Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 72 of 167
Found at i:22898091 original size:90 final size:90
Alignment explanation
Indices: 22897938--22898105 Score: 209
Period size: 90 Copynumber: 1.9 Consensus size: 90
22897928 GAACGCCAAA
* *
22897938 GCCATGTCACCGACATGGTCTAACATGAGTCTACATACCGATGCCATATCCCAGATATGGTCTTA
1 GCCATGTCACCGACATGGTCTAACATGAGCCTACATACCGATGCCATATCCCAAATATGGTCTTA
* *
22898003 TACGAAGTCTCATGTCGGTGCCGAT
66 CACGAAATCTCATGTCGGTGCCGAT
* * *
22898028 GCCATGTC-CCAGACATGGTCTTACAAT-AGACCT-CATATCGATGCCATGTCCCAAACT-TGGT
1 GCCATGTCACC-GACATGGTCTAAC-ATGAG-CCTACATACCGATGCCATATCCCAAA-TATGGT
22898089 CTTACACGAAATCTCAT
62 CTTACACGAAATCTCAT
22898106 ATCAACGCCA
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
89 2 0.03
90 60 0.90
91 5 0.07
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (90 bp):
GCCATGTCACCGACATGGTCTAACATGAGCCTACATACCGATGCCATATCCCAAATATGGTCTTA
CACGAAATCTCATGTCGGTGCCGAT
Found at i:22898105 original size:42 final size:42
Alignment explanation
Indices: 22898024--22898156 Score: 142
Period size: 42 Copynumber: 3.2 Consensus size: 42
22898014 ATGTCGGTGC
* * * *
22898024 CGATGCCATGTCCCAGACATGGTCTTACAATAGACCTCATAT
1 CGATGCCATGTCCCAGACTTGGTCTTACAAGAAATCTCATAT
* *
22898066 CGATGCCATGTCCCAAACTTGGTCTTACACGAAATCTCATAT
1 CGATGCCATGTCCCAGACTTGGTCTTACAAGAAATCTCATAT
* * * * * *
22898108 CAACGCCATATCCCAGA-TATGGTCTTACATGAAATCACATAC
1 CGATGCCATGTCCCAGACT-TGGTCTTACAAGAAATCTCATAT
22898150 CGATGCC
1 CGATGCC
22898157 GATTCCATAT
Statistics
Matches: 75, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
41 1 0.01
42 74 0.99
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (42 bp):
CGATGCCATGTCCCAGACTTGGTCTTACAAGAAATCTCATAT
Found at i:22905534 original size:42 final size:42
Alignment explanation
Indices: 22905455--22905537 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 42
22905445 GTCGGTGCCA
* *
22905455 ATGCCATGTCCCAGACATGGTCTTACACTGGACCTCATATCG
1 ATGCCATGTCCCAAACATGGTCTTACACTGAACCTCATATCG
*
22905497 ATGCCATGTCCCAAACATGGTCTTACAC-GAAATCTCATATC
1 ATGCCATGTCCCAAACATGGTCTTACACTG-AACCTCATATC
22905538 AACGCCATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
41 1 0.03
42 36 0.97
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.27
Consensus pattern (42 bp):
ATGCCATGTCCCAAACATGGTCTTACACTGAACCTCATATCG
Found at i:22905688 original size:49 final size:48
Alignment explanation
Indices: 22905571--22905710 Score: 167
Period size: 48 Copynumber: 2.9 Consensus size: 48
22905561 TTACTGAAAT
* * * * *
22905571 CACATA-CAGATGCCGATGCCATATCCCAGATATAGTCTTACACTGGCC
1 CACATATCA-ATGCCTATGCCATGTCCCAAACATGGTCTTACACTGGCC
*
22905619 CACATATCAATG-CTGATGCCATGTCCCAAACATGGTCTTACACTGGCT
1 CACATATCAATGCCT-ATGCCATGTCCCAAACATGGTCTTACACTGGCC
* *
22905667 CTCATTTCATATGCCTATGCCATGTCCCAAACATGGTCTTACAC
1 CACATATCA-ATGCCTATGCCATGTCCCAAACATGGTCTTACAC
22905711 ATGATCTCAT
Statistics
Matches: 80, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
47 1 0.01
48 44 0.55
49 33 0.41
50 2 0.03
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (48 bp):
CACATATCAATGCCTATGCCATGTCCCAAACATGGTCTTACACTGGCC
Found at i:22909541 original size:16 final size:15
Alignment explanation
Indices: 22909520--22909567 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
22909510 GATGGGAATA
22909520 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
22909536 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
22909551 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
22909567 A
1 A
22909568 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:22909550 original size:8 final size:8
Alignment explanation
Indices: 22909516--22909567 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
22909506 CAATGATGGG
*
22909516 AATAATAA
1 AATATTAA
22909524 AATATATAA
1 AATAT-TAA
22909533 AATA-TAA
1 AATATTAA
22909540 AATATTAA
1 AATATTAA
*
22909548 AATATCAA
1 AATATTAA
*
22909556 AATATTAG
1 AATATTAA
22909564 AATA
1 AATA
22909568 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:22909567 original size:24 final size:24
Alignment explanation
Indices: 22909515--22909571 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
22909505 ACAATGATGG
*
22909515 GAATAATAAAATATATAAAATATA
1 GAATAATAAAATATACAAAATATA
* *
22909539 AAATATTAAAATAT-CAAAATATTA
1 GAATAATAAAATATACAAAATA-TA
22909563 GAATAATAA
1 GAATAATAA
22909572 TAATTAATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.30
Consensus pattern (24 bp):
GAATAATAAAATATACAAAATATA
Found at i:22909785 original size:22 final size:24
Alignment explanation
Indices: 22909722--22909786 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 24
22909712 CGTGATAATA
*
22909722 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAG-G
*
22909747 TTAAAAATACATACATAATATA-G
1 TTAAAAATATATACATAATATAGG
*
22909770 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
22909787 GATAACATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 13 0.36
23 3 0.08
25 20 0.56
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (24 bp):
TTAAAAATATATACATAATATAGG
Found at i:22909841 original size:25 final size:25
Alignment explanation
Indices: 22909807--22909940 Score: 93
Period size: 25 Copynumber: 5.6 Consensus size: 25
22909797 AAAAAAATAT
22909807 ATATATAAATAATATAATATTAAAG
1 ATATATAAATAATATAATATTAAAG
* * * *
22909832 ATATATAAATAAAATAGTATAAAAT
1 ATATATAAATAATATAATATTAAAG
* * *
22909857 ATATATATACGTAATATAAAATTTAA-
1 ATATATA-A-ATAATATAATATTAAAG
** *
22909883 A-ATATACCTAATAT-AT-TAAAAG
1 ATATATAAATAATATAATATTAAAG
*
22909905 A-ATATATATAATATAATATT-AAG
1 ATATATAAATAATATAATATTAAAG
*
22909928 AAATAT-AATAATA
1 ATATATAAATAATA
22909941 ATAAAAAAAA
Statistics
Matches: 84, Mismatches: 19, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
21 3 0.04
22 13 0.15
23 18 0.21
24 5 0.06
25 33 0.39
26 2 0.02
27 10 0.12
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATATAAATAATATAATATTAAAG
Found at i:22909844 original size:14 final size:13
Alignment explanation
Indices: 22909796--22909854 Score: 50
Period size: 14 Copynumber: 4.3 Consensus size: 13
22909786 AGATAACATG
22909796 TAAA-AAAATATA
1 TAAATAAAATATA
*
22909808 TATAT-AAATAATA
1 TAAATAAAAT-ATA
22909821 TAATATTAAAGATATA
1 TAA-A-TAAA-ATATA
22909837 TAAATAAAATAGTA
1 TAAATAAAATA-TA
22909851 TAAA
1 TAAA
22909855 ATATATATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
12 7 0.18
13 8 0.21
14 11 0.29
15 2 0.05
16 8 0.21
17 2 0.05
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.32
Consensus pattern (13 bp):
TAAATAAAATATA
Found at i:22910470 original size:30 final size:30
Alignment explanation
Indices: 22910436--22910504 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
22910426 TGGAGAATGT
22910436 GTGGCTAGTGGAGTTGGAGGTGGAAAAAGA
1 GTGGCTAGTGGAGTTGGAGGTGGAAAAAGA
* *
22910466 GTGGCTAGTGGAGTTGGTGGTGGAAAAGGA
1 GTGGCTAGTGGAGTTGGAGGTGGAAAAAGA
22910496 GTGGCTAGT
1 GTGGCTAGT
22910505 TGAGAAAAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.25, C:0.04, G:0.48, T:0.23
Consensus pattern (30 bp):
GTGGCTAGTGGAGTTGGAGGTGGAAAAAGA
Found at i:22910532 original size:37 final size:37
Alignment explanation
Indices: 22910482--22910747 Score: 523
Period size: 37 Copynumber: 7.2 Consensus size: 37
22910472 AGTGGAGTTG
22910482 GTGGTGGAAAAGGAGTGGCTAGTTGAGAAAAGTTTAA
1 GTGGTGGAAAAGGAGTGGCTAGTTGAGAAAAGTTTAA
22910519 GTGGTGGAAAAGGAGTGGCTAGTTGAGAAAAGTTTAA
1 GTGGTGGAAAAGGAGTGGCTAGTTGAGAAAAGTTTAA
22910556 GTGGTGGAAAAGGAGTGGCTAGTTGAGAAAAGTTTAA
1 GTGGTGGAAAAGGAGTGGCTAGTTGAGAAAAGTTTAA
22910593 GTGGTGGAAAAGGAGTGGCTAGTTGAGAAAAGTTTAA
1 GTGGTGGAAAAGGAGTGGCTAGTTGAGAAAAGTTTAA
22910630 GTGGTGGAAAAGGAGTGGCTAGTTGAGAAAAGTTTAA
1 GTGGTGGAAAAGGAGTGGCTAGTTGAGAAAAGTTTAA
22910667 GTGGTGGAAAAGGAGTGGCTAGTTGAGAAAAGTTTAA
1 GTGGTGGAAAAGGAGTGGCTAGTTGAGAAAAGTTTAA
22910704 GTGGTGGAAAAGGAGTGGCTAGTTGAGAAAAGTTTAA
1 GTGGTGGAAAAGGAGTGGCTAGTTGAGAAAAGTTTAA
*
22910741 GTTGTGG
1 GTGGTGG
22910748 GCTAGGTTTT
Statistics
Matches: 228, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 228 1.00
ACGTcount: A:0.34, C:0.03, G:0.38, T:0.25
Consensus pattern (37 bp):
GTGGTGGAAAAGGAGTGGCTAGTTGAGAAAAGTTTAA
Found at i:22911372 original size:76 final size:75
Alignment explanation
Indices: 22911217--22911371 Score: 231
Period size: 76 Copynumber: 2.1 Consensus size: 75
22911207 NNNNNNNNNA
* * * * *
22911217 TTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTTTCGCAATA
1 TTTTTGAAAAACAGAAATTAAAAATACATCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATA
22911282 TGAGTTGATT
66 TGAGTTGATT
* *
22911292 TTTTTGAAAAATAGAAATTTAAAAATACATCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
1 TTTTTGAAAAACAGAAA-TTAAAAATACATCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAAT
22911357 ATGAGTT-ATT
65 ATGAGTTGATT
22911367 TTTTT
1 TTTTT
22911372 TTACGAACAA
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
75 23 0.32
76 49 0.68
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (75 bp):
TTTTTGAAAAACAGAAATTAAAAATACATCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATT
Found at i:22911386 original size:76 final size:76
Alignment explanation
Indices: 22911217--22911392 Score: 221
Period size: 76 Copynumber: 2.3 Consensus size: 76
22911207 NNNNNNNNNA
* * * * *
22911217 TTTTTGACAAACAGAAATTG-AAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTTTCGCAAT
1 TTTTTGAAAAACAAAAATTGAAAAATACATCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAAT
22911281 ATGAGTTGATT
66 ATGAGTTGATT
* * * *
22911292 TTTTTGAAAAATAGAAATTTAAAAATACATCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
1 TTTTTGAAAAACAAAAATTGAAAAATACATCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAAT
22911357 ATGAGTT-ATTT
66 ATGAGTTGA-TT
* **
22911368 TTTTTTACGAACAAAAATTGAAAAA
1 TTTTTGAAAAACAAAAATTGAAAAA
22911393 CAGAAATTGA
Statistics
Matches: 86, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
75 18 0.21
76 68 0.79
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.32
Consensus pattern (76 bp):
TTTTTGAAAAACAAAAATTGAAAAATACATCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAAT
ATGAGTTGATT
Found at i:22924118 original size:22 final size:22
Alignment explanation
Indices: 22924077--22924117 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
22924067 GGGACTAAAC
22924077 CAAAATCACAGAAATTTTTTCG
1 CAAAATCACAGAAATTTTTTCG
*
22924099 CAAAATCTCA-AAATTTTTT
1 CAAAATCACAGAAATTTTTT
22924118 TTAGGTACAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (22 bp):
CAAAATCACAGAAATTTTTTCG
Found at i:22927947 original size:3 final size:3
Alignment explanation
Indices: 22927939--22928253 Score: 218
Period size: 3 Copynumber: 106.3 Consensus size: 3
22927929 TTAGTTAATT
* *
22927939 TTA TTA TTA TT- TATA TTCA TTA TTA TTA TTC TTA TTA TTA TTA TGA
1 TTA TTA TTA TTA T-TA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * ** *
22927985 TTA -TA TT- TTC TTT TTA -TA CTTA TT- TGC TTA TTA TTA TTA -CA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
* *
22928026 TTA TTA -TA TCA TTA GTT- TTA -TA TTA TTA CTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * **
22928069 TCA TTA TTA CTA TTA TTT TTA TTT TTA TTT TTA TTA CCA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * ** *
22928117 TTA CTA TTA TTT TTA TTT TTA TTT TTA TTA CCA TTA TTA TTA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * * *
22928165 TTA TTT TTA TTT TTA CTA TTA CTA TTA CTC TCTA TTA TAA TAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
*
22928211 TTA TTA CCT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
22928254 CATTTCTCAT
Statistics
Matches: 237, Mismatches: 59, Indels: 32
0.72 0.18 0.10
Matches are distributed among these distances:
2 16 0.07
3 210 0.89
4 11 0.05
ACGTcount: A:0.29, C:0.07, G:0.01, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:22934574 original size:86 final size:86
Alignment explanation
Indices: 22934469--22934657 Score: 245
Period size: 86 Copynumber: 2.2 Consensus size: 86
22934459 GTATATCTTG
* * * * *
22934469 TCTCCCTAAACAGTAGTGGAGCAGATTGAAGATGGCAAATATTGTGTCCCTGA-GTAGTAGTGAA
1 TCTCCCTAAGCAGTAGTGGAGCAGACTGAAGATGGCAAATATTGTCTCCCT-ACGCAGTAGGGAA
22934533 GCAGATTTAAGCCACCATCCTA
65 GCAGATTTAAGCCACCATCCTA
* * * * * * *
22934555 TCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCCCTACGCAGTAGGGGAG
1 TCTCCCTAAGCAGTAGTGGAGCAGACTGAAGATGGCAAATATTGTCTCCCTACGCAGTAGGGAAG
*
22934620 TAGATTTAAGCCACCATCCTA
66 CAGATTTAAGCCACCATCCTA
22934641 TCTCCCTAAGCAGTAGT
1 TCTCCCTAAGCAGTAGT
22934658 AGAATAGGCT
Statistics
Matches: 89, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
85 1 0.01
86 88 0.99
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (86 bp):
TCTCCCTAAGCAGTAGTGGAGCAGACTGAAGATGGCAAATATTGTCTCCCTACGCAGTAGGGAAG
CAGATTTAAGCCACCATCCTA
Found at i:22934666 original size:86 final size:86
Alignment explanation
Indices: 22934535--22934692 Score: 289
Period size: 86 Copynumber: 1.8 Consensus size: 86
22934525 GTAGTGAAGC
* * *
22934535 AGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTGT
1 AGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTAGAATAGGCTGAAGAATGTAGATCTTGT
22934600 CTCCCTACGCAGTAGGGGAGT
66 CTCCCTACGCAGTAGGGGAGT
22934621 AGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTAGAATAGGCTGAAGAATGTAGATCTTGT
1 AGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTAGAATAGGCTGAAGAATGTAGATCTTGT
22934686 CTCCCTA
66 CTCCCTA
22934693 AATAGTAGTG
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
86 69 1.00
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (86 bp):
AGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTAGAATAGGCTGAAGAATGTAGATCTTGT
CTCCCTACGCAGTAGGGGAGT
Found at i:22934689 original size:130 final size:130
Alignment explanation
Indices: 22934555--22935756 Score: 1598
Period size: 130 Copynumber: 9.2 Consensus size: 130
22934545 CACCATCCTA
* * * * * * * *
22934555 TCTCCCTAAGCAGTAGTGGAGTAG-GCTGAAGATTGTAGATCTTGTCTCCCTACGCAGTAGGGGA
1 TCTCCCTAAGCAGTAGTGGAGCAGATC-GAAGATGGCAAATCTTGTCTCTCTAAGCAGTAGTGGA
* * * *
22934619 GTAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTAGAATAGGCTGAAGAATGTAGATCTT
65 GCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTT
22934684 G
130 G
** * * *
22934685 TCTCCCTAAATAGTAGTGGAGCAAATCGAAGATGGCAAATTTTGTCTCTCTAAGCAATAGTGGAG
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTGTCTCTCTAAGCAGTAGTGGAG
* *
22934750 TAGATTTAAGCCACCATCCTATCTCCAC-AAGCAGTAGTGGAGTAGGCTAAAGATTGTAGATCTT
66 CAGATTTAAGCCACCATCCTATCTCC-CTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTT
22934814 G
130 G
* * * * *
22934815 TCTCTCTAAGCAGTAATGGAGCAGATCAAAGATGGCGAATCTTGTCTGTCTAAGCAGTAGTGGAG
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTGTCTCTCTAAGCAGTAGTGGAG
* * *
22934880 CAGATTTAAGCCACCATCCTATCTCCCTAAGCAATAGTGAAGTAAGCTGAAGATTGTAGATCTTG
66 CAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTG
* * * * *
22934945 TCTCTCTAAGCAGTAGTAGAACAGATCGAAGATGGAAAATCTTGTCTCCCTAAGCAGTAGTGGAG
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTGTCTCTCTAAGCAGTAGTGGAG
* * *
22935010 CAGATTTAAGCCACCATCCTATCTCCCTAAGTAGTAGTGAAGTAGGTTGAAGATTGTAGATCTTG
66 CAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTG
* * * * * **
22935075 TCTCTCTAAGTAGTAGTGGAGCAAATCAAAAATACCAAATCTTGTCTCTCTAAGCAGTAGTGGAG
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTGTCTCTCTAAGCAGTAGTGGAG
* * * * * *
22935140 TAGATTTAAGCCACCATCCTATCTCCCTAAGTAGTAGTGAAGTAGGTTGAAGATTGGAGATCTGG
66 CAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTG
* * * * * * **
22935205 TCTCTCTGAGTAGTAGTGGAGCAAATCAAAAATACCAAATCTTGTCTCTCTAAGCAGTAGTGGAG
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTGTCTCTCTAAGCAGTAGTGGAG
* * * *
22935270 TAGATTTAAGCCACCATCCTATCTCCCTAAGTAGTAGTGGAGTAGGTTGAAGATTATAGATCTTG
66 CAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTG
* * * *
22935335 TCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGAAAATCTTGTCTCCCTAAGCAGCAGTGGAG
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTGTCTCTCTAAGCAGTAGTGGAG
* *
22935400 CAGATTTAAGCCACCATCCTATCTCCTTAAGCAGTAGTGGAGTAAGCTGAAGATTGTAGATCTTG
66 CAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTG
* ** * *
22935465 TCTTCCTAAATAGTAGTGGAGCAGACCGAAGATGACAAATCTTGTCTCTCTAAGCAGTAGTGGAG
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTGTCTCTCTAAGCAGTAGTGGAG
* * * *
22935530 CAGATTTAAGCCATCATCCTATCTCTCTAAGCAGTAGTGGAGCAGGCTAAAGATTGTAGATCTTG
66 CAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTG
* * * * *
22935595 TCTCCCTAAGCAATAGTAGAGCAGATAGAAGATGGAAAATCTTGTCTCCCTAAGCAGTAGTGGAG
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTGTCTCTCTAAGCAGTAGTGGAG
* *
22935660 CAGATTTAAGCCACCATCCTATCTCCCTAAGAAGTAGTAGAGTAGGCTGAAGATTGTAGATCTTG
66 CAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTG
* * * *
22935725 TCTCCCTAAGCAGCAATGGAGTAGATCAAAGA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA
22935757 CGGTGAATCT
Statistics
Matches: 951, Mismatches: 118, Indels: 6
0.88 0.11 0.01
Matches are distributed among these distances:
129 1 0.00
130 948 1.00
131 2 0.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (130 bp):
TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTGTCTCTCTAAGCAGTAGTGGAG
CAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTG
Found at i:22934793 original size:216 final size:216
Alignment explanation
Indices: 22934419--22934829 Score: 637
Period size: 216 Copynumber: 1.9 Consensus size: 216
22934409 AAATTCATAG
* * *
22934419 ATCCTATCTCCCTAAGCAGTAGTGGAGAAGGCTGAAGATTGTATATCTTGTCTCCCTAAACAGTA
1 ATCCTATCTCCCTAAGCAGTAGTAGAGAAGGCTGAAGAATGTAGATCTTGTCTCCCTAAACAGTA
* * * * * *
22934484 GTGGAGCAGATTGAAGATGGCAAATATTGTGTCCCTGAGTAGTAGTGAAGCAGATTTAAGCCACC
66 GTGGAGCAAATCGAAGATGGCAAATATTGTCTCCCTAAGCAATAGTGAAGCAGATTTAAGCCACC
* *
22934549 ATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCCCTACGCAGTA
131 ATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTAAAGATTGTAGATCTTGTCTCCCTAAGCAGTA
22934614 GGGGAGTAGATTTAAGCCACC
196 GGGGAGTAGATTTAAGCCACC
*
22934635 ATCCTATCTCCCTAAGCAGTAGTAGA-ATAGGCTGAAGAATGTAGATCTTGTCTCCCTAAATAGT
1 ATCCTATCTCCCTAAGCAGTAGTAGAGA-AGGCTGAAGAATGTAGATCTTGTCTCCCTAAACAGT
* * * *
22934699 AGTGGAGCAAATCGAAGATGGCAAATTTTGTCTCTCTAAGCAATAGTGGAGTAGATTTAAGCCAC
65 AGTGGAGCAAATCGAAGATGGCAAATATTGTCTCCCTAAGCAATAGTGAAGCAGATTTAAGCCAC
*
22934764 CATCCTATCTCCAC-AAGCAGTAGTGGAGTAGGCTAAAGATTGTAGATCTTGTCTCTCTAAGCAG
130 CATCCTATCTCC-CTAAGCAGTAGTGGAGTAGGCTAAAGATTGTAGATCTTGTCTCCCTAAGCAG
22934828 TA
194 TA
22934830 ATGGAGCAGA
Statistics
Matches: 176, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
215 1 0.01
216 174 0.99
217 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.27
Consensus pattern (216 bp):
ATCCTATCTCCCTAAGCAGTAGTAGAGAAGGCTGAAGAATGTAGATCTTGTCTCCCTAAACAGTA
GTGGAGCAAATCGAAGATGGCAAATATTGTCTCCCTAAGCAATAGTGAAGCAGATTTAAGCCACC
ATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTAAAGATTGTAGATCTTGTCTCCCTAAGCAGTA
GGGGAGTAGATTTAAGCCACC
Found at i:22935425 original size:86 final size:87
Alignment explanation
Indices: 22935335--22935737 Score: 298
Period size: 86 Copynumber: 4.7 Consensus size: 87
22935325 ATAGATCTTG
*
22935335 TCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGAAAATCTTGTCTCCCTAAGCAGCAGTGGAG
1 TCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGAAAATCTTGTCTCCCTAAGCAGTAGTGGAG
22935400 CAGATTTAAG-CCACCATCCTA
66 CAGATTTAAGACCACCATCCTA
* * * * * * **
22935421 TCTCCTTAAGCAGTAGTGGAGTA-AGCTGAAGATTGTAGATCTTGTCTTCCTAAATAGTAGTGGA
1 TCTCCCTAAGCAGTAGTGGAGTAGATC-GAAGATGGAAAATCTTGTCTCCCTAAGCAGTAGTGGA
*** ** * * *
22935485 GCAGACCGAAGATGACAAATCTTG
65 GCAGATTTAAGACCAC-CATCCTA
* * ** ** ** * * *
22935509 TCTCTCTAAGCAGTAGTGGAGCAGATTTAAG--CCATCATCCTATCTCTCTAAGCAGTAGTGGAG
1 TCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGAAAATCTTGTCTCCCTAAGCAGTAGTGGAG
** * ** * * *
22935572 CAGGCTAAAGATTGTA-GATCTTG
66 CAGATTTAAGA--CCACCATCCTA
* * * *
22935595 TCTCCCTAAGCAATAGTAGAGCAGATAGAAGATGGAAAATCTTGTCTCCCTAAGCAGTAGTGGAG
1 TCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGAAAATCTTGTCTCCCTAAGCAGTAGTGGAG
22935660 CAGATTTAAG-CCACCATCCTA
66 CAGATTTAAGACCACCATCCTA
* * * * * *
22935681 TCTCCCTAAGAAGTAGTAGAGTAG-GCTGAAGATTGTAGATCTTGTCTCCCTAAGCAG
1 TCTCCCTAAGCAGTAGTGGAGTAGATC-GAAGATGGAAAATCTTGTCTCCCTAAGCAG
22935738 CAATGGAGTA
Statistics
Matches: 239, Mismatches: 68, Indels: 20
0.73 0.21 0.06
Matches are distributed among these distances:
85 3 0.01
86 173 0.72
87 2 0.01
88 60 0.25
89 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.26
Consensus pattern (87 bp):
TCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGAAAATCTTGTCTCCCTAAGCAGTAGTGGAG
CAGATTTAAGACCACCATCCTA
Found at i:22935857 original size:44 final size:44
Alignment explanation
Indices: 22935809--22936054 Score: 167
Period size: 44 Copynumber: 5.5 Consensus size: 44
22935799 AGCCACTATC
* *
22935809 CTTATCTCCCTGAGGTAGCAAGGGAGCAGGTTGAAGATTGTAGT
1 CTTATCTTCCTGAGGTAGCAAGGGAGCAGATTGAAGATTGTAGT
* *
22935853 CTTATCTTCCTGAAGTAGCAAGGGAGCAGACTGATA-ATTGTAGAT
1 CTTATCTTCCTGAGGTAGCAAGGGAGCAGATTGA-AGATTGTAG-T
* * * * ** *
22935898 CTTGTC-TCCTCGAGATAGC-AGTGGGGTAGATTGAA-AGCGGTGAAT
1 CTTATCTTCCT-GAGGTAGCAAG-GGAGCAGATTGAAGA-TTGT-AGT
* * * ** **** *
22935943 CGTATCTTCCTGAGGTAGCAGGGGAGTAGATTTTAGCCACTAGC
1 CTTATCTTCCTGAGGTAGCAAGGGAGCAGATTGAAGATTGTAGT
* * * **
22935987 CTTATCTCCCTGAGGTAGTAAGGGAGAAGGCTGAAGATTGTAGT
1 CTTATCTTCCTGAGGTAGCAAGGGAGCAGATTGAAGATTGTAGT
*
22936031 CTTATCTTCCTGAGGTAACAAGGG
1 CTTATCTTCCTGAGGTAGCAAGGG
22936055 TGTAGACTGA
Statistics
Matches: 151, Mismatches: 42, Indels: 18
0.72 0.20 0.09
Matches are distributed among these distances:
44 97 0.64
45 48 0.32
46 6 0.04
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.28
Consensus pattern (44 bp):
CTTATCTTCCTGAGGTAGCAAGGGAGCAGATTGAAGATTGTAGT
Found at i:22935961 original size:178 final size:178
Alignment explanation
Indices: 22935712--22936176 Score: 580
Period size: 178 Copynumber: 2.6 Consensus size: 178
22935702 TAGGCTGAAG
* * * *
22935712 ATTGTAGATCTTGTCTCC-CTA-AGCAGCAATGGAGTAGA-TCAAAGACGGTGAATCTTATC-TC
1 ATTGTAGATCTTGTCTCCTCGAGA-TAGCAATGGGGTAGATTAAAAG-CGGTGAATCTTATCTTC
* * * *
22935773 TTTGAGGTAGCAAGGGAGAAGATTTTAGCCACTATCCTTATCTCCCTGAGGTAGCAAGGGAGCAG
64 -CTGAGGTAGCAGGGGAGAAGATTTTAGCCACTAACCTTATCTCCCTGAGGTAGCAAGGGAGAAG
* *
22935838 GTTGAAGATTGTAGTCTTATCTTCCTGAAGTAGCAAGGGAGCAGACTGATA
128 GCTGAAGATTGTAGTCTTATCTTCCTGAAGTAACAAGGGAGCAGACTGATA
* * *
22935889 ATTGTAGATCTTGTCTCCTCGAGATAGCAGTGGGGTAGATTGAAAGCGGTGAATCGTATCTTCCT
1 ATTGTAGATCTTGTCTCCTCGAGATAGCAATGGGGTAGATTAAAAGCGGTGAATCTTATCTTCCT
* * *
22935954 GAGGTAGCAGGGGAGTAGATTTTAGCCACTAGCCTTATCTCCCTGAGGTAGTAAGGGAGAAGGCT
66 GAGGTAGCAGGGGAGAAGATTTTAGCCACTAACCTTATCTCCCTGAGGTAGCAAGGGAGAAGGCT
* * * *
22936019 GAAGATTGTAGTCTTATCTTCCTGAGGTAACAAGGGTGTAGACTGATG
131 GAAGATTGTAGTCTTATCTTCCTGAAGTAACAAGGGAGCAGACTGATA
* * * * * * *
22936067 ATT-CAAATTTTGTCTCCTCGAGATAGCAATGGGGCAGATCAAAAGCGATGAATCTTATCTTTCT
1 ATTGTAGATCTTGTCTCCTCGAGATAGCAATGGGGTAGATTAAAAGCGGTGAATCTTATCTTCCT
* * * * *
22936131 AAGGTAGTAGGGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGA
66 GAGGTAGCAGGGGAGAAGATTTTAGCCACTAACCTTATCTCCCTGA
22936177 AGTTACAGTG
Statistics
Matches: 250, Mismatches: 34, Indels: 8
0.86 0.12 0.03
Matches are distributed among these distances:
177 109 0.44
178 133 0.53
179 8 0.03
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (178 bp):
ATTGTAGATCTTGTCTCCTCGAGATAGCAATGGGGTAGATTAAAAGCGGTGAATCTTATCTTCCT
GAGGTAGCAGGGGAGAAGATTTTAGCCACTAACCTTATCTCCCTGAGGTAGCAAGGGAGAAGGCT
GAAGATTGTAGTCTTATCTTCCTGAAGTAACAAGGGAGCAGACTGATA
Found at i:22936356 original size:44 final size:44
Alignment explanation
Indices: 22936293--22936406 Score: 140
Period size: 44 Copynumber: 2.6 Consensus size: 44
22936283 AAATTACAAG
22936293 TCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAAGA-TACCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAACAGA-TAAAGACTACCAA
* * ** *
22936337 TCTTATCTCCCTGAAGTTGCAGCGAAACAGATTGAGACTACTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAACAGATAAAGACTACCAA
* * *
22936381 ACTTATCTCCTTGAAGTTGCAATGGA
1 TCTTATCTCCCTGAAGTTGCAGTGGA
22936407 GCGGATTAAA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 4 0.07
44 55 0.93
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAACAGATAAAGACTACCAA
Found at i:22936548 original size:44 final size:43
Alignment explanation
Indices: 22936471--22936554 Score: 114
Period size: 44 Copynumber: 1.9 Consensus size: 43
22936461 TCTACCTTGG
* *** *
22936471 AAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAACC
1 AAAATCTTATCTCCCTGAAGTTGCAGCAAAGCAGACTGAAACC
22936514 AAAAGTCTTATCTCCCTGAAGTTGCAGCAAAGCAGACTGAA
1 AAAA-TCTTATCTCCCTGAAGTTGCAGCAAAGCAGACTGAA
22936555 GACAGCTAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
43 4 0.11
44 31 0.89
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (43 bp):
AAAATCTTATCTCCCTGAAGTTGCAGCAAAGCAGACTGAAACC
Found at i:22936707 original size:183 final size:182
Alignment explanation
Indices: 22936337--22936695 Score: 393
Period size: 183 Copynumber: 2.0 Consensus size: 182
22936327 AAGATACCAA
* * * *
22936337 TCTTATCTCCCTGAAGTTGCAGCGAAACAGATTGAGACTACTAAACTTATCTCCTTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGCGAAACAGACTGAGACTACTAAACCTATCTCCTTAAAATTGCA
* ** * * *
22936402 ATGGAGCGGATTAAAGCGACAAGTCCTATACCTCTGAATTTGTTGTAGGTCGGACCAAATCTACC
66 ATGGAGCGGATTAAAGCGACAAGTCCTATACCTCTGAAGTTGCAGTAGGTCAGACCAAACCTACA
**** * * ** * *
22936467 TTGGAAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAACCAAAAG
131 AACCAAAATCTCACCTCCTTGAAGTTGCAGCAGAGAAGATTAAAACCAAAAG
*
22936519 TCTTATCTCCCTGAAGTTGCAGC-AAAGCAGACTGAAGAC-AGCTAATCCTATCTCCTTAAAATT
1 TCTTATCTCCCTGAAGTTGCAGCGAAA-CAGACTG-AGACTA-CTAAACCTATCTCCTTAAAATT
* * * **
22936582 GCAGTGGAGCGGATTAAAGCTACAAGTCCTATACCTTTGAAGTTGCAGTAGGTCAGATTAAACCT
63 GCAATGGAGCGGATTAAAGCGACAAGTCCTATACCTCTGAAGTTGCAGTAGGTCAGACCAAACCT
* *
22936647 A-AAACCACAAATCTCACCTCAC-TGAATTTGTAGCAGAGAAGATTAAAAC
128 ACAAACCA-AAATCTCACCTC-CTTGAAGTTGCAGCAGAGAAGATTAAAAC
22936696 TTCAAGTCTT
Statistics
Matches: 144, Mismatches: 28, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
181 3 0.02
182 31 0.22
183 109 0.76
184 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (182 bp):
TCTTATCTCCCTGAAGTTGCAGCGAAACAGACTGAGACTACTAAACCTATCTCCTTAAAATTGCA
ATGGAGCGGATTAAAGCGACAAGTCCTATACCTCTGAAGTTGCAGTAGGTCAGACCAAACCTACA
AACCAAAATCTCACCTCCTTGAAGTTGCAGCAGAGAAGATTAAAACCAAAAG
Found at i:22937014 original size:26 final size:25
Alignment explanation
Indices: 22936954--22937017 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 25
22936944 CCCAATTCAG
22936954 CCTAGCCCAACAATTGAAACCCAAAC
1 CCTAGCCCAA-AATTGAAACCCAAAC
* *
22936980 CCGAGGCCCAAAATT-AAACCTAACTAC
1 CCTA-GCCCAAAATTGAAACCCAA--AC
22937007 CCTAGCCCAAA
1 CCTAGCCCAAA
22937018 TGGCTCAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
25 7 0.22
26 14 0.44
27 11 0.34
ACGTcount: A:0.41, C:0.38, G:0.09, T:0.12
Consensus pattern (25 bp):
CCTAGCCCAAAATTGAAACCCAAAC
Found at i:22938111 original size:3 final size:3
Alignment explanation
Indices: 22938080--22938384 Score: 229
Period size: 3 Copynumber: 103.7 Consensus size: 3
22938070 AGTTAATTTC
* * *
22938080 ATT ATT TTT ACT ATT ATT -TAT ATT CATT ATT ATT ATT ATT CTT ATT
1 ATT ATT ATT ATT ATT ATT AT-T ATT -ATT ATT ATT ATT ATT ATT ATT
* * ** * * * * *
22938126 CTT ATT ATT ACT ACA AAT ATT ATT ATG ATT A-T ATT -TT CTT TTT A-A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
22938171 ACTT ATT -TG CTT ATT ATT ATT A-C ATT ATT A-T ATC ATT AATT -TT
1 A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT
* *
22938214 A-T ATT ATT ACT ATT ATT ATT ATT ATC ATT ATT A-T ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
22938260 -TT ATT ATT ATT ATT ATT ACT ATT ATT ATT ATT ATT ACT ATT ACT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
22938307 ATT CTCT ATT ATA ATA ATT ATT ATT ACCT -TT ATT ATT ATT ATT ATT
1 ATT AT-T ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT
* *
22938353 ATT ATT ATT ATT ATT ATT ACT AGT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
22938385 CATTTCTCAT
Statistics
Matches: 239, Mismatches: 45, Indels: 36
0.75 0.14 0.11
Matches are distributed among these distances:
2 19 0.08
3 209 0.87
4 11 0.05
ACGTcount: A:0.32, C:0.07, G:0.01, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:22942744 original size:24 final size:24
Alignment explanation
Indices: 22942711--22942757 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
22942701 GTGCGAAATC
*
22942711 AAGATGGCTTCAGCTATATATATT
1 AAGATAGCTTCAGCTATATATATT
*
22942735 AAGATAGCTTCGGCTATATATAT
1 AAGATAGCTTCAGCTATATATAT
22942758 GTATATTGGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (24 bp):
AAGATAGCTTCAGCTATATATATT
Found at i:22943024 original size:5 final size:5
Alignment explanation
Indices: 22943014--22943041 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
22943004 CATTATGAGA
22943014 TATGT TATGT TATGT TATGT TATGT TAT
1 TATGT TATGT TATGT TATGT TATGT TAT
22943042 ATTTTTGGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.18, T:0.61
Consensus pattern (5 bp):
TATGT
Found at i:22953947 original size:27 final size:27
Alignment explanation
Indices: 22953917--22954094 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
22953907 ATATTGAGTC
* * * *
22953917 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
22953944 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
22953971 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
22953999 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
22954026 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
22954053 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
22954080 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
22954095 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:22954056 original size:82 final size:81
Alignment explanation
Indices: 22953938--22954093 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
22953928 TGCTATATAA
* *
22953938 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
22954003 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
22954020 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
22954084 CACTTAGTGC
65 CACTTAGTGC
22954094 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:22957450 original size:10 final size:10
Alignment explanation
Indices: 22957432--22957474 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
22957422 AAATCTGTAA
22957432 TAATTAAAAT
1 TAATTAAAAT
*
22957442 TAATCAAAATT
1 TAATTAAAA-T
*
22957453 TGATATAAAAT
1 TAAT-TAAAAT
22957464 TAATTAAAAT
1 TAATTAAAAT
22957474 T
1 T
22957475 CAACATGTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
10 15 0.56
11 8 0.30
12 4 0.15
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (10 bp):
TAATTAAAAT
Found at i:22963132 original size:38 final size:38
Alignment explanation
Indices: 22963081--22963226 Score: 143
Period size: 38 Copynumber: 3.9 Consensus size: 38
22963071 ATATAAGGTA
* * * *
22963081 TTATCGGGCTATATGCCTAGTAGGCCTTCATGCTGGTG
1 TTATCAGGCTATATGCCTAGCAAGCCTTCGTGCTGGTG
* *
22963119 TTATCAGGCTATATGCCTAACAAGCCTTTGTG-TCGGTG
1 TTATCAGGCTATATGCCTAGCAAGCCTTCGTGCT-GGTG
* * * **
22963157 TTATCAAGCTATGTGCCTAGCAACCCTTCGTGCCAGTG
1 TTATCAGGCTATATGCCTAGCAAGCCTTCGTGCTGGTG
* * *
22963195 TTATCGGGCTATGTGCCTAGCATG-CTTCGTGC
1 TTATCAGGCTATATGCCTAGCAAGCCTTCGTGC
22963227 CATTGTTTAA
Statistics
Matches: 89, Mismatches: 17, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
37 9 0.10
38 80 0.90
ACGTcount: A:0.18, C:0.24, G:0.25, T:0.33
Consensus pattern (38 bp):
TTATCAGGCTATATGCCTAGCAAGCCTTCGTGCTGGTG
Found at i:22967052 original size:43 final size:42
Alignment explanation
Indices: 22966932--22967090 Score: 182
Period size: 43 Copynumber: 3.7 Consensus size: 42
22966922 AGCTCGTACA
* *
22966932 ATGCCAACATCCCAGAAGTGGTCTTACATGCAATCAAATATCG
1 ATGCCAACATCCCAGACGTGGTCTTACATGAAATCAAATA-CG
* * *
22966975 ATGCC-ACTGTCCCAAACAG-GGTCTTACACGAAATCAAATACG
1 ATGCCAAC-ATCCCAGAC-GTGGTCTTACATGAAATCAAATACG
*
22967017 ATGCCAACATCCTAGACGTGGTCTTACATGTAAATCATAAGT-CG
1 ATGCCAACATCCCAGACGTGGTCTTACATG-AAATCA-AA-TACG
22967061 ATGCCAACATCCCAGACGTGGT-TTACATGA
1 ATGCCAACATCCCAGACGTGGTCTTACATGA
22967091 TAACACATAT
Statistics
Matches: 99, Mismatches: 10, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
41 1 0.01
42 26 0.26
43 45 0.45
44 26 0.26
45 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (42 bp):
ATGCCAACATCCCAGACGTGGTCTTACATGAAATCAAATACG
Found at i:22974623 original size:42 final size:43
Alignment explanation
Indices: 22974555--22974677 Score: 130
Period size: 43 Copynumber: 2.9 Consensus size: 43
22974545 TTCAGACGTG
* *
22974555 GTCTTACATGTAATCAAATATCGATGCC-ACTGTCCCAGATAGA
1 GTCTTACACGAAATCAAATATCGATGCCAAC-GTCCCAGATAGA
22974598 GTCTTACACGAAATCAAATAT-GATGCCAACGTCCCAGACGT-G-
1 GTCTTACACGAAATCAAATATCGATGCCAACGTCCCAGA--TAGA
* *
22974640 GTCTTACACAAAAATCATAA-GTCGATGCCAACGTCCCA
1 GTCTTACAC-GAAATCA-AATATCGATGCCAACGTCCCA
22974678 AACGTGGTCT
Statistics
Matches: 70, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
42 23 0.33
43 29 0.41
44 18 0.26
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (43 bp):
GTCTTACACGAAATCAAATATCGATGCCAACGTCCCAGATAGA
Found at i:22978320 original size:35 final size:35
Alignment explanation
Indices: 22978255--22978321 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 35
22978245 TCTAAACTTA
* ****
22978255 TTTTAAAATTTTTATTTTTTAATTTTTTAAATAAT
1 TTTTAAAATTTTTATTTTATAAAAGATTAAATAAT
22978290 TTTTAAAATTTTTATTTTATAAAAGATTAAAT
1 TTTTAAAATTTTTATTTTATAAAAGATTAAAT
22978322 TATGACATCA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 27 1.00
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (35 bp):
TTTTAAAATTTTTATTTTATAAAAGATTAAATAAT
Found at i:22987677 original size:22 final size:25
Alignment explanation
Indices: 22987652--22987704 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 25
22987642 AAATCATACA
*
22987652 ATATTAATT-TT-AAAT-TATATTT
1 ATATTAATTCTTAAAATATATATTC
22987674 ATATT-ATTCTTAAAATATATATTC
1 ATATTAATTCTTAAAATATATATTC
22987698 ATATTAA
1 ATATTAA
22987705 ATAATAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 3 0.12
22 7 0.27
23 4 0.15
24 11 0.42
25 1 0.04
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (25 bp):
ATATTAATTCTTAAAATATATATTC
Found at i:22987976 original size:11 final size:11
Alignment explanation
Indices: 22987960--22987985 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
22987950 TAATAAAGGT
22987960 AAAAAAAAAGA
1 AAAAAAAAAGA
22987971 AAAAAAAAAGA
1 AAAAAAAAAGA
22987982 AAAA
1 AAAA
22987986 GAAGCTATTG
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:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:22992500 original size:29 final size:27
Alignment explanation
Indices: 22992448--22992501 Score: 72
Period size: 29 Copynumber: 1.9 Consensus size: 27
22992438 ATAGCCATGA
* *
22992448 AGACTTCCTTTACAGAGATTGCCACAT
1 AGACTTCCTTTACAAAGATCGCCACAT
22992475 AGACTTTCCTTTGACAAAGATCGCCAC
1 AGAC-TTCCTTT-ACAAAGATCGCCAC
22992502 GAAGGCATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 4 0.17
28 7 0.30
29 12 0.52
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
AGACTTCCTTTACAAAGATCGCCACAT
Found at i:22993522 original size:27 final size:27
Alignment explanation
Indices: 22993470--22993549 Score: 106
Period size: 27 Copynumber: 2.9 Consensus size: 27
22993460 GTGACAGAGT
*
22993470 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGGGC
* *
22993499 CACCATAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGGGC
22993526 CACCAGAACAGATAATTTGTGGCA
1 CACCAGAACAGAT-ATTTGTGGCA
22993550 TAGCCACTAG
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
27 23 0.51
28 16 0.36
29 6 0.13
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.23
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGGGC
Found at i:22993708 original size:28 final size:28
Alignment explanation
Indices: 22993665--22993729 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
22993655 AAATTAACCC
22993665 TAGGGGTATAACGGTAATTTTGCATACA
1 TAGGGGTATAACGGTAATTTTGCATACA
*
22993693 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAACGGTAATTTTGCATACA
*
22993721 TAAGGGTAT
1 TAGGGGTAT
22993730 TCTAGTACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.32, C:0.08, G:0.26, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAACGGTAATTTTGCATACA
Found at i:23001106 original size:28 final size:28
Alignment explanation
Indices: 23001059--23001123 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
23001049 AAATTAACCC
*
23001059 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
23001087 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
23001115 TAGGGGTAT
1 TAGGGGTAT
23001124 TCTAGTACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:23003948 original size:42 final size:40
Alignment explanation
Indices: 23003868--23003953 Score: 102
Period size: 42 Copynumber: 2.1 Consensus size: 40
23003858 CTATAACATT
* *
23003868 TACACCATCAAAACTTACTAAGCCCAAGGCTTGATACAAA
1 TACACCATCAAAACTTACTAAGCCCAAGACCTGATACAAA
* *
23003908 TACACCAGTTCAAAGCTTGCTAAGCCCAAGACCT-ATTACAAA
1 TACACCA--TCAAAACTTACTAAGCCCAAGACCTGA-TACAAA
23003950 TACA
1 TACA
23003954 TCTACCCAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
40 7 0.18
41 1 0.03
42 31 0.79
ACGTcount: A:0.41, C:0.28, G:0.10, T:0.21
Consensus pattern (40 bp):
TACACCATCAAAACTTACTAAGCCCAAGACCTGATACAAA
Found at i:23006796 original size:6 final size:6
Alignment explanation
Indices: 23006785--23006971 Score: 181
Period size: 6 Copynumber: 30.8 Consensus size: 6
23006775 AACCAAAATG
*
23006785 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
23006833 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
23006882 AGAATC AGTAA-C AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
* *
23006930 AGAATC AGAATC AGAATT ACGTGA-C AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAAT
23006972 GTGAATGCAA
Statistics
Matches: 151, Mismatches: 14, Indels: 32
0.77 0.07 0.16
Matches are distributed among these distances:
5 11 0.07
6 127 0.84
7 10 0.07
8 3 0.02
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:23006800 original size:30 final size:30
Alignment explanation
Indices: 23006785--23006971 Score: 262
Period size: 30 Copynumber: 6.4 Consensus size: 30
23006775 AACCAAAATG
*
23006785 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
23006815 AGAATCAGAATCA-ATATTAGTAACAGAATC
1 AGAATCAGAATCAGA-ATTAGTAACAGAATC
23006845 AGAATCAGAATCAGAATTAGGT----G-A-C
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
*
23006870 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
23006900 AGAATCAGAATCAGTATTAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
23006930 AGAATCAGAATCAGAATTACGTGACAGAATC
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
23006961 AGAATCAGAAT
1 AGAATCAGAAT
23006972 GTGAATGCAA
Statistics
Matches: 141, Mismatches: 6, Indels: 19
0.85 0.04 0.11
Matches are distributed among these distances:
24 2 0.01
25 19 0.13
26 1 0.01
27 1 0.01
28 1 0.01
29 2 0.01
30 91 0.65
31 24 0.17
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (30 bp):
AGAATCAGAATCAGAATTAGTAACAGAATC
Found at i:23006885 original size:85 final size:85
Alignment explanation
Indices: 23006785--23006971 Score: 356
Period size: 85 Copynumber: 2.2 Consensus size: 85
23006775 AACCAAAATG
23006785 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
*
23006850 CAGAATCAGAATTAGGTGAC
66 CAGAATCAGAATTACGTGAC
*
23006870 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
23006935 CAGAATCAGAATTACGTGAC
66 CAGAATCAGAATTACGTGAC
23006955 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
23006972 GTGAATGCAA
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 100 1.00
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (85 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
CAGAATCAGAATTACGTGAC
Found at i:23007126 original size:27 final size:26
Alignment explanation
Indices: 23007089--23007154 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
23007079 AGCATGGCTG
*
23007089 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
23007115 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
23007142 CCAGAATCAGATA
1 CCAGAA-CAGATA
23007155 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:23007159 original size:27 final size:27
Alignment explanation
Indices: 23007089--23007162 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
23007079 AGCATGGCTG
* *
23007089 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
23007115 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
23007142 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
23007163 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:23007169 original size:27 final size:27
Alignment explanation
Indices: 23007113--23007170 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
23007103 GTGACAGAGT
* * *
23007113 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
23007140 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
23007167 CACC
1 CACC
23007171 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:23007375 original size:22 final size:22
Alignment explanation
Indices: 23007327--23007385 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
23007317 GTAAATACGT
*
23007327 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
23007349 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
23007371 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
23007386 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:23007552 original size:27 final size:26
Alignment explanation
Indices: 23007473--23007555 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
23007463 TCGATCGGTC
* * *
23007473 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
23007499 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
23007526 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
23007553 AAC
1 AAC
23007556 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:23007784 original size:27 final size:27
Alignment explanation
Indices: 23007754--23007949 Score: 257
Period size: 27 Copynumber: 7.3 Consensus size: 27
23007744 GGGGCAAAAT
* * * *
23007754 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
23007781 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
23007808 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
23007835 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
23007862 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
23007889 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
23007916 GGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
23007943 AGTAATT
1 GGTAATT
23007950 TCACAATCAA
Statistics
Matches: 146, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 146 1.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:23008488 original size:27 final size:27
Alignment explanation
Indices: 23007954--23008471 Score: 661
Period size: 27 Copynumber: 19.2 Consensus size: 27
23007944 GTAATTTCAC
*
23007954 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
23007981 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
23008008 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
23008035 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
23008062 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
**
23008089 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
23008116 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
23008143 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
23008170 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
23008197 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
23008224 AATCGAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
23008251 AATCGAGGGTAAAACAGTAATCCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
23008278 AA-CTAAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
** *
23008305 AATCGAGGGTAAAATAGTAATTCTAT-
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
23008331 AACCTGAGGGTAAAACGATAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
23008359 AATCGAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
23008386 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
23008413 AA-CTAAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
23008440 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
23008467 AATCG
1 AATCG
23008472 GGAGTACTTT
Statistics
Matches: 420, Mismatches: 59, Indels: 24
0.83 0.12 0.05
Matches are distributed among these distances:
26 8 0.02
27 404 0.96
28 8 0.02
ACGTcount: A:0.40, C:0.11, G:0.22, T:0.26
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:23018409 original size:40 final size:40
Alignment explanation
Indices: 23018365--23018524 Score: 257
Period size: 40 Copynumber: 4.0 Consensus size: 40
23018355 CTGAATATAA
*
23018365 TACCAGCACTAAGCCTGCGGGATTTAACCCGGATATACAT
1 TACCAGCACGAAGCCTGCGGGATTTAACCCGGATATACAT
*
23018405 TACCAGCACGAAGCCTGCGGAATTTAACCCGGATATACAT
1 TACCAGCACGAAGCCTGCGGGATTTAACCCGGATATACAT
* *
23018445 TACCAGCACGAAGCCTGCGGGATTTGACCCAGATATACAT
1 TACCAGCACGAAGCCTGCGGGATTTAACCCGGATATACAT
* * *
23018485 TACCAGCACGAAGCCTGTGGGATTTGACCCGAATATACAT
1 TACCAGCACGAAGCCTGCGGGATTTAACCCGGATATACAT
23018525 AATATATCGA
Statistics
Matches: 112, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 112 1.00
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (40 bp):
TACCAGCACGAAGCCTGCGGGATTTAACCCGGATATACAT
Found at i:23018450 original size:80 final size:80
Alignment explanation
Indices: 23018342--23018524 Score: 262
Period size: 80 Copynumber: 2.3 Consensus size: 80
23018332 TCAAAGTCTA
* * *
23018342 CGGAACTTTAAGCCTGAATATA-A-TACCAGCACTAAGCCTGCGGGATTTAACCCGGATATACAT
1 CGGAA-TTTAA-CCCGAATATACATTACCAGCACGAAGCCTGCGGGATTTAACCCAGATATACAT
23018405 TACCAGCACGAAGCCTG
64 TACCAGCACGAAGCCTG
* *
23018422 CGGAATTTAACCCGGATATACATTACCAGCACGAAGCCTGCGGGATTTGACCCAGATATACATTA
1 CGGAATTTAACCCGAATATACATTACCAGCACGAAGCCTGCGGGATTTAACCCAGATATACATTA
23018487 CCAGCACGAAGCCTG
66 CCAGCACGAAGCCTG
* * *
23018502 TGGGATTTGACCCGAATATACAT
1 CGGAATTTAACCCGAATATACAT
23018525 AATATATCGA
Statistics
Matches: 92, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
78 8 0.09
79 6 0.07
80 78 0.85
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.22
Consensus pattern (80 bp):
CGGAATTTAACCCGAATATACATTACCAGCACGAAGCCTGCGGGATTTAACCCAGATATACATTA
CCAGCACGAAGCCTG
Found at i:23024926 original size:19 final size:19
Alignment explanation
Indices: 23024902--23024939 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
23024892 ATAAGCTAGA
23024902 GGCTTACATTATTGACACT
1 GGCTTACATTATTGACACT
23024921 GGCTTACATTATTGACACT
1 GGCTTACATTATTGACACT
23024940 AGGAATAGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (19 bp):
GGCTTACATTATTGACACT
Found at i:23039071 original size:230 final size:229
Alignment explanation
Indices: 23038667--23039095 Score: 686
Period size: 230 Copynumber: 1.9 Consensus size: 229
23038657 AATATTTCAT
*
23038667 GGGTTTAGACTCGATTTTTAAAAAAAAATAACTTCCTCCATCTCAAACTTATTTTTTTTAAAAGA
1 GGGTTTAGACTCGA-TTTTAAAAAAAAATAACTTCCCCCATCTCAAACTTATTTTTTTTAAAAGA
* *
23038732 AATTCAACTCTATCAAATCGAATCGAATGAAAACCAATCTATTTCATTTTTTTTATCATATCTCT
65 AATCCAACTCTATCAAATCGAATCAAATGAAAACCAATCTATTTCATTTTTTTTATCATA-CTCT
* *
23038797 ATCAATAATTACTATTATAAATAAATTGAGTTTGACTCTACTCCATT-ATTTGTTGGTCCATTAA
129 ATCAATAATTACTATTACAAATAAATTGAGTTTGACTCTACTCCATTAATTT-TTCGTCCATTAA
23038861 CTAATTAGATTTTGTAAATATTTCAAACGGGTAGAAC
193 CTAATTAGATTTTGTAAATATTTCAAACGGGTAGAAC
*
23038898 GGGTTTAGACTTGA-TTTAAAAAAAAATAACTTCCCCCATCTCAAACTTAATTTTTTTTAAAAGA
1 GGGTTTAGACTCGATTTTAAAAAAAAATAACTTCCCCCATCTCAAACTT-ATTTTTTTTAAAAGA
23038962 AATCCAACTCTATCAAATCCG-ATCAAATGAAAACCAATCTATTTCAAATTTTTTTTATCATA-T
65 AATCCAACTCTATCAAAT-CGAATCAAATGAAAACCAATCTATTTC--ATTTTTTTTATCATACT
** *
23039025 CTATCGGTAATTACTATTACAAATAAATTGAGTTTGATTCTACTCCATTAATTTTTCGTCCATTA
127 CTATCAATAATTACTATTACAAATAAATTGAGTTTGACTCTACTCCATTAATTTTTCGTCCATTA
23039090 ACTAAT
192 ACTAAT
23039096 GCATTTTTAA
Statistics
Matches: 184, Mismatches: 9, Indels: 11
0.90 0.04 0.05
Matches are distributed among these distances:
229 33 0.18
230 117 0.64
231 19 0.10
232 15 0.08
ACGTcount: A:0.36, C:0.17, G:0.08, T:0.39
Consensus pattern (229 bp):
GGGTTTAGACTCGATTTTAAAAAAAAATAACTTCCCCCATCTCAAACTTATTTTTTTTAAAAGAA
ATCCAACTCTATCAAATCGAATCAAATGAAAACCAATCTATTTCATTTTTTTTATCATACTCTAT
CAATAATTACTATTACAAATAAATTGAGTTTGACTCTACTCCATTAATTTTTCGTCCATTAACTA
ATTAGATTTTGTAAATATTTCAAACGGGTAGAAC
Found at i:23040702 original size:3 final size:3
Alignment explanation
Indices: 23040679--23040841 Score: 100
Period size: 3 Copynumber: 53.3 Consensus size: 3
23040669 GGGGAGAGTG
* * *
23040679 TTA TTT TTA ATA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * **
23040726 TTA CTG TTA CTA TTA CTA TTA TTA TATA TATA TTTA TTA CCA TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA T-TA -TTA TTA TTA TTA -TTA
** ** * *
23040775 TTTA TTTA TTA TTA TTA GAA ACA -TA TTG TTA TTT TTA TTA TT- TTA
1 -TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
23040820 TTA TTA TTA TT- TTAA TTA TTA T
1 TTA TTA TTA TTA TT-A TTA TTA T
23040842 CATGGTAATA
Statistics
Matches: 125, Mismatches: 27, Indels: 16
0.74 0.16 0.10
Matches are distributed among these distances:
2 7 0.06
3 96 0.77
4 21 0.17
5 1 0.01
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:23040894 original size:12 final size:12
Alignment explanation
Indices: 23040877--23040902 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
23040867 AAAATAGGGC
23040877 TTTAGCGGCGTT
1 TTTAGCGGCGTT
23040889 TTTAGCGGCGTT
1 TTTAGCGGCGTT
23040901 TT
1 TT
23040903 ATAAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:23040988 original size:41 final size:41
Alignment explanation
Indices: 23040943--23041041 Score: 164
Period size: 40 Copynumber: 2.4 Consensus size: 41
23040933 CAGAGCAATA
23040943 GTAAAACGCCGCTAAAAGACAAAGCAGTAGCGGCGCTTTTG
1 GTAAAACGCCGCTAAAAGACAAAGCAGTAGCGGCGCTTTTG
* * *
23040984 GTAAAACGTCGCT-AAAGACAGAGCATTAGCGGCGCTTTTG
1 GTAAAACGCCGCTAAAAGACAAAGCAGTAGCGGCGCTTTTG
23041024 GTAAAACGCCGCTAAAAG
1 GTAAAACGCCGCTAAAAG
23041042 TCATATAACT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
40 37 0.70
41 16 0.30
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.18
Consensus pattern (41 bp):
GTAAAACGCCGCTAAAAGACAAAGCAGTAGCGGCGCTTTTG
Found at i:23041388 original size:118 final size:118
Alignment explanation
Indices: 23041180--23041422 Score: 468
Period size: 118 Copynumber: 2.1 Consensus size: 118
23041170 GCAATAGGTG
*
23041180 CATTTTTAGCGGCGCTTGGTTATAAACGCCGCTAATGTTAAATTGTTTTGTTCAAAACTTCGTCG
1 CATTTTTAGCGGCGCTTGGTTATAAACGCCGCTAATGTTAAATTATTTTGTTCAAAACTTCGTCG
23041245 TTTATCTGTCTTATATATTTTTTACCCACACCTGATACACTTAACATTTTATC
66 TTTATCTGTCTTATATATTTTTTACCCACACCTGATACACTTAACATTTTATC
23041298 CATTTTTAGCGGCGCTTGGTTATAAACGCCGCTAATGTTAAATTATTTTGTTCAAAACTTCGTCG
1 CATTTTTAGCGGCGCTTGGTTATAAACGCCGCTAATGTTAAATTATTTTGTTCAAAACTTCGTCG
*
23041363 TTTATCTGTCTTATATATTTTTTACCCACACCTGATACACTTAACATTTTCTC
66 TTTATCTGTCTTATATATTTTTTACCCACACCTGATACACTTAACATTTTATC
23041416 CATTTTT
1 CATTTTT
23041423 CCCTAGTTCT
Statistics
Matches: 123, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
118 123 1.00
ACGTcount: A:0.24, C:0.21, G:0.12, T:0.43
Consensus pattern (118 bp):
CATTTTTAGCGGCGCTTGGTTATAAACGCCGCTAATGTTAAATTATTTTGTTCAAAACTTCGTCG
TTTATCTGTCTTATATATTTTTTACCCACACCTGATACACTTAACATTTTATC
Found at i:23041801 original size:24 final size:24
Alignment explanation
Indices: 23041774--23041822 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
23041764 CGTATATTTA
*
23041774 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTCTATATAAAAATTAAT
23041798 TTAAAAGTCTATATAAAAATTAAT
1 TTAAAAGTCTATATAAAAATTAAT
23041822 T
1 T
23041823 GTTATTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (24 bp):
TTAAAAGTCTATATAAAAATTAAT
Found at i:23042139 original size:15 final size:14
Alignment explanation
Indices: 23042108--23042146 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
23042098 ATTTTAAGGT
*
23042108 TTATGGATTATGAA
1 TTATGGTTTATGAA
*
23042122 TTATGGGTTTATGGA
1 TTAT-GGTTTATGAA
23042137 TTATGGTTTA
1 TTATGGTTTA
23042147 CAGTTTATGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (14 bp):
TTATGGTTTATGAA
Found at i:23042159 original size:7 final size:7
Alignment explanation
Indices: 23042100--23042160 Score: 50
Period size: 7 Copynumber: 8.6 Consensus size: 7
23042090 GAGTTACTAT
*
23042100 TTTAAGG
1 TTTATGG
23042107 TTTATGG
1 TTTATGG
* *
23042114 ATTATGA
1 TTTATGG
*
23042121 ATTATGGG
1 TTTAT-GG
23042129 TTTATGG
1 TTTATGG
*
23042136 ATTATGG
1 TTTATGG
**
23042143 TTTACAG
1 TTTATGG
23042150 TTTATGG
1 TTTATGG
23042157 TTTA
1 TTTA
23042161 AGGGTTGGGG
Statistics
Matches: 42, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
7 37 0.88
8 5 0.12
ACGTcount: A:0.25, C:0.02, G:0.25, T:0.49
Consensus pattern (7 bp):
TTTATGG
Found at i:23042173 original size:21 final size:21
Alignment explanation
Indices: 23042151--23042231 Score: 58
Period size: 21 Copynumber: 3.8 Consensus size: 21
23042141 GGTTTACAGT
23042151 TTATGGTTTAAGGGTT-GGGG
1 TTATGGTTTAAGGGTTAGGGG
* *
23042171 TTTAAGG-TTCAGGTGTTAGGGG
1 -TTATGGTTTAAGG-GTTAGGGG
* * * **
23042193 TTAGGGGTTATGGGTTCTGGG
1 TTATGGTTTAAGGGTTAGGGG
23042214 TTATGGATTTAAGGGTTA
1 TTATGG-TTTAAGGGTTA
23042232 TGTTGTATGA
Statistics
Matches: 45, Mismatches: 11, Indels: 7
0.71 0.17 0.11
Matches are distributed among these distances:
20 5 0.11
21 24 0.53
22 16 0.36
ACGTcount: A:0.17, C:0.02, G:0.41, T:0.40
Consensus pattern (21 bp):
TTATGGTTTAAGGGTTAGGGG
Found at i:23042393 original size:14 final size:14
Alignment explanation
Indices: 23042374--23042440 Score: 89
Period size: 14 Copynumber: 4.7 Consensus size: 14
23042364 GTTTGCAGGT
*
23042374 AAAATGTTTTCTGG
1 AAAATGATTTCTGG
*
23042388 AAAATGATTTATGG
1 AAAATGATTTCTGG
* *
23042402 AAAATAATTTCTTGA
1 AAAATGATTTC-TGG
23042417 AAAATGATTTCTGG
1 AAAATGATTTCTGG
23042431 AAAATGATTT
1 AAAATGATTT
23042441 ACTTTTCTGG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
14 33 0.73
15 12 0.27
ACGTcount: A:0.40, C:0.04, G:0.16, T:0.39
Consensus pattern (14 bp):
AAAATGATTTCTGG
Found at i:23043002 original size:22 final size:21
Alignment explanation
Indices: 23042959--23043003 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
23042949 AATTTAATCT
*
23042959 AATTATTTTAAATATTACTTA
1 AATTATTTTAAAAATTACTTA
* *
23042980 AATTTTTTTAAAAAATTATTTA
1 AATTATTTT-AAAAATTACTTA
23043002 AA
1 AA
23043004 AGTAATATGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
AATTATTTTAAAAATTACTTA
Found at i:23043199 original size:10 final size:9
Alignment explanation
Indices: 23043175--23043202 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
23043165 AAAATTTGAA
23043175 AGAAAAAAT
1 AGAAAAAAT
23043184 AGAAAAAAT
1 AGAAAAAAT
23043193 AGAAAAAAT
1 AGAAAAAAT
23043202 A
1 A
23043203 TGTTAGAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.79, C:0.00, G:0.11, T:0.11
Consensus pattern (9 bp):
AGAAAAAAT
Found at i:23046033 original size:15 final size:16
Alignment explanation
Indices: 23046013--23046043 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
23046003 GTTTTTATCT
23046013 TATATATGAT-TAAAA
1 TATATATGATCTAAAA
23046028 TATATATGATCTAAAA
1 TATATATGATCTAAAA
23046044 GCAAGAAACA
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:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (16 bp):
TATATATGATCTAAAA
Found at i:23047380 original size:22 final size:23
Alignment explanation
Indices: 23047338--23047380 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
23047328 TTTCAAAAAT
*
23047338 TAAACATAATATAATATTTAACA
1 TAAAAATAATATAATATTTAACA
*
23047361 TAAAAATAA-ATATTATTTAA
1 TAAAAATAATATAATATTTAA
23047381 TTAAATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (23 bp):
TAAAAATAATATAATATTTAACA
Found at i:23047473 original size:43 final size:43
Alignment explanation
Indices: 23047407--23047591 Score: 219
Period size: 43 Copynumber: 4.3 Consensus size: 43
23047397 TTTTGTAAGA
* * * *
23047407 TTATTATTTTTAGCGGCGTTTGTGAGAAAAGTGTCGCTAAAGG
1 TTATGATTTTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGG
* *
23047450 TTATGATTTTTAGCAGCGTTTGTGAAAAAAGTGCCGCTAAAGG
1 TTATGATTTTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGG
* * * *
23047493 TTATGGTCTTTAGTGGTGTTTGTGAAAAAAGCGCCGCTAAAGG
1 TTATGATTTTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGG
* * * *
23047536 TCATGGTTTTTAGCGGCGTTTGCG-AAAACGCGCCGCTAAAGG
1 TTATGATTTTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGG
* *
23047578 TCATGATCTTTAGC
1 TTATGATTTTTAGC
23047592 TATTTTTTCG
Statistics
Matches: 124, Mismatches: 18, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
42 29 0.23
43 95 0.77
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.33
Consensus pattern (43 bp):
TTATGATTTTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGG
Found at i:23049277 original size:3 final size:3
Alignment explanation
Indices: 23049271--23049315 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
23049261 CTCCTCCTCC
23049271 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
23049316 CTTTGCATAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:23050846 original size:6 final size:6
Alignment explanation
Indices: 23050835--23050872 Score: 67
Period size: 6 Copynumber: 6.2 Consensus size: 6
23050825 AATAAAAGGG
23050835 GCAAGT GCAAGT GCAAGT GCAAGT GCAAGT GCCAAGT G
1 GCAAGT GCAAGT GCAAGT GCAAGT GCAAGT G-CAAGT G
23050873 GGAGCTAGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.32, C:0.18, G:0.34, T:0.16
Consensus pattern (6 bp):
GCAAGT
Found at i:23051222 original size:27 final size:27
Alignment explanation
Indices: 23051184--23051240 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
23051174 GCAAAGATTA
23051184 ATTATGTTGGTAGATTACGGCTACTTC
1 ATTATGTTGGTAGATTACGGCTACTTC
23051211 ATTATGTTGGTAGATTACGGCTACTTC
1 ATTATGTTGGTAGATTACGGCTACTTC
23051238 ATT
1 ATT
23051241 GTTGTTGTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.23, C:0.14, G:0.21, T:0.42
Consensus pattern (27 bp):
ATTATGTTGGTAGATTACGGCTACTTC
Found at i:23054641 original size:19 final size:19
Alignment explanation
Indices: 23054619--23054679 Score: 65
Period size: 19 Copynumber: 3.2 Consensus size: 19
23054609 TAAACAATAA
23054619 ATATATGATAATAATTAAC
1 ATATATGATAATAATTAAC
*
23054638 ATATTATG-TATTAATCT-AC
1 ATA-TATGATAATAAT-TAAC
23054657 -TATAATGATAATAATTAAC
1 ATAT-ATGATAATAATTAAC
23054676 ATAT
1 ATAT
23054680 TATGTATTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 11
0.72 0.04 0.23
Matches are distributed among these distances:
17 1 0.03
18 6 0.18
19 19 0.56
20 8 0.24
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.41
Consensus pattern (19 bp):
ATATATGATAATAATTAAC
Found at i:23054674 original size:38 final size:38
Alignment explanation
Indices: 23054623--23054700 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
23054613 CAATAAATAT
23054623 ATGATAATAATTAACATATTATGTATTAATCTACTATA
1 ATGATAATAATTAACATATTATGTATTAATCTACTATA
23054661 ATGATAATAATTAACATATTATGTATTAATCTACTATA
1 ATGATAATAATTAACATATTATGTATTAATCTACTATA
23054699 AT
1 AT
23054701 AGTATGTGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (38 bp):
ATGATAATAATTAACATATTATGTATTAATCTACTATA
Found at i:23054690 original size:19 final size:19
Alignment explanation
Indices: 23054630--23054690 Score: 72
Period size: 19 Copynumber: 3.2 Consensus size: 19
23054620 TATATGATAA
23054630 TAATTAACATATTATGTAT
1 TAATTAACATATTATGTAT
* *
23054649 TAATCT-AC-TATAATGATAA
1 TAAT-TAACATATTATG-TAT
23054668 TAATTAACATATTATGTAT
1 TAATTAACATATTATGTAT
23054687 TAAT
1 TAAT
23054691 CTACTATAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
18 7 0.21
19 20 0.59
20 7 0.21
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (19 bp):
TAATTAACATATTATGTAT
Found at i:23054705 original size:19 final size:19
Alignment explanation
Indices: 23054645--23054705 Score: 56
Period size: 19 Copynumber: 3.2 Consensus size: 19
23054635 AACATATTAT
23054645 GTATTAATCTACTATAAT-
1 GTATTAATCTACTATAATA
* *
23054663 GATAATAAT-TAAC-ATATTA
1 G-TATTAATCT-ACTATAATA
23054682 TGTATTAATCTACTATAATA
1 -GTATTAATCTACTATAATA
23054702 GTAT
1 GTAT
23054706 GTGATATAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 11
0.69 0.08 0.23
Matches are distributed among these distances:
18 6 0.18
19 20 0.61
20 7 0.21
ACGTcount: A:0.43, C:0.08, G:0.07, T:0.43
Consensus pattern (19 bp):
GTATTAATCTACTATAATA
Found at i:23057400 original size:56 final size:57
Alignment explanation
Indices: 23057339--23057450 Score: 156
Period size: 56 Copynumber: 2.0 Consensus size: 57
23057329 TTTTCAGGTC
*
23057339 ATTTTCATTTTGGAGAAAACCACATTCATTTCC-AATGATTCC-ATTTCTCTATTTTA
1 ATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTCCTATTTCTC-ATTTTA
* * * *
23057395 ATTTTCGTTTTTGAGAAAACCATAATCATTTCCAAATGTTTCCTATTTCTCATTTT
1 ATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTCCTATTTCTCATTTT
23057451 TCACCATTTC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
56 29 0.59
57 13 0.27
58 7 0.14
ACGTcount: A:0.28, C:0.19, G:0.07, T:0.46
Consensus pattern (57 bp):
ATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTCCTATTTCTCATTTTA
Found at i:23064605 original size:16 final size:16
Alignment explanation
Indices: 23064592--23064625 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
23064582 CCTTAAATCT
23064592 AACAAAATACAAATAG
1 AACAAAATACAAATAG
23064608 AACAAAATA-ATAATAG
1 AACAAAATACA-AATAG
23064624 AA
1 AA
23064626 TGCACACTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 1 0.06
16 16 0.94
ACGTcount: A:0.71, C:0.09, G:0.06, T:0.15
Consensus pattern (16 bp):
AACAAAATACAAATAG
Found at i:23067715 original size:25 final size:25
Alignment explanation
Indices: 23067681--23067751 Score: 69
Period size: 25 Copynumber: 3.0 Consensus size: 25
23067671 AAACTTACAA
*
23067681 GGAGAAGCAGCAGAGGGCTACCGAC
1 GGAGATGCAGCAGAGGGCTACCGAC
* *
23067706 GGAGATGCAGCA-ATGGGTTGCCGAC
1 GGAGATGCAGCAGA-GGGCTACCGAC
*
23067731 GAAGAT---GCAGAGGGCTACCGA
1 GGAGATGCAGCAGAGGGCTACCGA
23067752 TTTGGGGAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
22 11 0.29
23 1 0.03
24 1 0.03
25 25 0.66
ACGTcount: A:0.30, C:0.21, G:0.39, T:0.10
Consensus pattern (25 bp):
GGAGATGCAGCAGAGGGCTACCGAC
Found at i:23078496 original size:33 final size:33
Alignment explanation
Indices: 23078449--23078511 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
23078439 AATCCTGTTT
*
23078449 TCCGGCCGATTTGATGCTTTTACCGTTTGACGA
1 TCCGGCCGACTTGATGCTTTTACCGTTTGACGA
* *
23078482 TCCGGCGGACTTGATGCTTTTGCCGTTTGA
1 TCCGGCCGACTTGATGCTTTTACCGTTTGA
23078512 TGAATTTGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.13, C:0.24, G:0.27, T:0.37
Consensus pattern (33 bp):
TCCGGCCGACTTGATGCTTTTACCGTTTGACGA
Found at i:23083364 original size:28 final size:28
Alignment explanation
Indices: 23083307--23083571 Score: 480
Period size: 28 Copynumber: 9.5 Consensus size: 28
23083297 TAAATTGTGC
*
23083307 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
23083334 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
23083362 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
23083390 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
23083418 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
23083446 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
23083474 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
23083502 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* *
23083530 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
23083557 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
23083572 GACTTAATAT
Statistics
Matches: 233, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
27 38 0.16
28 195 0.84
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:23096832 original size:80 final size:80
Alignment explanation
Indices: 23096699--23096851 Score: 297
Period size: 80 Copynumber: 1.9 Consensus size: 80
23096689 TAAATAGGAC
*
23096699 TTATGTGAGAAAATTTAGAAATGTGCTAGGCAAATGTGAAGTGGCTTATTAATGCATGTTATGAA
1 TTATGTGAGAAAATTTAGAAATGTGCTAGGCAAATGTGAAGTGGCATATTAATGCATGTTATGAA
23096764 AATGATGGAAACATG
66 AATGATGGAAACATG
23096779 TTATGTGAGAAAATTTAGAAATGTGCTAGGCAAATGTGAAGTGGCATATTAATGCATGTTATGAA
1 TTATGTGAGAAAATTTAGAAATGTGCTAGGCAAATGTGAAGTGGCATATTAATGCATGTTATGAA
23096844 AATGATGG
66 AATGATGG
23096852 GTTTGCATGT
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 72 1.00
ACGTcount: A:0.37, C:0.06, G:0.25, T:0.31
Consensus pattern (80 bp):
TTATGTGAGAAAATTTAGAAATGTGCTAGGCAAATGTGAAGTGGCATATTAATGCATGTTATGAA
AATGATGGAAACATG
Found at i:23098459 original size:27 final size:28
Alignment explanation
Indices: 23098375--23098472 Score: 162
Period size: 28 Copynumber: 3.5 Consensus size: 28
23098365 TAAATTGTAC
*
23098375 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
*
23098403 AGCACTAAGTGTACGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
23098431 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
*
23098458 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
23098473 GACTTAATAT
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
27 24 0.36
28 42 0.64
ACGTcount: A:0.28, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:23098483 original size:27 final size:27
Alignment explanation
Indices: 23098375--23098485 Score: 107
Period size: 28 Copynumber: 4.0 Consensus size: 27
23098365 TAAATTGTAC
* * *
23098375 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* * *
23098403 AGCACTAAGTGTACGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
23098431 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
23098458 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
23098485 A
1 A
23098486 CTTTTGAATC
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 30 0.40
28 45 0.60
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:23103289 original size:7 final size:7
Alignment explanation
Indices: 23103279--23103305 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
23103269 ATAAATCAAA
23103279 AATAAAG
1 AATAAAG
23103286 AATAAAG
1 AATAAAG
23103293 AATAAAG
1 AATAAAG
23103300 AATAAA
1 AATAAA
23103306 TTATTAATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.15
Consensus pattern (7 bp):
AATAAAG
Found at i:23106052 original size:40 final size:40
Alignment explanation
Indices: 23105980--23106162 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 40
23105970 GCTACTCGTT
*
23105980 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
23106020 CAAATGCCTTCGGGACTTAACCTGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
23106060 CCAATGCCTTCGGG-CTTAGCCCAGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
23106099 CAAATGCCTTC-GGATCTTAGTCCAGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
23106140 CAAAT-CCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
23106163 AACATCATTC
Statistics
Matches: 121, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 31 0.26
40 74 0.61
41 14 0.12
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:23106149 original size:79 final size:80
Alignment explanation
Indices: 23105980--23106161 Score: 203
Period size: 79 Copynumber: 2.3 Consensus size: 80
23105970 GCTACTCGTT
* ** *
23105980 CAAATGCCTTCGGGACATAGCCC-GGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCTG
1 CAAATGCCTTCGGGACTTAGCCCAGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCTA
* *
23106044 GATTTAGTAACTCGCA
65 GATATAGTAACTAGCA
* *
23106060 CCAATGCCTTCGGG-CTTAGCCCAGAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCC-
1 CAAATGCCTTCGGGACTTAGCCCAGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTA-ACCT
* *
23106122 AGATATGGTCACTTAGCA
64 AGATATAGTAAC-TAGCA
23106140 CAAAT-CCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
23106162 GAACATCATT
Statistics
Matches: 86, Mismatches: 11, Indels: 10
0.80 0.10 0.09
Matches are distributed among these distances:
78 3 0.03
79 50 0.58
80 33 0.38
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCAGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCTAG
ATATAGTAACTAGCA
Found at i:23107452 original size:24 final size:24
Alignment explanation
Indices: 23107408--23107453 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
23107398 AGGATGGACA
*
23107408 CATTTTTTTTTCTTTTGTTTTCAT
1 CATTTTTTTCTCTTTTGTTTTCAT
23107432 CATTTTCTTTCTCTTTT-TTTTC
1 CATTTT-TTTCTCTTTTGTTTTC
23107454 CATTTCTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.07, C:0.17, G:0.02, T:0.74
Consensus pattern (24 bp):
CATTTTTTTCTCTTTTGTTTTCAT
Found at i:23112380 original size:27 final size:27
Alignment explanation
Indices: 23112347--23112826 Score: 852
Period size: 27 Copynumber: 17.6 Consensus size: 27
23112337 TAAATTGTGC
*
23112347 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
23112374 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
23112401 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
23112428 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
23112455 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
23112482 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
23112509 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
23112537 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
23112564 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
23112591 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
23112619 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
23112647 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
23112675 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
23112703 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
23112730 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
23112757 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
23112785 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
23112812 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
23112827 GACTTAATAT
Statistics
Matches: 444, Mismatches: 6, Indels: 6
0.97 0.01 0.01
Matches are distributed among these distances:
27 281 0.63
28 163 0.37
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:23112587 original size:82 final size:82
Alignment explanation
Indices: 23112347--23112826 Score: 874
Period size: 82 Copynumber: 5.9 Consensus size: 82
23112337 TAAATTGTGC
*
23112347 AGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
23112411 GTGCGAGTTGACTATGT
66 GTGCGAGTTGACTATGT
23112428 AGCACTAAGTGTGCGAG-TTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
23112492 GTGCGAGTTGACTATGT
66 GTGCGAGTTGACTATGT
*
23112509 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
23112574 GTGCGAGTTGACTATGT
66 GTGCGAGTTGACTATGT
23112591 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAG
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAG-TTGACTATGTAGCACTAAG
23112656 TGTGCGAGTTTGACTATGT
65 TGTGCGAG-TTGACTATGT
23112675 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
23112740 GTGCGAGTTGACTATGT
66 GTGCGAGTTGACTATGT
* * * *
23112757 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
23112822 GTGCG
66 GTGCG
23112827 GACTTAATAT
Statistics
Matches: 389, Mismatches: 6, Indels: 7
0.97 0.01 0.02
Matches are distributed among these distances:
81 97 0.25
82 183 0.47
83 54 0.14
84 55 0.14
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
GTGCGAGTTGACTATGT
Found at i:23118871 original size:62 final size:62
Alignment explanation
Indices: 23118795--23118919 Score: 250
Period size: 62 Copynumber: 2.0 Consensus size: 62
23118785 GTTCTTAGTG
23118795 ATGCCGTTTGGGCTCACTAATGCCCCTGCGGTATTTATGGATTTGATGAATCGGATCTTCAA
1 ATGCCGTTTGGGCTCACTAATGCCCCTGCGGTATTTATGGATTTGATGAATCGGATCTTCAA
23118857 ATGCCGTTTGGGCTCACTAATGCCCCTGCGGTATTTATGGATTTGATGAATCGGATCTTCAA
1 ATGCCGTTTGGGCTCACTAATGCCCCTGCGGTATTTATGGATTTGATGAATCGGATCTTCAA
23118919 A
1 A
23118920 CCATATTTGG
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.34
Consensus pattern (62 bp):
ATGCCGTTTGGGCTCACTAATGCCCCTGCGGTATTTATGGATTTGATGAATCGGATCTTCAA
Found at i:23122785 original size:28 final size:27
Alignment explanation
Indices: 23122728--23122879 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
23122718 TAAATTGTGC
*
23122728 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
23122755 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
23122783 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
23122810 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
23122838 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
23122865 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
23122880 GACTTAATAT
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:23122792 original size:55 final size:55
Alignment explanation
Indices: 23122728--23122879 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
23122718 TAAATTGTGC
*
23122728 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
23122783 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
23122838 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
23122880 GACTTAATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:23126703 original size:24 final size:24
Alignment explanation
Indices: 23126676--23126723 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
23126666 GGTTGAGTTA
23126676 GGAACTCGTAACCTTGAAGCTATC
1 GGAACTCGTAACCTTGAAGCTATC
23126700 GGAACTCGTAACCTTGAAGCTATC
1 GGAACTCGTAACCTTGAAGCTATC
23126724 TTTGAAGTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (24 bp):
GGAACTCGTAACCTTGAAGCTATC
Found at i:23133502 original size:48 final size:49
Alignment explanation
Indices: 23133448--23133625 Score: 150
Period size: 48 Copynumber: 3.7 Consensus size: 49
23133438 CAAGATGTGT
* * * *
23133448 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCACGTA-T-AGAGGTGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGACACGGAGTGAGA-GAGC
* * * *
23133496 CAGTGTAAGACTATATCTGGGACATGGTATCGACACGGAGGTGTGAGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGACACGGA-GTGAGAGAGC
* * ** * *
23133546 AAGTGTAAGACCATGTCTGGGACATGGCATTG--ACTTAATG-GATAAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGACACGGAGTGAGA-GAGC
* *
23133593 CAGTGTAAGATCATGTTTGGGACATGGCATCGA
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGA
23133626 TAGTCAGTGT
Statistics
Matches: 104, Mismatches: 21, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
46 2 0.02
47 33 0.32
48 36 0.35
50 31 0.30
51 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.24
Consensus pattern (49 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGACACGGAGTGAGAGAGC
Found at i:23135799 original size:16 final size:16
Alignment explanation
Indices: 23135778--23135809 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
23135768 AAAGGAAGAT
23135778 TTAGCTCATTGCCTAA
1 TTAGCTCATTGCCTAA
*
23135794 TTAGCTTATTGCCTAA
1 TTAGCTCATTGCCTAA
23135810 GGGCAAATTC
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:0.25, C:0.22, G:0.12, T:0.41
Consensus pattern (16 bp):
TTAGCTCATTGCCTAA
Found at i:23137383 original size:40 final size:40
Alignment explanation
Indices: 23137339--23137533 Score: 220
Period size: 40 Copynumber: 4.9 Consensus size: 40
23137329 GGACATAGAT
* * *
23137339 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* *
23137379 ACTCGCACAATTGCCTTCGGGACTTAGCCTGGATT-TAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTATAGTA
23137419 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTATAGTA
* * *
23137459 ACTCGCACAACTG-CTGTCGGGACTT-GCCCGG-AACTAGTC
1 ACTCGCACAAATGCCT-TCGGGACTTAGCCCGGTTA-TAGTA
* * *
23137498 ACTAGCGCAGATGCCTTCGGGACTTAGCCCGGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
23137534 CATCCAAATA
Statistics
Matches: 133, Mismatches: 15, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 30 0.23
40 100 0.75
41 3 0.02
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:23137479 original size:80 final size:79
Alignment explanation
Indices: 23137339--23137532 Score: 248
Period size: 80 Copynumber: 2.4 Consensus size: 79
23137329 GGACATAGAT
* * *
23137339 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTAGAGTAACTCGCACAATTGCCTTCGGGACTT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAGAGTAACTCGCACAACTGCCTTCGGGACTT
* **
23137404 AGCCTGGATTTAGTA
66 -GCCCGGAACTAGTA
*
23137419 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAACTG-CTGTCGGGAC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTAGAGTAACTCGCACAACTGCCT-TCGGGAC
*
23137482 TTGCCCGGAACTAGTC
64 TTGCCCGGAACTAGTA
* * *
23137498 ACTAGCGCAGATGCCTTCGGGACTTAGCCCGGTTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA
23137533 TCATCCAAAT
Statistics
Matches: 100, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
78 2 0.02
79 41 0.41
80 55 0.55
81 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.24
Consensus pattern (79 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAGAGTAACTCGCACAACTGCCTTCGGGACTT
GCCCGGAACTAGTA
Found at i:23139408 original size:71 final size:71
Alignment explanation
Indices: 23139320--23139460 Score: 264
Period size: 71 Copynumber: 2.0 Consensus size: 71
23139310 TTTTGGTATA
*
23139320 ACTCAGTTTCGTGGTCCCGAAACCACTTTCCGACTAGGGTCAATTTAGGGCTGTCACAACTCTCC
1 ACTCAGTTTCGTGGTCCCAAAACCACTTTCCGACTAGGGTCAATTTAGGGCTGTCACAACTCTCC
23139385 CCCACG
66 CCCACG
*
23139391 ACTCAGTTTCGTGGTCCCAAAACCACTTTTCGACTAGGGTCAATTTAGGGCTGTCACAACTCTCC
1 ACTCAGTTTCGTGGTCCCAAAACCACTTTCCGACTAGGGTCAATTTAGGGCTGTCACAACTCTCC
23139456 CCCAC
66 CCCAC
23139461 TTAAGAAATT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 68 1.00
ACGTcount: A:0.22, C:0.33, G:0.18, T:0.26
Consensus pattern (71 bp):
ACTCAGTTTCGTGGTCCCAAAACCACTTTCCGACTAGGGTCAATTTAGGGCTGTCACAACTCTCC
CCCACG
Found at i:23139598 original size:74 final size:74
Alignment explanation
Indices: 23139477--23139625 Score: 280
Period size: 74 Copynumber: 2.0 Consensus size: 74
23139467 AATTTTCATC
*
23139477 CCCGAAAATCTTACCGGTAAATAGGTTTGGGTATTGTTCTTTCATGGCATTCTCGGTTTCCCAAG
1 CCCGAAAATCTTACCGGTAAATAGGTTTGGGTATCGTTCTTTCATGGCATTCTCGGTTTCCCAAG
23139542 TAGCTTCTT
66 TAGCTTCTT
*
23139551 CCCGAAAATCTTACCGGTAAATAGGTTTTGGTATCGTTCTTTCATGGCATTCTCGGTTTCCCAAG
1 CCCGAAAATCTTACCGGTAAATAGGTTTGGGTATCGTTCTTTCATGGCATTCTCGGTTTCCCAAG
23139616 TAGCTTCTT
66 TAGCTTCTT
23139625 C
1 C
23139626 GATCCCGTGT
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.38
Consensus pattern (74 bp):
CCCGAAAATCTTACCGGTAAATAGGTTTGGGTATCGTTCTTTCATGGCATTCTCGGTTTCCCAAG
TAGCTTCTT
Found at i:23145381 original size:80 final size:79
Alignment explanation
Indices: 23145282--23145466 Score: 239
Period size: 80 Copynumber: 2.3 Consensus size: 79
23145272 TACTTGCTCG
* * *
23145282 AATGCCTTCGGGACATAGCCCGGTTAGAGTAACTCGCACAATTGCCT-TCGGGACTTAGCCTGGA
1 AATGCCTTCGGGACTTAGCCCGGTTAGAGTAACTCGCACAACTG-CTGTCGGGACTT-GCCCGGA
** *
23145346 TTTAGTAACTCGCACA
64 ACTAGTAACTAGCACA
*
23145362 AATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAACTGCTGTCGGGACTTGCCCGGAA
1 AATGCCTTCGGGACTTAGCCCGG-TTAGAGTAACTCGCACAACTGCTGTCGGGACTTGCCCGGAA
* *
23145426 CTAGTCACTAGCGCA
65 CTAGTAACTAGCACA
*
23145441 GATGCCTTCGGGACTTAGCCCGGTTA
1 AATGCCTTCGGGACTTAGCCCGGTTA
23145467 TCATCCAAAT
Statistics
Matches: 92, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
78 2 0.02
79 41 0.45
80 47 0.51
81 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.24
Consensus pattern (79 bp):
AATGCCTTCGGGACTTAGCCCGGTTAGAGTAACTCGCACAACTGCTGTCGGGACTTGCCCGGAAC
TAGTAACTAGCACA
Found at i:23145452 original size:39 final size:39
Alignment explanation
Indices: 23145282--23145463 Score: 217
Period size: 40 Copynumber: 4.6 Consensus size: 39
23145272 TACTTGCTCG
* *
23145282 AATGCCTTCGGGACATAGCCCGG-TTAGAGTAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCAC
*
23145321 AATTGCCTTCGGGACTTAGCCTGGATTTAGTAACTCGCAC
1 AA-TGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
23145361 AAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
** * * *
23145401 AACTG-CTGTCGGGACTT-GCCCGGAACTAGTCACTAGCGC
1 AA-TGCCT-TCGGGACTTAGCCCGGATTTAGTAACTCGCAC
23145440 AGATGCCTTCGGGACTTAGCCCGG
1 A-ATGCCTTCGGGACTTAGCCCGG
23145464 TTATCATCCA
Statistics
Matches: 126, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
39 35 0.28
40 87 0.69
41 4 0.03
ACGTcount: A:0.23, C:0.28, G:0.26, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
Found at i:23161705 original size:16 final size:16
Alignment explanation
Indices: 23161686--23161716 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23161676 CTTCTTCACT
23161686 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
23161702 TACTTACTTACTTAA
1 TACTCACTTACTTAA
23161717 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:23161722 original size:20 final size:20
Alignment explanation
Indices: 23161683--23161722 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
23161673 AAACTTCTTC
* *
23161683 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
23161703 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
23161723 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:23162145 original size:55 final size:54
Alignment explanation
Indices: 23161908--23162162 Score: 233
Period size: 55 Copynumber: 4.8 Consensus size: 54
23161898 ACATGGGTAC
* * * *
23161908 CTTACC-ATTTCCATGACTTGTCATGGTCTTACGTGGTATCCTT---TTA-AAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* *
23161957 CTTACC-ATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAA
* * * * *
23162010 CTCACCAA-TGCCATGCCTTGGCATGGTCTCACATGGGA-CCTTTGCCTTATAATAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTA-GA-AA
* * * *
23162065 CTTATCAA-TGACATGTCTTGACATGGTCTTACATGGTATCCTTGCCTCAGAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* * *
23162118 CCTTACCAATTTCCATGCCTTGGCATGGTCATACATGGTATCCTT
1 -CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTT
23162163 AAACCCTAAT
Statistics
Matches: 167, Mismatches: 27, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
49 38 0.23
52 5 0.03
53 43 0.26
54 9 0.05
55 70 0.42
56 2 0.01
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.35
Consensus pattern (54 bp):
CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
Found at i:23166870 original size:21 final size:22
Alignment explanation
Indices: 23166831--23166871 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
23166821 GTTGAATTGT
23166831 CACACGGGCGTGTTGCCCTTCC
1 CACACGGGCGTGTTGCCCTTCC
*
23166853 CACATGGGCGTG-TGCCCTT
1 CACACGGGCGTGTTGCCCTT
23166872 GTGTTAAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.10, C:0.37, G:0.29, T:0.24
Consensus pattern (22 bp):
CACACGGGCGTGTTGCCCTTCC
Found at i:23175372 original size:29 final size:29
Alignment explanation
Indices: 23175326--23175385 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
23175316 ATACTCCTCA
23175326 TTCCTGCTACCAACCTCATCAAAATAAGG
1 TTCCTGCTACCAACCTCATCAAAATAAGG
** *
23175355 TTCCTGCTATTAATCTCATCAAAATAAGG
1 TTCCTGCTACCAACCTCATCAAAATAAGG
23175384 TT
1 TT
23175386 TTAAACGGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.33, C:0.25, G:0.10, T:0.32
Consensus pattern (29 bp):
TTCCTGCTACCAACCTCATCAAAATAAGG
Found at i:23188457 original size:40 final size:40
Alignment explanation
Indices: 23188412--23188491 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
23188402 TACTTGTATT
23188412 TTGAGTGTAAGTGATAGGGAAGCCATCCTATGCTCATTGA
1 TTGAGTGTAAGTGATAGGGAAGCCATCCTATGCTCATTGA
23188452 TTGAGTGTAAGTGATAGGGAAGCCATCCTATGCTCATTGA
1 TTGAGTGTAAGTGATAGGGAAGCCATCCTATGCTCATTGA
23188492 ATGTATTACC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (40 bp):
TTGAGTGTAAGTGATAGGGAAGCCATCCTATGCTCATTGA
Found at i:23196457 original size:40 final size:40
Alignment explanation
Indices: 23196412--23196599 Score: 279
Period size: 40 Copynumber: 4.7 Consensus size: 40
23196402 ATTTGATGTG
* * * *
23196412 TGTATCCGGGCTTAAAGACCCGCAGGCT-TCGTGATGGAAT
1 TGTATCCGGGTTTAAAGACCCGCAGGCTAT-ATGCTAGAAT
* *
23196452 GGTATCTGGGTTTAAAGACCCGCAGGCTATATGCTAGAAT
1 TGTATCCGGGTTTAAAGACCCGCAGGCTATATGCTAGAAT
*
23196492 TGTATCCGGGTTTAAAGACCCGCAGGCTATATGCTAGAGT
1 TGTATCCGGGTTTAAAGACCCGCAGGCTATATGCTAGAAT
*
23196532 TGTATCCGGGTTTAAAGACCCGCAGGCTATATGCTGGAAT
1 TGTATCCGGGTTTAAAGACCCGCAGGCTATATGCTAGAAT
*
23196572 TGTATCCGGGTTTAAAGACCCGTAGGCT
1 TGTATCCGGGTTTAAAGACCCGCAGGCT
23196600 TCTTACTAGA
Statistics
Matches: 135, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
40 134 0.99
41 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TGTATCCGGGTTTAAAGACCCGCAGGCTATATGCTAGAAT
Found at i:23196545 original size:80 final size:80
Alignment explanation
Indices: 23196412--23196638 Score: 289
Period size: 80 Copynumber: 2.9 Consensus size: 80
23196402 ATTTGATGTG
* * * *
23196412 TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGATGGAATGGTATCTGGGTTTAAAGACCCGCAG
1 TGTATCCGGGTTTAAAGACCCGCAGGCTTCATGATAGAATGGTATCCGGGTTTAAAGACCCGCAG
23196477 GCTATATGCTAGAAT
66 GCTATATGCTAGAAT
* * *
23196492 TGTATCCGGGTTTAAAGACCCGCAGGCTAT-ATGCTAGAGTTGTATCCGGGTTTAAAGACCCGCA
1 TGTATCCGGGTTTAAAGACCCGCAGGCT-TCATGATAGAATGGTATCCGGGTTTAAAGACCCGCA
*
23196556 GGCTATATGCTGGAAT
65 GGCTATATGCTAGAAT
* * * ** *
23196572 TGTATCCGGGTTTAAAGACCCGTAGGCTTC-TTACTAGAATGGAATCTAGG-TTAAAGACCCGTA
1 TGTATCCGGGTTTAAAGACCCGCAGGCTTCATGA-TAGAATGGTATCCGGGTTTAAAGACCCGCA
23196635 GGCT
65 GGCT
23196639 CGTGTTAGAA
Statistics
Matches: 127, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
79 18 0.14
80 108 0.85
81 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (80 bp):
TGTATCCGGGTTTAAAGACCCGCAGGCTTCATGATAGAATGGTATCCGGGTTTAAAGACCCGCAG
GCTATATGCTAGAAT
Found at i:23210004 original size:27 final size:28
Alignment explanation
Indices: 23209920--23210017 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
23209910 CATGAGATTG
* * *
23209920 GCACTAAGTGTGCGGGTTTAAATTGT-TCA
1 GCACTAAGTGTGCGAGTTT-GATTATAT-A
23209949 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
23209977 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
23210004 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
23210018 GACTTAATAT
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 24 0.38
28 21 0.33
29 19 0.30
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:23210031 original size:29 final size:27
Alignment explanation
Indices: 23209948--23210032 Score: 98
Period size: 27 Copynumber: 3.0 Consensus size: 27
23209938 TAAATTGTTC
* *
23209948 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTAATTATAT
* *
23209976 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTAATTATAT
*
23210003 AGCACTGAGTGTGCGGACTTAATATATAT
1 AGCACTAAGTGTGC-GACTTAAT-TATAT
23210032 A
1 A
23210033 TTTTTGAATC
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 23 0.45
28 22 0.43
29 6 0.12
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTAATTATAT
Found at i:23216208 original size:47 final size:47
Alignment explanation
Indices: 23216126--23217236 Score: 2033
Period size: 47 Copynumber: 23.6 Consensus size: 47
23216116 TTAAACCCAT
*
23216126 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
**
23216175 ATGTGAAAGTGTATATGCGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
23216222 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
23216269 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
23216316 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
23216363 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
23216410 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
23216457 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
23216504 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
23216551 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
23216598 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
23216645 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
23216692 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
23216739 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
23216786 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
23216833 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
23216880 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
23216927 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
23216974 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
23217021 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
23217068 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
** *
23217117 ATGTGAAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
23217164 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAATGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
23217211 ATGTGAAAGTGCATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
23217237 TCTCGAAGGG
Statistics
Matches: 1035, Mismatches: 25, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
47 980 0.95
49 55 0.05
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:23217411 original size:37 final size:37
Alignment explanation
Indices: 23217357--23217432 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 37
23217347 GAGTTCTAAG
* * *
23217357 GACCCGATGACTACGTGTGGGGATTTTGTCCGGGTAA
1 GACCCGATAACTACGTGTGGAGATTATGTCCGGGTAA
*
23217394 GACCCGATAACTTCGTGTGGAGATTATGTCCGGGTAA
1 GACCCGATAACTACGTGTGGAGATTATGTCCGGGTAA
23217431 GA
1 GA
23217433 TTTCGTAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.26
Consensus pattern (37 bp):
GACCCGATAACTACGTGTGGAGATTATGTCCGGGTAA
Found at i:23228402 original size:13 final size:13
Alignment explanation
Indices: 23228384--23228408 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23228374 TAAAATAAAA
23228384 TTTTCAAAAGTAT
1 TTTTCAAAAGTAT
23228397 TTTTCAAAAGTA
1 TTTTCAAAAGTA
23228409 CGTTTTCACC
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:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (13 bp):
TTTTCAAAAGTAT
Found at i:23229174 original size:73 final size:75
Alignment explanation
Indices: 23229056--23229202 Score: 235
Period size: 73 Copynumber: 2.0 Consensus size: 75
23229046 TGATATAAAT
* * *
23229056 AGGTAAAAGAAAATCTGGTAAGTTAATTTATTGAAAACAATATTAAATTTAAAAGAGTTCTAAAA
1 AGGTAAAAGAAAATCTGCTAAGTTAATTTATTGAAAACAAAATTAAATCTAAAAGAGTTCTAAAA
23229121 TTCTTAAAAA
66 TTCTTAAAAA
* *
23229131 AGGT-AAA-AAAATCTGCTATGTTAATTTATTGAAAACAAAATTAAATCTATAAGAGTTCTAAAA
1 AGGTAAAAGAAAATCTGCTAAGTTAATTTATTGAAAACAAAATTAAATCTAAAAGAGTTCTAAAA
23229194 TTCTTAAAA
66 TTCTTAAAA
23229203 TGAAAATAGA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
73 60 0.90
74 3 0.04
75 4 0.06
ACGTcount: A:0.50, C:0.07, G:0.11, T:0.33
Consensus pattern (75 bp):
AGGTAAAAGAAAATCTGCTAAGTTAATTTATTGAAAACAAAATTAAATCTAAAAGAGTTCTAAAA
TTCTTAAAAA
Found at i:23239680 original size:37 final size:37
Alignment explanation
Indices: 23239630--23239707 Score: 111
Period size: 37 Copynumber: 2.1 Consensus size: 37
23239620 GGAAATATAT
* * *
23239630 TCTGGGTAAGACCCGATGACTACGTGTAGAGATTTTG
1 TCTGGGTAAGACCCGATAACTACATGTAGAGATTTCG
* *
23239667 TCTGGGTAAGACCCGATAACTTCATGTGGAGATTTCG
1 TCTGGGTAAGACCCGATAACTACATGTAGAGATTTCG
23239704 TCTG
1 TCTG
23239708 AGCTAAAGGT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (37 bp):
TCTGGGTAAGACCCGATAACTACATGTAGAGATTTCG
Done.