Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr6
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: 26303135
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.30
Warning! 1968672 characters in sequence are not A, C, G, or T
File 21 of 66
Found at i:7001510 original size:28 final size:27
Alignment explanation
Indices: 7001475--7001527 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
7001465 TATCCTAGTG
*
7001475 GTGGAAAATTACAATTTTGCCCCTAGA
1 GTGGAAAATTACAATTTTACCCCTAGA
*
7001502 GTGGCAAAATTACCATTTTACCCCTA
1 GTGG-AAAATTACAATTTTACCCCTA
7001528 TACTCCAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (27 bp):
GTGGAAAATTACAATTTTACCCCTAGA
Found at i:7016281 original size:2 final size:2
Alignment explanation
Indices: 7016274--7016457 Score: 368
Period size: 2 Copynumber: 92.0 Consensus size: 2
7016264 GCAAGATAAN
7016274 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
7016316 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
7016358 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
7016400 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
7016442 AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG
7016458 TTTGGTGATG
Statistics
Matches: 182, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 182 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7020109 original size:20 final size:20
Alignment explanation
Indices: 7020084--7020129 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
7020074 TTTTGACCCC
7020084 ATTTGACTTATTAGAGTATA
1 ATTTGACTTATTAGAGTATA
* *
7020104 ATTTGACTTATTGGAGTATG
1 ATTTGACTTATTAGAGTATA
7020124 ATTTGA
1 ATTTGA
7020130 GGTTTAGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.30, C:0.04, G:0.20, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTAGAGTATA
Found at i:7022819 original size:15 final size:15
Alignment explanation
Indices: 7022799--7022827 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
7022789 GGATGAATTA
7022799 CACTGAAAGGCTGAT
1 CACTGAAAGGCTGAT
7022814 CACTGAAAGGCTGA
1 CACTGAAAGGCTGA
7022828 GTCAAACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.21, G:0.28, T:0.17
Consensus pattern (15 bp):
CACTGAAAGGCTGAT
Found at i:7025335 original size:19 final size:20
Alignment explanation
Indices: 7025303--7025342 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
7025293 TCACTTCTAA
*
7025303 ACTTCAAATCATACTCCAAT
1 ACTTCAAATAATACTCCAAT
7025323 ACTT-AAATAATACTCCAAT
1 ACTTCAAATAATACTCCAAT
7025342 A
1 A
7025343 AGTCAAATGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.30
Consensus pattern (20 bp):
ACTTCAAATAATACTCCAAT
Found at i:7025854 original size:36 final size:35
Alignment explanation
Indices: 7025749--7025979 Score: 264
Period size: 36 Copynumber: 6.5 Consensus size: 35
7025739 ATTATGTTAT
* *
7025749 GCCTAATTAATTAAATTATTTAATTAAGTCATTAG
1 GCCTAATTGATTAAATTATTTAATTAAGTCATTGG
* * ** *
7025784 ACCTAATTAATTAAATTAAATAATTAAGTTATTGG
1 GCCTAATTGATTAAATTATTTAATTAAGTCATTGG
*
7025819 GCCTAATTGATTAAATTTTTTTAATTAAGTCATTGG
1 GCCTAATTGATTAAA-TTATTTAATTAAGTCATTGG
*
7025855 GCCTAATTGATTAAATTTTTTTAATTAAGTCATTGG
1 GCCTAATTGATTAAA-TTATTTAATTAAGTCATTGG
* ** *
7025891 GCCTAATTGATTAAAATTATTTAATTAAATTGTTGA
1 GCCTAATTGATT-AAATTATTTAATTAAGTCATTGG
* * * *
7025927 GCTTAATTAATTAAATTATTTAATTAAGTTATTAG
1 GCCTAATTGATTAAATTATTTAATTAAGTCATTGG
* *
7025962 ACCTATTTGATTAAATTA
1 GCCTAATTGATTAAATTA
7025980 AACAATTAAG
Statistics
Matches: 168, Mismatches: 26, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
35 76 0.45
36 89 0.53
37 3 0.02
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.45
Consensus pattern (35 bp):
GCCTAATTGATTAAATTATTTAATTAAGTCATTGG
Found at i:7025987 original size:35 final size:35
Alignment explanation
Indices: 7025729--7025997 Score: 249
Period size: 36 Copynumber: 7.7 Consensus size: 35
7025719 CACTTGAATA
* * *
7025729 AAATTGTTTAATTATGTTA-T-G-CCTAATTAATT
1 AAATTATTTAATTAAGTTATTGGACCTAATTGATT
* * *
7025761 AAATTATTTAATTAAGTCATTAGACCTAATTAATT
1 AAATTATTTAATTAAGTTATTGGACCTAATTGATT
** *
7025796 AAATTAAATAATTAAGTTATTGGGCCTAATTGATT
1 AAATTATTTAATTAAGTTATTGGACCTAATTGATT
* * *
7025831 AAATTTTTTTAATTAAGTCATTGGGCCTAATTGATT
1 AAA-TTATTTAATTAAGTTATTGGACCTAATTGATT
* * *
7025867 AAATTTTTTTAATTAAGTCATTGGGCCTAATTGATT
1 AAA-TTATTTAATTAAGTTATTGGACCTAATTGATT
* * * *
7025903 AAAATTATTTAATTAAATTGTT-GAGCTTAATTAATT
1 -AAATTATTTAATTAAGTTATTGGA-CCTAATTGATT
* *
7025939 AAATTATTTAATTAAGTTATTAGACCTATTTGATT
1 AAATTATTTAATTAAGTTATTGGACCTAATTGATT
***
7025974 AAATTAAACAATTAAGTTAATTGG
1 AAATTATTTAATTAAGTT-ATTGG
7025998 TCTTCTTAAG
Statistics
Matches: 200, Mismatches: 29, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
32 16 0.08
33 1 0.00
34 1 0.00
35 86 0.43
36 93 0.47
37 3 0.01
ACGTcount: A:0.38, C:0.06, G:0.11, T:0.45
Consensus pattern (35 bp):
AAATTATTTAATTAAGTTATTGGACCTAATTGATT
Found at i:7037579 original size:15 final size:15
Alignment explanation
Indices: 7037553--7037590 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
7037543 TTGTGTTAAT
7037553 ATTATCAAAATTA-TA
1 ATTAT-AAAATTATTA
7037568 ACTTATAAAATTATTA
1 A-TTATAAAATTATTA
7037584 ATTATAA
1 ATTATAA
7037591 TATATACACC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (15 bp):
ATTATAAAATTATTA
Found at i:7037628 original size:2 final size:2
Alignment explanation
Indices: 7037617--7037664 Score: 80
Period size: 2 Copynumber: 24.5 Consensus size: 2
7037607 TACATAAACT
7037617 TA TA -A TA TA TA TA 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 TA TA TA TA TA TA TA
*
7037658 CA TA TA T
1 TA TA TA T
7037665 TTAAAAAGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:7038313 original size:377 final size:375
Alignment explanation
Indices: 7037889--7038606 Score: 1098
Period size: 375 Copynumber: 1.9 Consensus size: 375
7037879 TATATATAAT
*
7037889 TTAAATATAAACATATTTACTTTCTATTTTGTGTTAACATTACAAAAATCATAACTTATAAAATT
1 TTAAATATAAACATATTTACTTTCTATTTTGTGTTAACATTACAAAAATCATAACTAATAAAATT
* *
7037954 ATTAATTATAATGTATATACCTTTGTTTATATAAACTTAGAATATATAAACCTAAAAAGA-AGTT
66 ATTAATTACAATATATATACCTTTGTTTATATAAACTTAGAATATATAAACCT-AAAAGACAGTT
* *
7038018 GTGAGATTAGAATAATTTTGAAACCTAGTT-TTTTTTTTAAAATTTCATGTAATTAAGGACAAAC
130 GTGAGATTAGAATAA-TTTGAAACCTAGTTATTTGTTTT--AATTTAATGTAATTAAGGACAAAC
* * * * *
7038082 TCATATAGTTAATTAAATTAATTCATGAAACTATAATTATTAATTAACTTGCAATGTCTTTTAAT
192 CCATATAGTTAATTAAATTAATTAATGAAACTACAATTATTAATTAACTTGCAATATCTTTTAAC
* * * * * *
7038147 ATATACACTTTCTATATATTAGGTTCACTTATGAGGAATATAATTACTATTTTAGATGTATTAAA
257 ATATACACTTTATATACATTAGGTTCACTTATAAGAAATATAATTACTATTTTAGATATACTAAA
* *
7038212 ATACTTTTAGTGTATATATATATATATATATATGTATGTATGTATGTATGTACA
322 ATACTTTCAGTATATATATATATATATATATATGTATGTATGTATGTATGTACA
* * *
7038266 TTAAATGTAAACATATTTACTTTCTATTTTGTGTTAACATTACAAAAATTATAACTAATAAATTT
1 TTAAATATAAACATATTTACTTTCTATTTTGTGTTAACATTACAAAAATCATAACTAATAAAATT
* * *
7038331 ATTAATTACAATATATATACCTTTGTTTATATAAACTTATAATATATAAATCTAAAGGACAGTTG
66 ATTAATTACAATATATATACCTTTGTTTATATAAACTTAGAATATATAAACCTAAAAGACAGTTG
* *
7038396 TGAGATTAGAATAATTTGAAACTTAGTTATTTGTTTTAATTTAATGTAATTAAGGGCAAACCCAT
131 TGAGATTAGAATAATTTGAAACCTAGTTATTTGTTTTAATTTAATGTAATTAAGGACAAACCCAT
* *
7038461 ATAGTTAATTAAATTAATTAATGAAACTACGATTATTAATTAACTTGTAATATCTTTTAACATAT
196 ATAGTTAATTAAATTAATTAATGAAACTACAATTATTAATTAACTTGCAATATCTTTTAACATAT
* * * *
7038526 ATACTTTATATACATTGGGTTCATTTATAAGAAATATAATTACTATTTTATATATACTAAAATAC
261 ACACTTTATATACATTAGGTTCACTTATAAGAAATATAATTACTATTTTAGATATACTAAAATAC
7038591 TTTCAGTATATATATA
326 TTTCAGTATATATATA
7038607 CTTTAAATAT
Statistics
Matches: 307, Mismatches: 32, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
375 153 0.50
376 18 0.06
377 136 0.44
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.43
Consensus pattern (375 bp):
TTAAATATAAACATATTTACTTTCTATTTTGTGTTAACATTACAAAAATCATAACTAATAAAATT
ATTAATTACAATATATATACCTTTGTTTATATAAACTTAGAATATATAAACCTAAAAGACAGTTG
TGAGATTAGAATAATTTGAAACCTAGTTATTTGTTTTAATTTAATGTAATTAAGGACAAACCCAT
ATAGTTAATTAAATTAATTAATGAAACTACAATTATTAATTAACTTGCAATATCTTTTAACATAT
ACACTTTATATACATTAGGTTCACTTATAAGAAATATAATTACTATTTTAGATATACTAAAATAC
TTTCAGTATATATATATATATATATATATGTATGTATGTATGTATGTACA
Found at i:7038660 original size:343 final size:345
Alignment explanation
Indices: 7038266--7038900 Score: 981
Period size: 343 Copynumber: 1.8 Consensus size: 345
7038256 TGTATGTACA
* * *
7038266 TTAAATGTAAACATATTTACTTTCTATTTTGTGTTAACATTACAAAAATTATAACTAATAAATTT
1 TTAAATATAAACATATTTACTCTCTATTTTGTGTTAACATTACAAAAATTATAACTAATAAAATT
* * *
7038331 ATTAATTACAATATATATACCTTTGTTTATATAAACTTATAATATATAAATCTAAAG-GACAGTT
66 ATTAATTACAATATATATAACTTTGTTTATATAAACTTATAATACATAAACCTAAAGAGA-AGTT
* * *
7038395 GTGAGATTAGAATA-ATTTGAAA-CTTAGTTATTTGTTTT-AATTTAATGTAATTAAGGGCAAAC
130 ATGAGATTAGAATAGATTTGAAACCTT-GTTATTTGTTTTAAATTTAATGTAATTAAAGACAAAC
*
7038457 CCATATAGTTAATTAAATTAATTAATGAAACTACGATTATTAATTAACTTGTAATATCTTTTAAC
194 CCATATAGTTAAGTAAATTAATTAATGAAACTACGATTATTAATTAACTTGTAATATCTTTTAAC
7038522 ATATATACTTTATATACATTGGGTTCATTTATAAGAAATATAATTACTATTTTATATATACTAAA
259 ATATATACTTTATATACATTGGGTTCATTTATAAGAAATATAATTACTATTTTATATATACTAAA
7038587 ATACTTTCAGTATATATATACT
324 ATACTTTCAGTATATATATACT
* * * *
7038609 TTAAATATTAACATATTTACTCTCTATTTTGTGTTAACATTATACAAATTATAACTTATAAAATT
1 TTAAATATAAACATATTTACTCTCTATTTTGTGTTAACATTACAAAAATTATAACTAATAAAATT
* * * *
7038674 ATTAATTATAATATATATAACTTTGTTTTTATAAACTTATAATACATATACCTAAAGAGATGTTA
66 ATTAATTACAATATATATAACTTTGTTTATATAAACTTATAATACATAAACCTAAAGAGAAGTTA
* * *
7038739 TGAGATTAGAATAGTTTTGAAACCTTGTTATTTTTTTTAAATTTCATGTAATTAAAGACAAACCC
131 TGAGATTAGAATAGATTTGAAACCTTGTTATTTGTTTTAAATTTAATGTAATTAAAGACAAACCC
* * * * *
7038804 ATATAGTTAAGTAAATTAATTTATGAAACTATGATTATTAATTGACTTGTAATTTCTTTTAATAT
196 ATATAGTTAAGTAAATTAATTAATGAAACTACGATTATTAATTAACTTGTAATATCTTTTAACAT
*
7038869 ATATACTTTATATACGTTGGGTTCATTTATAA
261 ATATACTTTATATACATTGGGTTCATTTATAA
7038901 AATAAATATA
Statistics
Matches: 261, Mismatches: 27, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
343 125 0.48
344 20 0.08
345 116 0.44
ACGTcount: A:0.40, C:0.09, G:0.08, T:0.44
Consensus pattern (345 bp):
TTAAATATAAACATATTTACTCTCTATTTTGTGTTAACATTACAAAAATTATAACTAATAAAATT
ATTAATTACAATATATATAACTTTGTTTATATAAACTTATAATACATAAACCTAAAGAGAAGTTA
TGAGATTAGAATAGATTTGAAACCTTGTTATTTGTTTTAAATTTAATGTAATTAAAGACAAACCC
ATATAGTTAAGTAAATTAATTAATGAAACTACGATTATTAATTAACTTGTAATATCTTTTAACAT
ATATACTTTATATACATTGGGTTCATTTATAAGAAATATAATTACTATTTTATATATACTAAAAT
ACTTTCAGTATATATATACT
Found at i:7038674 original size:15 final size:15
Alignment explanation
Indices: 7038643--7038696 Score: 56
Period size: 15 Copynumber: 3.4 Consensus size: 15
7038633 TATTTTGTGT
7038643 TAACATTATACAAATTA
1 TAAC-TTATA-AAATTA
7038660 TAACTTATAAAATTA
1 TAACTTATAAAATTA
*
7038675 TTAA-TTATAATATATA
1 -TAACTTATAAAAT-TA
7038691 TAACTT
1 TAACTT
7038697 TGTTTTTATA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
15 17 0.52
16 12 0.36
17 4 0.12
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (15 bp):
TAACTTATAAAATTA
Found at i:7046746 original size:34 final size:34
Alignment explanation
Indices: 7046708--7046913 Score: 171
Period size: 34 Copynumber: 5.9 Consensus size: 34
7046698 TATATGATGC
* *
7046708 TGAAGCTTTGACCTTGGCATGTAACATCAAGTGT
1 TGAAGCTTTGACCTTGGCATGTAACATCTAGTGG
** * *
7046742 TGAAGCTTTGACCTTAACGTGTAACATCTGGTGG
1 TGAAGCTTTGACCTTGGCATGTAACATCTAGTGG
* *
7046776 TGAAGCTTTGACCTTTGGCCTTAGCATGAAACATCTGGTGG
1 TGAAGCTTTGACC-TT-G-----GCATGTAACATCTAGTGG
**
7046817 TGAAGCTTTGACCTTAACATGTAACATCTAGTGG
1 TGAAGCTTTGACCTTGGCATGTAACATCTAGTGG
* * * *
7046851 TGAAGCATTGACATTGGCATGTAACAT-TTGATGT
1 TGAAGCTTTGACCTTGGCATGTAACATCTAG-TGG
* * * *
7046885 TAAAGCTTTGATCTTGTCGTGTAACATCT
1 TGAAGCTTTGACCTTGGCATGTAACATCT
7046914 GGTGTTAATA
Statistics
Matches: 137, Mismatches: 26, Indels: 17
0.76 0.14 0.09
Matches are distributed among these distances:
33 2 0.01
34 102 0.74
35 3 0.02
40 2 0.01
41 28 0.20
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (34 bp):
TGAAGCTTTGACCTTGGCATGTAACATCTAGTGG
Found at i:7046840 original size:75 final size:75
Alignment explanation
Indices: 7046713--7046862 Score: 219
Period size: 75 Copynumber: 2.0 Consensus size: 75
7046703 GATGCTGAAG
* * * * *
7046713 CTTTGACCTTGGCATGTAACATCAAGTGTTGAAGCTTTGACCTTAACGTGTAACATCTGGTGGTG
1 CTTTGACCTTAGCATGAAACATCAAGTGGTGAAGCTTTGACCTTAACATGTAACATCTAGTGGTG
*
7046778 AAGCTTTGAC
66 AAGCATTGAC
* **
7046788 CTTTGGCCTTAGCATGAAACATCTGGTGGTGAAGCTTTGACCTTAACATGTAACATCTAGTGGTG
1 CTTTGACCTTAGCATGAAACATCAAGTGGTGAAGCTTTGACCTTAACATGTAACATCTAGTGGTG
7046853 AAGCATTGAC
66 AAGCATTGAC
7046863 ATTGGCATGT
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
75 66 1.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (75 bp):
CTTTGACCTTAGCATGAAACATCAAGTGGTGAAGCTTTGACCTTAACATGTAACATCTAGTGGTG
AAGCATTGAC
Found at i:7048168 original size:4 final size:4
Alignment explanation
Indices: 7048159--7048206 Score: 69
Period size: 4 Copynumber: 12.0 Consensus size: 4
7048149 CCCAGTTTTG
** *
7048159 CATA CATA CATA CATA CATA CATA CATA CAGC CATA CATA CATG CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
7048207 TGTACACACA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.46, C:0.27, G:0.04, T:0.23
Consensus pattern (4 bp):
CATA
Found at i:7048217 original size:2 final size:2
Alignment explanation
Indices: 7048210--7048236 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7048200 ATGCATATGT
7048210 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
7048237 AACATATATA
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:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:7053786 original size:20 final size:20
Alignment explanation
Indices: 7053761--7053806 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
7053751 CTTCTAAACC
7053761 TCAAATCATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
* *
7053781 TCAAATTATACTCCAGTAAG
1 TCAAATCATACTCCAATAAG
7053801 TCAAAT
1 TCAAAT
7053807 GGGGACAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.43, C:0.22, G:0.07, T:0.28
Consensus pattern (20 bp):
TCAAATCATACTCCAATAAG
Found at i:7055302 original size:31 final size:32
Alignment explanation
Indices: 7055252--7055311 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
7055242 AACAAATGCA
*
7055252 AGTATTGATAATTTTATTTTCTTGAATAAAATT
1 AGTATTGATAATTTGATTTT-TTGAATAAAATT
*
7055285 AGTATT-A-AATTTGATTTTTTTAATAAA
1 AGTATTGATAATTTGATTTTTTGAATAAA
7055312 TAGTTCATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 8 0.32
31 10 0.40
32 1 0.04
33 6 0.24
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (32 bp):
AGTATTGATAATTTGATTTTTTGAATAAAATT
Found at i:7057741 original size:52 final size:52
Alignment explanation
Indices: 7057679--7057784 Score: 194
Period size: 52 Copynumber: 2.0 Consensus size: 52
7057669 ATTAAACATA
*
7057679 GAACATATTAATTAGCTCATCCCTTTTTGCCATGACTTTTGATGTATACTAT
1 GAACATATTAATTAGCTCATCCCTTGTTGCCATGACTTTTGATGTATACTAT
*
7057731 GAACATATTAATTAGCTCATCCCTTGTTGCCATGACTTTTGATGTATCCTAT
1 GAACATATTAATTAGCTCATCCCTTGTTGCCATGACTTTTGATGTATACTAT
7057783 GA
1 GA
7057785 TTCATTGTAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.41
Consensus pattern (52 bp):
GAACATATTAATTAGCTCATCCCTTGTTGCCATGACTTTTGATGTATACTAT
Found at i:7061112 original size:19 final size:20
Alignment explanation
Indices: 7061085--7061130 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
7061075 AGGAAACAAG
*
7061085 ATAAAATTTTTA-GAATAAA
1 ATAATATTTTTATGAATAAA
*
7061104 ATAATA-TTTTATTAATAAA
1 ATAATATTTTTATGAATAAA
7061123 ATAATATT
1 ATAATATT
7061131 AAAATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 17 0.74
20 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
ATAATATTTTTATGAATAAA
Found at i:7061498 original size:2 final size:2
Alignment explanation
Indices: 7061486--7061526 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
7061476 ATAATAATAG
*
7061486 TA TA AA 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 TA TA T
7061527 TTAGAAGACC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:7061716 original size:2 final size:2
Alignment explanation
Indices: 7061709--7061743 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
7061699 TAATAAATAA
*
7061709 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7061744 CCATTGAGTA
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:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7062400 original size:27 final size:27
Alignment explanation
Indices: 7062367--7062422 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
7062357 AAAAGAAAAT
*
7062367 AACAAGAAAGGAAAATGGGCATGGCCC
1 AACAAGAAAGAAAAATGGGCATGGCCC
7062394 AACAAGAAAGAAAAATGGGCATGGCCC
1 AACAAGAAAGAAAAATGGGCATGGCCC
7062421 AA
1 AA
7062423 TAAAAATAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.48, C:0.18, G:0.27, T:0.07
Consensus pattern (27 bp):
AACAAGAAAGAAAAATGGGCATGGCCC
Found at i:7066037 original size:27 final size:27
Alignment explanation
Indices: 7066006--7066061 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
7065996 CTTATTTCTA
*
7066006 TTGGGCCATGCCCATTTTTCTTTCTTG
1 TTGGGCCATGCCCATTTTCCTTTCTTG
7066033 TTGGGCCATGCCCATTTTCCTTTCTTG
1 TTGGGCCATGCCCATTTTCCTTTCTTG
7066060 TT
1 TT
7066062 ATTTCTTTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.07, C:0.27, G:0.18, T:0.48
Consensus pattern (27 bp):
TTGGGCCATGCCCATTTTCCTTTCTTG
Found at i:7066291 original size:33 final size:32
Alignment explanation
Indices: 7066256--7066335 Score: 97
Period size: 34 Copynumber: 2.4 Consensus size: 32
7066246 TATTGGCTTC
*
7066256 AAAATTAGCAACTAAGCTGCTCTGTTTTTCCTCA
1 AAAATTAGCAACTAAGCTGCAC--TTTTTCCTCA
* *
7066290 AAAATTCAACAGCTAAGCTGCACTTTTTCCTCCA
1 AAAATT-AGCAACTAAGCTGCACTTTTTCCT-CA
7066324 AAAATTAGCAAC
1 AAAATTAGCAAC
7066336 CAAAACAACA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
33 12 0.31
34 14 0.36
35 13 0.33
ACGTcount: A:0.35, C:0.25, G:0.10, T:0.30
Consensus pattern (32 bp):
AAAATTAGCAACTAAGCTGCACTTTTTCCTCA
Found at i:7066692 original size:2 final size:2
Alignment explanation
Indices: 7066685--7066736 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
7066675 TTACTCAATG
7066685 AT AT AT 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 AT AT AT
7066727 AT AT AT AT AT
1 AT AT AT AT AT
7066737 TATTTTATTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7070875 original size:11 final size:11
Alignment explanation
Indices: 7070852--7070891 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
7070842 CACTGTAAAT
7070852 TTTAAAA-AAC
1 TTTAAAACAAC
7070862 TTTAAAACAAC
1 TTTAAAACAAC
7070873 TTTTAAAACCAAC
1 -TTTAAAA-CAAC
7070886 TTTAAA
1 TTTAAA
7070892 CCCAAAAGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 7 0.26
11 3 0.11
12 13 0.48
13 4 0.15
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.33
Consensus pattern (11 bp):
TTTAAAACAAC
Found at i:7070879 original size:12 final size:12
Alignment explanation
Indices: 7070851--7070888 Score: 53
Period size: 10 Copynumber: 3.2 Consensus size: 12
7070841 ACACTGTAAA
7070851 TTTTAAAA-AAC
1 TTTTAAAACAAC
7070862 -TTTAAAACAAC
1 TTTTAAAACAAC
7070873 TTTTAAAACCAAC
1 TTTTAAAA-CAAC
7070886 TTT
1 TTT
7070889 AAACCCAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 7 0.29
11 3 0.12
12 7 0.29
13 7 0.29
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (12 bp):
TTTTAAAACAAC
Found at i:7070889 original size:12 final size:12
Alignment explanation
Indices: 7070859--7070896 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
7070849 AATTTTAAAA
7070859 AACTTTAAAA-C
1 AACTTTAAAACC
7070870 AACTTTTAAAACC
1 AAC-TTTAAAACC
*
7070883 AACTTTAAACCC
1 AACTTTAAAACC
7070895 AA
1 AA
7070897 AAGTTCTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
11 3 0.12
12 17 0.71
13 4 0.17
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (12 bp):
AACTTTAAAACC
Found at i:7078156 original size:30 final size:30
Alignment explanation
Indices: 7078118--7078183 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 30
7078108 TAAAAATATA
7078118 TTTT-TATTTTTATTTTTAATTAAATAAGT
1 TTTTATATTTTTATTTTTAATTAAATAAGT
* *
7078147 TTTTATATTTTTATTTTTAGTTAAATAATT
1 TTTTATATTTTTATTTTTAATTAAATAAGT
7078177 TTTTATA
1 TTTTATA
7078184 ATTAATTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
29 4 0.12
30 30 0.88
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (30 bp):
TTTTATATTTTTATTTTTAATTAAATAAGT
Found at i:7079399 original size:2 final size:2
Alignment explanation
Indices: 7079392--7079428 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
7079382 AAACCACAAG
7079392 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
7079429 NNNNNNNNNN
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:7090055 original size:19 final size:19
Alignment explanation
Indices: 7090027--7090064 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
7090017 ACTTCTAAAC
*
7090027 CTCAATTCATACTCCAATA
1 CTCAAATCATACTCCAATA
7090046 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
7090065 AGTCAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.39, C:0.32, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:7103628 original size:18 final size:16
Alignment explanation
Indices: 7103605--7103639 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 16
7103595 AAACAAAACC
7103605 AAGAAAATAATAGAATAA
1 AAGAAAAT-ATAG-ATAA
7103623 AAGAAAATATAGATAA
1 AAGAAAATATAGATAA
7103639 A
1 A
7103640 CTCAAGAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 4 0.24
18 8 0.47
ACGTcount: A:0.71, C:0.00, G:0.11, T:0.17
Consensus pattern (16 bp):
AAGAAAATATAGATAA
Found at i:7116462 original size:19 final size:20
Alignment explanation
Indices: 7116435--7116480 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
7116425 AGGAGACAAG
*
7116435 ATAAAATTTTTA-GAATAAA
1 ATAATATTTTTATGAATAAA
*
7116454 ATAATA-TTTTATTAATAAA
1 ATAATATTTTTATGAATAAA
7116473 ATAATATT
1 ATAATATT
7116481 AAAATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 17 0.74
20 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
ATAATATTTTTATGAATAAA
Found at i:7123459 original size:20 final size:20
Alignment explanation
Indices: 7123434--7123478 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
7123424 TTAGGATTTT
7123434 ACATTATTTTATAGCAGCAA
1 ACATTATTTTATAGCAGCAA
7123454 ACATTATTTTATAGCAGCAA
1 ACATTATTTTATAGCAGCAA
7123474 ACATT
1 ACATT
7123479 CAAGGGAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.36
Consensus pattern (20 bp):
ACATTATTTTATAGCAGCAA
Found at i:7128751 original size:2 final size:2
Alignment explanation
Indices: 7128744--7128784 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
7128734 TGGATCTTCN
7128744 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7128785 CTTCTCATGA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7130347 original size:16 final size:16
Alignment explanation
Indices: 7130326--7130357 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7130316 GCAAAATTTA
7130326 GATTTTGATTCTTTTG
1 GATTTTGATTCTTTTG
*
7130342 GATTTTGATTTTTTTG
1 GATTTTGATTCTTTTG
7130358 ATATTTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.12, C:0.03, G:0.19, T:0.66
Consensus pattern (16 bp):
GATTTTGATTCTTTTG
Found at i:7131719 original size:68 final size:68
Alignment explanation
Indices: 7131482--7131744 Score: 250
Period size: 68 Copynumber: 3.9 Consensus size: 68
7131472 GTATGTTGGT
* * * * * *
7131482 ATGATGAATGCCATAAG-ATATGTATATGATGTGA-ATTCCATATACCATATGAGATGATCAAGT
1 ATGATTAATACCATGAGAATATGTATATGATGT-ATATTCCATATACTACATGAGATGATTAAGT
7131545 ATGC
65 ATGC
* * * * * * * *
7131549 ATGATGT-ATACTAT-AGGATGGA-GAATATGATATGA-ATTCCATATACCATATGTGGTGATTA
1 ATGAT-TAATACCATGAGAAT--ATGTATATGATGT-ATATTCCATATACTACATGAGATGATTA
7131610 AGTATGC
62 AGTATGC
* * *
7131617 ATGATTAATGCCATGAGAATATGTATATGATGTATGTTCCATATGCTACATGAGATGATTAAGTA
1 ATGATTAATACCATGAGAATATGTATATGATGTATATTCCATATACTACATGAGATGATTAAGTA
7131682 TGC
66 TGC
* * **
7131685 ATGATTAATACTATGAGAATATGTATATGTTGTATATTCTGTATACTACATGAGATGATT
1 ATGATTAATACCATGAGAATATGTATATGATGTATATTCCATATACTACATGAGATGATT
7131745 GAGTTAGTGT
Statistics
Matches: 162, Mismatches: 26, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
66 2 0.01
67 15 0.09
68 140 0.86
69 5 0.03
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (68 bp):
ATGATTAATACCATGAGAATATGTATATGATGTATATTCCATATACTACATGAGATGATTAAGTA
TGC
Found at i:7131941 original size:31 final size:31
Alignment explanation
Indices: 7131906--7132003 Score: 108
Period size: 31 Copynumber: 3.2 Consensus size: 31
7131896 TAAATTGCCT
* *
7131906 AAGGTGCAATGAGATTATACGTTGCTAGCCC
1 AAGGTGCAATGAGATTATACATTGCCAGCCC
* * *
7131937 AAGGTGCAATGGGGTTATACATTGCCAGGCC
1 AAGGTGCAATGAGATTATACATTGCCAGCCC
* *
7131968 AAGGTGCAAT-AGGGTTGTACATTGCCAGCCC
1 AAGGTGCAATGA-GATTATACATTGCCAGCCC
*
7131999 CAGGT
1 AAGGT
7132004 TGATAGGGGT
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
31 57 1.00
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (31 bp):
AAGGTGCAATGAGATTATACATTGCCAGCCC
Found at i:7134749 original size:29 final size:29
Alignment explanation
Indices: 7134698--7134773 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
7134688 ATGTGCTAGT
*
7134698 TACTATGGATATTCAATATATCTTGCTTAGC
1 TACTATGGATATT--ATATATCTTACTTAGC
* * *
7134729 TACTGTGGATATTATATATCTTATTTAGT
1 TACTATGGATATTATATATCTTACTTAGC
7134758 TACTATGGATATTATA
1 TACTATGGATATTATA
7134774 AATATTTTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 28 0.70
31 12 0.30
ACGTcount: A:0.30, C:0.11, G:0.13, T:0.46
Consensus pattern (29 bp):
TACTATGGATATTATATATCTTACTTAGC
Found at i:7138790 original size:2 final size:2
Alignment explanation
Indices: 7138783--7138813 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
7138773 ATTATGTTGG
*
7138783 TA TA TA TA TA TA TA TA TA TA TA TA AA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7138814 GTTGTGTAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:7139018 original size:40 final size:38
Alignment explanation
Indices: 7138927--7139029 Score: 125
Period size: 38 Copynumber: 2.7 Consensus size: 38
7138917 ATAGTACTTG
* * * *
7138927 TGTGCACGATGTGGGGGGATGTACACAATGGCACTGAC
1 TGTGCATGATGTGGGGGGATGCACACAATGACACCGAC
* *
7138965 TGTGCATGATGTGGGGGGATGCACACGATGACTCCGAC
1 TGTGCATGATGTGGGGGGATGCACACAATGACACCGAC
*
7139003 TATGTGCATGATGTGGAGGGATGCACA
1 --TGTGCATGATGTGGGGGGATGCACA
7139030 TGAACTGGGT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
38 32 0.57
40 24 0.43
ACGTcount: A:0.23, C:0.17, G:0.37, T:0.22
Consensus pattern (38 bp):
TGTGCATGATGTGGGGGGATGCACACAATGACACCGAC
Found at i:7151936 original size:2 final size:2
Alignment explanation
Indices: 7151929--7151982 Score: 76
Period size: 2 Copynumber: 27.0 Consensus size: 2
7151919 ATTGTACACA
7151929 AT AT AT AT AGT AT AT AT AT AT AT AT -T AGT AT AT AT AT AT -T AT
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT
7151971 AT AT AT AT AT AT
1 AT AT AT AT AT AT
7151983 TATCTAAGCT
Statistics
Matches: 48, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
1 2 0.04
2 42 0.88
3 4 0.08
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7151971 original size:29 final size:29
Alignment explanation
Indices: 7151929--7151984 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
7151919 ATTGTACACA
7151929 ATATATATAGTATATATATATATATTAGT
1 ATATATATAGTATATATATATATATTAGT
*
7151958 ATATATATATTATATATATATATATTA
1 ATATATATAGTATATATATATATATTA
7151985 TCTAAGCTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (29 bp):
ATATATATAGTATATATATATATATTAGT
Found at i:7154709 original size:15 final size:16
Alignment explanation
Indices: 7154689--7154719 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
7154679 TCGTTGAATC
7154689 AATAACATAT-AGGGT
1 AATAACATATAAGGGT
7154704 AATAACATATAAGGGT
1 AATAACATATAAGGGT
7154720 GATTTTAGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.48, C:0.06, G:0.19, T:0.26
Consensus pattern (16 bp):
AATAACATATAAGGGT
Found at i:7158021 original size:12 final size:13
Alignment explanation
Indices: 7158004--7158041 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
7157994 AGACATCGAC
7158004 AATTTTATTAA-A
1 AATTTTATTAATA
7158016 AATTTTATTATATA
1 AATTTTATTA-ATA
*
7158030 ATTTTTATTAAT
1 AATTTTATTAAT
7158042 TAAAAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 10 0.43
13 3 0.13
14 10 0.43
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
AATTTTATTAATA
Found at i:7160936 original size:84 final size:83
Alignment explanation
Indices: 7160792--7160991 Score: 230
Period size: 84 Copynumber: 2.4 Consensus size: 83
7160782 GCGTGTAATA
*
7160792 TTTTTGTACATTA-TGTGTAACT-ACAATA--TTTTTTTTCAACATGACGTGCAATAACCTTTTC
1 TTTTTGTACA-TAGAGTGTAA-TAACAATATTTTTTTTTTCAACATGACGTGCAATAACCTTTTC
*
7160853 TAACCATGATATATAACATG
64 TAACCATGACATATAACATG
* * * * * * *
7160873 TTTTTTTGCATA-ACGTGTAATTACAATATATTTTTTTTTGAACATGGCGTGTAATAACTTTTTC
1 TTTTTGTACATAGA-GTGTAATAACAATAT-TTTTTTTTTCAACATGACGTGCAATAACCTTTTC
*
7160937 TAACCATGACATGTAACATG
64 TAACCATGACATATAACATG
*
7160957 TTTTTGTACATAGAGTGTAATAATAATATTTTTTT
1 TTTTTGTACATAGAGTGTAATAACAATATTTTTTT
7160992 AACATGACAT
Statistics
Matches: 100, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
80 3 0.03
81 20 0.20
83 6 0.06
84 70 0.70
85 1 0.01
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (83 bp):
TTTTTGTACATAGAGTGTAATAACAATATTTTTTTTTTCAACATGACGTGCAATAACCTTTTCTA
ACCATGACATATAACATG
Found at i:7162209 original size:30 final size:30
Alignment explanation
Indices: 7162144--7162215 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
7162134 CATTAAGTCA
* * * *
7162144 ATAATAAGCTTATGATTGAGCAAAATATAT
1 ATAATAAGCTTATGATTGAGAAAAAAAAAC
*
7162174 ATAATAATCTTATGATTGAGAAAAAAAAAC
1 ATAATAAGCTTATGATTGAGAAAAAAAAAC
*
7162204 GTAATAAGCTTA
1 ATAATAAGCTTA
7162216 ATGGCCTGAC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.50, C:0.07, G:0.12, T:0.31
Consensus pattern (30 bp):
ATAATAAGCTTATGATTGAGAAAAAAAAAC
Found at i:7162752 original size:36 final size:36
Alignment explanation
Indices: 7162697--7162772 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 36
7162687 AAAATTGAAG
* *
7162697 TAATTTAGTTATTTAATTTTAAAAATTACTATAATT
1 TAATTTAATCATTTAATTTTAAAAATTACTATAATT
* * * *
7162733 TAATTTAATCATTTGATTTTGAAAATTATTCTAATT
1 TAATTTAATCATTTAATTTTAAAAATTACTATAATT
7162769 TAAT
1 TAAT
7162773 CTTTCCCTCA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (36 bp):
TAATTTAATCATTTAATTTTAAAAATTACTATAATT
Found at i:7163028 original size:35 final size:36
Alignment explanation
Indices: 7162945--7163031 Score: 124
Period size: 36 Copynumber: 2.4 Consensus size: 36
7162935 TATTTTTTTA
*
7162945 AATTTTAAAAATTGCTCCAATTTAGTTTAATCCCTT
1 AATTTTGAAAATTGCTCCAATTTAGTTTAATCCCTT
* *
7162981 GATTTTGGAAATTGCTCCTAA-TTAGTTTAAT-CCTT
1 AATTTTGAAAATTGCTCC-AATTTAGTTTAATCCCTT
7163016 AATTTTGAAAATTGCT
1 AATTTTGAAAATTGCT
7163032 AAAATGTAGT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
35 18 0.40
36 25 0.56
37 2 0.04
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.45
Consensus pattern (36 bp):
AATTTTGAAAATTGCTCCAATTTAGTTTAATCCCTT
Found at i:7163805 original size:2 final size:2
Alignment explanation
Indices: 7163800--7163825 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7163790 AAAAAGAAAC
7163800 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
7163826 GAGGAAATTA
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:7164511 original size:29 final size:29
Alignment explanation
Indices: 7164479--7164560 Score: 92
Period size: 29 Copynumber: 2.8 Consensus size: 29
7164469 AACAATTTTT
* * *
7164479 TTTTTTGAATATAGCATGTAACAACAATA
1 TTTTTTCAACATAGCATGTAACAACAACA
* *
7164508 TTTTTTCAACATGGCGTGTAACAACAACA
1 TTTTTTCAACATAGCATGTAACAACAACA
* *
7164537 TTTTTTTCAACATAACGTGTAACA
1 -TTTTTTCAACATAGCATGTAACA
7164561 TATTTTTGTA
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
29 24 0.53
30 21 0.47
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (29 bp):
TTTTTTCAACATAGCATGTAACAACAACA
Found at i:7164542 original size:30 final size:29
Alignment explanation
Indices: 7164495--7164560 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 29
7164485 GAATATAGCA
* **
7164495 TGTAACAACAATATTTTTTCAACATGGCG
1 TGTAACAACAACATTTTTTCAACATAACG
7164524 TGTAACAACAACATTTTTTTCAACATAACG
1 TGTAACAACAACA-TTTTTTCAACATAACG
7164554 TGTAACA
1 TGTAACA
7164561 TATTTTTGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 12 0.36
30 21 0.64
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (29 bp):
TGTAACAACAACATTTTTTCAACATAACG
Found at i:7164573 original size:24 final size:26
Alignment explanation
Indices: 7164546--7164593 Score: 64
Period size: 24 Copynumber: 1.9 Consensus size: 26
7164536 ATTTTTTTCA
7164546 ACATAACGTGTAAC-AT-ATTTTTGT
1 ACATAACGTGTAACAATAATTTTTGT
* *
7164570 ACATGATGTGTAACAATAATTTTT
1 ACATAACGTGTAACAATAATTTTT
7164594 TTTCAATATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 12 0.60
25 2 0.10
26 6 0.30
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.42
Consensus pattern (26 bp):
ACATAACGTGTAACAATAATTTTTGT
Found at i:7164604 original size:29 final size:29
Alignment explanation
Indices: 7164495--7164622 Score: 117
Period size: 29 Copynumber: 4.6 Consensus size: 29
7164485 GAATATAGCA
* *
7164495 TGTAACAACAATATTTTTTCAACATGGCG
1 TGTAACAACAATTTTTTTTCAACATGACG
* *
7164524 TGTAACAACAACATTTTTTTCAACATAACG
1 TGTAACAACAA-TTTTTTTTCAACATGACG
* * *
7164554 TGTAAC-A-TA-TTTTTGT--ACATGATG
1 TGTAACAACAATTTTTTTTCAACATGACG
* *
7164578 TGTAACAATAATTTTTTTTCAATATGACG
1 TGTAACAACAATTTTTTTTCAACATGACG
7164607 TGTAACAAC--TTTTTTT
1 TGTAACAACAATTTTTTT
7164623 AACCATGGTG
Statistics
Matches: 80, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
24 12 0.15
25 1 0.01
26 7 0.09
27 13 0.16
28 1 0.01
29 26 0.32
30 20 0.25
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (29 bp):
TGTAACAACAATTTTTTTTCAACATGACG
Found at i:7170789 original size:26 final size:26
Alignment explanation
Indices: 7170749--7170800 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
7170739 AACATTATTC
*
7170749 TGTATCATTCCCATATTATTCTTTGT
1 TGTATCATTCACATATTATTCTTTGT
* *
7170775 TGTATCATTTACATATTTTTCTTTGT
1 TGTATCATTCACATATTATTCTTTGT
7170801 ATTTATTCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.19, C:0.15, G:0.08, T:0.58
Consensus pattern (26 bp):
TGTATCATTCACATATTATTCTTTGT
Found at i:7171154 original size:22 final size:23
Alignment explanation
Indices: 7171111--7171156 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
7171101 GAATCACATC
*
7171111 AGTAGTTAATATGGAATCGTGTG
1 AGTAGTAAATATGGAATCGTGTG
7171134 AGTAGTAAATATGG-ATCGTGTG
1 AGTAGTAAATATGGAATCGTGTG
7171156 A
1 A
7171157 ACCATTAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.33, C:0.04, G:0.30, T:0.33
Consensus pattern (23 bp):
AGTAGTAAATATGGAATCGTGTG
Found at i:7171248 original size:23 final size:23
Alignment explanation
Indices: 7171222--7171280 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
7171212 ATATGGAGTG
* *
7171222 GCGTTACTAGTTATTATGGAAGC
1 GCGTGACTAGTTATTATGAAAGC
* *
7171245 GCGTGACTAGTTTTTCTGAAAGC
1 GCGTGACTAGTTATTATGAAAGC
*
7171268 ACGTGACTAGTTA
1 GCGTGACTAGTTA
7171281 ATATTGACTC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.34
Consensus pattern (23 bp):
GCGTGACTAGTTATTATGAAAGC
Found at i:7171365 original size:92 final size:92
Alignment explanation
Indices: 7171189--7171357 Score: 234
Period size: 92 Copynumber: 1.8 Consensus size: 92
7171179 TGAGTAAGGT
* * *
7171189 ATATTAACTCGCGTGAGTAGTACATATGGAGTGGCGTTACTAGTTATTATGGAAGCGCGTGACTA
1 ATATTAACTCGCGTGAGTAATACATATGGAGTGGCGTTACTAGTTATTATGGAAGCACATGACTA
*
7171254 GTTTTTCTGAAAGCACGTGACTAGTTA
66 GTTTTTCTAAAAGCACGTGACTAGTTA
* * * *
7171281 ATATTGACTCGTGTGAGTAATATATATGGAGTGGCGTTACTAGTTATTATGGAATG-ACATGAGT
1 ATATTAACTCGCGTGAGTAATACATATGGAGTGGCGTTACTAGTTATTATGGAA-GCACATGACT
7171345 A-TTTATTCTAAAA
65 AGTTT-TTCTAAAA
7171358 TCGCGTGAGT
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
91 3 0.04
92 63 0.94
93 1 0.01
ACGTcount: A:0.30, C:0.11, G:0.24, T:0.35
Consensus pattern (92 bp):
ATATTAACTCGCGTGAGTAATACATATGGAGTGGCGTTACTAGTTATTATGGAAGCACATGACTA
GTTTTTCTAAAAGCACGTGACTAGTTA
Found at i:7171400 original size:23 final size:23
Alignment explanation
Indices: 7171374--7171500 Score: 71
Period size: 23 Copynumber: 5.5 Consensus size: 23
7171364 GAGTAGAAAA
*
7171374 ATGGAGTCGCATGACTGGTT-ATT
1 ATGGAGTCGCATGACTAGTTGA-T
* * *
7171397 ATGGAATTGCATTACTAGTTGAT
1 ATGGAGTCGCATGACTAGTTGAT
* *
7171420 ATGGAGTCGCGTGAGTAGTAT-AT
1 ATGGAGTCGCATGACTAGT-TGAT
* * * * * **
7171443 ATGGAGTGGCGTTACCAATTCTT
1 ATGGAGTCGCATGACTAGTTGAT
* *
7171466 ATGGAATCGCATGACTAGATGAT
1 ATGGAGTCGCATGACTAGTTGAT
7171489 ATGG-GATCGCAT
1 ATGGAG-TCGCAT
7171501 AACTCACCTA
Statistics
Matches: 75, Mismatches: 25, Indels: 8
0.69 0.23 0.07
Matches are distributed among these distances:
22 1 0.01
23 72 0.96
24 2 0.03
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.32
Consensus pattern (23 bp):
ATGGAGTCGCATGACTAGTTGAT
Found at i:7179509 original size:117 final size:119
Alignment explanation
Indices: 7179378--7179628 Score: 382
Period size: 117 Copynumber: 2.1 Consensus size: 119
7179368 AACAAGAGGC
* * * *
7179378 GAATTGCACAAGTCACGCGCCACCACTCTCGCAATACATAACAGCAGGTCACGCAATATATAAAA
1 GAATTGCACAAGTCACACGCCACCACTCTCGCAATACATAACAACAGGTAACACAATATATAAAA
* ** * *
7179443 ATCAGTCACTTAA-GAC-TAAAAAACTACTGAACAAAAACTTCAAAA-AACACAT
66 ACCAGTCACGCAATG-CTTAAAAAACTACTAAACAAAAACCTCAAAACAACACAT
7179495 GAATTGCACAAGTCACACGCCACCACTCTCGCAATACATAACAACAGGTAACACAATATATAAAA
1 GAATTGCACAAGTCACACGCCACCACTCTCGCAATACATAACAACAGGTAACACAATATATAAAA
*
7179560 ACCAGTCACGCAATGCTTAAAAAACTACTAAACAAAAGCCTCAAAACAACACAT
66 ACCAGTCACGCAATGCTTAAAAAACTACTAAACAAAAACCTCAAAACAACACAT
7179614 GAATTGCACAAGTCA
1 GAATTGCACAAGTCA
7179629 GTCACGCACC
Statistics
Matches: 121, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
117 72 0.60
118 27 0.22
119 22 0.18
ACGTcount: A:0.46, C:0.26, G:0.11, T:0.17
Consensus pattern (119 bp):
GAATTGCACAAGTCACACGCCACCACTCTCGCAATACATAACAACAGGTAACACAATATATAAAA
ACCAGTCACGCAATGCTTAAAAAACTACTAAACAAAAACCTCAAAACAACACAT
Found at i:7181055 original size:26 final size:25
Alignment explanation
Indices: 7181026--7181150 Score: 82
Period size: 26 Copynumber: 5.1 Consensus size: 25
7181016 CAGGTCACAC
7181026 AATGCTTAACAAATATTTAGTCACGT
1 AATGCTTAACAAATA-TTAGTCACGT
* * * *
7181052 AATGCCT-ATAAACA--AGTCACGC
1 AATGCTTAACAAATATTAGTCACGT
* * *
7181074 AATGCTCAACGAATATTCAGTCATGT
1 AATGCTTAACAAATATT-AGTCACGT
* * *
7181100 AATGCCT-ATAAATA--AGTCACGC
1 AATGCTTAACAAATATTAGTCACGT
*
7181122 AATGCTCAACAAATATTCAGTCACGT
1 AATGCTTAACAAATATT-AGTCACGT
7181148 AAT
1 AAT
7181151 ATTTAGGCAC
Statistics
Matches: 70, Mismatches: 21, Indels: 16
0.65 0.20 0.15
Matches are distributed among these distances:
22 23 0.33
23 10 0.14
25 10 0.14
26 27 0.39
ACGTcount: A:0.39, C:0.21, G:0.13, T:0.27
Consensus pattern (25 bp):
AATGCTTAACAAATATTAGTCACGT
Found at i:7181071 original size:48 final size:48
Alignment explanation
Indices: 7180996--7181150 Score: 229
Period size: 48 Copynumber: 3.2 Consensus size: 48
7180986 AGGTAGATAA
* * * * * *
7180996 AGTCACATAATGCCTACAAACAGGTCACACAATGCTTAACAAATATTT
1 AGTCACGTAATGCCTATAAACAAGTCACGCAATGCTCAACAAATATTC
*
7181044 AGTCACGTAATGCCTATAAACAAGTCACGCAATGCTCAACGAATATTC
1 AGTCACGTAATGCCTATAAACAAGTCACGCAATGCTCAACAAATATTC
* *
7181092 AGTCATGTAATGCCTATAAATAAGTCACGCAATGCTCAACAAATATTC
1 AGTCACGTAATGCCTATAAACAAGTCACGCAATGCTCAACAAATATTC
7181140 AGTCACGTAAT
1 AGTCACGTAAT
7181151 ATTTAGGCAC
Statistics
Matches: 96, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 96 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.25
Consensus pattern (48 bp):
AGTCACGTAATGCCTATAAACAAGTCACGCAATGCTCAACAAATATTC
Found at i:7181125 original size:22 final size:22
Alignment explanation
Indices: 7181044--7181126 Score: 67
Period size: 22 Copynumber: 3.6 Consensus size: 22
7181034 ACAAATATTT
* *
7181044 AGTCACGTAATGCCTATAAACA
1 AGTCACGCAATGCCTATAAATA
* * *
7181066 AGTCACGCAATGCTCAACGAATATTC
1 AGTCACGCAATGC-CTA-TAA-A-TA
* *
7181092 AGTCATGTAATGCCTATAAATA
1 AGTCACGCAATGCCTATAAATA
7181114 AGTCACGCAATGC
1 AGTCACGCAATGC
7181127 TCAACAAATA
Statistics
Matches: 45, Mismatches: 12, Indels: 8
0.69 0.18 0.12
Matches are distributed among these distances:
22 24 0.53
23 3 0.07
24 4 0.09
25 3 0.07
26 11 0.24
ACGTcount: A:0.37, C:0.23, G:0.16, T:0.24
Consensus pattern (22 bp):
AGTCACGCAATGCCTATAAATA
Found at i:7185044 original size:16 final size:17
Alignment explanation
Indices: 7185023--7185055 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
7185013 CTTCACCCAA
7185023 TTGTTGAATG-TACTCT
1 TTGTTGAATGATACTCT
*
7185039 TTGTTGGATGATACTCT
1 TTGTTGAATGATACTCT
7185056 CGTTTATTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.18, C:0.12, G:0.21, T:0.48
Consensus pattern (17 bp):
TTGTTGAATGATACTCT
Found at i:7185520 original size:11 final size:11
Alignment explanation
Indices: 7185504--7185529 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
7185494 TTAGAAATAA
7185504 GGAAAACATGT
1 GGAAAACATGT
7185515 GGAAAACATGT
1 GGAAAACATGT
7185526 GGAA
1 GGAA
7185530 GCTTCACACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.08, G:0.31, T:0.15
Consensus pattern (11 bp):
GGAAAACATGT
Found at i:7185632 original size:50 final size:50
Alignment explanation
Indices: 7185557--7185690 Score: 225
Period size: 50 Copynumber: 2.7 Consensus size: 50
7185547 TCTGACACGA
* * *
7185557 TAATCACATAAT-TGTTGTCAATGAAGGATAGTTGCACGTGCCGTGTCATG
1 TAATCACATAATCT-TTGCCAATGAAGGATAGTTCCACGTGCCGTATCATG
7185607 TAATCACATAATCTTTGCCAATGAAGGATAGTTCCACGTGCCGTATCATG
1 TAATCACATAATCTTTGCCAATGAAGGATAGTTCCACGTGCCGTATCATG
7185657 TAATCACATAATCTTTGCCAATGAAGGATAGTTC
1 TAATCACATAATCTTTGCCAATGAAGGATAGTTC
7185691 AACTGTTTTG
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
50 79 0.99
51 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (50 bp):
TAATCACATAATCTTTGCCAATGAAGGATAGTTCCACGTGCCGTATCATG
Found at i:7188058 original size:30 final size:31
Alignment explanation
Indices: 7188022--7188098 Score: 102
Period size: 30 Copynumber: 2.5 Consensus size: 31
7188012 TTAATAAGCC
* *
7188022 TTTATACTTTTATTTTCAACTAAA-AAAATT
1 TTTATACTTTTATTTTCAACCAAATAAAACT
* *
7188052 TTTATACTTTTATTTTGAACCAAATAAAGCT
1 TTTATACTTTTATTTTCAACCAAATAAAACT
*
7188083 CTTATACTTTTATTTT
1 TTTATACTTTTATTTT
7188099 TAGCAATAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
30 22 0.54
31 19 0.46
ACGTcount: A:0.34, C:0.12, G:0.03, T:0.52
Consensus pattern (31 bp):
TTTATACTTTTATTTTCAACCAAATAAAACT
Found at i:7188231 original size:28 final size:31
Alignment explanation
Indices: 7188172--7188238 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 31
7188162 CATGATATAT
*
7188172 TAACATGTCATAATTGATGATGATATGACATGC
1 TAACATGTCATAA-TGATGATGA-ATGACATGA
7188205 TAACATGTCATAA-G-TGATG-ATGACATGA
1 TAACATGTCATAATGATGATGAATGACATGA
7188233 TAACAT
1 TAACAT
7188239 AACCACGTGT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
28 14 0.42
30 5 0.15
31 1 0.03
33 13 0.39
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (31 bp):
TAACATGTCATAATGATGATGAATGACATGA
Found at i:7188971 original size:13 final size:12
Alignment explanation
Indices: 7188955--7189029 Score: 53
Period size: 13 Copynumber: 6.0 Consensus size: 12
7188945 ATAAAATTTT
7188955 ATTAGTAAAAAAA
1 ATTA-TAAAAAAA
7188968 ATTAT-AAAAAA
1 ATTATAAAAAAA
*
7188979 ATCATAAACAAAA
1 ATTATAAA-AAAA
* * *
7188992 ATCACATCAAAAA
1 ATTATA-AAAAAA
*
7189005 ATTAAAAATAAAA
1 ATTATAAA-AAAA
*
7189018 ATAATAAAAAAA
1 ATTATAAAAAAA
7189030 TGGGAAGAGG
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
11 10 0.20
12 8 0.16
13 31 0.62
14 1 0.02
ACGTcount: A:0.72, C:0.07, G:0.01, T:0.20
Consensus pattern (12 bp):
ATTATAAAAAAA
Found at i:7196810 original size:17 final size:19
Alignment explanation
Indices: 7196790--7196826 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
7196780 AAATATAAAG
7196790 TATATAAAAA-A-ATATCT
1 TATATAAAAATACATATCT
7196807 TATATAAAAATACATATCT
1 TATATAAAAATACATATCT
7196826 T
1 T
7196827 GGTAAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.56
18 1 0.06
19 7 0.39
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (19 bp):
TATATAAAAATACATATCT
Found at i:7196812 original size:19 final size:19
Alignment explanation
Indices: 7196790--7196826 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
7196780 AAATATAAAG
7196790 TATAT-AAAA-AAATATCT
1 TATATAAAAATAAATATCT
*
7196807 TATATAAAAATACATATCT
1 TATATAAAAATAAATATCT
7196826 T
1 T
7196827 GGTAAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 5 0.29
18 4 0.24
19 8 0.47
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (19 bp):
TATATAAAAATAAATATCT
Found at i:7202391 original size:22 final size:22
Alignment explanation
Indices: 7202329--7202548 Score: 239
Period size: 23 Copynumber: 9.9 Consensus size: 22
7202319 AATATTTTTA
*
7202329 TTGAACATGGCATGTAACATGTT
1 TTGAACATGGCGTGTAACAT-TT
* *
7202352 GTGAACATGACGTGTAACAATTT
1 TTGAACATGGCGTGTAAC-ATTT
* *
7202375 TTGAAC-TTGTGTGTAACATTT
1 TTGAACATGGCGTGTAACATTT
7202396 TTGAACATGGCGTGTAACATTGT
1 TTGAACATGGCGTGTAACATT-T
* *
7202419 TTGAAC-TTGTGTGTAACATTT
1 TTGAACATGGCGTGTAACATTT
*
7202440 TTGAACATAGCGTGTAACATTGT
1 TTGAACATGGCGTGTAACATT-T
* *
7202463 TTGAAC-TTGTGTGTAACATTT
1 TTGAACATGGCGTGTAACATTT
7202484 TTGAACATGGCGTGTAACATTTT
1 TTGAACATGGCGTGTAACA-TTT
*
7202507 TTAAACATGGCGTGTAACATTTT
1 TTGAACATGGCGTGTAACA-TTT
* * *
7202530 TTGAATATGACATGTAACA
1 TTGAACATGGCGTGTAACA
7202549 ATATGATTGA
Statistics
Matches: 168, Mismatches: 22, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
21 24 0.14
22 66 0.39
23 76 0.45
24 2 0.01
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (22 bp):
TTGAACATGGCGTGTAACATTT
Found at i:7202410 original size:44 final size:45
Alignment explanation
Indices: 7202341--7202550 Score: 275
Period size: 44 Copynumber: 4.7 Consensus size: 45
7202331 GAACATGGCA
* *
7202341 TGTAACATGTTGTGAACATGACGTGTAACAATT-TTTGAACTTGTG
1 TGTAACAT-TTTTGAACATGGCGTGTAACAATTGTTTGAACTTGTG
7202386 TGTAACATTTTTGAACATGGCGTGTAAC-ATTGTTTGAACTTGTG
1 TGTAACATTTTTGAACATGGCGTGTAACAATTGTTTGAACTTGTG
*
7202430 TGTAACATTTTTGAACATAGCGTGTAAC-ATTGTTTGAACTTGTG
1 TGTAACATTTTTGAACATGGCGTGTAACAATTGTTTGAACTTGTG
* * * *
7202474 TGTAACATTTTTGAACATGGCGTGTAAC-ATTTTTTAAACATGGCG
1 TGTAACATTTTTGAACATGGCGTGTAACAATTGTTTGAAC-TTGTG
* * *
7202519 TGTAACATTTTTTGAATATGACATGTAACAAT
1 TGTAACA-TTTTTGAACATGGCGTGTAACAAT
7202551 ATGATTGACA
Statistics
Matches: 150, Mismatches: 11, Indels: 6
0.90 0.07 0.04
Matches are distributed among these distances:
43 3 0.02
44 109 0.73
45 18 0.12
46 18 0.12
47 2 0.01
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (45 bp):
TGTAACATTTTTGAACATGGCGTGTAACAATTGTTTGAACTTGTG
Found at i:7202446 original size:10 final size:11
Alignment explanation
Indices: 7202374--7202491 Score: 68
Period size: 10 Copynumber: 10.8 Consensus size: 11
7202364 TGTAACAATT
7202374 TTTGAAC-TTG
1 TTTGAACATTG
*
7202384 TGTGTAACATT-
1 TTTG-AACATTG
*
7202395 TTTGAACATGG
1 TTTGAACATTG
**
7202406 CGTGTAACATTG
1 TTTG-AACATTG
7202418 TTTGAAC-TTG
1 TTTGAACATTG
*
7202428 TGTGTAACATT-
1 TTTG-AACATTG
*
7202439 TTTGAACATAG
1 TTTGAACATTG
**
7202450 CGTGTAACATTG
1 TTTG-AACATTG
7202462 TTTGAAC-TTG
1 TTTGAACATTG
*
7202472 TGTGTAACATT-
1 TTTG-AACATTG
7202483 TTTGAACAT
1 TTTGAACAT
7202492 GGCGTGTAAC
Statistics
Matches: 80, Mismatches: 18, Indels: 20
0.68 0.15 0.17
Matches are distributed among these distances:
10 30 0.38
11 28 0.35
12 22 0.28
ACGTcount: A:0.26, C:0.11, G:0.20, T:0.42
Consensus pattern (11 bp):
TTTGAACATTG
Found at i:7202456 original size:88 final size:89
Alignment explanation
Indices: 7202332--7202548 Score: 305
Period size: 88 Copynumber: 2.4 Consensus size: 89
7202322 ATTTTTATTG
* *
7202332 AACATGGCATGTAACATGTTGTGAACATGACGTGTAACAATT-TTTGAACTTGTGTGTAACATTT
1 AACATGGCGTGTAACAT-TTTTGAACATGACGTGTAAC-ATTGTTTGAACTTGTGTGTAACATTT
*
7202396 TTGAACATGGCGTGTAACATTGTTTG
64 TTGAACATGGCGTGTAACATTGTTTA
* *
7202422 AAC-TTGTGTGTAACATTTTTGAACAT-AGCGTGTAACATTGTTTGAACTTGTGTGTAACATTTT
1 AACATGGCGTGTAACATTTTTGAACATGA-CGTGTAACATTGTTTGAACTTGTGTGTAACATTTT
*
7202485 TGAACATGGCGTGTAACATTTTTTA
65 TGAACATGGCGTGTAACATTGTTTA
* *
7202510 AACATGGCGTGTAACATTTTTTGAATATGACATGTAACA
1 AACATGGCGTGTAACA-TTTTTGAACATGACGTGTAACA
7202549 ATATGATTGA
Statistics
Matches: 112, Mismatches: 10, Indels: 10
0.85 0.08 0.08
Matches are distributed among these distances:
87 4 0.04
88 66 0.59
89 20 0.18
90 21 0.19
91 1 0.01
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.38
Consensus pattern (89 bp):
AACATGGCGTGTAACATTTTTGAACATGACGTGTAACATTGTTTGAACTTGTGTGTAACATTTTT
GAACATGGCGTGTAACATTGTTTA
Found at i:7209433 original size:47 final size:47
Alignment explanation
Indices: 7209373--7209470 Score: 196
Period size: 47 Copynumber: 2.1 Consensus size: 47
7209363 AAGCCAAATA
7209373 TTTAAGTGTAAAGGATTTATGGTGTTAAAAATATATATAAATATTTT
1 TTTAAGTGTAAAGGATTTATGGTGTTAAAAATATATATAAATATTTT
7209420 TTTAAGTGTAAAGGATTTATGGTGTTAAAAATATATATAAATATTTT
1 TTTAAGTGTAAAGGATTTATGGTGTTAAAAATATATATAAATATTTT
7209467 TTTA
1 TTTA
7209471 CTTGATTATT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 51 1.00
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.46
Consensus pattern (47 bp):
TTTAAGTGTAAAGGATTTATGGTGTTAAAAATATATATAAATATTTT
Found at i:7210185 original size:108 final size:108
Alignment explanation
Indices: 7210071--7210273 Score: 361
Period size: 108 Copynumber: 1.9 Consensus size: 108
7210061 AATTTTGAGT
* *
7210071 AAATTTAAATAAAAGGTAAATTGGGTAAGAGTTGAATAATTTCAAAAGAATGTATATTTGTAAAT
1 AAATTTAAATAAAAGGTAAATTGGGTAAGAGTTAAATAATTTCAAAAGAATATATATTTGTAAAT
* *
7210136 TGTGAAAGTTGTAACTAAATCAATATATTTTGCTAATTTAAGC
66 TGTGAAAGTTGTAACCAAATCAACATATTTTGCTAATTTAAGC
*
7210179 AAATTTAAATCAAAGGTAAATTGGGTAAGAGTTAAATAATTTCAAAAGAATATATATTTGTAAAT
1 AAATTTAAATAAAAGGTAAATTGGGTAAGAGTTAAATAATTTCAAAAGAATATATATTTGTAAAT
7210244 TGTGAAAGTTGTAACCAAATCAACATATTT
66 TGTGAAAGTTGTAACCAAATCAACATATTT
7210274 AGTCATTTTA
Statistics
Matches: 90, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
108 90 1.00
ACGTcount: A:0.45, C:0.05, G:0.15, T:0.35
Consensus pattern (108 bp):
AAATTTAAATAAAAGGTAAATTGGGTAAGAGTTAAATAATTTCAAAAGAATATATATTTGTAAAT
TGTGAAAGTTGTAACCAAATCAACATATTTTGCTAATTTAAGC
Found at i:7210849 original size:31 final size:31
Alignment explanation
Indices: 7210811--7210882 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
7210801 GACATCTTGT
7210811 GGTGACACGCTGAGTGGTAGCAGAATTATAA
1 GGTGACACGCTGAGTGGTAGCAGAATTATAA
* * * **
7210842 GGTGACACGCTGAGTGGTTGCAGTATTGTGG
1 GGTGACACGCTGAGTGGTAGCAGAATTATAA
7210873 GGTGACACGC
1 GGTGACACGC
7210883 CATGCCCTAG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.24, C:0.15, G:0.38, T:0.24
Consensus pattern (31 bp):
GGTGACACGCTGAGTGGTAGCAGAATTATAA
Found at i:7210969 original size:107 final size:107
Alignment explanation
Indices: 7210776--7211063 Score: 357
Period size: 107 Copynumber: 2.7 Consensus size: 107
7210766 ACATCAGTCA
* * * *
7210776 CATGCTCTAATTGTTAGATGTCCATGACATCTTGTGGTGACACGCTGAGTGGTAGCAGAATTATA
1 CATGCCCTAATTGTTAGATGTCGATGACATCTTGTGGTGACACGCTGAATGGTAACAGAATTATA
* *
7210841 AGGTGACACGCTGAGTGGTTGCAGTATTGTGGGGTGACACGC
66 AGGTGACACGCTAAATGGTTGCAGTATTGTGGGGTGACACGC
* * *
7210883 CATGCCCTAGTTGTTAGATATCGATGACATCTTGTGGTGACACGCTTAATGGTAACA-AATTTAT
1 CATGCCCTAATTGTTAGATGTCGATGACATCTTGTGGTGACACGCTGAATGGTAACAGAA-TTAT
* * *
7210947 AAGGTGACATGCTAAATTGTTGCAGTATTGTGGGGTTACACGC
65 AAGGTGACACGCTAAATGGTTGCAGTATTGTGGGGTGACACGC
* ** * **
7210990 CA--CACCTAAATTATTAGATGTCGATGGTATCTTGTGGTGACACGCTGAGTGGTAGTAGAATTA
1 CATGC-CCT-AATTGTTAGATGTCGATGACATCTTGTGGTGACACGCTGAATGGTAACAGAATTA
*
7211053 TGAGGTGACAC
64 TAAGGTGACAC
7211064 ATTGATTGGT
Statistics
Matches: 154, Mismatches: 23, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
105 1 0.01
106 5 0.03
107 146 0.95
108 2 0.01
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (107 bp):
CATGCCCTAATTGTTAGATGTCGATGACATCTTGTGGTGACACGCTGAATGGTAACAGAATTATA
AGGTGACACGCTAAATGGTTGCAGTATTGTGGGGTGACACGC
Found at i:7211063 original size:31 final size:31
Alignment explanation
Indices: 7211025--7211093 Score: 111
Period size: 31 Copynumber: 2.2 Consensus size: 31
7211015 GGTATCTTGT
*
7211025 GGTGACACGCTGAGTGGTAGTAGAATTATGA
1 GGTGACACACTGAGTGGTAGTAGAATTATGA
* *
7211056 GGTGACACATTGATTGGTAGTAGAATTATGA
1 GGTGACACACTGAGTGGTAGTAGAATTATGA
7211087 GGTGACA
1 GGTGACA
7211094 TGTTGAGTTG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.30, C:0.09, G:0.33, T:0.28
Consensus pattern (31 bp):
GGTGACACACTGAGTGGTAGTAGAATTATGA
Found at i:7211171 original size:138 final size:138
Alignment explanation
Indices: 7210943--7211339 Score: 467
Period size: 138 Copynumber: 2.9 Consensus size: 138
7210933 GGTAACAAAT
* * * * * ** *
7210943 TTATAAGGTGACATGCTAAATTGTTGCAGTATTGTGGGGTTACACGCCACACCTAAATTATTAGA
1 TTATGAGGTGACATGCTGAGTTGTTGCAGTATTGTGGGGTGACACGCCACGCCCCAATTGTTAGA
** * *
7211008 TGTCGATGGTATCTTGTGGTGACACGCTGAGTGGTAGTAGAATTATGAGGTGACACATTGA-TTG
66 TGTCGATGACATCTTGTGGTGACACGTTGAGTGGTAGTAGAATTATGAGGTGACACACTGAGTTG
*
7211072 GTAGTAGA-A
131 GTA-CA-ATA
* * * *
7211081 TTATGAGGTGACATGTTGAGTTGGTGCAGCATTGTGGGGTGACACGCCATGCCCCAATTGTTAGA
1 TTATGAGGTGACATGCTGAGTTGTTGCAGTATTGTGGGGTGACACGCCACGCCCCAATTGTTAGA
* * * *
7211146 TGTCAATGACATCTTGTGGTAACACGTTGAGTGGTAGCAGAATTATG-GGATGACACGCTGAGTT
66 TGTCGATGACATCTTGTGGTGACACGTTGAGTGGTAGTAGAATTATGAGG-TGACACACTGAGTT
*
7211210 GTTACAATA
130 GGTACAATA
* ** * * *
7211219 TTATGGGGTGACACACTGAGTTATTGCAGTATTGTGGTGTGACACACCACGCCCCAATTGTTAGA
1 TTATGAGGTGACATGCTGAGTTGTTGCAGTATTGTGGGGTGACACGCCACGCCCCAATTGTTAGA
* * *
7211284 TGTCGATGACATCTTGTGGTGACATGTTGAGTGTTAATAGAATTATGAGGTGACAC
66 TGTCGATGACATCTTGTGGTGACACGTTGAGTGGTAGTAGAATTATGAGGTGACAC
7211340 GTCACGTGGT
Statistics
Matches: 217, Mismatches: 38, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
137 3 0.01
138 207 0.95
139 7 0.03
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.31
Consensus pattern (138 bp):
TTATGAGGTGACATGCTGAGTTGTTGCAGTATTGTGGGGTGACACGCCACGCCCCAATTGTTAGA
TGTCGATGACATCTTGTGGTGACACGTTGAGTGGTAGTAGAATTATGAGGTGACACACTGAGTTG
GTACAATA
Found at i:7211208 original size:31 final size:30
Alignment explanation
Indices: 7211167--7211239 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 30
7211157 TCTTGTGGTA
*
7211167 ACACGTTGAGTGGTAGCAGA-ATTATGGGATG
1 ACACGCTGAGTGGTA-CA-ATATTATGGGATG
* *
7211198 ACACGCTGAGTTGTTACAATATTATGGGGTG
1 ACACGCTGAG-TGGTACAATATTATGGGATG
*
7211229 ACACACTGAGT
1 ACACGCTGAGT
7211240 TATTGCAGTA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
30 2 0.06
31 30 0.83
32 4 0.11
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.27
Consensus pattern (30 bp):
ACACGCTGAGTGGTACAATATTATGGGATG
Found at i:7211240 original size:31 final size:31
Alignment explanation
Indices: 7211187--7211265 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
7211177 TGGTAGCAGA
* * *
7211187 ATTATGGGATGACACGCTGAGTTGTTACAAT
1 ATTATGGGGTGACACACTGAGTTATTACAAT
* *
7211218 ATTATGGGGTGACACACTGAGTTATTGCAGT
1 ATTATGGGGTGACACACTGAGTTATTACAAT
* *
7211249 ATTGTGGTGTGACACAC
1 ATTATGGGGTGACACAC
7211266 CACGCCCCAA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.32
Consensus pattern (31 bp):
ATTATGGGGTGACACACTGAGTTATTACAAT
Found at i:7217387 original size:71 final size:71
Alignment explanation
Indices: 7217218--7217437 Score: 257
Period size: 71 Copynumber: 3.1 Consensus size: 71
7217208 TAATCAAAGC
* * *
7217218 ATTGGGCCTAATTAATTAAATTGTTTAATTAAATCATTGAGCCTAATTAATT-AAATTAAACAAT
1 ATTGGGCCTAATTAATTAAATTGTTTAATTAAGTCATTGGGCCTAATTGATTAAAATTAAACAAT
7217282 TAAGTG
66 TAAGTG
* * ****
7217288 ATTGGGCCTAATTGATTAAATTTGTTTAATTAAGTCATTGGGCTTAATTGATTAAAATTGTTTAA
1 ATTGGGCCTAATTAATTAAA-TTGTTTAATTAAGTCATTGGGCCTAATTGATTAAAATTAAACAA
*
7217353 TTAAATTG
65 TT-AAGTG
* * * *
7217361 -TTTGGCTTAATTAATTAAATTATTTAATTAAGTTATTGGGCCTAATTGATT-AAATTAAACAAT
1 ATTGGGCCTAATTAATTAAATTGTTTAATTAAGTCATTGGGCCTAATTGATTAAAATTAAACAAT
*
7217424 TAAGTTA
66 TAAG-TG
7217431 ATTGGGC
1 ATTGGGC
7217438 TTCTTAAGGA
Statistics
Matches: 122, Mismatches: 23, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
69 2 0.02
70 29 0.24
71 62 0.51
72 25 0.20
73 4 0.03
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.42
Consensus pattern (71 bp):
ATTGGGCCTAATTAATTAAATTGTTTAATTAAGTCATTGGGCCTAATTGATTAAAATTAAACAAT
TAAGTG
Found at i:7217425 original size:35 final size:35
Alignment explanation
Indices: 7217168--7217437 Score: 260
Period size: 35 Copynumber: 7.7 Consensus size: 35
7217158 CACTTGATTA
7217168 AAATTATTTAATTAAGTTA-T--GCCTAATTAATT
1 AAATTATTTAATTAAGTTATTGGGCCTAATTAATT
* *
7217200 AAATTATTTAATCAAAG-CATTGGGCCTAATTAATT
1 AAATTATTTAAT-TAAGTTATTGGGCCTAATTAATT
* * * *
7217235 AAATTGTTTAATTAAATCATTGAGCCTAATTAATT
1 AAATTATTTAATTAAGTTATTGGGCCTAATTAATT
*** * *
7217270 AAATTAAACAATTAAGTGATTGGGCCTAATTGATT
1 AAATTATTTAATTAAGTTATTGGGCCTAATTAATT
* * * *
7217305 AAATTTGTTTAATTAAGTCATTGGGCTTAATTGATT
1 AAA-TTATTTAATTAAGTTATTGGGCCTAATTAATT
* * * * *
7217341 AAAATTGTTTAATTAAATTGTTTGGCTTAATTAATT
1 -AAATTATTTAATTAAGTTATTGGGCCTAATTAATT
*
7217377 AAATTATTTAATTAAGTTATTGGGCCTAATTGATT
1 AAATTATTTAATTAAGTTATTGGGCCTAATTAATT
***
7217412 AAATTAAACAATTAAGTTAATTGGGC
1 AAATTATTTAATTAAGTT-ATTGGGC
7217438 TTCTTAAGGA
Statistics
Matches: 196, Mismatches: 34, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
32 13 0.07
33 4 0.02
34 2 0.01
35 114 0.58
36 60 0.31
37 3 0.02
ACGTcount: A:0.38, C:0.07, G:0.13, T:0.42
Consensus pattern (35 bp):
AAATTATTTAATTAAGTTATTGGGCCTAATTAATT
Found at i:7217439 original size:107 final size:105
Alignment explanation
Indices: 7217168--7217417 Score: 321
Period size: 107 Copynumber: 2.4 Consensus size: 105
7217158 CACTTGATTA
* * *
7217168 AAATTATTTAATTAAGTTA-T--GCCTAATTAATTAAATTATTTAATCAAAG-CATTGGGCCTAA
1 AAATTATTTAATTAAGTTATTGGGCCTAATTGATTAAATTATTTAAT-TAAGTCATTGGGCTTAA
7217229 TTAATTAAATTGTTTAATTAAATCATTGAGCCTAATTAATT
65 TTAATTAAATTGTTTAATTAAATCATTGAGCCTAATTAATT
*** * *
7217270 AAATTAAACAATTAAGTGATTGGGCCTAATTGATTAAATTTGTTTAATTAAGTCATTGGGCTTAA
1 AAATTATTTAATTAAGTTATTGGGCCTAATTGATTAAA-TTATTTAATTAAGTCATTGGGCTTAA
* ** *
7217335 TTGATTAAAATTGTTTAATTAAATTGTTTG-GCTTAATTAATT
65 TTAATT-AAATTGTTTAATTAAA-TCATTGAGCCTAATTAATT
7217377 AAATTATTTAATTAAGTTATTGGGCCTAATTGATTAAATTA
1 AAATTATTTAATTAAGTTATTGGGCCTAATTGATTAAATTA
7217418 AACAATTAAG
Statistics
Matches: 124, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
102 15 0.12
103 1 0.01
105 17 0.14
106 26 0.21
107 61 0.49
108 4 0.03
ACGTcount: A:0.38, C:0.07, G:0.12, T:0.43
Consensus pattern (105 bp):
AAATTATTTAATTAAGTTATTGGGCCTAATTGATTAAATTATTTAATTAAGTCATTGGGCTTAAT
TAATTAAATTGTTTAATTAAATCATTGAGCCTAATTAATT
Found at i:7219610 original size:18 final size:18
Alignment explanation
Indices: 7219589--7219625 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
7219579 ATCGTGTTAT
7219589 CGTGTTCAAACGTGTATA
1 CGTGTTCAAACGTGTATA
*
7219607 CGTGTTTAAACGTGTATA
1 CGTGTTCAAACGTGTATA
7219625 C
1 C
7219626 ATGACACGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (18 bp):
CGTGTTCAAACGTGTATA
Found at i:7227717 original size:30 final size:31
Alignment explanation
Indices: 7227673--7227730 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 31
7227663 GCAATAAGAG
7227673 TTTATTTGACTCAAAATAAAAATACAAAAAT
1 TTTATTTGACTCAAAATAAAAATACAAAAAT
*
7227704 TTTA-TTGGCTCAAAATAAAAATACAAA
1 TTTATTTGACTCAAAATAAAAATACAAA
7227731 GACTTGATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.53, C:0.10, G:0.05, T:0.31
Consensus pattern (31 bp):
TTTATTTGACTCAAAATAAAAATACAAAAAT
Found at i:7228303 original size:35 final size:35
Alignment explanation
Indices: 7228257--7228324 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
7228247 ATAAAGTTAT
7228257 TTTTCTGAAAATCTAAATGATGACTGTGTGATATA
1 TTTTCTGAAAATCTAAATGATGACTGTGTGATATA
* * * * *
7228292 TTTTCTTAAAATTTTAATGATGATTTTGTGATA
1 TTTTCTGAAAATCTAAATGATGACTGTGTGATA
7228325 GATTCCTGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.32, C:0.06, G:0.15, T:0.47
Consensus pattern (35 bp):
TTTTCTGAAAATCTAAATGATGACTGTGTGATATA
Found at i:7230989 original size:28 final size:28
Alignment explanation
Indices: 7230942--7231000 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
7230932 ATCTATAAAA
* *
7230942 AGACTTCCTTTGGAACAACAAAAGATAC
1 AGACTTCCTTTGAAACAACAAAAGACAC
* *
7230970 AGACTTCCTTTGAAATAACAGAAGACAC
1 AGACTTCCTTTGAAACAACAAAAGACAC
7230998 AGA
1 AGA
7231001 AAACAATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.44, C:0.20, G:0.15, T:0.20
Consensus pattern (28 bp):
AGACTTCCTTTGAAACAACAAAAGACAC
Found at i:7234124 original size:19 final size:20
Alignment explanation
Indices: 7234093--7234137 Score: 83
Period size: 19 Copynumber: 2.3 Consensus size: 20
7234083 TGTTGGTCCC
7234093 ATTTGACTTATTGGAGTATG
1 ATTTGACTTATTGGAGTATG
7234113 ATTTGA-TTATTGGAGTATG
1 ATTTGACTTATTGGAGTATG
7234132 ATTTGA
1 ATTTGA
7234138 GGTTTAGAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.27, C:0.02, G:0.24, T:0.47
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATG
Found at i:7234212 original size:27 final size:26
Alignment explanation
Indices: 7234182--7234232 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
7234172 TTGGAGTATA
7234182 GGGGCGAAAT-GGTAATTTTGTCACCTC
1 GGGG-GAAATCGGTAATTTTG-CACCTC
*
7234209 GGGGTAAATCGGTAATTTTGCACC
1 GGGGGAAATCGGTAATTTTGCACC
7234233 CCCAGAGCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (26 bp):
GGGGGAAATCGGTAATTTTGCACCTC
Found at i:7235686 original size:2 final size:2
Alignment explanation
Indices: 7235679--7235722 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
7235669 TGGAATCCGA
7235679 AT AT AT 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 AT AT AT
7235721 AT
1 AT
7235723 GTATCTCGGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7240838 original size:19 final size:19
Alignment explanation
Indices: 7240805--7240845 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
7240795 GAATTTATAA
7240805 TCTTGATCTTCCAAA-TCT
1 TCTTGATCTTCCAAATTCT
*
7240823 TCTTGACTCTTTCAAATTCT
1 TCTTGA-TCTTCCAAATTCT
7240843 TCT
1 TCT
7240846 CAGCTTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 6 0.30
19 8 0.40
20 6 0.30
ACGTcount: A:0.20, C:0.27, G:0.05, T:0.49
Consensus pattern (19 bp):
TCTTGATCTTCCAAATTCT
Found at i:7247120 original size:35 final size:35
Alignment explanation
Indices: 7247081--7247196 Score: 124
Period size: 35 Copynumber: 3.3 Consensus size: 35
7247071 CAAATAAAAT
*
7247081 ACTACTTCATGTAGAACAACTAAAACAAGTGAAAC
1 ACTACTTCATGTAGAACAACTAAAATAAGTGAAAC
* * * *
7247116 ACTACTTCATGTAGAACAATTAGAATAAGTGGAGC
1 ACTACTTCATGTAGAACAACTAAAATAAGTGAAAC
* * ** *
7247151 ATTACTTCACGCGGAACAACTAAGATAAGTGAAAC
1 ACTACTTCATGTAGAACAACTAAAATAAGTGAAAC
*
7247186 AACCACTTCAT
1 -ACTACTTCAT
7247197 ATGGAAAACA
Statistics
Matches: 63, Mismatches: 17, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
35 56 0.89
36 7 0.11
ACGTcount: A:0.43, C:0.20, G:0.15, T:0.22
Consensus pattern (35 bp):
ACTACTTCATGTAGAACAACTAAAATAAGTGAAAC
Found at i:7247434 original size:29 final size:28
Alignment explanation
Indices: 7247355--7247423 Score: 93
Period size: 28 Copynumber: 2.4 Consensus size: 28
7247345 TCCCCCTCTT
* * *
7247355 ACCTTGTTCTCATGTACCTGTTTATGTAC
1 ACCTT-TTCTCTTGTACCTGTTCACGTAC
7247384 ACCTTTTCTCTTGTACCTGTTCACGTAC
1 ACCTTTTCTCTTGTACCTGTTCACGTAC
*
7247412 ACCTTTTTTCTT
1 ACCTTTTCTCTT
7247424 TTAACTTGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 31 0.86
29 5 0.14
ACGTcount: A:0.14, C:0.28, G:0.10, T:0.48
Consensus pattern (28 bp):
ACCTTTTCTCTTGTACCTGTTCACGTAC
Found at i:7256842 original size:3 final size:3
Alignment explanation
Indices: 7256834--7256889 Score: 67
Period size: 3 Copynumber: 18.7 Consensus size: 3
7256824 TTTTTGCCTT
* * * *
7256834 TGC TGC TGC TGC TGC TGC TGC TGC TGC TGT TGT TGT TGT TGC TGC TGC
1 TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC
*
7256882 TGT TGC TG
1 TGC TGC TG
7256890 GGTTTGTTGC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.00, C:0.23, G:0.34, T:0.43
Consensus pattern (3 bp):
TGC
Found at i:7260170 original size:16 final size:16
Alignment explanation
Indices: 7260144--7260208 Score: 71
Period size: 16 Copynumber: 4.1 Consensus size: 16
7260134 ATTTAAAATC
*
7260144 AATAATTATAAAA-AA
1 AATAATAATAAAATAA
*
7260159 TAATTATAATAAAATAA
1 -AATAATAATAAAATAA
* *
7260176 AATAATAATAACATCA
1 AATAATAATAAAATAA
7260192 AAT-ATAATAAAATAA
1 AATAATAATAAAATAA
7260207 AA
1 AA
7260209 ATTCAAAATT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
15 12 0.29
16 27 0.66
17 2 0.05
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (16 bp):
AATAATAATAAAATAA
Found at i:7260173 original size:31 final size:31
Alignment explanation
Indices: 7260137--7260208 Score: 85
Period size: 31 Copynumber: 2.3 Consensus size: 31
7260127 TATTTAAATT
* *
7260137 TAAAATCAATAATTATAA-AAAAT-AATTATAA
1 TAAAAT-AA-AATAATAATAAAATCAAATATAA
*
7260168 TAAAATAAAATAATAATAACATCAAATATAA
1 TAAAATAAAATAATAATAAAATCAAATATAA
7260199 TAAAATAAAA
1 TAAAATAAAA
7260209 ATTCAAAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 7 0.19
30 6 0.17
31 23 0.64
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (31 bp):
TAAAATAAAATAATAATAAAATCAAATATAA
Found at i:7260176 original size:5 final size:5
Alignment explanation
Indices: 7260166--7260208 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
7260156 AAATAATTAT
* * *
7260166 AATAA AATAA AATAA TAATAA CATCA AATAT AATAA AATAA AA
1 AATAA AATAA AATAA -AATAA AATAA AATAA AATAA AATAA AA
7260209 ATTCAAAATT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
5 26 0.84
6 5 0.16
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (5 bp):
AATAA
Found at i:7261174 original size:15 final size:16
Alignment explanation
Indices: 7261144--7261176 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
7261134 AGAGGTTAGA
7261144 TATTTTTTAATTAATTT
1 TATTTTTTAA-TAATTT
7261161 TATTTTTTAA-AATTT
1 TATTTTTTAATAATTT
7261176 T
1 T
7261177 CATCCATGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
17 10 0.62
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TATTTTTTAATAATTT
Found at i:7266120 original size:2 final size:2
Alignment explanation
Indices: 7266108--7266165 Score: 107
Period size: 2 Copynumber: 29.0 Consensus size: 2
7266098 CATTGTGTTG
*
7266108 AT AT GT 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 AT AT AT
7266150 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
7266166 NNNNNNNNNN
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7268356 original size:2 final size:2
Alignment explanation
Indices: 7268349--7268399 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
7268339 ATTATGTGAT
*
7268349 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7268391 TA TA TA TA T
1 TA TA TA TA T
7268400 GTATGTATGT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:7273841 original size:35 final size:35
Alignment explanation
Indices: 7273772--7273922 Score: 164
Period size: 35 Copynumber: 4.3 Consensus size: 35
7273762 CTTAATTGTT
**
7273772 TAATTTAATCAATTAGGTTCAATAACTTAATTAAA
1 TAATTTAATCAATTAGGCCCAATAACTTAATTAAA
* * * *
7273807 TAATTTAATTAATTAGGCCCAACAATTTACTTAAA
1 TAATTTAATCAATTAGGCCCAATAACTTAATTAAA
*
7273842 TAATTTTAATCAATTAGGCCCAATGACTTAATTAAA
1 TAA-TTTAATCAATTAGGCCCAATAACTTAATTAAA
* * *
7273878 CAATTTAATTAATTAAG--C-ATAACTTAATTAAA
1 TAATTTAATCAATTAGGCCCAATAACTTAATTAAA
*
7273910 CAATTTTAATCAA
1 TAA-TTTAATCAA
7273923 GTGCTTGAGA
Statistics
Matches: 98, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
32 16 0.16
33 9 0.09
35 44 0.45
36 29 0.30
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (35 bp):
TAATTTAATCAATTAGGCCCAATAACTTAATTAAA
Found at i:7280177 original size:15 final size:16
Alignment explanation
Indices: 7280157--7280188 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
7280147 TGACAAAGCA
7280157 GATTTTTAA-AAAATC
1 GATTTTTAACAAAATC
7280172 GATTTTTAACAAAATC
1 GATTTTTAACAAAATC
7280188 G
1 G
7280189 CACCAAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (16 bp):
GATTTTTAACAAAATC
Found at i:7281029 original size:71 final size:70
Alignment explanation
Indices: 7280947--7281173 Score: 247
Period size: 71 Copynumber: 3.2 Consensus size: 70
7280937 TTAATTGTTT
** * *
7280947 AATTTAATCAATTAGGTGCAATAACTTAATTAAACAATTTAATTAATTAGGCTCAAAAATTTAAT
1 AATTTAATCAATTAGGCCCAATGACTTAATTAAACAATTTAATTAATTAGGCTCAATAATTTAAT
*
7281012 CAAAC
66 TAAAC
* * * *
7281017 AATTTTAATCAATTATGCCCAATGACTTAATTAAACAAATTTAATCAATTAGGCTTAATAACTTA
1 AA-TTTAATCAATTAGGCCCAATGACTTAATTAAAC-AATTTAATTAATTAGGCTCAATAATTTA
****
7281082 ATTGTTT
64 ATTAAAC
* * * * * * *
7281089 AATTTAATTAATTAAGCCCAACGACTTAATTAAATAATTAAATTAATTAGGCCCAATGATTTAAT
1 AATTTAATCAATTAGGCCCAATGACTTAATTAAACAATTTAATTAATTAGGCTCAATAATTTAAT
7281154 TAAAC
66 TAAAC
*
7281159 AATTTAATTAATTAG
1 AATTTAATCAATTAG
7281174 ACACAACTTA
Statistics
Matches: 127, Mismatches: 28, Indels: 4
0.80 0.18 0.03
Matches are distributed among these distances:
70 41 0.32
71 58 0.46
72 28 0.22
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.37
Consensus pattern (70 bp):
AATTTAATCAATTAGGCCCAATGACTTAATTAAACAATTTAATTAATTAGGCTCAATAATTTAAT
TAAAC
Found at i:7281031 original size:36 final size:35
Alignment explanation
Indices: 7280947--7281202 Score: 205
Period size: 35 Copynumber: 7.3 Consensus size: 35
7280937 TTAATTGTTT
7280947 AATTTAATCAATTAGG-TGCAATAACTTAATTAAAC
1 AATTTAATCAATTAGGCT-CAATAACTTAATTAAAC
* * * *
7280982 AATTTAATTAATTAGGCTCAAAAATTTAATCAAAC
1 AATTTAATCAATTAGGCTCAATAACTTAATTAAAC
* * *
7281017 AATTTTAATCAATTATGCCCAATGACTTAATTAAAC
1 AA-TTTAATCAATTAGGCTCAATAACTTAATTAAAC
* ****
7281053 AAATTTAATCAATTAGGCTTAATAACTTAATTGTTT
1 -AATTTAATCAATTAGGCTCAATAACTTAATTAAAC
* * * ** *
7281089 AATTTAATTAATTAAGCCCAACGACTTAATTAAAT
1 AATTTAATCAATTAGGCTCAATAACTTAATTAAAC
* * * * *
7281124 AATTAAATTAATTAGGCCCAATGATTTAATTAAAC
1 AATTTAATCAATTAGGCTCAATAACTTAATTAAAC
* * * *
7281159 AATTTAATTAATTA-G-AC-ACAACTTAATTAAAT
1 AATTTAATCAATTAGGCTCAATAACTTAATTAAAC
7281191 AATTTTAATCAA
1 AA-TTTAATCAA
7281203 GTGCTTGAGA
Statistics
Matches: 177, Mismatches: 40, Indels: 10
0.78 0.18 0.04
Matches are distributed among these distances:
32 13 0.07
33 9 0.05
34 1 0.01
35 100 0.56
36 52 0.29
37 2 0.01
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.37
Consensus pattern (35 bp):
AATTTAATCAATTAGGCTCAATAACTTAATTAAAC
Found at i:7281067 original size:107 final size:105
Alignment explanation
Indices: 7280947--7281173 Score: 267
Period size: 107 Copynumber: 2.1 Consensus size: 105
7280937 TTAATTGTTT
* * *
7280947 AATTTAATCAATTAGG-TGCAATAACTTAATTAAACAATTTAATTAATTAGGCTCAAAAATTTAA
1 AATTTAATCAATTAGGCT-CAATAACTTAATTAAACAATTTAATTAATTAAGCCCAAAAACTTAA
* *
7281011 TCAAACAATTTTAATCAATTATGCCCAATGACTTAATTAAAC
65 TCAAACAA-TTAAATCAATTAGGCCCAATGACTTAATTAAAC
* **** **
7281053 AAATTTAATCAATTAGGCTTAATAACTTAATTGTTTAATTTAATTAATTAAGCCCAACGACTTAA
1 -AATTTAATCAATTAGGCTCAATAACTTAATTAAACAATTTAATTAATTAAGCCCAAAAACTTAA
* * * *
7281118 TTAAATAATTAAATTAATTAGGCCCAATGATTTAATTAAAC
65 TCAAACAATTAAATCAATTAGGCCCAATGACTTAATTAAAC
*
7281159 AATTTAATTAATTAG
1 AATTTAATCAATTAG
7281174 ACACAACTTA
Statistics
Matches: 102, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
105 14 0.14
106 29 0.28
107 58 0.57
108 1 0.01
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.37
Consensus pattern (105 bp):
AATTTAATCAATTAGGCTCAATAACTTAATTAAACAATTTAATTAATTAAGCCCAAAAACTTAAT
CAAACAATTAAATCAATTAGGCCCAATGACTTAATTAAAC
Found at i:7281184 original size:19 final size:17
Alignment explanation
Indices: 7281149--7281188 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 17
7281139 GCCCAATGAT
*
7281149 TTAATTAAACAATTTAA
1 TTAATTAAACAACTTAA
7281166 TTAATTAGACACAACTTAA
1 TTAATTA-A-ACAACTTAA
7281185 TTAA
1 TTAA
7281189 ATAATTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 1 0.05
19 12 0.60
ACGTcount: A:0.50, C:0.10, G:0.03, T:0.38
Consensus pattern (17 bp):
TTAATTAAACAACTTAA
Found at i:7312879 original size:22 final size:22
Alignment explanation
Indices: 7312806--7312871 Score: 80
Period size: 21 Copynumber: 3.0 Consensus size: 22
7312796 ACTTAATCAC
* *
7312806 TACGTAACTGATTTTTAGGCAT
1 TACGTGACTGGTTTTTAGGCAT
* * *
7312828 TACGTGATTGG-TTCTAGACAT
1 TACGTGACTGGTTTTTAGGCAT
7312849 TACGTGACTGGTTTTTAGGCAT
1 TACGTGACTGGTTTTTAGGCAT
7312871 T
1 T
7312872 GTGTGACTAA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
21 18 0.51
22 17 0.49
ACGTcount: A:0.23, C:0.14, G:0.23, T:0.41
Consensus pattern (22 bp):
TACGTGACTGGTTTTTAGGCAT
Found at i:7313014 original size:22 final size:22
Alignment explanation
Indices: 7312918--7313044 Score: 69
Period size: 22 Copynumber: 5.8 Consensus size: 22
7312908 ATGCTTTACT
* * **
7312918 AACTAGTCACGCAATGCCATATC
1 AACTAGTCACGCAAT-ACTTAAA
*
7312941 AACTAGTTACGCAATACTTAAA
1 AACTAGTCACGCAATACTTAAA
* * * *
7312963 ACCTAGTCACACAAT--GTCAA
1 AACTAGTCACGCAATACTTAAA
* *
7312983 TAGTCAGTCACGCAATACTTAAA
1 AACT-AGTCACGCAATACTTAAA
* * * *
7313006 AATTAGTCATGAAATGCTTAAA
1 AACTAGTCACGCAATACTTAAA
* *
7313028 AACTAGTTAAGCAATAC
1 AACTAGTCACGCAATAC
7313045 CCAAAGTTAA
Statistics
Matches: 75, Mismatches: 26, Indels: 7
0.69 0.24 0.06
Matches are distributed among these distances:
20 4 0.05
21 10 0.13
22 42 0.56
23 19 0.25
ACGTcount: A:0.42, C:0.21, G:0.12, T:0.25
Consensus pattern (22 bp):
AACTAGTCACGCAATACTTAAA
Found at i:7313062 original size:21 final size:21
Alignment explanation
Indices: 7313036--7313136 Score: 85
Period size: 21 Copynumber: 4.8 Consensus size: 21
7313026 AAAACTAGTT
*
7313036 AAGCAATACCCAAAGTTAATC
1 AAGCAATGCCCAAAGTTAATC
* * *
7313057 AAGCAATGTCCAAAGCTAGTC
1 AAGCAATGCCCAAAGTTAATC
* * **
7313078 ATGCAATGCCTAAAAACTAATC
1 AAGCAATGCC-CAAAGTTAATC
* *
7313100 AGGCAATACCCAAAGTTAATC
1 AAGCAATGCCCAAAGTTAATC
* *
7313121 ACGCAATGTCCAAAGT
1 AAGCAATGCCCAAAGT
7313137 CAGTTATGCA
Statistics
Matches: 62, Mismatches: 17, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
21 46 0.74
22 16 0.26
ACGTcount: A:0.43, C:0.24, G:0.14, T:0.20
Consensus pattern (21 bp):
AAGCAATGCCCAAAGTTAATC
Found at i:7313092 original size:64 final size:63
Alignment explanation
Indices: 7313009--7313177 Score: 239
Period size: 64 Copynumber: 2.7 Consensus size: 63
7312999 ACTTAAAAAT
* * *
7313009 TAGTCATGAAATGCTTAAAAACTAGTTAAGCAATACCCAAAGTTAATCAAGCAATGTCCAAAG
1 TAGTCATGCAATGCCTAAAAACTAGTCAAGCAATACCCAAAGTTAATCAAGCAATGTCCAAAG
* * *
7313072 CTAGTCATGCAATGCCTAAAAACTAATCAGGCAATACCCAAAGTTAATCACGCAATGTCCAAAG
1 -TAGTCATGCAATGCCTAAAAACTAGTCAAGCAATACCCAAAGTTAATCAAGCAATGTCCAAAG
* * *
7313136 TCAGTTATGCAATGTCTAAAAACTAGTCACGCAATACCCAAA
1 T-AGTCATGCAATGCCTAAAAACTAGTCAAGCAATACCCAAA
7313178 AACTATCAAA
Statistics
Matches: 94, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
63 1 0.01
64 93 0.99
ACGTcount: A:0.42, C:0.22, G:0.14, T:0.22
Consensus pattern (63 bp):
TAGTCATGCAATGCCTAAAAACTAGTCAAGCAATACCCAAAGTTAATCAAGCAATGTCCAAAG
Found at i:7313369 original size:50 final size:50
Alignment explanation
Indices: 7313304--7313407 Score: 129
Period size: 50 Copynumber: 2.1 Consensus size: 50
7313294 GTTCAAAGGT
* *
7313304 TTTTCTTCATATATCAAAAA-TCACTCTAAAATGCTCAAAACGCTTAAAGA
1 TTTTCTTCATATATCAAAAACT-ACTCCAAAATGCTCAAAACGCTTAAACA
* * * * *
7313354 TTTTCTTCGTGTATCAAAAACTATTCCAAAATGCTTAAAATGCTTAAACA
1 TTTTCTTCATATATCAAAAACTACTCCAAAATGCTCAAAACGCTTAAACA
7313404 TTTT
1 TTTT
7313408 TTTTCTCGTA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
50 45 0.98
51 1 0.02
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.37
Consensus pattern (50 bp):
TTTTCTTCATATATCAAAAACTACTCCAAAATGCTCAAAACGCTTAAACA
Found at i:7315070 original size:20 final size:20
Alignment explanation
Indices: 7315032--7315070 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
7315022 CAATGACAAC
*
7315032 ATTCACAATTGTTAGTATCG
1 ATTCACAATTGTTAATATCG
*
7315052 ATTCACAATTTTTAATATC
1 ATTCACAATTGTTAATATC
7315071 AAGTGTTTAT
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:0.33, C:0.15, G:0.08, T:0.44
Consensus pattern (20 bp):
ATTCACAATTGTTAATATCG
Found at i:7315797 original size:15 final size:15
Alignment explanation
Indices: 7315777--7315807 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7315767 GTACACTATG
7315777 TGCTATCACTACCCA
1 TGCTATCACTACCCA
*
7315792 TGCTATCACTATCCA
1 TGCTATCACTACCCA
7315807 T
1 T
7315808 CGCAAAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.35, G:0.06, T:0.32
Consensus pattern (15 bp):
TGCTATCACTACCCA
Found at i:7318180 original size:2 final size:2
Alignment explanation
Indices: 7318173--7318207 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
7318163 AGTCTGTGTC
*
7318173 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AA AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
7318208 ACCCAGTACC
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:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7323953 original size:22 final size:23
Alignment explanation
Indices: 7323911--7323962 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 23
7323901 CTTGTTTAAT
*
7323911 ACTA-TTATATACAAATGTAAAC
1 ACTATTTATATACAAATGTAAAA
7323933 ACTATTTATATA-ATAAT-TAAAA
1 ACTATTTATATACA-AATGTAAAA
*
7323955 ATTATTTA
1 ACTATTTA
7323963 AAATGATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
22 16 0.62
23 10 0.38
ACGTcount: A:0.50, C:0.08, G:0.02, T:0.40
Consensus pattern (23 bp):
ACTATTTATATACAAATGTAAAA
Found at i:7324482 original size:3 final size:3
Alignment explanation
Indices: 7324474--7324504 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
7324464 AATACTGTAG
7324474 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
7324505 AGTTGGTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Done.