Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 80 of 316
Found at i:23860927 original size:19 final size:19
Alignment explanation
Indices: 23860875--23860938 Score: 74
Period size: 19 Copynumber: 3.3 Consensus size: 19
23860865 TTTCTATATA
*
23860875 TTTTATAATATTTTTATGAT
1 TTTTATAAT-TTTTAATGAT
** *
23860895 TTTTATAAAATTTAATAAT
1 TTTTATAATTTTTAATGAT
*
23860914 TTTTATAATTTTTATTGAT
1 TTTTATAATTTTTAATGAT
23860933 TTTTAT
1 TTTTAT
23860939 TTTTTTTTAT
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
19 28 0.78
20 8 0.22
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (19 bp):
TTTTATAATTTTTAATGAT
Found at i:23861999 original size:31 final size:30
Alignment explanation
Indices: 23861956--23862127 Score: 145
Period size: 31 Copynumber: 5.6 Consensus size: 30
23861946 AGAATTAATC
*
23861956 ATATTAATATTAAATTAACAAAATATTATCT
1 ATATAAATATTAAATTAA-AAAATATTATCT
* *
23861987 AGATAAATATTAAATTAAATTAAGTA-TAT-T
1 ATATAAATATTAAATTAAA--AAATATTATCT
* * *
23862017 ATATTAATATTTAATTAATAAAATACTATCT
1 ATATAAATATTAAATTAA-AAAATATTATCT
* * *
23862048 ATCTAAATATTAAATTAAATTTAATATCA-C-
1 ATATAAATATTAAATTAAA--AAATATTATCT
* *
23862078 ATATTAACATTAAATTAATAAAATATTATCT
1 ATATAAATATTAAATTAA-AAAATATTATCT
*
23862109 ATCTAAATATTAAATTAAA
1 ATATAAATATTAAATTAAA
23862128 TTTAATATCT
Statistics
Matches: 110, Mismatches: 21, Indels: 21
0.72 0.14 0.14
Matches are distributed among these distances:
29 10 0.09
30 38 0.35
31 53 0.48
32 9 0.08
ACGTcount: A:0.52, C:0.06, G:0.01, T:0.41
Consensus pattern (30 bp):
ATATAAATATTAAATTAAAAAATATTATCT
Found at i:23862040 original size:61 final size:61
Alignment explanation
Indices: 23861953--23862148 Score: 288
Period size: 61 Copynumber: 3.2 Consensus size: 61
23861943 ATTAGAATTA
* **
23861953 ATCATATTAATATTAAATTAACAAAATATTATCTAGATAAATATTAAATTAAA-TTAAGTAT
1 ATCATATTAATATTAAATTAATAAAATATTATCTATCTAAATATTAAATTAAATTTAA-TAT
* * *
23862014 ATTATATTAATATTTAATTAATAAAATACTATCTATCTAAATATTAAATTAAATTTAATAT
1 ATCATATTAATATTAAATTAATAAAATATTATCTATCTAAATATTAAATTAAATTTAATAT
*
23862075 CA-CATATTAACATTAAATTAATAAAATATTATCTATCTAAATATTAAATTAAATTTAATAT
1 -ATCATATTAATATTAAATTAATAAAATATTATCTATCTAAATATTAAATTAAATTTAATAT
*
23862136 CTCATATTAATAT
1 ATCATATTAATAT
23862149 CTAGATAAAT
Statistics
Matches: 120, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
61 115 0.96
62 5 0.04
ACGTcount: A:0.50, C:0.07, G:0.01, T:0.42
Consensus pattern (61 bp):
ATCATATTAATATTAAATTAATAAAATATTATCTATCTAAATATTAAATTAAATTTAATAT
Found at i:23886012 original size:23 final size:23
Alignment explanation
Indices: 23885986--23886077 Score: 184
Period size: 23 Copynumber: 4.0 Consensus size: 23
23885976 TGGTTAAGTG
23885986 TTAGTGTAACGTTTCTTGAAACC
1 TTAGTGTAACGTTTCTTGAAACC
23886009 TTAGTGTAACGTTTCTTGAAACC
1 TTAGTGTAACGTTTCTTGAAACC
23886032 TTAGTGTAACGTTTCTTGAAACC
1 TTAGTGTAACGTTTCTTGAAACC
23886055 TTAGTGTAACGTTTCTTGAAACC
1 TTAGTGTAACGTTTCTTGAAACC
23886078 CAAGTTCAAA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 69 1.00
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.39
Consensus pattern (23 bp):
TTAGTGTAACGTTTCTTGAAACC
Found at i:23887104 original size:29 final size:29
Alignment explanation
Indices: 23887069--23887153 Score: 116
Period size: 29 Copynumber: 2.9 Consensus size: 29
23887059 TGTGGCCCTA
*
23887069 CCATGTGTCTCACATGGCCAAAAACACAC
1 CCATGTGTCTCACACGGCCAAAAACACAC
* *
23887098 CCGTGTGTCTCACACGGCCAAAGACACAC
1 CCATGTGTCTCACACGGCCAAAAACACAC
* * *
23887127 TCATGTGTCTCACACGACCAAAGACAC
1 CCATGTGTCTCACACGGCCAAAAACAC
23887154 GCTGGTGTCA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.32, C:0.35, G:0.16, T:0.16
Consensus pattern (29 bp):
CCATGTGTCTCACACGGCCAAAAACACAC
Found at i:23892714 original size:23 final size:23
Alignment explanation
Indices: 23892645--23892801 Score: 117
Period size: 23 Copynumber: 6.8 Consensus size: 23
23892635 AACTCGCCAT
* *
23892645 AGCTCGTATGAGCTTACTAATTC
1 AGCTCGTAAGAGCTTACTGATTC
*
23892668 AGCTCGTAAGAGCTTACCGATTC
1 AGCTCGTAAGAGCTTACTGATTC
*
23892691 AGCTCGTAAGAGCTTACTGTTTC
1 AGCTCGTAAGAGCTTACTGATTC
* * * *
23892714 AACTCAT-TGAAGCTTACCGATTC
1 AGCTCGTAAG-AGCTTACTGATTC
* *
23892737 TGTTCG-ATAGAGCTTACTG-TTC
1 AGCTCGTA-AGAGCTTACTGATTC
* *
23892759 AGCTC-AATAGAGCTTACTGTTTTC
1 AGCTCGTA-AGAGCTTACTG-ATTC
*
23892783 AGCTC-AATAGAGCTTACTG
1 AGCTCGTA-AGAGCTTACTG
23892802 TTTATTAGCT
Statistics
Matches: 110, Mismatches: 18, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
22 20 0.18
23 67 0.61
24 23 0.21
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.33
Consensus pattern (23 bp):
AGCTCGTAAGAGCTTACTGATTC
Found at i:23892728 original size:46 final size:46
Alignment explanation
Indices: 23892676--23892804 Score: 147
Period size: 46 Copynumber: 2.8 Consensus size: 46
23892666 TCAGCTCGTA
23892676 AGAGCTTACCGATTCAGCTCG-TAAGAGCTTACTGTTTCAACTC-AT
1 AGAGCTTACCGATTCAGCTCGAT-AGAGCTTACTGTTTCAACTCAAT
* * * *
23892721 TGAAGCTTACCGATTCTGTTCGATAGAGCTTACTG-TTCAGCTCAAT
1 AG-AGCTTACCGATTCAGCTCGATAGAGCTTACTGTTTCAACTCAAT
* * *
23892767 AGAGCTTACTGTTTTCAGCTCAATAGAGCTTACTGTTT
1 AGAGCTTACCG-ATTCAGCTCGATAGAGCTTACTGTTT
23892805 ATTAGCTCAG
Statistics
Matches: 69, Mismatches: 10, Indels: 8
0.79 0.11 0.09
Matches are distributed among these distances:
45 16 0.23
46 50 0.72
47 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.35
Consensus pattern (46 bp):
AGAGCTTACCGATTCAGCTCGATAGAGCTTACTGTTTCAACTCAAT
Found at i:23892788 original size:24 final size:24
Alignment explanation
Indices: 23892743--23892813 Score: 110
Period size: 24 Copynumber: 3.0 Consensus size: 24
23892733 ATTCTGTTCG
23892743 ATAGAGCTTACTG--TTCAGCTCA
1 ATAGAGCTTACTGTTTTCAGCTCA
23892765 ATAGAGCTTACTGTTTTCAGCTCA
1 ATAGAGCTTACTGTTTTCAGCTCA
*
23892789 ATAGAGCTTACTGTTTATTAGCTCA
1 ATAGAGCTTACTGTTT-TCAGCTCA
23892814 GGAGGAGCTT
Statistics
Matches: 45, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
22 13 0.29
24 25 0.56
25 7 0.16
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.37
Consensus pattern (24 bp):
ATAGAGCTTACTGTTTTCAGCTCA
Found at i:23899910 original size:23 final size:22
Alignment explanation
Indices: 23899880--23899978 Score: 78
Period size: 23 Copynumber: 4.4 Consensus size: 22
23899870 CCGCTTGTAT
23899880 GAGCTTACCGATTCAGCTCGTAA
1 GAGCTTACCGATTCAGCTC-TAA
* * *
23899903 GAGCTTACTGTTTCAGCTC-ATT
1 GAGCTTACCGATTCAGCTCTA-A
*
23899925 GAAGCTTACCGATTCAGCTCAATA
1 G-AGCTTACCGATTCAGCTCTA-A
*
23899949 GAGCTTA-CTATTCAGCT-TAATA
1 GAGCTTACCGATTCAGCTCT-A-A
23899971 GAGCTTAC
1 GAGCTTAC
23899979 AGTTTTTAGC
Statistics
Matches: 63, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
21 1 0.02
22 20 0.32
23 39 0.62
24 3 0.05
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.31
Consensus pattern (22 bp):
GAGCTTACCGATTCAGCTCTAA
Found at i:23899952 original size:46 final size:46
Alignment explanation
Indices: 23899880--23900031 Score: 139
Period size: 46 Copynumber: 3.2 Consensus size: 46
23899870 CCGCTTGTAT
* *
23899880 GAGCTTACCGATTCAGCTC-GTAAGAGCTTACTGTTTCAGCTC-ATT
1 GAGCTTACCGATTCAGCTCAAT-AGAGCTTACTGTTTCAGCTCAATA
* *
23899925 GAAGCTTACCGATTCAGCTCAATAGAGCTTACT-ATTCAGCTTAATA
1 G-AGCTTACCGATTCAGCTCAATAGAGCTTACTGTTTCAGCTCAATA
* * * * **
23899971 GAGCTTACAGTTTTTAGCTCAATAGAACTTACTGTTTATCAGCTCAGGA
1 GAGCTTACCG-ATTCAGCTCAATAGAGCTTACTG-TT-TCAGCTCAATA
23900020 GGAGCTTACCGA
1 -GAGCTTACCGA
23900032 CCATGACTCG
Statistics
Matches: 85, Mismatches: 14, Indels: 12
0.77 0.13 0.11
Matches are distributed among these distances:
45 16 0.19
46 50 0.59
47 1 0.01
48 1 0.01
49 8 0.09
50 9 0.11
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.32
Consensus pattern (46 bp):
GAGCTTACCGATTCAGCTCAATAGAGCTTACTGTTTCAGCTCAATA
Found at i:23899994 original size:24 final size:23
Alignment explanation
Indices: 23899902--23900016 Score: 94
Period size: 24 Copynumber: 4.9 Consensus size: 23
23899892 TCAGCTCGTA
23899902 AGAGCTTAC-TGTTTCAGCTC-AT
1 AGAGCTTACGT-TTTCAGCTCAAT
* *
23899924 TGAAGCTTACCG-ATTCAGCTCAAT
1 AG-AGCTTA-CGTTTTCAGCTCAAT
* *
23899948 AGAGCTTAC-TATTCAGCTTAAT
1 AGAGCTTACGTTTTCAGCTCAAT
*
23899970 AGAGCTTACAGTTTTTAGCTCAAT
1 AGAGCTTAC-GTTTTCAGCTCAAT
*
23899994 AGAACTTACTGTTTATCAGCTCA
1 AGAGCTTAC-GTTT-TCAGCTCA
23900017 GGAGGAGCTT
Statistics
Matches: 75, Mismatches: 10, Indels: 13
0.77 0.10 0.13
Matches are distributed among these distances:
22 22 0.29
23 20 0.27
24 26 0.35
25 7 0.09
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.35
Consensus pattern (23 bp):
AGAGCTTACGTTTTCAGCTCAAT
Found at i:23905098 original size:21 final size:20
Alignment explanation
Indices: 23905074--23905122 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 20
23905064 TCTCACACGC
*
23905074 CCGTGTGGCCAAGGGACATGG
1 CCGTGTGGCCAAGGCACAT-G
23905095 CCGTGTGGCCAAGGCACATG
1 CCGTGTGGCCAAGGCACATG
23905115 CCTGTGTG
1 CC-GTGTG
23905123 AAAATCGACT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.16, C:0.27, G:0.39, T:0.18
Consensus pattern (20 bp):
CCGTGTGGCCAAGGCACATG
Found at i:23905987 original size:16 final size:16
Alignment explanation
Indices: 23905966--23905998 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
23905956 GTTTAAGATT
23905966 ACTTTTGTCATAATTA
1 ACTTTTGTCATAATTA
23905982 ACTTTTGTCATAATTA
1 ACTTTTGTCATAATTA
23905998 A
1 A
23905999 GCGGAGTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.12, G:0.06, T:0.48
Consensus pattern (16 bp):
ACTTTTGTCATAATTA
Found at i:23908796 original size:2 final size:2
Alignment explanation
Indices: 23908789--23908828 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
23908779 AAACAAGCAA
23908789 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
23908829 TTCTTAATTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:23909191 original size:19 final size:20
Alignment explanation
Indices: 23909163--23909200 Score: 53
Period size: 18 Copynumber: 1.9 Consensus size: 20
23909153 TAAAATTAAA
23909163 TTTTCTAGAAATATT-TTTAT
1 TTTTCTAG-AATATTATTTAT
23909183 TTTTC-AGAATATTATTTA
1 TTTTCTAGAATATTATTTA
23909201 CCCATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.35
19 6 0.35
20 5 0.29
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (20 bp):
TTTTCTAGAATATTATTTAT
Found at i:23918428 original size:91 final size:90
Alignment explanation
Indices: 23918313--23918503 Score: 249
Period size: 91 Copynumber: 2.1 Consensus size: 90
23918303 ATATCAATTT
* * * *
23918313 ATTAAGAACATTTAGTGGTTCATCCTATAAATTCGGT-ACGTTCATCAAGTCTATCTCAAATAAG
1 ATTAAGAGCATCTAGTAGTTCATCCTATAAATTCGGTGA-ATTCATCAAGTCTATCT-AAATAAG
*
23918377 ACCATCAAAACCCTAGGCTATGAACTC
64 ACCACCAAAACCCTAGGCTATGAACTC
* * * * *
23918404 ATTAAGAGCATCTAGTAGTTCATCCTATAAGTTCGGTGAATTCATCAAGTCTGTCTTAGTAAGAG
1 ATTAAGAGCATCTAGTAGTTCATCCTATAAATTCGGTGAATTCATCAAGTCTATCTAAATAAGAC
* *
23918469 CACCCAAACTCTAGGCTATGAACTC
66 CACCAAAACCCTAGGCTATGAACTC
23918494 ATTAAGAGCA
1 ATTAAGAGCA
23918504 CGGAGGTCAT
Statistics
Matches: 87, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
90 38 0.44
91 48 0.55
92 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (90 bp):
ATTAAGAGCATCTAGTAGTTCATCCTATAAATTCGGTGAATTCATCAAGTCTATCTAAATAAGAC
CACCAAAACCCTAGGCTATGAACTC
Found at i:23926360 original size:57 final size:57
Alignment explanation
Indices: 23926272--23926380 Score: 155
Period size: 57 Copynumber: 1.9 Consensus size: 57
23926262 GGCATCGGGA
* * *
23926272 TCTATAGGAACAGAAGTATAGTCTTCGACTTGTTTGGTGATGGAAGGATTGATGGGT
1 TCTATAGGAACAGAAGTAGAGCCTCCGACTTGTTTGGTGATGGAAGGATTGATGGGT
* * * *
23926329 TCTATGGGAACAGAGGTAGAGCCTCCGACTTGTTTGGTGGTGGGAGGATTGA
1 TCTATAGGAACAGAAGTAGAGCCTCCGACTTGTTTGGTGATGGAAGGATTGA
23926381 ACAGTGCATA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 45 1.00
ACGTcount: A:0.24, C:0.11, G:0.35, T:0.30
Consensus pattern (57 bp):
TCTATAGGAACAGAAGTAGAGCCTCCGACTTGTTTGGTGATGGAAGGATTGATGGGT
Found at i:23939662 original size:341 final size:343
Alignment explanation
Indices: 23939014--23939701 Score: 1092
Period size: 341 Copynumber: 2.0 Consensus size: 343
23939004 GAATTTAATA
*
23939014 ATCGTAAGTTTTGTGCACATACCAGTACCACTCATAATGGTTTCATACTCATTCTCATCTTTTGT
1 ATCGTAAGTTTTCTGCACATACCAGTACCACTCATAATGGTTTCATAC-CA-TCTCATCTTTTGT
* *
23939079 CATACCCAATTAACCACTCGGAATAATAATCTTGGATACTCGGGGAATCTTGCACACAAGGTGCC
64 CATACCCAATGAACCACTCGGAATAATAATCTCGGATACTCGGGGAATCTTGCACACAAGGTGCC
* * *
23939144 ACATATGTAGCCATTGCTACCTCTATCTCATATCACATATATGCTCGCTCTCGAGCCATTAATAG
129 ACATATGTAGCCACTGCTACCTCTATCTCATATCACATACATGCTCGCTCTCGAGCCATTAACAG
*
23939209 GCCTACTCACACAAGCTGTCAGTCAAGACGTAGTTACTCAGTACTGCTCACACAAGCTGTCAAGT
194 GCCTACTCACACAAGCTGTCAGTCAAGACGTAGCTACTCAGTACTGCTCACACAAGCTGTCAAGT
* * *
23939274 AACCACAACATATGCCGGTATACTCAGCCACTGCTAGGATATACAGGACCAGCACCCGGATCACA
259 AACCACAACATATGCCGGTATACTCAGCCACCGCTAGGACATACAGGACCAGCACCCGGATAACA
23939339 TAACATAAAACCCTGGTGAC
324 TAACATAAAACCCTGGTGAC
* *
23939359 ATCGTAAGTTTTCTGCACATACCTGTACCACTCATAATGGTTTCATA-C-TCTCATCTTTTGTGA
1 ATCGTAAGTTTTCTGCACATACCAGTACCACTCATAATGGTTTCATACCATCTCATCTTTTGTCA
*
23939422 TACCCAATGAACCACTCGGAATAATAATCTCGGATACTCGGGGAATCTTGCGCACAAGGTGCCAC
66 TACCCAATGAACCACTCGGAATAATAATCTCGGATACTCGGGGAATCTTGCACACAAGGTGCCAC
* * *
23939487 ATATGTAGCCGCTGCTACCTCTATTTCATATCACATACATGCTCGCTCTCGAGCCATTAACGGGC
131 ATATGTAGCCACTGCTACCTCTATCTCATATCACATACATGCTCGCTCTCGAGCCATTAACAGGC
* * * * *
23939552 CTGCTCATACAAGCTGTCAGTCAAGATGTAGCTACTCGGTGCTGCTCACACAAGCTGTCAAGTAA
196 CTACTCACACAAGCTGTCAGTCAAGACGTAGCTACTCAGTACTGCTCACACAAGCTGTCAAGTAA
* * * * * *
23939617 CCACAACATATGTCGGTATTCTCAGTCACCGGTAGGACGTACAGGACCAGCACTCGGATAACATA
261 CCACAACATATGCCGGTATACTCAGCCACCGCTAGGACATACAGGACCAGCACCCGGATAACATA
*
23939682 ACATAAAACCTTGGTGAC
326 ACATAAAACCCTGGTGAC
23939700 AT
1 AT
23939702 GTCACTTGTA
Statistics
Matches: 315, Mismatches: 28, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
341 269 0.85
343 1 0.00
345 45 0.14
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.26
Consensus pattern (343 bp):
ATCGTAAGTTTTCTGCACATACCAGTACCACTCATAATGGTTTCATACCATCTCATCTTTTGTCA
TACCCAATGAACCACTCGGAATAATAATCTCGGATACTCGGGGAATCTTGCACACAAGGTGCCAC
ATATGTAGCCACTGCTACCTCTATCTCATATCACATACATGCTCGCTCTCGAGCCATTAACAGGC
CTACTCACACAAGCTGTCAGTCAAGACGTAGCTACTCAGTACTGCTCACACAAGCTGTCAAGTAA
CCACAACATATGCCGGTATACTCAGCCACCGCTAGGACATACAGGACCAGCACCCGGATAACATA
ACATAAAACCCTGGTGAC
Found at i:23945215 original size:11 final size:11
Alignment explanation
Indices: 23945179--23945234 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
23945169 CATGGTATGT
23945179 ATGATATGCAC
1 ATGATATGCAC
* *
23945190 ATGACATG--T
1 ATGATATGCAC
23945199 ATGATATGCAC
1 ATGATATGCAC
*
23945210 ATGATATG--T
1 ATGATATGCAC
23945219 ATGATATGCAC
1 ATGATATGCAC
23945230 ATGAT
1 ATGAT
23945235 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:23945234 original size:20 final size:20
Alignment explanation
Indices: 23945168--23945234 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
23945158 ATTTTGATAA
*
23945168 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
23945188 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
23945208 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
23945228 ACATGAT
1 ACATGAT
23945235 GTAATCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:23945301 original size:23 final size:23
Alignment explanation
Indices: 23945271--23945320 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
23945261 TTTTATATGG
*
23945271 TAAAGGGCTTATGCCCTAGTTAT
1 TAAAGGGCTTATGCCCCAGTTAT
23945294 TAAAGGGCTTATGCCCCAGTTAT
1 TAAAGGGCTTATGCCCCAGTTAT
23945317 TAAA
1 TAAA
23945321 AGAGGCTAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (23 bp):
TAAAGGGCTTATGCCCCAGTTAT
Found at i:23945337 original size:25 final size:23
Alignment explanation
Indices: 23945271--23945341 Score: 81
Period size: 23 Copynumber: 3.0 Consensus size: 23
23945261 TTTTATATGG
* *
23945271 TAAAGGGCTTATGCCCTAGTTAT
1 TAAAGGGCTTAGGCCCCAGTTAT
*
23945294 TAAAGGGCTTATGCCCCAGTTAT
1 TAAAGGGCTTAGGCCCCAGTTAT
23945317 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 T-AAAG-GGCTTAGGCC-CCAGTTAT
23945342 ATGATAAAGC
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
23 23 0.53
24 9 0.21
25 11 0.26
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (23 bp):
TAAAGGGCTTAGGCCCCAGTTAT
Found at i:23945570 original size:31 final size:31
Alignment explanation
Indices: 23945535--23945598 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
23945525 CGTTTACAGT
23945535 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
23945566 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
23945597 AA
1 AA
23945599 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:23952053 original size:11 final size:11
Alignment explanation
Indices: 23952017--23952072 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
23952007 CATGGTATGT
23952017 ATGATATGCAC
1 ATGATATGCAC
* *
23952028 ATGACATG--T
1 ATGATATGCAC
23952037 ATGATATGCAC
1 ATGATATGCAC
*
23952048 ATGATATG--T
1 ATGATATGCAC
23952057 ATGATATGCAC
1 ATGATATGCAC
23952068 ATGAT
1 ATGAT
23952073 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:23952072 original size:20 final size:20
Alignment explanation
Indices: 23952006--23952072 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
23951996 ATTTTGATAA
*
23952006 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
23952026 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
23952046 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
23952066 ACATGAT
1 ACATGAT
23952073 GTAATCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:23952203 original size:24 final size:24
Alignment explanation
Indices: 23952121--23952265 Score: 195
Period size: 24 Copynumber: 6.0 Consensus size: 24
23952111 GGAGGAAGTG
23952121 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
* *
23952145 GATAAAGGGCTTATGCCCCAATTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
* *
23952170 T-AAAGGGCTTCTGCCCTAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
23952193 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
23952217 TAAAAGGGCTTTTGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
23952241 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
23952266 ATGATAAAGT
Statistics
Matches: 106, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
23 20 0.19
24 54 0.51
25 32 0.30
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:23956605 original size:42 final size:43
Alignment explanation
Indices: 23956494--23956611 Score: 127
Period size: 43 Copynumber: 2.8 Consensus size: 43
23956484 AGCTCGTACA
* * *
23956494 ATGCCAACGTCTCAGACA-TGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGA-AGTGGTCTTACACGAAATCAAATATCG
*
23956537 ACGCC-ACTGTCCCAGACAG-GGTCTTACACGAAATCAAATAT-G
1 ATGCCAAC-GTCCCAGA-AGTGGTCTTACACGAAATCAAATATCG
* *
23956579 ATGCCAACATCCCAGATGTGGTCTTACACGAAA
1 ATGCCAACGTCCCAGAAGTGGTCTTACACGAAA
23956612 ACACATATAA
Statistics
Matches: 64, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
41 1 0.02
42 28 0.44
43 35 0.55
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGAAGTGGTCTTACACGAAATCAAATATCG
Found at i:23964870 original size:11 final size:13
Alignment explanation
Indices: 23964851--23964881 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
23964841 TTTATTTAAG
*
23964851 TTATATATAAATA
1 TTATATATAATTA
23964864 TTATATATAATTA
1 TTATATATAATTA
23964877 TTATA
1 TTATA
23964882 ATTATTAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TTATATATAATTA
Found at i:23966706 original size:16 final size:16
Alignment explanation
Indices: 23966687--23966717 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23966677 CTTCTTCACT
23966687 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
23966703 TACTTACTTACTTAA
1 TACTCACTTACTTAA
23966718 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:23966723 original size:20 final size:20
Alignment explanation
Indices: 23966684--23966723 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
23966674 AAACTTCTTC
* *
23966684 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
23966704 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
23966724 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:23967041 original size:53 final size:54
Alignment explanation
Indices: 23966909--23967163 Score: 220
Period size: 55 Copynumber: 4.8 Consensus size: 54
23966899 ACACGGGTAC
* * * * *
23966909 CTTACCATTTCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * * * * * *
23966958 CTTACCATTACCCTGTCTCGACATGGTCTTACATGGTATACTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATGAAA
* *
23967011 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCATTGCCTTATAGAAA
1 CTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCC-TTGCCTTAT-GAAA
* * ** * * *
23967066 CTTATCAATGCCCTATCTTGACATGGTCTTAAATGATATCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATGAAA
*
23967119 CCTTACCAATTTCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
23967164 AAACCCTAAT
Statistics
Matches: 162, Mismatches: 33, Indels: 16
0.77 0.16 0.08
Matches are distributed among these distances:
49 34 0.21
50 1 0.01
52 1 0.01
53 47 0.29
54 10 0.06
55 67 0.41
56 2 0.01
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.35
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATGAAA
Found at i:23967112 original size:108 final size:110
Alignment explanation
Indices: 23966954--23967156 Score: 286
Period size: 108 Copynumber: 1.9 Consensus size: 110
23966944 GTATCCTTTT
* * * *
23966954 GAAACTTACCATTACCCTGTCTCGACATGGTCTTACATGGTATACTTGCCTTATG-AA-CTCACC
1 GAAACTTACCAATACCCTATCTCGACATGGTCTTAAATGATATACTTGCCTTA-GAAACCTCACC
23967017 AA-TGCCATGCCTTGGCATGGTCTTACATGGGACCATTGCCTTATA
65 AATTGCCATGCCTTGGCATGGTCTTACATGGGACCATTGCCTTATA
* * * * *
23967062 GAAACTTATCAATGCCCTATCTTGACATGGTCTTAAATGATATCCTTGCCTTAGAAACCTTACCA
1 GAAACTTACCAATACCCTATCTCGACATGGTCTTAAATGATATACTTGCCTTAGAAACCTCACCA
*
23967127 ATTTCCATGCCTTGGCATGGTCTTACATGG
66 ATTGCCATGCCTTGGCATGGTCTTACATGG
23967157 TATCCTTAAA
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
107 1 0.01
108 47 0.57
109 7 0.09
110 27 0.33
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.33
Consensus pattern (110 bp):
GAAACTTACCAATACCCTATCTCGACATGGTCTTAAATGATATACTTGCCTTAGAAACCTCACCA
ATTGCCATGCCTTGGCATGGTCTTACATGGGACCATTGCCTTATA
Found at i:23969234 original size:13 final size:14
Alignment explanation
Indices: 23969218--23969247 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
23969208 TTTGAGAAGG
23969218 GATTTGGAGATG-T
1 GATTTGGAGATGCT
23969231 GATTTGGAGATGCT
1 GATTTGGAGATGCT
23969245 GAT
1 GAT
23969248 GTTTATATCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.23, C:0.03, G:0.37, T:0.37
Consensus pattern (14 bp):
GATTTGGAGATGCT
Found at i:23969341 original size:28 final size:28
Alignment explanation
Indices: 23969288--23969371 Score: 123
Period size: 28 Copynumber: 3.0 Consensus size: 28
23969278 CACTCTGTGC
23969288 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGA-GGATTATAT
*
23969317 TATTCTGGTGTGTTTGGGAGGATTATAT
1 TATTCTGGTGTGTTTTGGAGGATTATAT
* * *
23969345 GATACTGGCGTGTTTTGGAGGATTATA
1 TATTCTGGTGTGTTTTGGAGGATTATA
23969372 CTAGTGTGTT
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 32 0.64
29 18 0.36
ACGTcount: A:0.19, C:0.05, G:0.31, T:0.45
Consensus pattern (28 bp):
TATTCTGGTGTGTTTTGGAGGATTATAT
Found at i:23979860 original size:20 final size:20
Alignment explanation
Indices: 23979832--23979869 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
23979822 TACATTAAGT
23979832 TAAAAATTATGTTA-ATGATA
1 TAAAAATTA-GTTATATGATA
*
23979852 TAAATATTAGTTATATGA
1 TAAAAATTAGTTATATGA
23979870 ATGTGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (20 bp):
TAAAAATTAGTTATATGATA
Found at i:23986762 original size:12 final size:12
Alignment explanation
Indices: 23986742--23986775 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
23986732 AGTCAGATAC
*
23986742 AGATACAGATTT
1 AGATTCAGATTT
*
23986754 AGTTTCAGATTT
1 AGATTCAGATTT
23986766 AGATTCAGAT
1 AGATTCAGAT
23986776 AACAGTTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (12 bp):
AGATTCAGATTT
Found at i:23986787 original size:31 final size:30
Alignment explanation
Indices: 23986736--23986794 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
23986726 ATGCACAGTC
23986736 AGATACAGATACAGATTTAGTTTCAGATTT
1 AGATACAGATACAGATTTAGTTTCAGATTT
* * *
23986766 AGATTCAGATAACAGTTTTAGTTTTAGAT
1 AGATACAGAT-ACAGATTTAGTTTCAGAT
23986795 ATGCAGAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 9 0.36
31 16 0.64
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.39
Consensus pattern (30 bp):
AGATACAGATACAGATTTAGTTTCAGATTT
Found at i:23988821 original size:8 final size:9
Alignment explanation
Indices: 23988770--23988828 Score: 66
Period size: 10 Copynumber: 6.3 Consensus size: 9
23988760 TATTTAAGTC
23988770 TAAAAATTA
1 TAAAAATTA
23988779 TTAAAATATTA
1 -TAAAA-ATTA
*
23988790 TAAGAATTA
1 TAAAAATTA
*
23988799 TTAAAAACTA
1 -TAAAAATTA
23988809 TAAAAATTA
1 TAAAAATTA
23988818 -AAAAATTA
1 TAAAAATTA
23988826 TAA
1 TAA
23988829 TTTTTGTATA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
8 8 0.19
9 14 0.33
10 16 0.38
11 4 0.10
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.34
Consensus pattern (9 bp):
TAAAAATTA
Found at i:23988910 original size:27 final size:26
Alignment explanation
Indices: 23988863--23988922 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
23988853 TGAAAAATAA
* * *
23988863 TAAAACATTATAAATATTAG-AAATT
1 TAAAAAATTATAAAAAATAGAAAATT
23988888 GTAAAAAATTATAAAAAAATAGAAAATT
1 -TAAAAAATTAT-AAAAAATAGAAAATT
23988916 TAAAAAA
1 TAAAAAA
23988923 ATAATTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 10 0.34
27 14 0.48
28 5 0.17
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (26 bp):
TAAAAAATTATAAAAAATAGAAAATT
Found at i:23988921 original size:17 final size:18
Alignment explanation
Indices: 23988892--23988925 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
23988882 GAAATTGTAA
23988892 AAAATTATAAAAAAATAG
1 AAAATTATAAAAAAATAG
23988910 AAAATT-TAAAAAAATA
1 AAAATTATAAAAAAATA
23988926 ATTAAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (18 bp):
AAAATTATAAAAAAATAG
Found at i:23989018 original size:29 final size:31
Alignment explanation
Indices: 23988977--23989034 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 31
23988967 TGCAAGAATC
*
23988977 ATAGAAATATTA-TAAAACTTT-TAGAAATT
1 ATAGAAATATTATTAAAAATTTATAGAAATT
23989006 ATAGATAAT-TTATTAAAAATTTATAGAAA
1 ATAGA-AATATTATTAAAAATTTATAGAAA
23989035 ACTATGAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 8 0.32
30 11 0.44
31 6 0.24
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.38
Consensus pattern (31 bp):
ATAGAAATATTATTAAAAATTTATAGAAATT
Found at i:23989099 original size:28 final size:26
Alignment explanation
Indices: 23989053--23989110 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 26
23989043 ATAAGTTATA
* *
23989053 AAATTTATTAATATGATAAAAATATATT
1 AAATTTAGTAAAATGAT--AAATATATT
*
23989081 AAATTTAGTAAAATTATAAATATATT
1 AAATTTAGTAAAATGATAAATATATT
23989107 AAAT
1 AAAT
23989111 ATATGGTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 13 0.48
28 14 0.52
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.41
Consensus pattern (26 bp):
AAATTTAGTAAAATGATAAATATATT
Found at i:23989564 original size:24 final size:24
Alignment explanation
Indices: 23989536--23989581 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
23989526 TCTTTTATCA
*
23989536 TTTTATTA-TTTTTATATAATTTCT
1 TTTTATAATTTTTTA-ATAATTTCT
23989560 TTTTATAATTTTTTAATAATTT
1 TTTTATAATTTTTTAATAATTT
23989582 TTCTACATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (24 bp):
TTTTATAATTTTTTAATAATTTCT
Found at i:23994939 original size:27 final size:28
Alignment explanation
Indices: 23994902--23994956 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
23994892 GTGTTTGAAT
*
23994902 ACAGGGACTCACTTATA-GAGGTTCGCA
1 ACAGGGACTCACCTATAGGAGGTTCGCA
* *
23994929 ACAGGGGCTCACCTATAGGGGGTTCGCA
1 ACAGGGACTCACCTATAGGAGGTTCGCA
23994957 TTCAAGGGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 15 0.62
28 9 0.38
ACGTcount: A:0.25, C:0.24, G:0.31, T:0.20
Consensus pattern (28 bp):
ACAGGGACTCACCTATAGGAGGTTCGCA
Found at i:23995627 original size:28 final size:27
Alignment explanation
Indices: 23995595--23995648 Score: 99
Period size: 28 Copynumber: 2.0 Consensus size: 27
23995585 TTCTTCTAGC
23995595 CCTGTTTTTAATATGAAAAAAACTTTTA
1 CCTGTTTTTAATATGAAAAAAA-TTTTA
23995623 CCTGTTTTTAATATGAAAAAAATTTT
1 CCTGTTTTTAATATGAAAAAAATTTT
23995649 GGACTTCTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 4 0.15
28 22 0.85
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.44
Consensus pattern (27 bp):
CCTGTTTTTAATATGAAAAAAATTTTA
Found at i:24011826 original size:18 final size:18
Alignment explanation
Indices: 24011803--24011837 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
24011793 TATACATGCA
*
24011803 ATTTTTATTTATATATAT
1 ATTTTTATATATATATAT
*
24011821 ATTTTTCTATATATATA
1 ATTTTTATATATATATA
24011838 GTCTCTCTCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (18 bp):
ATTTTTATATATATATAT
Found at i:24011879 original size:17 final size:17
Alignment explanation
Indices: 24011853--24011886 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
24011843 TCTCTCTCTC
24011853 TTTTACTTATTTTTTAT
1 TTTTACTTATTTTTTAT
*
24011870 TTTTATTTATTTTTTAT
1 TTTTACTTATTTTTTAT
24011887 AGTAACATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTACTTATTTTTTAT
Found at i:24012594 original size:14 final size:16
Alignment explanation
Indices: 24012554--24012597 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 16
24012544 TTTTCAACAT
*
24012554 AAATTAAACCAAATTCA
1 AAATTAAA-TAAATTCA
24012571 AAATTAAATAAATT-A
1 AAATTAAATAAATTCA
24012586 AAA-TAAATAAAT
1 AAATTAAATAAAT
24012598 ATGGGTTGCC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 9 0.35
15 4 0.15
16 5 0.19
17 8 0.31
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (16 bp):
AAATTAAATAAATTCA
Found at i:24018779 original size:13 final size:13
Alignment explanation
Indices: 24018761--24018795 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
24018751 TAAAGTGTAA
24018761 AAAAAGGAAAAAG
1 AAAAAGGAAAAAG
24018774 AAAAAGG-AAAAG
1 AAAAAGGAAAAAG
*
24018786 AAAAAAGAAA
1 AAAAAGGAAA
24018796 TATTGAACAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAAAGGAAAAAG
Found at i:24019827 original size:14 final size:14
Alignment explanation
Indices: 24019805--24019840 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
24019795 GTTTGACAGT
*
24019805 AATGTTTTCTGGAA
1 AATGATTTCTGGAA
24019819 AATGATTTCTGGAA
1 AATGATTTCTGGAA
24019833 AATGATTT
1 AATGATTT
24019841 ACTTTTTTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.06, G:0.19, T:0.42
Consensus pattern (14 bp):
AATGATTTCTGGAA
Found at i:24021239 original size:32 final size:32
Alignment explanation
Indices: 24021198--24021289 Score: 166
Period size: 32 Copynumber: 2.9 Consensus size: 32
24021188 GTCAATCATT
24021198 TCAATATCCAACAAGCTTAAAACATAATAAAG
1 TCAATATCCAACAAGCTTAAAACATAATAAAG
*
24021230 TCAATATCCAACAAGCTTAAAACATAATAAAT
1 TCAATATCCAACAAGCTTAAAACATAATAAAG
*
24021262 TCAATATCTAACAAGCTTAAAACATAAT
1 TCAATATCCAACAAGCTTAAAACATAAT
24021290 CAATATCTAA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 58 1.00
ACGTcount: A:0.52, C:0.18, G:0.04, T:0.25
Consensus pattern (32 bp):
TCAATATCCAACAAGCTTAAAACATAATAAAG
Found at i:24021313 original size:27 final size:27
Alignment explanation
Indices: 24021198--24021316 Score: 78
Period size: 32 Copynumber: 4.0 Consensus size: 27
24021188 GTCAATCATT
* *
24021198 TCAATATCCAACAAGCTTAAAACATAATAAA
1 TCAATATCTAACAAGATTAAAAC---AT-AA
* *
24021229 GTCAATATCCAACAAGCTTAAAACATAATAAA
1 -TCAATATCTAACAAGATTAAAAC---AT-AA
*
24021261 TTCAATATCTAACAAGCTTAAAACATAA
1 -TCAATATCTAACAAGATTAAAACATAA
*
24021289 TCAATATCTAACAA-ATTCAAGACATAA
1 TCAATATCTAACAAGATT-AAAACATAA
24021316 T
1 T
24021317 AATTTCAAAA
Statistics
Matches: 82, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
26 2 0.02
27 23 0.28
28 2 0.02
29 2 0.02
32 53 0.65
ACGTcount: A:0.52, C:0.18, G:0.04, T:0.25
Consensus pattern (27 bp):
TCAATATCTAACAAGATTAAAACATAA
Found at i:24025376 original size:17 final size:17
Alignment explanation
Indices: 24025354--24025406 Score: 69
Period size: 17 Copynumber: 3.4 Consensus size: 17
24025344 TCTTCAACAG
24025354 ACAGATGCAAAATCCAA
1 ACAGATGCAAAATCCAA
*
24025371 ACAGAT--TAAA--CAA
1 ACAGATGCAAAATCCAA
24025384 ACAGATGCAAAATCCAA
1 ACAGATGCAAAATCCAA
24025401 ACAGAT
1 ACAGAT
24025407 TCTTCAACTA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
13 9 0.30
15 6 0.20
17 15 0.50
ACGTcount: A:0.55, C:0.21, G:0.11, T:0.13
Consensus pattern (17 bp):
ACAGATGCAAAATCCAA
Found at i:24025388 original size:30 final size:30
Alignment explanation
Indices: 24025349--24025407 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
24025339 AAGATTCTTC
*
24025349 AACAGACAGATGCAAAATCCAAACAGATTA
1 AACAAACAGATGCAAAATCCAAACAGATTA
24025379 AACAAACAGATGCAAAATCCAAACAGATT
1 AACAAACAGATGCAAAATCCAAACAGATT
24025408 CTTCAACTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.54, C:0.20, G:0.12, T:0.14
Consensus pattern (30 bp):
AACAAACAGATGCAAAATCCAAACAGATTA
Found at i:24040535 original size:24 final size:24
Alignment explanation
Indices: 24040488--24040537 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
24040478 AAGGGTAAAG
* *
24040488 AAATAAATAAATGAACGAATATAT
1 AAATAAATAAATAAACGAAAATAT
24040512 AAATAAATAAATAAAAC-AAAATAT
1 AAATAAATAAAT-AAACGAAAATAT
24040536 AA
1 AA
24040538 CAATACATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 20 0.87
25 3 0.13
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.22
Consensus pattern (24 bp):
AAATAAATAAATAAACGAAAATAT
Found at i:24042252 original size:24 final size:24
Alignment explanation
Indices: 24042225--24042273 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
24042215 ATATGATTTG
*
24042225 AAAATAATAATAATAACACATGCA
1 AAAATAATAATAATAAAACATGCA
24042249 AAAATAATAATAATAAAACATGCA
1 AAAATAATAATAATAAAACATGCA
24042273 A
1 A
24042274 TATCTATTAA
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:0.65, C:0.10, G:0.04, T:0.20
Consensus pattern (24 bp):
AAAATAATAATAATAAAACATGCA
Found at i:24044086 original size:28 final size:28
Alignment explanation
Indices: 24044054--24044111 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
24044044 GATAATTTCA
24044054 ATATA-AATTATTCAATTTAT-TTTATTAT
1 ATATATAATTATT-AATTTATATTTA-TAT
* *
24044082 ATATATATTTATTTATTTATATTTATAT
1 ATATATAATTATTAATTTATATTTATAT
24044110 AT
1 AT
24044112 TTTTGTTTGC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
28 16 0.62
29 10 0.38
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (28 bp):
ATATATAATTATTAATTTATATTTATAT
Found at i:24044093 original size:20 final size:19
Alignment explanation
Indices: 24044068--24044114 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
24044058 AAATTATTCA
24044068 ATTTATTTTATTATATATAT
1 ATTTATTTTATT-TATATAT
*
24044088 ATTTA-TTTATTTATATTT
1 ATTTATTTTATTTATATAT
*
24044106 ATATATTTT
1 ATTTATTTT
24044115 TGTTTGCTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 10 0.42
19 9 0.38
20 5 0.21
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
ATTTATTTTATTTATATAT
Found at i:24044104 original size:14 final size:14
Alignment explanation
Indices: 24044068--24044113 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
24044058 AAATTATTCA
24044068 ATTTAT-TTTATTAT
1 ATTTATATTTATT-T
*
24044082 ATATATATTTATTT
1 ATTTATATTTATTT
*
24044096 ATTTATATTTATAT
1 ATTTATATTTATTT
24044110 ATTT
1 ATTT
24044114 TTGTTTGCTG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 22 0.79
15 6 0.21
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
ATTTATATTTATTT
Found at i:24044362 original size:87 final size:82
Alignment explanation
Indices: 24044257--24044686 Score: 369
Period size: 82 Copynumber: 5.2 Consensus size: 82
24044247 CTTTGAATAA
* * *
24044257 AATCTGTTTCGGGATTTATTCCCAG-CGATCAACAGATTTTATTCCATTTTTTATTTTGTTTCCA
1 AATCTGTTTCGGGATTTATTCCC-GCCGATTAACAGATTTTATTCTA-TTTTAATTTTGTTTCCA
24044321 AATGAGAAATTAAAATTAAAT
64 AAT-AGAAATT-AAATTAAAT
* * * * *
24044342 AAAATTTGTTTCGAGATTTATTCACGCCGTTTAACAGATTTTATTCTATTTTAATTTTGTTTCTA
1 --AATCTGTTTCGGGATTTATTCCCGCCGATTAACAGATTTTATTCTATTTTAATTTTGTTTCCA
* *
24044407 AATA-AAATTACATTGAAT
64 AATAGAAATTAAATTAAAT
* * * *
24044425 AATCTATTTTGGGATTTATTCACGCCGTTTAACAGATTTTATTCTATTTTAATTTTGTTTCCAAA
1 AATCTGTTTCGGGATTTATTCCCGCCGATTAACAGATTTTATTCTATTTTAATTTTGTTTCC-AA
*
24044490 ATAG-AATTAAATTGAAT
65 ATAGAAATTAAATTAAAT
* * * * * *
24044507 AATCTGTTTCGGGATTTATTCCAGTC-ATTTAACAAATTTTATTCGATTTTGATTTTGTTTCTAA
1 AATCTGTTTCGGGATTTATTCCCGCCGA-TTAACAGATTTTATTCTATTTTAATTTTGTTTCCAA
* * *
24044571 ACGAGAAGGCTT-AATCAAAT
65 A-TAGAA--ATTAAATTAAAT
* * * * *
24044591 AATTATGTTTCGAGATTTATTCCCGTCGCTTAACAGA---T-TT-TATTTTGATTTTGTTTCCAA
1 AA-TCTGTTTCGGGATTTATTCCCGCCGATTAACAGATTTTATTCTATTTTAATTTTGTTTCCAA
* * *
24044651 ACA-AGATTTAATTAAAT
65 ATAGAAATTAAATTAAAT
*
24044668 AATTTTGTTTCGGGATTTA
1 AA-TCTGTTTCGGGATTTA
24044687 ATCTTGTCAT
Statistics
Matches: 289, Mismatches: 43, Indels: 32
0.79 0.12 0.09
Matches are distributed among these distances:
76 2 0.01
77 24 0.08
78 1 0.00
79 1 0.00
80 19 0.07
81 62 0.21
82 71 0.25
83 8 0.03
84 13 0.04
85 31 0.11
86 19 0.07
87 38 0.13
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (82 bp):
AATCTGTTTCGGGATTTATTCCCGCCGATTAACAGATTTTATTCTATTTTAATTTTGTTTCCAAA
TAGAAATTAAATTAAAT
Found at i:24044713 original size:77 final size:76
Alignment explanation
Indices: 24044470--24044724 Score: 208
Period size: 77 Copynumber: 3.2 Consensus size: 76
24044460 ATTTTATTCT
* * * *
24044470 ATTTTAATTTTGTTTCCAAA-ATAGAATTAAATTGAATAA-TCTGTTTCGGGATTTATTCCAGTC
1 ATTTTGATTTTGTTTCCAAACA-AG-ATTTAATTAAATAATTATGTTTCGGGATTTATTCCAGTC
24044533 ATTTAACAAATTTTATTCG
64 A-TTAACAAA----ATT-G
* ** * * *
24044552 ATTTTGATTTTGTTTCTAAACGAGAAGGCTTAATCAAATAATTATGTTTCGAGATTTATTCCCGT
1 ATTTTGATTTTGTTTCCAAAC---AAGATTTAATTAAATAATTATGTTTCGGGATTTATTCCAGT
* * * *
24044617 CGCTTAACAGATTTT
63 C-ATTAACAAAATTG
* * **
24044632 ATTTTGATTTTGTTTCCAAACAAGATTTAATTAAATAATTTTGTTTCGGGATTTAATCTTGTCAT
1 ATTTTGATTTTGTTTCCAAACAAGATTTAATTAAATAATTATGTTTCGGGATTTATTCCAGTCAT
*
24044697 TCAACAAACTTG
66 T-AACAAAATTG
24044709 ATTTTGATTTTGTTTC
1 ATTTTGATTTTGTTTC
24044725 ATAATTTTAA
Statistics
Matches: 139, Mismatches: 27, Indels: 19
0.75 0.15 0.10
Matches are distributed among these distances:
76 2 0.01
77 57 0.41
80 20 0.14
81 2 0.01
82 18 0.13
84 9 0.06
85 30 0.22
86 1 0.01
ACGTcount: A:0.30, C:0.12, G:0.13, T:0.46
Consensus pattern (76 bp):
ATTTTGATTTTGTTTCCAAACAAGATTTAATTAAATAATTATGTTTCGGGATTTATTCCAGTCAT
TAACAAAATTG
Found at i:24045308 original size:184 final size:184
Alignment explanation
Indices: 24044999--24045341 Score: 659
Period size: 184 Copynumber: 1.9 Consensus size: 184
24044989 ACAAAAGTTG
*
24044999 ATAAGTTTTCTAATTCTAGTTTTGTTTCTTAACAGAAAATGGAAACTCCTAACAATTCAATCAAT
1 ATAAGTTTTCTAATTCTAGTTTTGTTTCTTAACAGAAAATGGAAACTCCCAACAATTCAATCAAT
24045064 TCGCAATTTGAAGCTTTGGTTCAAGCGCAATCTTCGATCCAAAACTCAGTGTTACCGGTGGCAGC
66 TCGCAATTTGAAGCTTTGGTTCAAGCGCAATCTTCGATCCAAAACTCAGTGTTACCGGTGGCAGC
24045129 TGCTGTAAGTGTAACAACTAGTTTTCAGTTTGTGGTTCACTTTTAGAAATAGAT
131 TGCTGTAAGTGTAACAACTAGTTTTCAGTTTGTGGTTCACTTTTAGAAATAGAT
*
24045183 ATAAGTTTTCTAATTCTAGTTTTGTTTCTTAACAGAAAATGGAAACTCCCACCAATTCAATCAAT
1 ATAAGTTTTCTAATTCTAGTTTTGTTTCTTAACAGAAAATGGAAACTCCCAACAATTCAATCAAT
*
24045248 TCGCAATTTGAAGCTTTGGTTCAAGCGCAATCTTCGATCCAAAACTTAGTGTTACCGGTGGCAGC
66 TCGCAATTTGAAGCTTTGGTTCAAGCGCAATCTTCGATCCAAAACTCAGTGTTACCGGTGGCAGC
24045313 TGCTGTAAGTGTAACAACTAGTTTTCAGT
131 TGCTGTAAGTGTAACAACTAGTTTTCAGT
24045342 AAAATTGGAT
Statistics
Matches: 156, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
184 156 1.00
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (184 bp):
ATAAGTTTTCTAATTCTAGTTTTGTTTCTTAACAGAAAATGGAAACTCCCAACAATTCAATCAAT
TCGCAATTTGAAGCTTTGGTTCAAGCGCAATCTTCGATCCAAAACTCAGTGTTACCGGTGGCAGC
TGCTGTAAGTGTAACAACTAGTTTTCAGTTTGTGGTTCACTTTTAGAAATAGAT
Found at i:24051665 original size:20 final size:20
Alignment explanation
Indices: 24051637--24051685 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
24051627 ATGTATCCTG
*
24051637 ATTTTATTTGATTATAATCA
1 ATTTGATTTGATTATAATCA
* *
24051657 ATTTGATTTTATTTTAATCA
1 ATTTGATTTGATTATAATCA
*
24051677 AATTGATTT
1 ATTTGATTT
24051686 AATTGCCCCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.33, C:0.04, G:0.06, T:0.57
Consensus pattern (20 bp):
ATTTGATTTGATTATAATCA
Found at i:24052820 original size:10 final size:10
Alignment explanation
Indices: 24052807--24052833 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
24052797 TTCAACCAGT
24052807 ATAATAAAAA
1 ATAATAAAAA
24052817 ATAATAAAAA
1 ATAATAAAAA
24052827 ATAATAA
1 ATAATAA
24052834 TTAATATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (10 bp):
ATAATAAAAA
Found at i:24053084 original size:17 final size:17
Alignment explanation
Indices: 24053059--24053096 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
24053049 ATTTTAACCA
24053059 ATATAATAAATAA-TAAT
1 ATATAAT-AATAATTAAT
*
24053076 ATATGATAATAATTAAT
1 ATATAATAATAATTAAT
24053093 ATAT
1 ATAT
24053097 TATGTATTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (17 bp):
ATATAATAATAATTAAT
Found at i:24055861 original size:17 final size:17
Alignment explanation
Indices: 24055839--24055872 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
24055829 GAATTTGAAC
24055839 TTAAAAAATAA-TTAAAA
1 TTAAAAAA-AATTTAAAA
24055856 TTAAAAAAAATTTAAAA
1 TTAAAAAAAATTTAAAA
24055873 CCCTTAACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 14 0.88
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TTAAAAAAAATTTAAAA
Found at i:24056515 original size:113 final size:113
Alignment explanation
Indices: 24056355--24056564 Score: 300
Period size: 113 Copynumber: 1.9 Consensus size: 113
24056345 TAGTCACTGT
** * * **
24056355 ATATTTAGCTGATTTGTTTTAGGGTTCATAAGAAATTGTGTGATTTTTTATATTTTTT-AATT-G
1 ATATTTAGCCAATTTATTTTAGGGTTAATAAGAAATTAAGTGATTTTTTAT-TTTTTTAAATTAG
24056418 AATATTGATGAAACATTTCTTTCCCATGCGTGAAATGTATTCGGATAAGC
65 -ATATTGATGAAACATTTCTTTCCCATGCGTGAAATGTATTCGGATAAGC
24056468 ATATTTAGCCAATTTATTTTAGGGTTAATAAGAAATTAAG-GATTTTTTTATTTTTTTAAATTAG
1 ATATTTAGCCAATTTATTTTAGGGTTAATAAGAAATTAAGTGA-TTTTTTATTTTTTTAAATTAG
* *
24056532 ATATTGATGAAATATTTCTTTTCCATGCGTGAA
65 ATATTGATGAAACATTTCTTTCCCATGCGTGAA
24056565 TAATAGAGTA
Statistics
Matches: 86, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
112 8 0.09
113 77 0.90
114 1 0.01
ACGTcount: A:0.30, C:0.08, G:0.16, T:0.46
Consensus pattern (113 bp):
ATATTTAGCCAATTTATTTTAGGGTTAATAAGAAATTAAGTGATTTTTTATTTTTTTAAATTAGA
TATTGATGAAACATTTCTTTCCCATGCGTGAAATGTATTCGGATAAGC
Found at i:24056946 original size:28 final size:29
Alignment explanation
Indices: 24056914--24056972 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 29
24056904 AAATTGTATA
24056914 TGGGTAAATTTTATTTT-TTTAATTATTG
1 TGGGTAAATTTTATTTTATTTAATTATTG
24056942 TGGGTAAATTTTATTTTATTTAATTATTG
1 TGGGTAAATTTTATTTTATTTAATTATTG
24056971 TG
1 TG
24056973 TTGGCTAGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 17 0.57
29 13 0.43
ACGTcount: A:0.25, C:0.00, G:0.15, T:0.59
Consensus pattern (29 bp):
TGGGTAAATTTTATTTTATTTAATTATTG
Found at i:24060428 original size:51 final size:51
Alignment explanation
Indices: 24060327--24060472 Score: 132
Period size: 51 Copynumber: 2.7 Consensus size: 51
24060317 TAATCCTCAA
* * * * *
24060327 CACCCTCACCACCTATACTACCAGCGACCTCACCACCCTTACCTTCACCCTCTCCCT
1 CACCCTCACCACATTTACTACCAACAACCTCACCA-CC---CC-T-ACCCTCACCCT
* * *
24060384 CGCCCTCACCAC-TATTACTGCCAACAACCTTACCACCCCTACCCTCACCCT
1 CACCCTCACCACAT-TTACTACCAACAACCTCACCACCCCTACCCTCACCCT
* *
24060435 CACTCTTACCACATTTACTACCAACAACCTCACCACCC
1 CACCCTCACCACATTTACTACCAACAACCTCACCACCC
24060473 TCACCACCTT
Statistics
Matches: 75, Mismatches: 12, Indels: 10
0.77 0.12 0.10
Matches are distributed among these distances:
51 41 0.55
52 2 0.03
53 2 0.03
56 3 0.04
57 27 0.36
ACGTcount: A:0.25, C:0.52, G:0.03, T:0.21
Consensus pattern (51 bp):
CACCCTCACCACATTTACTACCAACAACCTCACCACCCCTACCCTCACCCT
Found at i:24062934 original size:17 final size:18
Alignment explanation
Indices: 24062906--24062939 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
24062896 CTGGTTAGTG
24062906 TTTAACTTGTTTTAATTT
1 TTTAACTTGTTTTAATTT
24062924 TTTAA-TTGTTTTAATT
1 TTTAACTTGTTTTAATT
24062940 GTGGGTAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.24, C:0.03, G:0.06, T:0.68
Consensus pattern (18 bp):
TTTAACTTGTTTTAATTT
Found at i:24062935 original size:9 final size:9
Alignment explanation
Indices: 24062906--24062941 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
24062896 CTGGTTAGTG
24062906 TTTAACTTGT
1 TTTAA-TTGT
24062916 TTTAATT-T
1 TTTAATTGT
24062924 TTTAATTGT
1 TTTAATTGT
24062933 TTTAATTGT
1 TTTAATTGT
24062942 GGGTAAACCC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 8 0.32
9 12 0.48
10 5 0.20
ACGTcount: A:0.22, C:0.03, G:0.08, T:0.67
Consensus pattern (9 bp):
TTTAATTGT
Found at i:24063005 original size:18 final size:18
Alignment explanation
Indices: 24062972--24063010 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
24062962 CTAATTGTTT
*
24062972 TTTTTTAATTTTAATT-A
1 TTTTTTAATTTAAATTCA
24062989 TTTTTTAAGTTTAAATTCA
1 TTTTTTAA-TTTAAATTCA
24063008 TTT
1 TTT
24063011 GCTGGCGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 7 0.37
19 4 0.21
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (18 bp):
TTTTTTAATTTAAATTCA
Found at i:24069826 original size:40 final size:40
Alignment explanation
Indices: 24069704--24069887 Score: 208
Period size: 40 Copynumber: 4.6 Consensus size: 40
24069694 TATTCGAATG
* * *
24069704 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTAACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* * ** * *
24069744 ATATCAGGACTAAGATTCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGACT
* * *
24069784 ATATCCGGGCTAAGACCCAAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* * * *
24069824 ATATCCGGGCTAAGTCCCGAAGGCATTTATACTGGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
24069864 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
24069888 CTTGTGCGAG
Statistics
Matches: 118, Mismatches: 24, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
39 1 0.01
40 116 0.98
41 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
Found at i:24075878 original size:28 final size:28
Alignment explanation
Indices: 24075846--24075913 Score: 109
Period size: 28 Copynumber: 2.4 Consensus size: 28
24075836 CTCGATGTAC
24075846 CGCACACTAAGTGCCATAATCAATAACT
1 CGCACACTAAGTGCCATAATCAATAACT
* * *
24075874 CGCACACTAAGTGCCATACTCGATATCT
1 CGCACACTAAGTGCCATAATCAATAACT
24075902 CGCACACTAAGT
1 CGCACACTAAGT
24075914 CCTGTATATA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.34, C:0.31, G:0.13, T:0.22
Consensus pattern (28 bp):
CGCACACTAAGTGCCATAATCAATAACT
Found at i:24075950 original size:40 final size:40
Alignment explanation
Indices: 24075901--24076008 Score: 112
Period size: 40 Copynumber: 2.7 Consensus size: 40
24075891 ACTCGATATC
**
24075901 TCGCACACTAAGT-CCTGTATATA-CCTGAAGCTATCTCGAA
1 TCGCACACTAAGTGCC-AAATATAGCC-GAAGCTATCTCGAA
*
24075941 TCGCACACTAAGTGCCAAATTTAGCCGAAGCTATCTCGAA
1 TCGCACACTAAGTGCCAAATATAGCCGAAGCTATCTCGAA
* * * * *
24075981 CCGTACACTAAGTGTCTAATTTAGCCGA
1 TCGCACACTAAGTGCCAAATATAGCCGA
24076009 TATGTCGTCA
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
40 55 0.93
41 4 0.07
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.26
Consensus pattern (40 bp):
TCGCACACTAAGTGCCAAATATAGCCGAAGCTATCTCGAA
Found at i:24076738 original size:19 final size:19
Alignment explanation
Indices: 24076714--24076756 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
24076704 CTCGCTAAAT
24076714 AATCTCATAAGGTCCGATG
1 AATCTCATAAGGTCCGATG
*
24076733 AATCTCATAAGGTCTGATG
1 AATCTCATAAGGTCCGATG
24076752 AATCT
1 AATCT
24076757 GAGGTATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (19 bp):
AATCTCATAAGGTCCGATG
Found at i:24078962 original size:46 final size:46
Alignment explanation
Indices: 24078906--24079078 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
24078896 TGGTTGAGCA
* * * *
24078906 TCCGAACTCGTTGAGTTGAGTCCGACTTCACTTATGGATGCAAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
* * * *
24078952 TCTGAGCTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAA--A--CG
* * *
24078999 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGTGAACG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
* *
24079045 ACCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
24079079 GGGGCAGGTT
Statistics
Matches: 102, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 57 0.56
47 27 0.26
48 3 0.03
50 6 0.06
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
Found at i:24079062 original size:93 final size:93
Alignment explanation
Indices: 24078903--24079073 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
24078893 GGATGGTTGA
* * *
24078903 GCATCCGAACTCGTTGAGTTGAGTCCGACTTCACTTATGGATGCAAATGTCTGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGACTTCACTTATGGATGCAAACGACCGAGCTCGTTGAGT
24078968 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * **
24078996 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGTGAACGACCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGACTTCACTTATGGATGCAAACGACCGAGCTCGTTGAGT
*
24079061 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
24079074 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGACTTCACTTATGGATGCAAACGACCGAGCTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:24096651 original size:28 final size:28
Alignment explanation
Indices: 24096603--24096715 Score: 127
Period size: 28 Copynumber: 4.0 Consensus size: 28
24096593 AATGTCGTTG
* * * *
24096603 CATACTCGATGTCTCACACACTAAGTGC
1 CATACTCAATATCTCGCACACTAAGTGT
* *
24096631 CATAATCAATAACTCGCACACTAAGTGT
1 CATACTCAATATCTCGCACACTAAGTGT
* * * *
24096659 CATTCTCAATGTTTCGCACTCTAAGTGT
1 CATACTCAATATCTCGCACACTAAGTGT
*
24096687 CATACTCGATATCTCGCACACTAAGTGT
1 CATACTCAATATCTCGCACACTAAGTGT
24096715 C
1 C
24096716 GTACATAGCT
Statistics
Matches: 68, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 68 1.00
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.29
Consensus pattern (28 bp):
CATACTCAATATCTCGCACACTAAGTGT
Found at i:24111496 original size:32 final size:32
Alignment explanation
Indices: 24111455--24111523 Score: 138
Period size: 32 Copynumber: 2.2 Consensus size: 32
24111445 TTTTATTTTA
24111455 TTTCTTTTTATAAAAATTCCCTCTGTTTGTCG
1 TTTCTTTTTATAAAAATTCCCTCTGTTTGTCG
24111487 TTTCTTTTTATAAAAATTCCCTCTGTTTGTCG
1 TTTCTTTTTATAAAAATTCCCTCTGTTTGTCG
24111519 TTTCT
1 TTTCT
24111524 ATTCTCTCGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.17, C:0.19, G:0.09, T:0.55
Consensus pattern (32 bp):
TTTCTTTTTATAAAAATTCCCTCTGTTTGTCG
Found at i:24114875 original size:28 final size:31
Alignment explanation
Indices: 24114825--24114882 Score: 77
Period size: 28 Copynumber: 2.0 Consensus size: 31
24114815 TCTTTTCATT
*
24114825 TTATTATTATTATTAAATCTTTATTTATTTA
1 TTATTATTATTATTAAATCTTTATTGATTTA
*
24114856 TTATT-TTATTATT-AGT-TTTATTGATTT
1 TTATTATTATTATTAAATCTTTATTGATTT
24114883 TTTTTGATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 10 0.40
29 2 0.08
30 8 0.32
31 5 0.20
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.67
Consensus pattern (31 bp):
TTATTATTATTATTAAATCTTTATTGATTTA
Found at i:24125781 original size:26 final size:26
Alignment explanation
Indices: 24125752--24125801 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
24125742 GACCAATTCC
*
24125752 TATAAACATTTCACACAACCATTTTG
1 TATAAACAATTCACACAACCATTTTG
* * *
24125778 TATAACCAATTCATATAACCATTT
1 TATAAACAATTCACACAACCATTT
24125802 GTCATCTGGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.40, C:0.22, G:0.02, T:0.36
Consensus pattern (26 bp):
TATAAACAATTCACACAACCATTTTG
Found at i:24125784 original size:13 final size:13
Alignment explanation
Indices: 24125732--24125801 Score: 50
Period size: 13 Copynumber: 5.3 Consensus size: 13
24125722 TTGTACATAT
*
24125732 ATTTCCATATGACC
1 ATTT-CATATAACC
* * *
24125746 AATTCCTATAAAC
1 ATTTCATATAACC
* *
24125759 ATTTCACACAACC
1 ATTTCATATAACC
**
24125772 ATTTTGTATAACC
1 ATTTCATATAACC
*
24125785 AATTCATATAACC
1 ATTTCATATAACC
24125798 ATTT
1 ATTT
24125802 GTCATCTGGT
Statistics
Matches: 39, Mismatches: 17, Indels: 1
0.68 0.30 0.02
Matches are distributed among these distances:
13 36 0.92
14 3 0.08
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.36
Consensus pattern (13 bp):
ATTTCATATAACC
Found at i:24125951 original size:46 final size:46
Alignment explanation
Indices: 24125899--24126110 Score: 264
Period size: 46 Copynumber: 4.6 Consensus size: 46
24125889 TGCCATAGTG
* * * *
24125899 TCTTTCAACTATGGTCTTATTCGTTTCCCGTCATGTTGTCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCACGTCACGTTGTCATGGTA
* * *
24125945 TCTTTCAACCATGGTATTATTCATTTCCCGTCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCACGTCACGTTGTCATGGTA
* *
24125991 TCTTTCAACCATGGTCTTATTCTTTTCATGTCACGTTG-CGATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCACGTCACGTTGTC-ATGGTA
** ** *
24126037 TCTTTCAACCATGGTCTTACACATTTCATTTCATGTTGTCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCACGTCACGTTGTCATGGTA
**
24126083 TCTTTCAACCATGGTCTTACACATTTCA
1 TCTTTCAACCATGGTCTTATTCATTTCA
24126111 TTTCAGTAAG
Statistics
Matches: 150, Mismatches: 14, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
45 1 0.01
46 148 0.99
47 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.42
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTATTCATTTCACGTCACGTTGTCATGGTA
Found at i:24126696 original size:17 final size:18
Alignment explanation
Indices: 24126656--24126697 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
24126646 GATCCAAATT
* *
24126656 AATAATTTCATTCAATAT
1 AATAATTTCAATCAATAA
*
24126674 ATTAATTT-AATCAATAA
1 AATAATTTCAATCAATAA
24126691 AATAATT
1 AATAATT
24126698 CATATCCTTC
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (18 bp):
AATAATTTCAATCAATAA
Found at i:24128240 original size:27 final size:28
Alignment explanation
Indices: 24128210--24128286 Score: 70
Period size: 27 Copynumber: 2.8 Consensus size: 28
24128200 AATAAAGTAA
*
24128210 TAAAAAAATAATAATAAAATATCTT-TT
1 TAAAAAAATAATAATAAAATATCTTATC
* *
24128237 TAAAATATTAATAA-AATAATAT-TTATC
1 TAAAAAAATAATAATAA-AATATCTTATC
** *
24128264 TAATTAAATAATTATAAAATATC
1 TAAAAAAATAATAATAAAATATC
24128287 AAAATATCTC
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
26 4 0.11
27 32 0.84
28 2 0.05
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (28 bp):
TAAAAAAATAATAATAAAATATCTTATC
Found at i:24133031 original size:23 final size:22
Alignment explanation
Indices: 24132988--24133031 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
24132978 TTTCTATTTC
* *
24132988 TTTTTCTTTGTTTCTTCTTTTT
1 TTTTTCTTTGTTTATTATTTTT
*
24133010 TTTTTACTTTTTTTATTATTTT
1 TTTTT-CTTTGTTTATTATTTT
24133032 ATTATATTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.07, C:0.09, G:0.02, T:0.82
Consensus pattern (22 bp):
TTTTTCTTTGTTTATTATTTTT
Found at i:24133198 original size:18 final size:18
Alignment explanation
Indices: 24133166--24133221 Score: 51
Period size: 18 Copynumber: 3.0 Consensus size: 18
24133156 TTTATTCATT
*
24133166 AATATAATAATATAATATC
1 AATA-AATAAAATAATATC
* *
24133185 AATTAATTAAATAATGAT-
1 AATAAATAAAATAAT-ATC
24133203 AATAAATAAAATAAATATC
1 AATAAATAAAAT-AATATC
24133222 TATTTAATAC
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
18 21 0.72
19 8 0.28
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.34
Consensus pattern (18 bp):
AATAAATAAAATAATATC
Found at i:24137821 original size:35 final size:35
Alignment explanation
Indices: 24137782--24137852 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
24137772 TATGGCTATG
24137782 AAATTAAATGGTTAAGGGATTTAAATTTTAATTTT
1 AAATTAAATGGTTAAGGGATTTAAATTTTAATTTT
24137817 AAATTAAATGGTTAAGGGATTTAAATTTTAATTTT
1 AAATTAAATGGTTAAGGGATTTAAATTTTAATTTT
24137852 A
1 A
24137853 CCATTTATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (35 bp):
AAATTAAATGGTTAAGGGATTTAAATTTTAATTTT
Found at i:24142280 original size:93 final size:93
Alignment explanation
Indices: 24142169--24142339 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
24142159 ACCCCTAAGT
* * * * *
24142169 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAATTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATAAACTCGGACTCAACTCAA
*
24142234 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCAGATGCCTAGTTACATCTCAC
* * *
24142262 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTAAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATAAACTCGGACTCAACTCAA
24142327 CGAGTTCAGATGC
66 CGAGTTCAGATGC
24142340 TCAACCATCC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATAAACTCGGACTCAACTCAA
CGAGTTCAGATGCCTAGTTACATCTCAC
Found at i:24142322 original size:46 final size:46
Alignment explanation
Indices: 24142164--24142333 Score: 175
Period size: 46 Copynumber: 3.7 Consensus size: 46
24142154 AACCCACCCC
* * * * *
24142164 TAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * * *
24142210 TAAATGAACTCGGACTCAATTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
24142258 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
*
24142303 TAAGTAAACTCGGACTCAACTCAACGAGTTC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC
24142334 AGATGCTCAA
Statistics
Matches: 100, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 54 0.54
47 28 0.28
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:24154578 original size:49 final size:48
Alignment explanation
Indices: 24154526--24154830 Score: 215
Period size: 46 Copynumber: 6.5 Consensus size: 48
24154516 GTCGATGCTG
* *
24154526 TGTCCAAGACAGGTCTTACACTGA-CTTTCATATATCGAGGCCGATGCCG
1 TGTCCCAGACAGGTCTTACACT-ACCTTTCATATATC-AGGCCGATGCCA
* * * * * *
24154575 TGTCCCAGACAGGACTTACACTAGCTCTCATCTATCAGTGTCAATGCCA
1 TGTCCCAGACAGGTCTTACACTACCTTTCATATATCAG-GCCGATGCCA
* * * *
24154624 TGTCCCAGACAGGTCTTACACTGA-C--ACACA-A-CAAGCTGATGCCA
1 TGTCCCAGACAGGTCTTACACT-ACCTTTCATATATCAGGCCGATGCCA
** *
24154668 TGTCTTAGACAGGTCTTACACTACCTTGT-ATATCTCGAGGCCGATG-CA
1 TGTCCCAGACAGGTCTTACACTACCTT-TCATATATC-AGGCCGATGCCA
* * * * * *
24154716 TGTCCCAGACATGTCTTACACTATCTCTC--ATCTCAATGTCGATG-CA
1 TGTCCCAGACAGGTCTTACACTACCTTTCATATATC-AGGCCGATGCCA
* *
24154762 TGTCCCAGACATGTCTTACACTAGCTTTCATA-AT-ATGGCCGATG-CA
1 TGTCCCAGACAGGTCTTACACTACCTTTCATATATCA-GGCCGATGCCA
* *
24154808 TGTCCCAAACATGTCTTACACTA
1 TGTCCCAGACAGGTCTTACACTA
24154831 GCTCACATAC
Statistics
Matches: 206, Mismatches: 36, Indels: 31
0.75 0.13 0.11
Matches are distributed among these distances:
43 1 0.00
44 28 0.14
45 3 0.01
46 74 0.36
47 4 0.02
48 29 0.14
49 66 0.32
50 1 0.00
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (48 bp):
TGTCCCAGACAGGTCTTACACTACCTTTCATATATCAGGCCGATGCCA
Found at i:24156682 original size:17 final size:17
Alignment explanation
Indices: 24156649--24156696 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
24156639 AATCCCTGAT
*
24156649 CAAATGTGCATG-TAAAC
1 CAAATG-GCATGCCAAAC
24156666 CAAATGGCATGCCAAAC
1 CAAATGGCATGCCAAAC
*
24156683 CTAATGGCATGCCA
1 CAAATGGCATGCCA
24156697 TACATATCCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.18
17 23 0.82
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.19
Consensus pattern (17 bp):
CAAATGGCATGCCAAAC
Found at i:24164312 original size:30 final size:30
Alignment explanation
Indices: 24164277--24164334 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
24164267 CACGGTCATT
* *
24164277 ACACATGGGCGTGTGGCCTACCCATGTGTC
1 ACACATGGGCATGTGGACTACCCATGTGTC
*
24164307 ACACATGGGCATGTGGATTACCCATGTG
1 ACACATGGGCATGTGGACTACCCATGTG
24164335 GAACTGCCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.21, C:0.26, G:0.29, T:0.24
Consensus pattern (30 bp):
ACACATGGGCATGTGGACTACCCATGTGTC
Found at i:24166911 original size:23 final size:24
Alignment explanation
Indices: 24166876--24166921 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
24166866 AAATAACTAG
*
24166876 AAATAAAGAGAA-TATAGAAAATA
1 AAATAAAGAGAATTAAAGAAAATA
24166899 AAATAAATG-GAATTAAAGAAAAT
1 AAATAAA-GAGAATTAAAGAAAAT
24166922 GGGGGAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.67, C:0.00, G:0.13, T:0.20
Consensus pattern (24 bp):
AAATAAAGAGAATTAAAGAAAATA
Found at i:24167739 original size:74 final size:74
Alignment explanation
Indices: 24167618--24167761 Score: 270
Period size: 74 Copynumber: 1.9 Consensus size: 74
24167608 TGTCACACGG
*
24167618 TCGTGTGGCTCGAGTTTATGGCCGTGTGTATGTCAATACTTAGGAATTTTTAGCCCTATTTCCAC
1 TCGTGTGGCTCGAGTTTATGGCCATGTGTATGTCAATACTTAGGAATTTTTAGCCCTATTTCCAC
24167683 ACGGCAGGA
66 ACGGCAGGA
*
24167692 TCGTGTGGCTCGAGTTTATGGCCATGTGTATGTCAATACTTGGGAATTTTTAGCCCTATTTCCAC
1 TCGTGTGGCTCGAGTTTATGGCCATGTGTATGTCAATACTTAGGAATTTTTAGCCCTATTTCCAC
24167757 ACGGC
66 ACGGC
24167762 CGAGGACACG
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 68 1.00
ACGTcount: A:0.19, C:0.21, G:0.25, T:0.35
Consensus pattern (74 bp):
TCGTGTGGCTCGAGTTTATGGCCATGTGTATGTCAATACTTAGGAATTTTTAGCCCTATTTCCAC
ACGGCAGGA
Found at i:24177433 original size:28 final size:25
Alignment explanation
Indices: 24177401--24177474 Score: 67
Period size: 25 Copynumber: 2.8 Consensus size: 25
24177391 TGTGCAAAAC
*
24177401 TTCTTATTGTGGTTCTTTAGAAGTAGTT
1 TTCTTATT-TAGTTCTTT--AAGTAGTT
* *
24177429 TTCTTCTTTATTTCTTTAAGTAGTT
1 TTCTTATTTAGTTCTTTAAGTAGTT
* *
24177454 TTCTTCTTTATTTTCTTTAAG
1 TTCTTATTTA-GTTCTTTAAG
24177475 GAGTCATGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
25 18 0.43
26 10 0.24
27 7 0.17
28 7 0.17
ACGTcount: A:0.16, C:0.11, G:0.12, T:0.61
Consensus pattern (25 bp):
TTCTTATTTAGTTCTTTAAGTAGTT
Found at i:24177452 original size:25 final size:26
Alignment explanation
Indices: 24177421--24177474 Score: 101
Period size: 25 Copynumber: 2.1 Consensus size: 26
24177411 GGTTCTTTAG
24177421 AAGTAGTTTTCTTCTTTA-TTTCTTT
1 AAGTAGTTTTCTTCTTTATTTTCTTT
24177446 AAGTAGTTTTCTTCTTTATTTTCTTT
1 AAGTAGTTTTCTTCTTTATTTTCTTT
24177472 AAG
1 AAG
24177475 GAGTCATGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 18 0.64
26 10 0.36
ACGTcount: A:0.19, C:0.11, G:0.09, T:0.61
Consensus pattern (26 bp):
AAGTAGTTTTCTTCTTTATTTTCTTT
Found at i:24181064 original size:193 final size:193
Alignment explanation
Indices: 24180735--24181122 Score: 767
Period size: 193 Copynumber: 2.0 Consensus size: 193
24180725 TATTTTTTTG
24180735 CAATGATGTGAGCCTCAAAGCCTAATTTCAGACCCATGGATGTGATGAGCTCACACTACCTCAAG
1 CAATGATGTGAGCCTCAAAGCCTAATTTCAGACCCATGGATGTGATGAGCTCACACTACCTCAAG
24180800 GCCCAACAACAATGTCAAAAACCAAACAAATCAAACCAACATTCGATTAAAGACAAGATTTGAGG
66 GCCCAACAACAATGTCAAAAACCAAACAAATCAAACCAACATTCGATTAAAGACAAGATTTGAGG
*
24180865 ACGAATCTTTTCGAGGAAAGGGGGGATGATACGTGCACAGATGGGATGAAATTTATTAAGTTT
131 ACGAATCTTTTCGAGGAAAGGGGGGATGATACGTGCACAGATGGGATGAAATTTATTAAATTT
24180928 CAATGATGTGAGCCTCAAAGCCTAATTTCAGACCCATGGATGTGATGAGCTCACACTACCTCAAG
1 CAATGATGTGAGCCTCAAAGCCTAATTTCAGACCCATGGATGTGATGAGCTCACACTACCTCAAG
24180993 GCCCAACAACAATGTCAAAAACCAAACAAATCAAACCAACATTCGATTAAAGACAAGATTTGAGG
66 GCCCAACAACAATGTCAAAAACCAAACAAATCAAACCAACATTCGATTAAAGACAAGATTTGAGG
24181058 ACGAATCTTTTCGAGGAAAGGGGGGATGATACGTGCACAGATGGGATGAAATTTATTAAATTT
131 ACGAATCTTTTCGAGGAAAGGGGGGATGATACGTGCACAGATGGGATGAAATTTATTAAATTT
24181121 CA
1 CA
24181123 TTCATCGAAA
Statistics
Matches: 194, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
193 194 1.00
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (193 bp):
CAATGATGTGAGCCTCAAAGCCTAATTTCAGACCCATGGATGTGATGAGCTCACACTACCTCAAG
GCCCAACAACAATGTCAAAAACCAAACAAATCAAACCAACATTCGATTAAAGACAAGATTTGAGG
ACGAATCTTTTCGAGGAAAGGGGGGATGATACGTGCACAGATGGGATGAAATTTATTAAATTT
Found at i:24184426 original size:21 final size:22
Alignment explanation
Indices: 24184384--24184426 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
24184374 TTATTCTCAA
* **
24184384 ATTTCTTCTTTTACTATTTTTG
1 ATTTCTTCTATTACTAAATTTG
24184406 ATTTCTT-TATTACTAAATTTG
1 ATTTCTTCTATTACTAAATTTG
24184427 TTTATTTCTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.21, C:0.12, G:0.05, T:0.63
Consensus pattern (22 bp):
ATTTCTTCTATTACTAAATTTG
Found at i:24189728 original size:12 final size:12
Alignment explanation
Indices: 24189702--24189734 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
24189692 CCAAAACAAT
24189702 AAAATCA-TT-A
1 AAAATCACTTAA
24189712 AAAATCACTTAA
1 AAAATCACTTAA
24189724 AAAATCACTTA
1 AAAATCACTTA
24189735 TATTTATCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 7 0.33
11 2 0.10
12 12 0.57
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (12 bp):
AAAATCACTTAA
Found at i:24194835 original size:24 final size:24
Alignment explanation
Indices: 24194770--24194840 Score: 106
Period size: 24 Copynumber: 3.0 Consensus size: 24
24194760 CTGTCAGAAG
* *
24194770 AGGATTTCGGAGTTGATAAGCGAT
1 AGGATTTAGGAGTTGATAAGGGAT
24194794 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
**
24194818 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGTTGATAAGGGA
24194841 GGAAATCTAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.34, C:0.04, G:0.37, T:0.25
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:24196358 original size:27 final size:27
Alignment explanation
Indices: 24196257--24196361 Score: 115
Period size: 27 Copynumber: 3.9 Consensus size: 27
24196247 AGGAAGCGTC
* *
24196257 CTGGTGGCTATGCCACAATAATCTG-AT
1 CTGGTGGCTCTGCCAC-ATTATCTGTAT
*
24196284 CTGGTGGCTCTGCCACATATTTCTGT-T
1 CTGGTGGCTCTGCCACAT-TATCTGTAT
*
24196311 CTGGTGGCTCTGCCATGATTATCTGTAT
1 CTGGTGGCTCTGCCA-CATTATCTGTAT
* *
24196339 CTGGTGACTCTGTCACATTATCT
1 CTGGTGGCTCTGCCACATTATCT
24196362 ATTCTGGCAA
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
26 2 0.03
27 48 0.73
28 16 0.24
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTATCTGTAT
Found at i:24196367 original size:54 final size:54
Alignment explanation
Indices: 24196257--24196368 Score: 136
Period size: 54 Copynumber: 2.1 Consensus size: 54
24196247 AGGAAGCGTC
* * *
24196257 CTGGTGGCTATGCCACAATAATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATAATCTGATCTGGTGACTCTGCCACATATATCTATT
* ** * *
24196311 CTGGTGGCTCTGCCATGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTATT
1 CTGGTGGCTATGCCACAATAATCTG-ATCTGGTGACTCTGCCACATATATCTATT
24196365 CTGG
1 CTGG
24196369 CAACCATGCT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 31 0.63
55 18 0.37
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATAATCTGATCTGGTGACTCTGCCACATATATCTATT
Found at i:24201247 original size:24 final size:24
Alignment explanation
Indices: 24201215--24201285 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
24201205 CTGTCAGGAG
24201215 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
*
24201239 AGGATTTAGGAGTTGGTAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
**
24201263 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGTTGATAAGGGA
24201286 GGAAATCTAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.34, C:0.01, G:0.39, T:0.25
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:24201297 original size:48 final size:48
Alignment explanation
Indices: 24201215--24201308 Score: 111
Period size: 48 Copynumber: 1.9 Consensus size: 48
24201205 CTGTCAGGAG
** * *
24201215 AGGATTTAGGAGTTGATAAGGGATAGGATTTAGGAGTTGGT-AAGGGAT
1 AGGATTTAGGAGCAGATAAGGGA-AGGATCTAGGAGCTGGTCAAGGGAT
24201263 AGGATTTAGGAGCAGATAAGGG-AGGAAATCTAGGAGCTGGTCAAGG
1 AGGATTTAGGAGCAGATAAGGGAAGG--ATCTAGGAGCTGGTCAAGG
24201309 AAAAAGAGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
46 3 0.08
48 32 0.82
49 4 0.10
ACGTcount: A:0.33, C:0.04, G:0.39, T:0.23
Consensus pattern (48 bp):
AGGATTTAGGAGCAGATAAGGGAAGGATCTAGGAGCTGGTCAAGGGAT
Found at i:24202741 original size:27 final size:27
Alignment explanation
Indices: 24202701--24202811 Score: 111
Period size: 27 Copynumber: 4.1 Consensus size: 27
24202691 AGGAAGCGTC
*
24202701 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
24202728 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
* * *
24202755 TTGGTGGCTTTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
24202783 C-GGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
24202808 CTGG
1 CTGG
24202812 CAGCCATGCT
Statistics
Matches: 69, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
25 2 0.03
26 13 0.19
27 50 0.72
28 4 0.06
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.39
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:24202793 original size:54 final size:53
Alignment explanation
Indices: 24202702--24202807 Score: 142
Period size: 54 Copynumber: 2.0 Consensus size: 53
24202692 GGAAGCGTCC
* *
24202702 TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTTT
1 TGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACAT-TATCTGTTT
* * *
24202756 TGGTGGCTTTGCCACGATTATCTGTATC-GGTGACTCTGTCACATTATCTGTT
1 TGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATTATCTGTT
24202808 CTGGCAGCCA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
53 7 0.15
54 36 0.78
55 3 0.07
ACGTcount: A:0.16, C:0.22, G:0.23, T:0.40
Consensus pattern (53 bp):
TGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATTATCTGTTT
Found at i:24209466 original size:19 final size:20
Alignment explanation
Indices: 24209439--24209477 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
24209429 AACTGAAGGG
* *
24209439 TATATTTTTTTATTT-TAAT
1 TATAATTTTTAATTTATAAT
24209458 TATAATTTTTAATTTATAAT
1 TATAATTTTTAATTTATAAT
24209478 AAAGTTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TATAATTTTTAATTTATAAT
Found at i:24210646 original size:31 final size:31
Alignment explanation
Indices: 24210608--24210668 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
24210598 AAGCCAAAAA
24210608 TATCGATTTGGTATTGATACTTTTTGTCAAG
1 TATCGATTTGGTATTGATACTTTTTGTCAAG
*
24210639 TATCGATTTGGTATTGATATTTTTTGTCAA
1 TATCGATTTGGTATTGATACTTTTTGTCAA
24210669 ATATTGATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.23, C:0.08, G:0.18, T:0.51
Consensus pattern (31 bp):
TATCGATTTGGTATTGATACTTTTTGTCAAG
Found at i:24214682 original size:61 final size:61
Alignment explanation
Indices: 24214612--24214733 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
24214602 TTAGAATGAA
24214612 AAAATGGTATCAATACAGATTTTCATATCAATACCTATTAGAAAAATATCGATACTTATTT
1 AAAATGGTATCAATACAGATTTTCATATCAATACCTATTAGAAAAATATCGATACTTATTT
24214673 AAAATGGTATCAATACAGATTTTCATATCAATACCTATTAGAAAAATATCGATACTTATTT
1 AAAATGGTATCAATACAGATTTTCATATCAATACCTATTAGAAAAATATCGATACTTATTT
24214734 CTTCAGTATC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.43, C:0.13, G:0.08, T:0.36
Consensus pattern (61 bp):
AAAATGGTATCAATACAGATTTTCATATCAATACCTATTAGAAAAATATCGATACTTATTT
Found at i:24220589 original size:40 final size:40
Alignment explanation
Indices: 24220541--24220847 Score: 533
Period size: 40 Copynumber: 7.7 Consensus size: 40
24220531 GCAAACACAT
* *
24220541 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
24220581 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* ** *
24220621 TTGCCTTTGGGTCACAGCCCGGCTATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
24220661 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
24220701 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
24220741 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
24220781 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
24220821 TTGCCTTCGGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
24220848 ATCCAATGCT
Statistics
Matches: 254, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 254 1.00
ACGTcount: A:0.21, C:0.28, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:24229177 original size:40 final size:40
Alignment explanation
Indices: 24229111--24229414 Score: 515
Period size: 40 Copynumber: 7.7 Consensus size: 40
24229101 GCAAACACAT
* *
24229111 TTGCCTTC-GGTC-TAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
24229149 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
** *
24229189 TTGCCTTCGGGTCACAGCCCGGCTATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
24229229 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
24229269 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
24229309 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
24229349 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCAT-A
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
24229388 TTGCCTTCGGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
24229415 ATCCAATGCT
Statistics
Matches: 253, Mismatches: 11, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
38 8 0.03
39 32 0.13
40 213 0.84
ACGTcount: A:0.21, C:0.29, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:24231548 original size:41 final size:41
Alignment explanation
Indices: 24231503--24231733 Score: 241
Period size: 41 Copynumber: 5.6 Consensus size: 41
24231493 ATCAGAGTGT
* * * *
24231503 AAACAGGGGCACTTATGTGTAATTCAAGGGTACCTAAGTAC
1 AAACAGGGGCACATATGTGCAATTCAGGGGTACCGAAGTAC
* * *
24231544 AAACAGGGGCACGTATGTGCAATTTAGGGGTATCGAAGTAC
1 AAACAGGGGCACATATGTGCAATTCAGGGGTACCGAAGTAC
* * * *
24231585 AAATAGAGACACATATGTGCAATT-ATGGGGTACCAAAGTAC
1 AAACAGGGGCACATATGTGCAATTCA-GGGGTACCGAAGTAC
* *
24231626 AAACAGGGGCACATATGTGCAATTTAGGGGTACAGAAGTA-
1 AAACAGGGGCACATATGTGCAATTCAGGGGTACCGAAGTAC
* * * * * *
24231666 TAACTAAGGGCACGTATGTGTAATTCAGGGATACTGAAGTAC
1 AAAC-AGGGGCACATATGTGCAATTCAGGGGTACCGAAGTAC
* *
24231708 AAATAGGGGCACATATGTACAATTCA
1 AAACAGGGGCACATATGTGCAATTCA
24231734 TGGAATAATT
Statistics
Matches: 156, Mismatches: 30, Indels: 8
0.80 0.15 0.04
Matches are distributed among these distances:
40 4 0.03
41 149 0.96
42 3 0.02
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (41 bp):
AAACAGGGGCACATATGTGCAATTCAGGGGTACCGAAGTAC
Found at i:24231722 original size:123 final size:124
Alignment explanation
Indices: 24231503--24231736 Score: 303
Period size: 123 Copynumber: 1.9 Consensus size: 124
24231493 ATCAGAGTGT
* * ** *
24231503 AAACAGGGGCACTTATGTGTAATTCAAGGGTACCTAAGTACAAACAGGGGCACGTATGTGCAATT
1 AAACAGGGGCACATATGTGCAATTCAAGGGTACAGAAGTACAAACAAGGGCACGTATGTGCAATT
* * *
24231568 TAGGGGTATCGAAGTACAAATAGAGACACATATGTGCAATT-ATGGGGTACCAAAGTAC
66 CAGGGATATCGAAGTACAAATAGAGACACATATGTACAATTCATGGGGTACCAAAGTAC
* * * *
24231626 AAACAGGGGCACATATGTGCAATTTAGGGGTACAGAAGTA-TAACTAAGGGCACGTATGTGTAAT
1 AAACAGGGGCACATATGTGCAATTCAAGGGTACAGAAGTACAAAC-AAGGGCACGTATGTGCAAT
* *
24231690 TCAGGGATA-CTGAAGTACAAATAGGGGCACATATGTACAATTCATGG
65 TCAGGGATATC-GAAGTACAAATAGAGACACATATGTACAATTCATGG
24231737 AATAATTAAC
Statistics
Matches: 94, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
122 4 0.04
123 86 0.91
124 4 0.04
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (124 bp):
AAACAGGGGCACATATGTGCAATTCAAGGGTACAGAAGTACAAACAAGGGCACGTATGTGCAATT
CAGGGATATCGAAGTACAAATAGAGACACATATGTACAATTCATGGGGTACCAAAGTAC
Found at i:24254379 original size:20 final size:20
Alignment explanation
Indices: 24254354--24254391 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
24254344 GCTGACAAAA
24254354 CAGTCACTCAAGTTTCAATT
1 CAGTCACTCAAGTTTCAATT
*
24254374 CAGTCACTCAATTTTCAA
1 CAGTCACTCAAGTTTCAA
24254392 AAAATAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.26, G:0.08, T:0.34
Consensus pattern (20 bp):
CAGTCACTCAAGTTTCAATT
Found at i:24254582 original size:47 final size:47
Alignment explanation
Indices: 24254521--24254616 Score: 142
Period size: 47 Copynumber: 2.0 Consensus size: 47
24254511 CTCTCCCTTT
24254521 CCCTCTTCCCCACCATCCCT-C-CCTACTTTGATTCTCTCTCCCTCTCC
1 CCCTCTTCCCCACCATCCCTCCTCCTACTTTGATTCT-T-TCCCTCTCC
*
24254568 CCCTCTTCCGCACCATCCCTCCCTCCTACTTTGATTCTTTCCCTCTCC
1 CCCTCTTCCCCACCATCCCT-CCTCCTACTTTGATTCTTTCCCTCTCC
24254616 C
1 C
24254617 TCATTGTCCC
Statistics
Matches: 45, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
47 19 0.42
48 10 0.22
49 2 0.04
50 14 0.31
ACGTcount: A:0.08, C:0.54, G:0.03, T:0.34
Consensus pattern (47 bp):
CCCTCTTCCCCACCATCCCTCCTCCTACTTTGATTCTTTCCCTCTCC
Found at i:24255890 original size:48 final size:45
Alignment explanation
Indices: 24255799--24255902 Score: 147
Period size: 48 Copynumber: 2.2 Consensus size: 45
24255789 GGGACGGTGG
* *
24255799 GGGAGAGGGAAAGAATTAGAGTAGGAGGAGGGATGGTGGGGAAGA
1 GGGAGAGGGAAAGAATCAGAGTAGGAGGAGAGATGGTGGGGAAGA
24255844 GGAAGAGAGGGAGAGAGAATCAGAGTAGG-GGAGAGATGGTGGGGAAGA
1 GG--GAGAGGGA-A-AGAATCAGAGTAGGAGGAGAGATGGTGGGGAAGA
24255892 GGGAGAGGGAA
1 GGGAGAGGGAA
24255903 GGGAGAGGGA
Statistics
Matches: 53, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
45 3 0.06
46 8 0.15
47 8 0.15
48 21 0.40
49 13 0.25
ACGTcount: A:0.37, C:0.01, G:0.54, T:0.09
Consensus pattern (45 bp):
GGGAGAGGGAAAGAATCAGAGTAGGAGGAGAGATGGTGGGGAAGA
Found at i:24256172 original size:30 final size:30
Alignment explanation
Indices: 24256142--24256198 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
24256132 TCATAAATAT
*
24256142 TTTTTA-AAAATAACAATTTTTCAAGTATA
1 TTTTTATAAAAGAACAATTTTTCAAGTATA
* *
24256171 TTTTTATAGAAGAACAATTTTTTAAGTA
1 TTTTTATAAAAGAACAATTTTTCAAGTA
24256199 AATAAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 6 0.25
30 18 0.75
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.46
Consensus pattern (30 bp):
TTTTTATAAAAGAACAATTTTTCAAGTATA
Found at i:24265189 original size:26 final size:26
Alignment explanation
Indices: 24265160--24265263 Score: 181
Period size: 26 Copynumber: 4.0 Consensus size: 26
24265150 ATTCCCATCT
*
24265160 TGGAACATTTACCTAAACCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
24265186 TGGAACATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
* *
24265212 TGGAATATTTACCTAATCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
24265238 TGGAACATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
24265264 ATTTGTACCA
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.33
Consensus pattern (26 bp):
TGGAACATTTACCTAACCCATTATCA
Done.