 Consensus size: 14
6953951 ATATTATATG
*
6953961 AATTTTT-ACATTT
1 AATTTTTAAAATTT
*
6953974 ATTTTTTAAAATTT
1 AATTTTTAAAATTT
*
6953988 AATTTTTAAAAAGTT
1 AATTTTT-AAAATTT
6954003 AATTTTTA
1 AATTTTTA
6954011 CTATAAATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
13 6 0.19
14 12 0.39
15 13 0.42
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (14 bp):
AATTTTTAAAATTT
Found at i:6954333 original size:30 final size:30
Alignment explanation
Indices: 6954299--6954356 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
6954289 CTCCTGTACC
*
6954299 TTTATTTTGATTCAAATAAATTTTTATATT
1 TTTATTTTGAATCAAATAAATTTTTATATT
6954329 TTTATTTTGAATCAAATAAATTTTTATA
1 TTTATTTTGAATCAAATAAATTTTTATA
6954357 ACTAATGGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.57
Consensus pattern (30 bp):
TTTATTTTGAATCAAATAAATTTTTATATT
Found at i:6954467 original size:16 final size:16
Alignment explanation
Indices: 6954446--6954481 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
6954436 TCATTTTATA
6954446 TGGCGAACTGTTAATG
1 TGGCGAACTGTTAATG
6954462 TGGCGAACTGTTAATG
1 TGGCGAACTGTTAATG
6954478 TGGC
1 TGGC
6954482 ATACTAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.22, C:0.14, G:0.33, T:0.31
Consensus pattern (16 bp):
TGGCGAACTGTTAATG
Found at i:6956171 original size:21 final size:20
Alignment explanation
Indices: 6956134--6956173 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
6956124 CGGGAGCACC
*
6956134 TGGTGCTCCTAGGGGAGATT
1 TGGTGCTCCTAAGGGAGATT
*
6956154 TGGTGCTCCCTAATGGAGAT
1 TGGTGCT-CCTAAGGGAGAT
6956174 GGTTTTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.17, C:0.17, G:0.35, T:0.30
Consensus pattern (20 bp):
TGGTGCTCCTAAGGGAGATT
Found at i:6957360 original size:92 final size:93
Alignment explanation
Indices: 6957208--6957433 Score: 251
Period size: 92 Copynumber: 2.4 Consensus size: 93
6957198 TATTTGCTAG
* * * * *
6957208 CTAAAGATAGGGTTTTGAAAGAAATTAAGTTACTACGTATTCTATTTTTCTAGTGTTAAATGTAA
1 CTAAAAATAGAGTTTTGAAAGAAATTAAGTTACTACATATTATATTTTTCTAATGTTAAATGTAA
*
6957273 CTAAT-ATAAAGTGATG-AATATCAATTAG
66 CTAATGA-AAAGTGATGCAAT-TCAATTAA
* * *
6957301 TTAAAAATAGAGTTTTGAAAGAAATTATGTTACTGCATATTATATTTTTC-AATGTTAAATGTAA
1 CTAAAAATAGAGTTTTGAAAGAAATTAAGTTACTACATATTATATTTTTCTAATGTTAAATGTAA
* * *
6957365 TTAATGAAAAGTGGTGCAGTTCAATTAA
66 CTAATGAAAAGTGATGCAATTCAATTAA
* * * * * *
6957393 CTAAAAATAGAATTCTAAAAGAGATTGAGTTATTACATATT
1 CTAAAAATAGAGTTTTGAAAGAAATTAAGTTACTACATATT
6957434 TTACCATAAG
Statistics
Matches: 110, Mismatches: 21, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
92 64 0.58
93 46 0.42
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.38
Consensus pattern (93 bp):
CTAAAAATAGAGTTTTGAAAGAAATTAAGTTACTACATATTATATTTTTCTAATGTTAAATGTAA
CTAATGAAAAGTGATGCAATTCAATTAA
Found at i:6958950 original size:26 final size:25
Alignment explanation
Indices: 6958920--6958970 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 25
6958910 TACAGCTCTA
*
6958920 GTTACATGTTATATTGAGAAAATATT
1 GTTACATGTTATATT-AAAAAATATT
6958946 GTTACATGTTATATTAAAAAATATT
1 GTTACATGTTATATTAAAAAATATT
6958971 TTATTATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 9 0.38
26 15 0.62
ACGTcount: A:0.41, C:0.04, G:0.12, T:0.43
Consensus pattern (25 bp):
GTTACATGTTATATTAAAAAATATT
Found at i:6959485 original size:12 final size:11
Alignment explanation
Indices: 6959468--6959497 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
6959458 GATAGTGAGA
6959468 AAAAAAAAAAT
1 AAAAAAAAAAT
*
6959479 GAAAAAAAAAT
1 AAAAAAAAAAT
6959490 AAAAAAAA
1 AAAAAAAA
6959498 TTATGATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.90, C:0.00, G:0.03, T:0.07
Consensus pattern (11 bp):
AAAAAAAAAAT
Found at i:6965137 original size:18 final size:18
Alignment explanation
Indices: 6965111--6965147 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
6965101 GTTCCTTATA
* *
6965111 CAGGTACATCTCAAGATG
1 CAGGCACATCCCAAGATG
6965129 CAGGCACATCCCAAGATG
1 CAGGCACATCCCAAGATG
6965147 C
1 C
6965148 CAACAAAGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.30, G:0.22, T:0.16
Consensus pattern (18 bp):
CAGGCACATCCCAAGATG
Found at i:6969398 original size:147 final size:147
Alignment explanation
Indices: 6969125--6969412 Score: 395
Period size: 147 Copynumber: 2.0 Consensus size: 147
6969115 ATACCAATTA
*
6969125 TAGACAAATGTTTAAATAATGTATTTTGATAAATCTAGAATTACTTGGCCTTAAGGTTTAGTTTA
1 TAGACAAATATTTAAATAATGTATTTTGATAAATCTAGAATTACTTGGCCTTAAGGTTTAGTTTA
* * * ** *
6969190 AGTTACACAGGGACAAGGCTACGAGGCCCAACATCTAAAATTGCACCAATTGTCACTGTTTCACA
66 AGTTACACAGGGACAAGGCAACAAGACCCAACATCTAAAATTGCACCAATCATCACCGTTTCACA
6969255 AATGAAAGGAAGCATTT
131 AATGAAAGGAAGCATTT
*
6969272 TAGACAAATATTTAAA-AAT-TCATTTTGATAAATTTTAGAATTACTT-GCGCTTAAGGTTTAGT
1 TAGACAAATATTTAAATAATGT-ATTTTGATAAA-TCTAGAATTACTTGGC-CTTAAGGTTTAG-
* * *
6969334 TTTAA-TTGCATAGTGACAAGGCAACAAGACCCAACATCTAAAATTGCACCAATCATCACCGTTT
62 TTTAAGTTACACAGGGACAAGGCAACAAGACCCAACATCTAAAATTGCACCAATCATCACCGTTT
**
6969398 CATGAATGAAAGGAA
127 CACAAATGAAAGGAA
6969413 ATATATAAAG
Statistics
Matches: 124, Mismatches: 13, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
145 1 0.01
146 16 0.13
147 102 0.82
148 5 0.04
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.31
Consensus pattern (147 bp):
TAGACAAATATTTAAATAATGTATTTTGATAAATCTAGAATTACTTGGCCTTAAGGTTTAGTTTA
AGTTACACAGGGACAAGGCAACAAGACCCAACATCTAAAATTGCACCAATCATCACCGTTTCACA
AATGAAAGGAAGCATTT
Found at i:6972897 original size:25 final size:25
Alignment explanation
Indices: 6972863--6972929 Score: 125
Period size: 25 Copynumber: 2.7 Consensus size: 25
6972853 AAAAACAAAG
6972863 GAAAAACCATTTTTGAGCAGATATA
1 GAAAAACCATTTTTGAGCAGATATA
*
6972888 GAAAAACCATTTTTGAGCGGATATA
1 GAAAAACCATTTTTGAGCAGATATA
6972913 GAAAAACCATTTTTGAG
1 GAAAAACCATTTTTGAG
6972930 TAGGTTAAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.42, C:0.12, G:0.18, T:0.28
Consensus pattern (25 bp):
GAAAAACCATTTTTGAGCAGATATA
Found at i:6980879 original size:15 final size:16
Alignment explanation
Indices: 6980859--6980892 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
6980849 TGTTATGTGG
*
6980859 ATTTT-ATTTTTAACA
1 ATTTTAATTTTTAAAA
6980874 ATTTTAATTTTTAAAA
1 ATTTTAATTTTTAAAA
6980890 ATT
1 ATT
6980893 AAAAACTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTTTAATTTTTAAAA
Found at i:6983322 original size:12 final size:12
Alignment explanation
Indices: 6983305--6983329 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6983295 ATGAAACCAT
6983305 GTAAAGTTTGAG
1 GTAAAGTTTGAG
6983317 GTAAAGTTTGAG
1 GTAAAGTTTGAG
6983329 G
1 G
6983330 GAATGGAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (12 bp):
GTAAAGTTTGAG
Found at i:6997091 original size:3 final size:3
Alignment explanation
Indices: 6997083--6997108 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6997073 TGCCACATTA
6997083 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
6997109 ATTATTATTA
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:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:7008413 original size:51 final size:54
Alignment explanation
Indices: 7008287--7008414 Score: 133
Period size: 57 Copynumber: 2.4 Consensus size: 54
7008277 TAATAGATTA
*
7008287 TAAATATTAATATATT-TAATTTATATATAAATATTACTATTTACTATATACTCAT
1 TAAATATTAATATATTAT-ATTTATATATAAATATTACTA-TTACTATATACTCAC
*
7008342 TAACATATTAAATAAATTATATTTA-ATATATAATAATTACTA-TACT-TATA-TC-C
1 TAA-ATATT-AATATATTATATTTATATATA-AAT-ATTACTATTACTATATACTCAC
*
7008395 TAAATATTAATATGTTATAT
1 TAAATATTAATATATTATAT
7008415 GAATATGTTA
Statistics
Matches: 64, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
51 10 0.16
52 5 0.08
53 3 0.05
54 2 0.03
55 7 0.11
56 14 0.22
57 15 0.23
58 8 0.12
ACGTcount: A:0.45, C:0.07, G:0.01, T:0.47
Consensus pattern (54 bp):
TAAATATTAATATATTATATTTATATATAAATATTACTATTACTATATACTCAC
Found at i:7008463 original size:14 final size:14
Alignment explanation
Indices: 7008444--7008510 Score: 66
Period size: 14 Copynumber: 4.8 Consensus size: 14
7008434 TATATTTAAT
7008444 TTATATAAATATTA
1 TTATATAAATATTA
*
7008458 TTATATAATTATTA
1 TTATATAAATATTA
*
7008472 TAATA-AAATAATTTA
1 TTATATAAAT-A-TTA
* *
7008487 TTA-ATTATTATTA
1 TTATATAAATATTA
7008500 TTATATAAATA
1 TTATATAAATA
7008511 GAACTTGTAA
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
13 9 0.22
14 25 0.61
15 7 0.17
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
TTATATAAATATTA
Found at i:7008472 original size:25 final size:28
Alignment explanation
Indices: 7008444--7008510 Score: 77
Period size: 31 Copynumber: 2.4 Consensus size: 28
7008434 TATATTTAAT
7008444 TTATATAAATA-TTATT-A-TATAATTA
1 TTATATAAATATTTATTAATTATAATTA
*
7008469 TTATAATAAAATAATTTATTAATTATTATTA
1 TTAT-AT-AAAT-ATTTATTAATTATAATTA
7008500 TTATATAAATA
1 TTATATAAATA
7008511 GAACTTGTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
25 4 0.11
26 2 0.06
27 4 0.11
28 2 0.06
29 9 0.26
30 3 0.09
31 11 0.31
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (28 bp):
TTATATAAATATTTATTAATTATAATTA
Found at i:7016147 original size:28 final size:29
Alignment explanation
Indices: 7016103--7016157 Score: 94
Period size: 28 Copynumber: 1.9 Consensus size: 29
7016093 TTTGATTCAA
7016103 AATAAAAATATAAAAATTTAATTAAAAAT
1 AATAAAAATATAAAAATTTAATTAAAAAT
*
7016132 AATAAAAA-ATAAAAATTTATTTAAAA
1 AATAAAAATATAAAAATTTAATTAAAA
7016158 TTTTTTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 17 0.68
29 8 0.32
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (29 bp):
AATAAAAATATAAAAATTTAATTAAAAAT
Found at i:7018500 original size:2 final size:2
Alignment explanation
Indices: 7018495--7018522 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7018485 TCTCTCTCTC
7018495 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7018523 GTTATAGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7027934 original size:26 final size:26
Alignment explanation
Indices: 7027898--7027948 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
7027888 ACGATCAATG
7027898 TAGCCTACCCCATTTAATGGGAAATA
1 TAGCCTACCCCATTTAATGGGAAATA
7027924 TAGCCTACCCCATTTAATGGGAAAT
1 TAGCCTACCCCATTTAATGGGAAAT
7027949 GGCTTGGGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (26 bp):
TAGCCTACCCCATTTAATGGGAAATA
Found at i:7029734 original size:63 final size:63
Alignment explanation
Indices: 7029635--7029761 Score: 173
Period size: 63 Copynumber: 2.0 Consensus size: 63
7029625 GCATGAATTG
* ** *
7029635 CTTCATTGCATTACTGTTGTCTATAAGATGCACTCATTTATTCATTCTTTGTTTATGTACCAC
1 CTTCATCGCATTACTGTTGTCTATAAGATGCACTCATTTAAGCATTCTTTATTTATGTACCAC
* ** **
7029698 CTTCATCGCATTACTGTTTTCTATGGGATTTACTCATTTAAGCATTCTTTATTTATGTACCAC
1 CTTCATCGCATTACTGTTGTCTATAAGATGCACTCATTTAAGCATTCTTTATTTATGTACCAC
7029761 C
1 C
7029762 ACTAGTAGCA
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
63 55 1.00
ACGTcount: A:0.22, C:0.21, G:0.11, T:0.46
Consensus pattern (63 bp):
CTTCATCGCATTACTGTTGTCTATAAGATGCACTCATTTAAGCATTCTTTATTTATGTACCAC
Found at i:7040013 original size:46 final size:48
Alignment explanation
Indices: 7039909--7040006 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
7039899 TTGTTTATAG
7039909 GAATAGATTGCTTAAGAGAGAAGAATATATACTTGATCTGATATAGAT
1 GAATAGATTGCTTAAGAGAGAAGAATATATACTTGATCTGATATAGAT
7039957 GAATAGATTGCTTAAGAGAGAAGAATATATACTTGATCTGATATAGAT
1 GAATAGATTGCTTAAGAGAGAAGAATATATACTTGATCTGATATAGAT
7040005 GA
1 GA
7040007 TTATTGCAGT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.31
Consensus pattern (48 bp):
GAATAGATTGCTTAAGAGAGAAGAATATATACTTGATCTGATATAGAT
Found at i:7044300 original size:18 final size:17
Alignment explanation
Indices: 7044263--7044323 Score: 79
Period size: 18 Copynumber: 3.5 Consensus size: 17
7044253 ATTATTTTAT
*
7044263 TATTATATTA-TTAAAA
1 TATTATTTTATTTAAAA
7044279 TATTATTTTATTTAATAA
1 TATTATTTTATTTAA-AA
7044297 TATTATTTTATTTTAAAA
1 TATTATTTTA-TTTAAAA
*
7044315 TATTCTTTT
1 TATTATTTT
7044324 TCCCTTCTAC
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
16 9 0.22
17 4 0.10
18 22 0.55
19 5 0.12
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (17 bp):
TATTATTTTATTTAAAA
Found at i:7045020 original size:16 final size:17
Alignment explanation
Indices: 7044990--7045023 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
7044980 ATCTTTAAAA
7044990 AATTTTTCATCTATAAT
1 AATTTTTCATCTATAAT
*
7045007 AATTTTTTAT-TATAAT
1 AATTTTTCATCTATAAT
7045023 A
1 A
7045024 TTATAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (17 bp):
AATTTTTCATCTATAAT
Found at i:7056285 original size:44 final size:44
Alignment explanation
Indices: 7056230--7056314 Score: 161
Period size: 44 Copynumber: 1.9 Consensus size: 44
7056220 ATTACATCCT
7056230 TAATATGTAAGTTGTGCCATTTTATAAACAATAATAAATTTTGA
1 TAATATGTAAGTTGTGCCATTTTATAAACAATAATAAATTTTGA
*
7056274 TAATTTGTAAGTTGTGCCATTTTATAAACAATAATAAATTT
1 TAATATGTAAGTTGTGCCATTTTATAAACAATAATAAATTT
7056315 AGTGCTCATT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.42
Consensus pattern (44 bp):
TAATATGTAAGTTGTGCCATTTTATAAACAATAATAAATTTTGA
Found at i:7059048 original size:13 final size:14
Alignment explanation
Indices: 7059030--7059064 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
7059020 ATTTTTATTC
7059030 TTATTATTATTT-T
1 TTATTATTATTTGT
7059043 TTATTATTATTTGT
1 TTATTATTATTTGT
*
7059057 CTATTATT
1 TTATTATT
7059065 TTATTTTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.71
Consensus pattern (14 bp):
TTATTATTATTTGT
Found at i:7060310 original size:229 final size:227
Alignment explanation
Indices: 7059812--7060509 Score: 821
Period size: 229 Copynumber: 3.0 Consensus size: 227
7059802 GTTTTTAACC
*
7059812 TCTTTTAAATAGTCATATTGTTTATTTTAGAAATTTTTATTTACTTAAAATACAATTATTTGAAT
1 TCTTTTAAATAGTCATATT-TTTATTTTAGAAATTTTTATTTACTTAAAATACAATTA-CT-AAT
* * * **
7059877 TAAGGAATATTGGAATATAAAATTAAGATTCTTCCATCATTCTAGTGGAGTTCTATAATCAAATT
63 TAA-GAATATTGAAATATAAAATTAAGACTCTCCCATCATTCTAGTGGAG--CCCTAATCAAATT
* * *
7059942 CCTCACCTAGGAAAAGTAACTCGAAATTGCGACTCTCCACATTAATTCCAAGTGAAAATTCCATC
125 CCTCA-CTAAGAAAATTAACTCG-AATTGTGACTCTCCAC----ATTCCAAGTGAAAATTCCA-C
* *
7060007 ATTGGCTTGATTCAAGTAAGTACATTTAATTCATTAATTTCTTTA
183 ATTGGCTTGATTCAAGTAAATACATTTAATTCATTAATTTCATTA
*
7060052 TATTTTAAATAGTCATATTTTTATTTTAGAAATTTTTATTTACTTAAAATACAATTACCTAAATT
1 TCTTTTAAATAGTCATATTTTTATTTTAGAAATTTTTATTTACTTAAAATACAATTA-CT-AATT
*
7060117 AATGAATATTGAAATATAAAATTAAGA-TCCCCCATCATTCTAGTGGAGCCCTAATCAAATTCCT
64 AA-GAATATTGAAATATAAAATTAAGACTCTCCCATCATTCTAGTGGAGCCCTAATCAAATTCCT
* * *
7060181 AATCTAAGAAAATTAACTCAGAATTATGACTCTTCACATTCCAAGT-AAAGATT-C-CATTGGCT
128 CA-CTAAGAAAATTAACTC-GAATTGTGACTCTCCACATTCCAAGTGAAA-ATTCCACATTGGCT
* * *
7060243 TGATTCAGGTAAAAACATTTAATTTATTAATTTCATTA
190 TGATTCAAGTAAATACATTTAATTCATTAATTTCATTA
**
7060281 TCTTTTAAATAGTCATATTTTTATTTTAGAAATTTTTATTTACTT-AAATACAATTACTTGTTCA
1 TCTTTTAAATAGTCATATTTTTATTTTAGAAATTTTTATTTACTTAAAATACAATTACTAATT-A
* * * * * * * * * *
7060345 AGAAATATTGACACATAAAAGTAAGACTCTCCCATTATTTTGGTGGAGTCCTAGTTAAATTTCTC
65 AG-AATATTGAAATATAAAATTAAGACTCTCCCATCATTCTAGTGGAGCCCTAATCAAATTCCTC
* * *
7060410 ACTTAGAAAAATTAACTCGGAATTGTGACTATGCACATTCCAAGTGAAAATTCCATCATTGGCTT
129 ACTAAG-AAAATTAACTC-GAATTGTGACTCTCCACATTCCAAGTGAAAATTCCA-CATTGGCTT
* *
7060475 AATTCAAGTAAATACATTTACTTCATTAATTTCAT
191 GATTCAAGTAAATACATTTAATTCATTAATTTCAT
7060510 GCTAATTATG
Statistics
Matches: 401, Mismatches: 47, Indels: 29
0.84 0.10 0.06
Matches are distributed among these distances:
226 3 0.01
227 28 0.07
228 78 0.19
229 89 0.22
231 43 0.11
232 12 0.03
236 42 0.10
237 1 0.00
238 19 0.05
239 68 0.17
240 18 0.04
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.39
Consensus pattern (227 bp):
TCTTTTAAATAGTCATATTTTTATTTTAGAAATTTTTATTTACTTAAAATACAATTACTAATTAA
GAATATTGAAATATAAAATTAAGACTCTCCCATCATTCTAGTGGAGCCCTAATCAAATTCCTCAC
TAAGAAAATTAACTCGAATTGTGACTCTCCACATTCCAAGTGAAAATTCCACATTGGCTTGATTC
AAGTAAATACATTTAATTCATTAATTTCATTA
Found at i:7070242 original size:101 final size:103
Alignment explanation
Indices: 7070084--7070277 Score: 320
Period size: 101 Copynumber: 1.9 Consensus size: 103
7070074 GTTGAAATCC
* *
7070084 TGAACAGTGTACATCATAAAAAAGCGTCTACTTTCTTCAAAAGGCAAGTTCATATTAATTTTCTT
1 TGAACAGTGAACATCATAAAAAAGCATCTACTTTCTTCAAAAGGCAAGTTCATATTAATTTTCTT
7070149 GAATCCATGTCATTTTTCTCTATTCTTGATTTACTTTT
66 GAATCCATGTCATTTTTCTCTATTCTTGATTTACTTTT
* * **
7070187 TGAATAGTGAACATCATAAAAAA-CATGTACTTTCTTC-ACTGGCAAGTTCATATTAATTTTCTT
1 TGAACAGTGAACATCATAAAAAAGCATCTACTTTCTTCAAAAGGCAAGTTCATATTAATTTTCTT
7070250 GAATCCATGTCATTTTTCTCTATTCTTG
66 GAATCCATGTCATTTTTCTCTATTCTTG
7070278 CTTTTTTTAA
Statistics
Matches: 85, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
101 52 0.61
102 12 0.14
103 21 0.25
ACGTcount: A:0.29, C:0.18, G:0.11, T:0.42
Consensus pattern (103 bp):
TGAACAGTGAACATCATAAAAAAGCATCTACTTTCTTCAAAAGGCAAGTTCATATTAATTTTCTT
GAATCCATGTCATTTTTCTCTATTCTTGATTTACTTTT
Found at i:7073470 original size:25 final size:26
Alignment explanation
Indices: 7073426--7073475 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
7073416 TTTATTTAAT
*
7073426 TATTATTTTAATAATTAAAATAATAA
1 TATTATTTTAATAATTAAAAAAATAA
*
7073452 TATTATTTT-TTAATTAAAAAAATA
1 TATTATTTTAATAATTAAAAAAATA
7073476 TTCCAACTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (26 bp):
TATTATTTTAATAATTAAAAAAATAA
Found at i:7082926 original size:2 final size:2
Alignment explanation
Indices: 7082919--7082955 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
7082909 AAGTAGAATT
* *
7082919 TA TA TA TA TA TC TA TA TA TA TA TA TA TA TA TA CA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7082956 TTCTCTCATG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:7089376 original size:10 final size:10
Alignment explanation
Indices: 7089361--7089392 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
7089351 TCACATGTAA
7089361 ATATAAATAT
1 ATATAAATAT
7089371 ATATAAATAT
1 ATATAAATAT
*
7089381 ATATATATAT
1 ATATAAATAT
7089391 AT
1 AT
7089393 TCTCTACCCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
ATATAAATAT
Found at i:7091812 original size:3 final size:3
Alignment explanation
Indices: 7091804--7091830 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
7091794 CATCAACTCA
7091804 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
7091831 TTCTACAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:7094274 original size:19 final size:20
Alignment explanation
Indices: 7094258--7094297 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
7094248 AATTAAATTT
7094258 TAAATTTTTTTTTAAATAGTG
1 TAAATTTTTTTTTAAATA-TG
*
7094279 TAAATTTTTTTTCAAATAT
1 TAAATTTTTTTTTAAATAT
7094298 TATGTCATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (20 bp):
TAAATTTTTTTTTAAATATG
Found at i:7097237 original size:137 final size:133
Alignment explanation
Indices: 7096941--7097212 Score: 499
Period size: 137 Copynumber: 2.0 Consensus size: 133
7096931 TAAGTCTTTA
7096941 CTATAAACAGCCACCTGATAACTCTAACGTTCCTACTAAGGAAAATATTAGTTATGAAATTTCTC
1 CTATAAACAGCCACCTGATAACTCTAACGTTCCTACTAAGGAAAATATTAGTTATGAAATTTCTC
7097006 AACCGGCAAGTGTCCCAAATTTGTCTTTATTCTTTTGGACATCTATAGGTGTAATCATGTGGCAG
66 AACCGGCAAGTGTCCCAAATTTGTCTTTATTCTTTTGGACATCTATAGGTGTAATCATGTGGCAG
7097071 GCT
131 GCT
*
7097074 CTATAAACAGTCACCTGATAACTCTAACGTTCCTACTAAGGAAAATATTAGTTATGATGGCAATT
1 CTATAAACAGCCACCTGATAACTCTAACGTTCCTACTAAGGAAAATATTAGTTATGA----AATT
7097139 TCTCAACCGGCAAGTGTCCCAAATTTGTCTTTATTCTTTTGGACATCTATAGGTGTAATCATGTG
62 TCTCAACCGGCAAGTGTCCCAAATTTGTCTTTATTCTTTTGGACATCTATAGGTGTAATCATGTG
7097204 GCAGGCT
127 GCAGGCT
7097211 CT
1 CT
7097213 CATTGTGGGC
Statistics
Matches: 134, Mismatches: 1, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
133 56 0.42
137 78 0.58
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.33
Consensus pattern (133 bp):
CTATAAACAGCCACCTGATAACTCTAACGTTCCTACTAAGGAAAATATTAGTTATGAAATTTCTC
AACCGGCAAGTGTCCCAAATTTGTCTTTATTCTTTTGGACATCTATAGGTGTAATCATGTGGCAG
GCT
Found at i:7100914 original size:29 final size:29
Alignment explanation
Indices: 7100872--7100928 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
7100862 TTTCAAGTGT
*
7100872 TTAATCATTTGCAGCTAATTGTTGCCTTG
1 TTAATCATTTGCAGCAAATTGTTGCCTTG
7100901 TTAATCATTTGCAGCAAATTGTTGCCTT
1 TTAATCATTTGCAGCAAATTGTTGCCTT
7100929 TCTTTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.23, C:0.18, G:0.16, T:0.44
Consensus pattern (29 bp):
TTAATCATTTGCAGCAAATTGTTGCCTTG
Found at i:7102044 original size:49 final size:49
Alignment explanation
Indices: 7101972--7102071 Score: 173
Period size: 49 Copynumber: 2.0 Consensus size: 49
7101962 ATGCGCAAAG
* *
7101972 TATGAATCTCTGAGAAGATTGAAGATTGTTATTGAGTTTGCTCTTTCAT
1 TATGAATCTCCGAGAAGATTGAAGATTGTTAATGAGTTTGCTCTTTCAT
*
7102021 TATGAATCTCCGAGAAGATTGAAGATTGTTAATGGGTTTGCTCTTTCAT
1 TATGAATCTCCGAGAAGATTGAAGATTGTTAATGAGTTTGCTCTTTCAT
7102070 TA
1 TA
7102072 ATTTCGTCTA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.27, C:0.11, G:0.21, T:0.41
Consensus pattern (49 bp):
TATGAATCTCCGAGAAGATTGAAGATTGTTAATGAGTTTGCTCTTTCAT
Found at i:7110741 original size:297 final size:296
Alignment explanation
Indices: 7110207--7110802 Score: 1167
Period size: 297 Copynumber: 2.0 Consensus size: 296
7110197 CCGTTCTACC
7110207 AAATACCTGATAAAAACTAGAACACATAATATAAGAGGATGAAGCTGAGAATATATTTGTACATT
1 AAATACCTGATAAAAACTAGAACACATAATATAAGAGGATGAAGCTGAGAATATATTTGTACATT
7110272 CTAGCAGTTTGGAAAACATTATAACCTCCAGTAAGACTTCCTATTTTATTCCCAATAAGAGATGA
66 CTAGCAGTTTGGAAAACATTATAACCTCCAGTAAGACTTCCTATTTTATTCCCAATAAGAGATGA
7110337 GCCCAGACTCTGACCCAGGAATTTCTTCAATTTTTTTTTCTTTTCAGCAAACTTTACATCTCAGA
131 GCCCAGACTCTGACCCAGGAATTTCTTCAATTTTTTTTTCTTTTCAGCAAACTTTACATCTCAGA
7110402 TCATCTCTAATTTCCATTGATTTTTAATATTACAAAGAGAGGGCTAAAATTTTAAAATAAATAAA
196 TCATCTCTAATTTCCATTGATTTTTAATATTACAAAGAGAGGGCTAAAATTTT-AAATAAATAAA
7110467 ACAGCAATCCCCAACTTCCACCTCCACTTTCTGAACT
260 ACAGCAATCCCCAACTTCCACCTCCACTTTCTGAACT
7110504 AAATACCTGATAAAAACTAGAACACATAATATAAGAGGATGAAGCTGAGAATATATTTGTACATT
1 AAATACCTGATAAAAACTAGAACACATAATATAAGAGGATGAAGCTGAGAATATATTTGTACATT
7110569 CTAGCAGTTTGGAAAACATTATAACCTCCAGTAAGACTTCCTATTTTATTCCCAATAAAGAGATG
66 CTAGCAGTTTGGAAAACATTATAACCTCCAGTAAGACTTCCTATTTTATTCCCAAT-AAGAGATG
7110634 AGCCCAGACTCTGACCCAGGAATTTCTTCAA-TTTTTTTTCTTTTCAGCAAACTTTACATCTCAG
130 AGCCCAGACTCTGACCCAGGAATTTCTTCAATTTTTTTTTCTTTTCAGCAAACTTTACATCTCAG
7110698 ATCATCTCTAATTTCCATTGATTTTTAATATTACAAAGAGAGGGCTAAAATTTTAAATAAATAAA
195 ATCATCTCTAATTTCCATTGATTTTTAATATTACAAAGAGAGGGCTAAAATTTTAAATAAATAAA
7110763 ACAGCAATCCCCAACTTCCACCTCCACTTTCTGAACT
260 ACAGCAATCCCCAACTTCCACCTCCACTTTCTGAACT
7110800 AAA
1 AAA
7110803 ACAGTAGGGC
Statistics
Matches: 298, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
296 51 0.17
297 208 0.70
298 39 0.13
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.32
Consensus pattern (296 bp):
AAATACCTGATAAAAACTAGAACACATAATATAAGAGGATGAAGCTGAGAATATATTTGTACATT
CTAGCAGTTTGGAAAACATTATAACCTCCAGTAAGACTTCCTATTTTATTCCCAATAAGAGATGA
GCCCAGACTCTGACCCAGGAATTTCTTCAATTTTTTTTTCTTTTCAGCAAACTTTACATCTCAGA
TCATCTCTAATTTCCATTGATTTTTAATATTACAAAGAGAGGGCTAAAATTTTAAATAAATAAAA
CAGCAATCCCCAACTTCCACCTCCACTTTCTGAACT
Found at i:7114506 original size:3 final size:3
Alignment explanation
Indices: 7114498--7114522 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
7114488 AGTCATAGAG
7114498 AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA A
7114523 AAAGGAAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:7117857 original size:2 final size:2
Alignment explanation
Indices: 7117850--7117882 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
7117840 GGCTGTGCAT
*
7117850 GA GA GA GA -A AA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
7117883 TCAATAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (2 bp):
GA
Found at i:7123452 original size:12 final size:12
Alignment explanation
Indices: 7123431--7123461 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
7123421 TATTAGAGAT
7123431 ATAAAGAAATAA
1 ATAAAGAAATAA
*
7123443 ATAAATAAATAA
1 ATAAAGAAATAA
7123455 ATAAAGA
1 ATAAAGA
7123462 CAGCTATGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.19
Consensus pattern (12 bp):
ATAAAGAAATAA
Found at i:7125023 original size:21 final size:21
Alignment explanation
Indices: 7124994--7125060 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
7124984 TCAATCAATT
*
7124994 TTTAA-GGTTTTTTGAACTGG
1 TTTAAGGGTTTTTTGAACTGA
*
7125014 TTTAAGGGTTTTTTGAATTGA
1 TTTAAGGGTTTTTTGAACTGA
* * * *
7125035 TTTTAGGGTTTTGTAAACTAA
1 TTTAAGGGTTTTTTGAACTGA
7125056 TTTAA
1 TTTAA
7125061 ATATTTTTAA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
20 5 0.13
21 33 0.87
ACGTcount: A:0.25, C:0.03, G:0.21, T:0.51
Consensus pattern (21 bp):
TTTAAGGGTTTTTTGAACTGA
Found at i:7125087 original size:20 final size:20
Alignment explanation
Indices: 7125064--7125105 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
7125054 AATTTAAATA
*
7125064 TTTTTAATTAATTTTAAGAT
1 TTTTTAATCAATTTTAAGAT
*
7125084 TTTTTAATCGATTTTAAGAT
1 TTTTTAATCAATTTTAAGAT
7125104 TT
1 TT
7125106 GTTGAATTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.31, C:0.02, G:0.07, T:0.60
Consensus pattern (20 bp):
TTTTTAATCAATTTTAAGAT
Found at i:7125228 original size:21 final size:20
Alignment explanation
Indices: 7125204--7125281 Score: 59
Period size: 21 Copynumber: 3.7 Consensus size: 20
7125194 AACCTTCAAA
7125204 TAAGTTTATTAGAATTAATTT
1 TAAGTTTATT-GAATTAATTT
*
7125225 TAAGGTTTAATGAATCT-ATTT
1 TAA-GTTTATTGAAT-TAATTT
* * * *
7125246 TAAGATTTGTTAAATTAGTTG
1 TAAG-TTTATTGAATTAATTT
7125267 TAGAGTTTATTGAAT
1 TA-AGTTTATTGAAT
7125282 CTTAAAATAT
Statistics
Matches: 44, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
20 2 0.05
21 33 0.75
22 9 0.20
ACGTcount: A:0.35, C:0.01, G:0.15, T:0.49
Consensus pattern (20 bp):
TAAGTTTATTGAATTAATTT
Found at i:7127962 original size:21 final size:21
Alignment explanation
Indices: 7127938--7128003 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
7127928 TAGGATTTAA
*
7127938 TGAATTGATTTTAAAGTTGGT
1 TGAATTGATTTTAAAGTTGAT
** * *
7127959 TGAACCGATTTTAAGGTTTAT
1 TGAATTGATTTTAAAGTTGAT
* *
7127980 TGAATTGATTTTAGAGTTTAT
1 TGAATTGATTTTAAAGTTGAT
7128001 TGA
1 TGA
7128004 GCCGATTTAG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.29, C:0.03, G:0.21, T:0.47
Consensus pattern (21 bp):
TGAATTGATTTTAAAGTTGAT
Found at i:7127984 original size:42 final size:42
Alignment explanation
Indices: 7127923--7128011 Score: 117
Period size: 42 Copynumber: 2.1 Consensus size: 42
7127913 CTTTAGAATT
*
7127923 GATTTTAGGATTTAATGAATTGATTTTAAAGTTGGTTGAACC
1 GATTTTAGGATTTAATGAATTGATTTTAAAGTTGATTGAACC
* * * *
7127965 GATTTTAAGG-TTTATTGAATTGATTTTAGAGTTTATTGAGCC
1 GATTTT-AGGATTTAATGAATTGATTTTAAAGTTGATTGAACC
7128007 GATTT
1 GATTT
7128012 AGTAAACCAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
42 38 0.93
43 3 0.07
ACGTcount: A:0.28, C:0.04, G:0.21, T:0.46
Consensus pattern (42 bp):
GATTTTAGGATTTAATGAATTGATTTTAAAGTTGATTGAACC
Found at i:7128010 original size:21 final size:20
Alignment explanation
Indices: 7127944--7128011 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 20
7127934 TTAATGAATT
**
7127944 GATTTTAAAGTTGGTTGAACC
1 GATTTT-AAGTTTATTGAACC
**
7127965 GATTTTAAGGTTTATTGAATT
1 GATTTTAA-GTTTATTGAACC
*
7127986 GATTTTAGAGTTTATTGAGCC
1 GATTTTA-AGTTTATTGAACC
7128007 GATTT
1 GATTT
7128012 AGTAAACCAA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
20 2 0.05
21 35 0.92
22 1 0.03
ACGTcount: A:0.26, C:0.06, G:0.22, T:0.46
Consensus pattern (20 bp):
GATTTTAAGTTTATTGAACC
Found at i:7128170 original size:21 final size:21
Alignment explanation
Indices: 7128144--7128188 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
7128134 CCTAAAACCA
*
7128144 ATTTAACAGACCTTCAAATCG
1 ATTTAACAAACCTTCAAATCG
* *
7128165 ATTTAACAAATCTTCAAATTG
1 ATTTAACAAACCTTCAAATCG
7128186 ATT
1 ATT
7128189 CATTAATCTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.40, C:0.18, G:0.07, T:0.36
Consensus pattern (21 bp):
ATTTAACAAACCTTCAAATCG
Found at i:7128225 original size:21 final size:21
Alignment explanation
Indices: 7128129--7128226 Score: 52
Period size: 21 Copynumber: 4.7 Consensus size: 21
7128119 ACTAATTCCC
* * *
7128129 TAAACCCTAAAACCAATTTAA
1 TAAACCCTCAAATCGATTTAA
* * *
7128150 CAGACCTTCAAATCGATTTAA
1 TAAACCCTCAAATCGATTTAA
* * * * * *
7128171 CAAATCTTCAAATTGATTCAT
1 TAAACCCTCAAATCGATTTAA
* ** *
7128192 TAATCTATAAAATCGATTTAA
1 TAAACCCTCAAATCGATTTAA
7128213 TAAACCCTCAAATC
1 TAAACCCTCAAATC
7128227 AGCTCATTAA
Statistics
Matches: 53, Mismatches: 24, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
21 53 1.00
ACGTcount: A:0.44, C:0.21, G:0.04, T:0.31
Consensus pattern (21 bp):
TAAACCCTCAAATCGATTTAA
Found at i:7128346 original size:42 final size:42
Alignment explanation
Indices: 7128294--7128411 Score: 103
Period size: 42 Copynumber: 2.8 Consensus size: 42
7128284 ATTGGTTTAA
* **
7128294 TAAACCTTAAAACCAGTTTATCAAACTTTCGAAATGATGCAT
1 TAAACCTTAAAACCAGTTTAACAAACCCTCGAAATGATGCAT
* ** * *
7128336 TAAATCTTAAAATTAGTTTAACAAACCCTCGAATTGATTCAT
1 TAAACCTTAAAACCAGTTTAACAAACCCTCGAAATGATGCAT
* * * * * *
7128378 TAAGCCCTGAAATCAATTTACCAAACCCTC-AAAT
1 TAAACCTTAAAACCAGTTTAACAAACCCTCGAAAT
7128412 CGATTTGTTA
Statistics
Matches: 60, Mismatches: 16, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
41 3 0.05
42 57 0.95
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.31
Consensus pattern (42 bp):
TAAACCTTAAAACCAGTTTAACAAACCCTCGAAATGATGCAT
Found at i:7146094 original size:35 final size:35
Alignment explanation
Indices: 7145998--7146095 Score: 115
Period size: 37 Copynumber: 2.7 Consensus size: 35
7145988 TTAATTATTC
** *
7145998 TGTGTGAAGTAATATTTTACTTATTTTAGTTGTTT
1 TGTGTGAAGTAATGCTTTACTTGTTTTAGTTGTTT
* * * *
7146033 TGTATGAAGGAATGTGCTTCATTTGTTTTAGTTGTTT
1 TGTGTGAAGTAA--TGCTTTACTTGTTTTAGTTGTTT
7146070 TGTGTGAAGTAATGCTTTACTTGTTT
1 TGTGTGAAGTAATGCTTTACTTGTTT
7146096 AGTATTGTTT
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
35 22 0.44
37 28 0.56
ACGTcount: A:0.20, C:0.05, G:0.21, T:0.53
Consensus pattern (35 bp):
TGTGTGAAGTAATGCTTTACTTGTTTTAGTTGTTT
Found at i:7165074 original size:57 final size:57
Alignment explanation
Indices: 7164985--7165102 Score: 209
Period size: 57 Copynumber: 2.1 Consensus size: 57
7164975 TGCATCATAC
* *
7164985 TTCATATTGGAATAATTATTTGTTATGACCTTTTAAGTGTTTTATACATCTATCATT
1 TTCATATTGGAATAATTATTTGTTATGACCTTTCAAGTGTTTTAAACATCTATCATT
*
7165042 TTCATATTGGAATAATTATTTGTTATGGCCTTTCAAGTGTTTTAAACATCTATCATT
1 TTCATATTGGAATAATTATTTGTTATGACCTTTCAAGTGTTTTAAACATCTATCATT
7165099 TTCA
1 TTCA
7165103 CTGTAGCTTG
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.28, C:0.12, G:0.11, T:0.49
Consensus pattern (57 bp):
TTCATATTGGAATAATTATTTGTTATGACCTTTCAAGTGTTTTAAACATCTATCATT
Found at i:7169963 original size:20 final size:20
Alignment explanation
Indices: 7169917--7169966 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
7169907 AAATTAAAAA
* *
7169917 ATAAAAAATAATTTTGAATT
1 ATAAAAAATAATTTGGAACT
*
7169937 ATTAAAAA-AATTCTGGAACT
1 ATAAAAAATAATT-TGGAACT
7169957 ATAAAAAATA
1 ATAAAAAATA
7169967 GAAATGAGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 4 0.17
20 19 0.79
21 1 0.04
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.32
Consensus pattern (20 bp):
ATAAAAAATAATTTGGAACT
Found at i:7171721 original size:29 final size:29
Alignment explanation
Indices: 7171673--7171758 Score: 102
Period size: 29 Copynumber: 2.9 Consensus size: 29
7171663 ATTGAAAAAA
**
7171673 AATTAAATAAGTCATTATATTTTTATTAT
1 AATTAAATAAGTTTTTATATTTTTATTAT
*
7171702 -ATTAAATTAAGTTTTTATATTTTTATTTT
1 AATTAAA-TAAGTTTTTATATTTTTATTAT
* *
7171731 GAATCAAATACGTTTTTATATTTTTATT
1 -AATTAAATAAGTTTTTATATTTTTATT
7171759 TCTAGTTAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
28 6 0.12
29 19 0.39
30 19 0.39
31 5 0.10
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (29 bp):
AATTAAATAAGTTTTTATATTTTTATTAT
Found at i:7171778 original size:29 final size:27
Alignment explanation
Indices: 7171687--7171778 Score: 94
Period size: 30 Copynumber: 3.1 Consensus size: 27
7171677 AAATAAGTCA
*
7171687 TTATATTTTTATTATATTAAATTAAGTTT
1 TTATATTTTTATTTTATTAAA-T-AGTTT
*
7171716 TTATATTTTTATTTTGAATCAAATACGTTT
1 TTATATTTTTATTTT--ATTAAATA-GTTT
*
7171746 TTATATTTTTATTTCTAGTTAAATAGTAT
1 TTATATTTTTATTT-TA-TTAAATAGTTT
7171775 TTAT
1 TTAT
7171779 TATTAATAAT
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
29 23 0.43
30 25 0.46
31 6 0.11
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (27 bp):
TTATATTTTTATTTTATTAAATAGTTT
Found at i:7172111 original size:29 final size:30
Alignment explanation
Indices: 7172043--7172114 Score: 78
Period size: 29 Copynumber: 2.4 Consensus size: 30
7172033 TGTTATAAAA
* *
7172043 GTTTATTT-AATTCAAAATAAAAATATAATG
1 GTTTATTTGAATTC-AAATAAAAAAATAAGG
*
7172073 ATTTGA-TTGAATTC-AATAAAAAAATAAGG
1 GTTT-ATTTGAATTCAAATAAAAAAATAAGG
7172102 GTTTATTTGAATT
1 GTTTATTTGAATT
7172115 TTTTAAAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
28 1 0.03
29 23 0.66
30 5 0.14
31 6 0.17
ACGTcount: A:0.46, C:0.03, G:0.11, T:0.40
Consensus pattern (30 bp):
GTTTATTTGAATTCAAATAAAAAAATAAGG
Found at i:7172808 original size:17 final size:18
Alignment explanation
Indices: 7172773--7172821 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
7172763 TTTTATACTA
*
7172773 ATTTTAATCAAATTTAAAT
1 ATTTTAAT-AAATTAAAAT
7172792 ATTTTAAT-AATTAAAAT
1 ATTTTAATAAATTAAAAT
*
7172809 GTTTTAAATAAAT
1 ATTTT-AATAAAT
7172822 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 12 0.46
18 3 0.12
19 11 0.42
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (18 bp):
ATTTTAATAAATTAAAAT
Found at i:7191244 original size:4 final size:4
Alignment explanation
Indices: 7191227--7191268 Score: 66
Period size: 4 Copynumber: 10.5 Consensus size: 4
7191217 ATTATGTAAG
**
7191227 ATGT ATGT GCGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
7191269 TGGAGGGCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.24, C:0.02, G:0.26, T:0.48
Consensus pattern (4 bp):
ATGT
Found at i:7192112 original size:2 final size:2
Alignment explanation
Indices: 7192105--7192142 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
7192095 ATATTTAGAA
*
7192105 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7192143 TATCAATATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:7195058 original size:2 final size:2
Alignment explanation
Indices: 7195051--7195082 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
7195041 ATGCTATGTC
7195051 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
7195083 GGACACATGC
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:7198987 original size:2 final size:2
Alignment explanation
Indices: 7198980--7199016 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
7198970 TCTATATGTG
7198980 TA TA TA TA TA 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 TA TA TA TA TA T
7199017 GTCCAACTTT
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7199755 original size:2 final size:2
Alignment explanation
Indices: 7199748--7199839 Score: 184
Period size: 2 Copynumber: 46.0 Consensus size: 2
7199738 AAAGGAAAGT
7199748 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
7199790 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
7199832 GA GA GA GA
1 GA GA GA GA
7199840 AAAGTCATAT
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 90 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:7203674 original size:13 final size:13
Alignment explanation
Indices: 7203656--7203685 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
7203646 ATAAGACATG
7203656 GGAAAAAACAAAA
1 GGAAAAAACAAAA
*
7203669 GGAAAAAAGAAAA
1 GGAAAAAACAAAA
7203682 GGAA
1 GGAA
7203686 GAAGATACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.73, C:0.03, G:0.23, T:0.00
Consensus pattern (13 bp):
GGAAAAAACAAAA
Found at i:7208123 original size:24 final size:26
Alignment explanation
Indices: 7208096--7208155 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 26
7208086 ATGTATCATT
7208096 GAGACTGG-ACA-TCAATGATGCTTA
1 GAGACTGGTACATTCAATGATGCTTA
* *
7208120 GAGACTGGTATATTCTATGATGCTTA
1 GAGACTGGTACATTCAATGATGCTTA
*
7208146 AAGACTGGTA
1 GAGACTGGTA
7208156 TATTTTGTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
24 8 0.26
25 2 0.06
26 21 0.68
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (26 bp):
GAGACTGGTACATTCAATGATGCTTA
Found at i:7208143 original size:26 final size:26
Alignment explanation
Indices: 7208110--7208159 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
7208100 CTGGACATCA
*
7208110 ATGATGCTTAGAGACTGGTATATTCT
1 ATGATGCTTAAAGACTGGTATATTCT
7208136 ATGATGCTTAAAGACTGGTATATT
1 ATGATGCTTAAAGACTGGTATATT
7208160 TTGTATTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.38
Consensus pattern (26 bp):
ATGATGCTTAAAGACTGGTATATTCT
Found at i:7210285 original size:306 final size:309
Alignment explanation
Indices: 7209673--7210289 Score: 1177
Period size: 306 Copynumber: 2.0 Consensus size: 309
7209663 GCATGCCATC
7209673 CATAGCCAAATCCATTATAGGCTAGGTTGAAAAACCCTATAATAATGTTGCCAAGCCAAACTAAT
1 CATAGCCAAATCCATTATAGGCTAGGTTGAAAAACCCTATAATAATGTTGCCAAGCCAAACTAAT
7209738 AAGCTCAAAAAACCTTCAACTCAAGGCCTAAAAAGCAAAGGTGACCTAGACCCAAATAGCCATGC
66 AAGCTCAAAAAACCTTCAACTCAAGGCCTAAAAAGCAAAGGTGACCTAGACCCAAATAGCCATGC
*
7209803 CTTTAATACTCTACTCCTAAAGTCGACTGCAATGGAAGCAAGCTTCAAGCTTTTTGTGATATGCA
131 CTTTAATACTCTACTCCTAAAGTCGACTGCAATGGAAGCAAGCTTCAAGCTTTTTGTGATATACA
*
7209868 TGGATTTGTAGATAATAGCCAAAGACCTTTTTTGGGCCACACATAGCCCAACAGTAGTGCCTAAC
196 TGGATTTGTAGATAATAGCCAAAGACCTTTTTTGGGCCACACATAGCCCAACAGTAATGCCTAAC
7209933 TTTTCTCAACCCATACCATGTTTTCCTTATCTAATCATGCTTGATGATT
261 TTTTCTCAACCCATACCATGTTTTCCTTATCTAATCATGCTTGATGATT
*
7209982 CATAGCCAAATCCATTATGGGCTAGGTTG-AAAACCCTATAATAATGTTGCCAAGCCAAACTAAT
1 CATAGCCAAATCCATTATAGGCTAGGTTGAAAAACCCTATAATAATGTTGCCAAGCCAAACTAAT
7210046 AAGCTCAAAAAACCTTCAACTCAAGGCCTAAAAAGCAAAGGTGACCTAGACCCAAATAGCCATGC
66 AAGCTCAAAAAACCTTCAACTCAAGGCCTAAAAAGCAAAGGTGACCTAGACCCAAATAGCCATGC
7210111 CTTT-ATACTCTACTCCTAAAGTCGACTGCAATGGAAGCAAGCTTCAAGCTTTTTGTGATATACA
131 CTTTAATACTCTACTCCTAAAGTCGACTGCAATGGAAGCAAGCTTCAAGCTTTTTGTGATATACA
7210175 TGGA-TTGTAGATAATAGCCAAAGACCTTTTTTGGGCCACACATAGCCCAACAGTAATGCCTAAC
196 TGGATTTGTAGATAATAGCCAAAGACCTTTTTTGGGCCACACATAGCCCAACAGTAATGCCTAAC
*
7210239 TTTTCTCAACCCATATCATGTTTTCCTTATCTAATCATGCTTGATGATT
261 TTTTCTCAACCCATACCATGTTTTCCTTATCTAATCATGCTTGATGATT
7210288 CA
1 CA
7210290 CAATAAATCA
Statistics
Matches: 304, Mismatches: 4, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
306 109 0.36
307 63 0.21
308 104 0.34
309 28 0.09
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.28
Consensus pattern (309 bp):
CATAGCCAAATCCATTATAGGCTAGGTTGAAAAACCCTATAATAATGTTGCCAAGCCAAACTAAT
AAGCTCAAAAAACCTTCAACTCAAGGCCTAAAAAGCAAAGGTGACCTAGACCCAAATAGCCATGC
CTTTAATACTCTACTCCTAAAGTCGACTGCAATGGAAGCAAGCTTCAAGCTTTTTGTGATATACA
TGGATTTGTAGATAATAGCCAAAGACCTTTTTTGGGCCACACATAGCCCAACAGTAATGCCTAAC
TTTTCTCAACCCATACCATGTTTTCCTTATCTAATCATGCTTGATGATT
Found at i:7212693 original size:21 final size:21
Alignment explanation
Indices: 7212667--7212706 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
7212657 TTTCTTTAAT
7212667 GATCTTAGAACTTGTTTGAGC
1 GATCTTAGAACTTGTTTGAGC
* *
7212688 GATCTTTGAGCTTGTTTGA
1 GATCTTAGAACTTGTTTGA
7212707 ATGATTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.12, G:0.25, T:0.42
Consensus pattern (21 bp):
GATCTTAGAACTTGTTTGAGC
Found at i:7212907 original size:21 final size:21
Alignment explanation
Indices: 7212824--7212910 Score: 102
Period size: 21 Copynumber: 4.1 Consensus size: 21
7212814 ACAAAATTAC
* *
7212824 TTGAATGATCTTTGAACTTAT
1 TTGAATGATTTTTGAACTTGT
* *
7212845 TTGAATGATTTTTGAATTTTT
1 TTGAATGATTTTTGAACTTGT
*
7212866 TTGAATGAGTATTTGAACTTGT
1 TTGAATGA-TTTTTGAACTTGT
* *
7212888 TTGAATGGTTTTTAAACTTGT
1 TTGAATGATTTTTGAACTTGT
7212909 TT
1 TT
7212911 ATTAAATTTT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
21 39 0.70
22 17 0.30
ACGTcount: A:0.25, C:0.05, G:0.17, T:0.53
Consensus pattern (21 bp):
TTGAATGATTTTTGAACTTGT
Found at i:7212967 original size:21 final size:21
Alignment explanation
Indices: 7212943--7212989 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
7212933 TGTTTTCATG
7212943 TGAA-AAGTTTTAAAAATTACT
1 TGAATAAGTTTT-AAAATTACT
* *
7212964 TGAATGAGTTTTCAAATTACT
1 TGAATAAGTTTTAAAATTACT
7212985 TGAAT
1 TGAAT
7212990 GATTTTTGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.40, C:0.06, G:0.13, T:0.40
Consensus pattern (21 bp):
TGAATAAGTTTTAAAATTACT
Found at i:7212973 original size:22 final size:21
Alignment explanation
Indices: 7212948--7212996 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
7212938 TCATGTGAAA
7212948 AGTTTTAAAAATTACTTGAATG
1 AGTTTT-AAAATTACTTGAATG
*
7212970 AGTTTTCAAATTACTTGAATG
1 AGTTTTAAAATTACTTGAATG
*
7212991 ATTTTT
1 AGTTTT
7212997 GAACTTGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 19 0.76
22 6 0.24
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.47
Consensus pattern (21 bp):
AGTTTTAAAATTACTTGAATG
Found at i:7212990 original size:21 final size:21
Alignment explanation
Indices: 7212956--7213020 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 21
7212946 AAAGTTTTAA
7212956 AAATTACTTGAATGAGTTTTC
1 AAATTACTTGAATGAGTTTTC
* *
7212977 AAATTACTTGAATGATTTTTG
1 AAATTACTTGAATGAGTTTTC
* **
7212998 AACTTGTTTGAAT-AGTTTTC
1 AAATTACTTGAATGAGTTTTC
7213018 AAA
1 AAA
7213021 CTTGTTTAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
20 7 0.19
21 29 0.81
ACGTcount: A:0.34, C:0.08, G:0.14, T:0.45
Consensus pattern (21 bp):
AAATTACTTGAATGAGTTTTC
Found at i:7213022 original size:21 final size:21
Alignment explanation
Indices: 7212963--7213042 Score: 67
Period size: 21 Copynumber: 3.8 Consensus size: 21
7212953 TAAAAATTAC
**
7212963 TTGAATGAGTTTTCAAA-TTAC
1 TTGAAT-AGTTTTCAAACTTGT
**
7212984 TTGAAT-GATTTTTGAACTTGT
1 TTGAATAG-TTTTCAAACTTGT
7213005 TTGAATAGTTTTCAAACTTGT
1 TTGAATAGTTTTCAAACTTGT
*
7213026 TTAAATTAGTTTT-AAAC
1 TTGAA-TAGTTTTCAAAC
7213043 CTCCTTTACA
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
19 1 0.02
20 6 0.12
21 33 0.69
22 8 0.17
ACGTcount: A:0.31, C:0.07, G:0.14, T:0.47
Consensus pattern (21 bp):
TTGAATAGTTTTCAAACTTGT
Found at i:7214322 original size:25 final size:27
Alignment explanation
Indices: 7214270--7214323 Score: 74
Period size: 29 Copynumber: 2.0 Consensus size: 27
7214260 GAAGATAAAT
*
7214270 TTCATTAATGAAAGGCTTTACAATAAAAC
1 TTCATTAAAGAAAGGCTTT--AATAAAAC
7214299 TTCATTAAAGAAAGGCTTTAA-AAAA
1 TTCATTAAAGAAAGGCTTTAATAAAA
7214324 GCTACTTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 4 0.17
27 2 0.08
29 18 0.75
ACGTcount: A:0.48, C:0.11, G:0.11, T:0.30
Consensus pattern (27 bp):
TTCATTAAAGAAAGGCTTTAATAAAAC
Found at i:7218580 original size:97 final size:97
Alignment explanation
Indices: 7218446--7218643 Score: 387
Period size: 97 Copynumber: 2.0 Consensus size: 97
7218436 ATTGAGAGGC
*
7218446 TATAAGACTAATATGGATAAGTTAGAAAGTAGACATTGAGAGGCTTTTTATTTATCCAAGATATA
1 TATAAAACTAATATGGATAAGTTAGAAAGTAGACATTGAGAGGCTTTTTATTTATCCAAGATATA
7218511 TGATGAAAGAATCGAATTATACTAAAATATTA
66 TGATGAAAGAATCGAATTATACTAAAATATTA
7218543 TATAAAACTAATATGGATAAGTTAGAAAGTAGACATTGAGAGGCTTTTTATTTATCCAAGATATA
1 TATAAAACTAATATGGATAAGTTAGAAAGTAGACATTGAGAGGCTTTTTATTTATCCAAGATATA
7218608 TGATGAAAGAATCGAATTATACTAAAATATTA
66 TGATGAAAGAATCGAATTATACTAAAATATTA
7218640 TATA
1 TATA
7218644 CTGAAAGGTT
Statistics
Matches: 100, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
97 100 1.00
ACGTcount: A:0.44, C:0.07, G:0.16, T:0.33
Consensus pattern (97 bp):
TATAAAACTAATATGGATAAGTTAGAAAGTAGACATTGAGAGGCTTTTTATTTATCCAAGATATA
TGATGAAAGAATCGAATTATACTAAAATATTA
Found at i:7219904 original size:2 final size:2
Alignment explanation
Indices: 7219893--7219926 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
7219883 ACAACACTCT
7219893 TA TA -A TA 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 TA TA TA TA T
7219927 GGATATTTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7220329 original size:21 final size:23
Alignment explanation
Indices: 7220292--7220334 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
7220282 AATGGAAAGA
7220292 TTTGCTTAAGATAAC-AATAAAT
1 TTTGCTTAAGATAACAAATAAAT
*
7220314 TTTGCTTAAGGT-ACAAATAAA
1 TTTGCTTAAGATAACAAATAAA
7220335 GAGATGTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (23 bp):
TTTGCTTAAGATAACAAATAAAT
Found at i:7227181 original size:16 final size:16
Alignment explanation
Indices: 7227160--7227192 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7227150 TTGCATGATC
7227160 ACAGTC-AATAAACATA
1 ACAGTCTAA-AAACATA
7227176 ACAGTCTAAAAACATA
1 ACAGTCTAAAAACATA
7227192 A
1 A
7227193 AGACAAACTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.88
17 2 0.12
ACGTcount: A:0.58, C:0.18, G:0.06, T:0.18
Consensus pattern (16 bp):
ACAGTCTAAAAACATA
Found at i:7227958 original size:21 final size:21
Alignment explanation
Indices: 7227915--7227966 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
7227905 GATACCTATG
* *
7227915 TATCGATAGA-TGATCACATT
1 TATCGATAGATTCATCAAATT
*
7227935 TATCGATAGATTCCTCAAATT
1 TATCGATAGATTCATCAAATT
*
7227956 TATCGTTAGAT
1 TATCGATAGAT
7227967 AGAAGACAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.38
Consensus pattern (21 bp):
TATCGATAGATTCATCAAATT
Found at i:7228252 original size:40 final size:40
Alignment explanation
Indices: 7228190--7228300 Score: 109
Period size: 40 Copynumber: 2.8 Consensus size: 40
7228180 TTAACAATGT
* * *
7228190 CTTAGTCTAAATTAGCATATTAGACAATCACAACT-TAATA
1 CTTAGTCTAAATCACCACATTAGACAATCA-AACTGTAATA
* * * *
7228230 CTTAGTCTAAATCACCACATTAGATATTCATATTGTAATA
1 CTTAGTCTAAATCACCACATTAGACAATCAAACTGTAATA
* *
7228270 CTT-GATCTAATTCACCACATTAGACATTCAA
1 CTTAG-TCTAAATCACCACATTAGACAATCAA
7228301 CCAAGCAAAA
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
39 3 0.05
40 56 0.95
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.34
Consensus pattern (40 bp):
CTTAGTCTAAATCACCACATTAGACAATCAAACTGTAATA
Found at i:7234632 original size:12 final size:13
Alignment explanation
Indices: 7234615--7234643 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
7234605 GAATTACCTC
7234615 TTCTTTTTC-TTT
1 TTCTTTTTCATTT
7234627 TTCTTTTTCATTT
1 TTCTTTTTCATTT
7234640 TTCT
1 TTCT
7234644 CTCTTTACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.79
Consensus pattern (13 bp):
TTCTTTTTCATTT
Found at i:7235264 original size:28 final size:28
Alignment explanation
Indices: 7235233--7235287 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
7235223 TCATTAGTTA
*
7235233 TTAAAATTCATTTGAA-TCAAATTAAAAT
1 TTAAAATTCATTT-AAGTCAAAATAAAAT
*
7235261 TTAAAATTTATTTAAGTCAAAATAAAA
1 TTAAAATTCATTTAAGTCAAAATAAAA
7235288 ATAAATGTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.08
28 22 0.92
ACGTcount: A:0.53, C:0.05, G:0.04, T:0.38
Consensus pattern (28 bp):
TTAAAATTCATTTAAGTCAAAATAAAAT
Done.