Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 99 of 410
Found at i:29075847 original size:30 final size:29
Alignment explanation
Indices: 29075769--29075856 Score: 158
Period size: 29 Copynumber: 3.0 Consensus size: 29
29075759 GTGACGAGAT
*
29075769 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
29075798 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
29075827 TGGCACTAAGTGTGGCATGCTGGAAATATA
1 TGGCACTAAGTGT-GCATGCTGGAAATATA
29075857 CGACACTGGG
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
29 41 0.72
30 16 0.28
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:29075888 original size:59 final size:59
Alignment explanation
Indices: 29075765--29075899 Score: 150
Period size: 59 Copynumber: 2.3 Consensus size: 59
29075755 TACGGTGACG
* * * *
29075765 AGAT-TGGCACTAAGTGT-GCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAA
1 AGATATGGCACTAAGTGTGGCATGCTGGAAATATACGACACTAAGTGTGCATGCTCGAA
* **
29075822 ATATATGGCACTAAGTGTGGCATGCTGGAAATATACGACACTGGGTGTGCGA-GCTCGAA
1 AGATATGGCACTAAGTGTGGCATGCTGGAAATATACGACACTAAGTGTGC-ATGCTCGAA
* * *
29075881 GGGTATGGCACTATGTGTG
1 AGATATGGCACTAAGTGTG
29075900 CGGGCTTAAA
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
57 3 0.05
58 13 0.20
59 47 0.73
60 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.26
Consensus pattern (59 bp):
AGATATGGCACTAAGTGTGGCATGCTGGAAATATACGACACTAAGTGTGCATGCTCGAA
Found at i:29080886 original size:29 final size:29
Alignment explanation
Indices: 29080853--29081013 Score: 162
Period size: 29 Copynumber: 5.6 Consensus size: 29
29080843 GTGACGAGAT
29080853 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
29080882 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
29080911 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ** * * ***
29080940 CGACACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
29080969 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
29080998 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
29081014 AAATCGAGTA
Statistics
Matches: 110, Mismatches: 21, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
28 2 0.02
29 108 0.98
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:29084557 original size:40 final size:39
Alignment explanation
Indices: 29084471--29084654 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 39
29084461 AAATTGAATG
* * * * *
29084471 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGAA-AATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC--AAGTAGT
* * *
29084511 ACATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAG-T
* *
29084551 ATATCCGGGCCAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTAG-T
* * * *
29084591 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
* * *
29084630 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
29084655 CTTGGTGCGG
Statistics
Matches: 116, Mismatches: 23, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
38 1 0.01
39 5 0.04
40 108 0.93
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
Found at i:29092669 original size:40 final size:39
Alignment explanation
Indices: 29092583--29092766 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 39
29092573 AAATTGAATG
* * * * *
29092583 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGAA-AATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC--AAGTAGT
* * *
29092623 ACATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAG-T
* *
29092663 ATATCCGGGCCAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTAG-T
* * * *
29092703 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
* * *
29092742 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
29092767 CTTGGTGCGG
Statistics
Matches: 116, Mismatches: 23, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
38 1 0.01
39 5 0.04
40 108 0.93
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
Found at i:29095102 original size:89 final size:89
Alignment explanation
Indices: 29094880--29095276 Score: 306
Period size: 90 Copynumber: 4.4 Consensus size: 89
29094870 AGTACACGAC
* * * * *
29094880 AAATTAAATTTACAGACACAATAAAATACAAACATTCTACA-ATATTAATACA-AAAAATATAAA
1 AAATTAAATTTACAGATACAAAAAAATACAAATATTCTA-AGAAATTAATACACGAAAATATAAA
* *
29094943 ATTCAAACAAAAAT-A-AAATGC-ACT
65 AATCAAACATAAATCATAAA--CAACT
* * * ** * * * * * * * *
29094967 AAGTTAAATTTAAACACCCAACAAACTACAAACAGAT-GAGAAAAATTAATACACGAAAATTTTA
1 AAATTAAATTTACAGATACAAAAAAATACAAATA-TTCTA-AGAAATTAATACACGAAAATATAA
* * * *
29095031 AATTCAAAC-TACAT-ATAATACGGATT
64 AAATCAAACATAAATCATAA-AC-AACT
*
29095057 AAATTAAATTTACAGATACAAAAAAATACAAATATTCTAAGAAATTAATACATGAAAATATAAAA
1 AAATTAAATTTACAGATACAAAAAAATACAAATATTCTAAGAAATTAATACACGAAAATATAAAA
* *
29095122 ATGAAACATTAAATCCTAAACAACT
66 ATCAAACA-TAAATCATAAACAACT
* * *
29095147 ATATTAAATTTACATATATAAAAAAATACAAATATTCTAAGAAATTAATACACGAAAATATAAAA
1 AAATTAAATTTACAGATACAAAAAAATACAAATATTCTAAGAAATTAATACACGAAAATATAAAA
* * * *
29095212 ATGATACCTTAAATCCTAAACAACT
66 ATCA-AACATAAATCATAAACAACT
* * * * *
29095237 ATATTAAATTTATATATATAAAAAAATACAAACATTCTAA
1 AAATTAAATTTACAGATACAAAAAAATACAAATATTCTAA
29095277 ATAAAAAATA
Statistics
Matches: 254, Mismatches: 44, Indels: 21
0.80 0.14 0.07
Matches are distributed among these distances:
87 30 0.12
88 16 0.06
89 46 0.18
90 151 0.59
91 8 0.03
92 3 0.01
ACGTcount: A:0.57, C:0.13, G:0.04, T:0.27
Consensus pattern (89 bp):
AAATTAAATTTACAGATACAAAAAAATACAAATATTCTAAGAAATTAATACACGAAAATATAAAA
ATCAAACATAAATCATAAACAACT
Found at i:29095288 original size:90 final size:90
Alignment explanation
Indices: 29095059--29095276 Score: 373
Period size: 90 Copynumber: 2.4 Consensus size: 90
29095049 TACGGATTAA
* * *
29095059 ATTAAATTTACAGATACAAAAAAATACAAATATTCTAAGAAATTAATACATGAAAATATAAAAAT
1 ATTAAATTTACATATATAAAAAAATACAAATATTCTAAGAAATTAATACACGAAAATATAAAAAT
29095124 GAAACATTAAATCCTAAACAACTAT
66 GAAACATTAAATCCTAAACAACTAT
29095149 ATTAAATTTACATATATAAAAAAATACAAATATTCTAAGAAATTAATACACGAAAATATAAAAAT
1 ATTAAATTTACATATATAAAAAAATACAAATATTCTAAGAAATTAATACACGAAAATATAAAAAT
* *
29095214 GATACCTTAAATCCTAAACAACTAT
66 GAAACATTAAATCCTAAACAACTAT
* *
29095239 ATTAAATTTATATATATAAAAAAATACAAACATTCTAA
1 ATTAAATTTACATATATAAAAAAATACAAATATTCTAA
29095277 ATAAAAAATA
Statistics
Matches: 121, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
90 121 1.00
ACGTcount: A:0.57, C:0.11, G:0.03, T:0.29
Consensus pattern (90 bp):
ATTAAATTTACATATATAAAAAAATACAAATATTCTAAGAAATTAATACACGAAAATATAAAAAT
GAAACATTAAATCCTAAACAACTAT
Found at i:29099698 original size:211 final size:211
Alignment explanation
Indices: 29099377--29100013 Score: 1265
Period size: 211 Copynumber: 3.0 Consensus size: 211
29099367 TCAAAGCATG
29099377 AGAAACAATGTAAGAAACTACTCTTTACATGAGTTTATCTCCCTATTGTCCATCAACTAACTAGC
1 AGAAACAATGTAAGAAACTACTCTTTACATGAGTTTATCTCCCTATTGTCCATCAACTAACTAGC
29099442 GATAGTCATAAGCATTGAAGTAGAAACCAGTATGCACATGGTTATTAGAGCATGAGAAAGAAATT
66 GATAGTCATAAGCATTGAAGTAGAAACCAGTATGCACATGGTTATTAGAGCATGAGAAAGAAATT
29099507 AAAAATAAGGAAAAGAAAATAACAAGTGATGGTCATAGAAACCAGTATGCACAACATGGATATTA
131 AAAAATAAGGAAAAGAAAATAACAAGTGATGGTCATAGAAACCAGTATGCACAACATGGATATTA
29099572 GAGAGAAGAAAAAATT
196 GAGAGAAGAAAAAATT
29099588 AGAAACAATGTAAGAAACTACTCTTTACATGAGTTTATCTCCCTATTGTCCATCAACTAACTAGC
1 AGAAACAATGTAAGAAACTACTCTTTACATGAGTTTATCTCCCTATTGTCCATCAACTAACTAGC
29099653 GATAGTCATAAGCATTGAAGTAGAAACCAGTATGCACATGGTTATTAGAGCATGAGAAAGAAATT
66 GATAGTCATAAGCATTGAAGTAGAAACCAGTATGCACATGGTTATTAGAGCATGAGAAAGAAATT
29099718 AAAAATAAGGAAAAGAAAATAACAAGTGATGGTCATAGAAACCAGTATGCACAACATGGATATTA
131 AAAAATAAGGAAAAGAAAATAACAAGTGATGGTCATAGAAACCAGTATGCACAACATGGATATTA
29099783 GAGAGAAGAAAAAATT
196 GAGAGAAGAAAAAATT
29099799 AGAAACAATGTAAGAAACTACTCTTTACATGAGTTTATCTCCCTATTGTCCATCAACTAACTAGC
1 AGAAACAATGTAAGAAACTACTCTTTACATGAGTTTATCTCCCTATTGTCCATCAACTAACTAGC
29099864 GATAGTCATAAGCATTGAAGTAGAAACCAGTATGCACATGGTTATTAGAGCATGAGAAAGAAATT
66 GATAGTCATAAGCATTGAAGTAGAAACCAGTATGCACATGGTTATTAGAGCATGAGAAAGAAATT
*
29099929 AAAAATAAGGAAAAGAAAATAACAAGTGATGGTCATAGAAACCAGTATGCACAACATGGTTATTA
131 AAAAATAAGGAAAAGAAAATAACAAGTGATGGTCATAGAAACCAGTATGCACAACATGGATATTA
29099994 GAGAGAAGAAAAAATT
196 GAGAGAAGAAAAAATT
29100010 AGAA
1 AGAA
29100014 TCGCTAGAAA
Statistics
Matches: 425, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
211 425 1.00
ACGTcount: A:0.45, C:0.14, G:0.18, T:0.24
Consensus pattern (211 bp):
AGAAACAATGTAAGAAACTACTCTTTACATGAGTTTATCTCCCTATTGTCCATCAACTAACTAGC
GATAGTCATAAGCATTGAAGTAGAAACCAGTATGCACATGGTTATTAGAGCATGAGAAAGAAATT
AAAAATAAGGAAAAGAAAATAACAAGTGATGGTCATAGAAACCAGTATGCACAACATGGATATTA
GAGAGAAGAAAAAATT
Found at i:29100805 original size:2 final size:2
Alignment explanation
Indices: 29100798--29100854 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
29100788 CCATCGAATG
29100798 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
29100840 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
29100855 AGAAAAGTAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:29107547 original size:23 final size:25
Alignment explanation
Indices: 29107521--29107567 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
29107511 TATCATTCAT
*
29107521 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
29107544 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
29107568 TACATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:29107888 original size:46 final size:46
Alignment explanation
Indices: 29107828--29108093 Score: 343
Period size: 46 Copynumber: 6.0 Consensus size: 46
29107818 TTTGACGTGA
* * * * * *
29107828 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * **
29107874 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
29107920 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
29107966 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
29108012 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
29108050 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
29108094 AGAGCACACT
Statistics
Matches: 196, Mismatches: 15, Indels: 18
0.86 0.07 0.08
Matches are distributed among these distances:
38 33 0.17
39 1 0.01
40 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 5 0.03
46 149 0.76
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:29108058 original size:38 final size:38
Alignment explanation
Indices: 29108007--29108082 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
29107997 CATTTCATAT
29108007 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
29108045 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
29108083 TTTCATATCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:29117410 original size:16 final size:16
Alignment explanation
Indices: 29117391--29117421 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
29117381 CTTCTTCACT
29117391 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
29117407 TACTTACTTACTTAA
1 TACTCACTTACTTAA
29117422 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:29117427 original size:20 final size:20
Alignment explanation
Indices: 29117388--29117427 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
29117378 AAACTTCTTC
* *
29117388 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
29117408 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
29117428 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:29117538 original size:23 final size:24
Alignment explanation
Indices: 29117500--29117544 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
29117490 TTTGCTCTTC
*
29117500 TAGCATGAACTTGTCTTACCTTTT
1 TAGCATGAACTCGTCTTACCTTTT
29117524 TAGCAT-AACTCGTCTTACCTT
1 TAGCATGAACTCGTCTTACCTT
29117545 ACCTTACCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.42
Consensus pattern (24 bp):
TAGCATGAACTCGTCTTACCTTTT
Found at i:29117795 original size:55 final size:52
Alignment explanation
Indices: 29117613--29117867 Score: 207
Period size: 55 Copynumber: 4.8 Consensus size: 52
29117603 ACACGGGTAC
* * * * * *
29117613 CTTACCATGGCCATGACTTGTCATGGTCTTACGTGGTATCCTT---TTA-AAA
1 CTTACAAT-GCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
* *
29117662 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTA-CAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
* * * *
29117715 CTCACTAATGCGATGTCTTGGCATGGTCTTACATGGGA-CCTTTGCTTTATAGTAA
1 CTTAC-AATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AA
***
29117770 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTA-CAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
* * *
29117823 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTA-CAA-TGCCATGTCTTGACATGGTCTTACATGGGATCCTT
29117868 AAACCCTAAT
Statistics
Matches: 168, Mismatches: 25, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
49 35 0.21
50 2 0.01
52 6 0.04
53 44 0.26
54 8 0.05
55 70 0.42
56 3 0.02
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.37
Consensus pattern (52 bp):
CTTACAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
Found at i:29119320 original size:46 final size:46
Alignment explanation
Indices: 29119253--29119378 Score: 218
Period size: 46 Copynumber: 2.7 Consensus size: 46
29119243 AACCCGCCCC
* *
29119253 TAAGTGAACTCAGACTCAACTCAACGAGCTT-GGGCATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCATCCA
29119299 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
29119345 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
29119379 TGCTCAACCA
Statistics
Matches: 77, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
45 2 0.03
46 75 0.97
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:29123574 original size:49 final size:48
Alignment explanation
Indices: 29123471--29123584 Score: 117
Period size: 49 Copynumber: 2.4 Consensus size: 48
29123461 ACACGGGTAG
** * *
29123471 ACCACACACCCGTGTCTATTTAACAGATTGTAACACGACCTAAGCCAT
1 ACCACACAGGCGTGTCTATTTAACAGACTCTAACACGACCTAAGCCAT
*
29123519 ACCACAC-GGTCGTGTCTATTTAGA-AGACTCTAAACACGGCCTAAGCCA-
1 ACCACACAGG-CGTGTCTATTTA-ACAGACTCT-AACACGACCTAAGCCAT
*
29123567 CCTCACACAGGCGTGTCT
1 AC-CACACAGGCGTGTCT
29123585 CTGTCGAGCC
Statistics
Matches: 55, Mismatches: 6, Indels: 9
0.79 0.09 0.13
Matches are distributed among these distances:
48 25 0.45
49 28 0.51
50 2 0.04
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.22
Consensus pattern (48 bp):
ACCACACAGGCGTGTCTATTTAACAGACTCTAACACGACCTAAGCCAT
Found at i:29127635 original size:29 final size:29
Alignment explanation
Indices: 29127601--29127657 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
29127591 CTTATTTTAG
* *
29127601 CTCATACCACGGGCGGCGACACAGCCGTC
1 CTCATACCACGGGCAGCGACACAACCGTC
29127630 CTCATACCACGGGCAGCGACACAACCGT
1 CTCATACCACGGGCAGCGACACAACCGT
29127658 GTGATATGGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.11
Consensus pattern (29 bp):
CTCATACCACGGGCAGCGACACAACCGTC
Found at i:29138449 original size:5 final size:5
Alignment explanation
Indices: 29138439--29138464 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
29138429 ATCATTTTTA
29138439 TTATT TTATT TTATT TTATT TTATT T
1 TTATT TTATT TTATT TTATT TTATT T
29138465 GTTAGTTGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:29141786 original size:21 final size:21
Alignment explanation
Indices: 29141762--29141806 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
29141752 ATAAGATTGA
29141762 CTAATTACAATAATTACTTGG
1 CTAATTACAATAATTACTTGG
29141783 CTAATTACAATAATTACTTGG
1 CTAATTACAATAATTACTTGG
29141804 CTA
1 CTA
29141807 GTTTTAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (21 bp):
CTAATTACAATAATTACTTGG
Found at i:29146552 original size:14 final size:14
Alignment explanation
Indices: 29146533--29146610 Score: 68
Period size: 15 Copynumber: 5.4 Consensus size: 14
29146523 CAAAGATAAC
*
29146533 AAGAAAACCGAATA
1 AAGAAATCCGAATA
*
29146547 AAGAAATCCAAGATA
1 AAGAAATCCGA-ATA
* *
29146562 GAGAAACCCGAATA
1 AAGAAATCCGAATA
29146576 AA-AAATCCAGAATA
1 AAGAAATCC-GAATA
* *
29146590 AAGAGATCCAGGATA
1 AAGAAATCC-GAATA
29146605 AAGAAA
1 AAGAAA
29146611 CCCAAGATAC
Statistics
Matches: 51, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
13 5 0.10
14 20 0.39
15 26 0.51
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (14 bp):
AAGAAATCCGAATA
Found at i:29146572 original size:29 final size:29
Alignment explanation
Indices: 29146533--29146619 Score: 88
Period size: 29 Copynumber: 3.0 Consensus size: 29
29146523 CAAAGATAAC
*
29146533 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
29146562 GAGAAACCCGAATAAA-AAATCC-AGAATA
1 AAGAAACCCGAATAAAGAAATCCAAG-ATA
* * * *
29146590 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCCGAATAAAGAAATCCAAGATA
29146620 CGATACTATG
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
27 2 0.04
28 12 0.26
29 23 0.49
30 8 0.17
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.16, T:0.10
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAAGATA
Found at i:29146600 original size:15 final size:15
Alignment explanation
Indices: 29146533--29146610 Score: 74
Period size: 14 Copynumber: 5.4 Consensus size: 15
29146523 CAAAGATAAC
*
29146533 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
29146547 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
29146562 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
29146576 AA-AAATCCAGAATA
1 AAGAAATCCAGAATA
* *
29146590 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
29146605 AAGAAA
1 AAGAAA
29146611 CCCAAGATAC
Statistics
Matches: 51, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
13 3 0.06
14 24 0.47
15 24 0.47
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:29146619 original size:15 final size:15
Alignment explanation
Indices: 29146544--29146619 Score: 68
Period size: 15 Copynumber: 5.2 Consensus size: 15
29146534 AGAAAACCGA
29146544 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
29146559 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
29146573 ATAAA-AAATCC-AG
1 ATAAAGAAATCCAAG
* *
29146586 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
29146602 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
29146617 ATA
1 ATA
29146620 CGATACTATG
Statistics
Matches: 47, Mismatches: 10, Indels: 8
0.72 0.15 0.12
Matches are distributed among these distances:
12 1 0.02
13 5 0.11
14 9 0.19
15 31 0.66
16 1 0.02
ACGTcount: A:0.57, C:0.16, G:0.16, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:29149579 original size:45 final size:46
Alignment explanation
Indices: 29149515--29149689 Score: 216
Period size: 45 Copynumber: 3.8 Consensus size: 46
29149505 TGTAACCCGC
*
29149515 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* *
29149560 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C--GTTCGCAT
* *
29149610 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
*
29149653 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
29149690 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 9, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 36 0.32
46 29 0.26
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:29149680 original size:93 final size:92
Alignment explanation
Indices: 29149522--29149692 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 92
29149512 CGCCCATAAG
*
29149522 CGAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 CGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
29149587 CGAGTTCGGATGCCTAGTTACATCTCA
66 CGAGTTCGGATGCCTAGTTACATCTCA
*
29149614 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
29149679 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
29149693 TCAACCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
92 28 0.37
93 48 0.63
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCA
Found at i:29156178 original size:44 final size:42
Alignment explanation
Indices: 29156109--29156261 Score: 132
Period size: 42 Copynumber: 3.6 Consensus size: 42
29156099 TGTGATATCG
* * *
29156109 TGTAAGACCACGTCTGGGACGTTGGCATCAACTTTTATTTTACA
1 TGTAAGACCATGTCTAGGACATTGGCATCAA-TTTTA-TTTACA
* * *
29156153 TGTAAGACCATGTCTAGGACATTGGCATCATATCTGATTT-CG
1 TGTAAGACCATGTCTAGGACATTGGCATCA-ATTTTATTTACA
* * * *
29156195 TATAAGACCCTGTCTAGGACAATGGCATCGATGTTTGA-TTACA
1 TGTAAGACCATGTCTAGGACATTGGCATCAAT-TTT-ATTTACA
* *
29156238 TGTAAGA-CATGTCTGGGACTTTGG
1 TGTAAGACCATGTCTAGGACATTGG
29156262 AATTGTATAT
Statistics
Matches: 87, Mismatches: 18, Indels: 10
0.76 0.16 0.09
Matches are distributed among these distances:
41 2 0.02
42 43 0.49
43 11 0.13
44 30 0.34
45 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (42 bp):
TGTAAGACCATGTCTAGGACATTGGCATCAATTTTATTTACA
Found at i:29160581 original size:40 final size:40
Alignment explanation
Indices: 29160522--29160690 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
29160512 CGGGACTTTA
* * *
29160522 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
29160562 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
29160602 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
29160642 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
29160682 CCCGGATAT
1 CCCGGATAT
29160691 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:29168612 original size:40 final size:40
Alignment explanation
Indices: 29168553--29168721 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
29168543 CGGGACTTTA
* * *
29168553 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
29168593 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
29168633 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
29168673 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
29168713 CCCGGATAT
1 CCCGGATAT
29168722 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:29172648 original size:26 final size:26
Alignment explanation
Indices: 29172611--29172691 Score: 101
Period size: 26 Copynumber: 3.1 Consensus size: 26
29172601 TTTGCCACAT
*
29172611 ATACTGATACTGGCAGCTTTGTTGCG
1 ATACTGTTACTGGCAGCTTTGTTGCG
* *
29172637 TTACTGTTACTGGTAGCTTTGTTGCG
1 ATACTGTTACTGGCAGCTTTGTTGCG
* *
29172663 ATA-TGATTACTAGCAGCTTTGCTGCG
1 ATACTG-TTACTGGCAGCTTTGTTGCG
29172689 ATA
1 ATA
29172692 TTGGTGTGTT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
25 2 0.04
26 45 0.96
ACGTcount: A:0.20, C:0.17, G:0.25, T:0.38
Consensus pattern (26 bp):
ATACTGTTACTGGCAGCTTTGTTGCG
Found at i:29175607 original size:29 final size:29
Alignment explanation
Indices: 29175574--29175734 Score: 162
Period size: 29 Copynumber: 5.6 Consensus size: 29
29175564 GTGACGAGAT
29175574 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
29175603 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
29175632 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ** * * ***
29175661 CGACACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
29175690 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
29175719 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
29175735 AAATCGAGTA
Statistics
Matches: 110, Mismatches: 21, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
28 2 0.02
29 108 0.98
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:29182938 original size:29 final size:29
Alignment explanation
Indices: 29182837--29182930 Score: 161
Period size: 29 Copynumber: 3.2 Consensus size: 29
29182827 GTGACGAGAT
* *
29182837 TGGCACTAAGTGTGCGTGTTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
29182866 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
29182895 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
29182924 CGGCACT
1 TGGCACT
29182931 GGGTGTGCGA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 62 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:29182955 original size:58 final size:58
Alignment explanation
Indices: 29182833--29182967 Score: 157
Period size: 58 Copynumber: 2.3 Consensus size: 58
29182823 TACGGTGACG
* * * *
29182833 AGAT-TGGCACTAAGTGTGCGTGTTGGAAATATATGGCACTAAGTGTGCATGCTGGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAATATACGGCACTAAGTGTGCATGCTCGAA
* **
29182890 ATATATGGCACTAAGTGTGCATGCTGGAAATATACGGCACTGGGTGTGCGA-GCTCGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAATATACGGCACTAAGTGTGC-ATGCTCGAA
* * *
29182948 GGGTATGGCACTATGTGTGC
1 AGATATGGCACTAAGTGTGC
29182968 GGGCTTAAAT
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
57 3 0.05
58 61 0.94
59 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.33, T:0.27
Consensus pattern (58 bp):
AGATATGGCACTAAGTGTGCATGCTGGAAATATACGGCACTAAGTGTGCATGCTCGAA
Found at i:29184682 original size:33 final size:33
Alignment explanation
Indices: 29184645--29184714 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
29184635 AGAAAGGGTT
*
29184645 AGAATTGAGATTGAATTGAAAAATTGCCTAGCA
1 AGAATCGAGATTGAATTGAAAAATTGCCTAGCA
*
29184678 AGAATCGAGATTGAATTGAAAAATTGCCTAGCT
1 AGAATCGAGATTGAATTGAAAAATTGCCTAGCA
29184711 AGAA
1 AGAA
29184715 AAATGGCTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.43, C:0.10, G:0.21, T:0.26
Consensus pattern (33 bp):
AGAATCGAGATTGAATTGAAAAATTGCCTAGCA
Found at i:29196023 original size:49 final size:49
Alignment explanation
Indices: 29195963--29196171 Score: 332
Period size: 49 Copynumber: 4.3 Consensus size: 49
29195953 GTATGAGATA
*
29195963 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGAGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
29196012 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
29196061 TATATATGTGATAAGGCCTAATGGCCGATGTGATGGATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* * * * *
29196110 TATATATGTGATAAGGCCTAGTGGCCAACGTGATGGATGTGGAA--GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
29196157 TATAAATGTGATAAG
1 TATATATGTGATAAG
29196172 TCCCGAAGGG
Statistics
Matches: 153, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
47 17 0.11
49 136 0.89
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.30
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
Found at i:29204051 original size:28 final size:28
Alignment explanation
Indices: 29204004--29204057 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
29203994 AGGGCTATCA
*
29204004 TTTCATTATTTTCCAAAAAGGTTATTTT
1 TTTCATTATTTTCCAAAAAGGATATTTT
*
29204032 TTTCATTATTCTT-CACAAAGGATATT
1 TTTCATTATT-TTCCAAAAAGGATATT
29204058 CTTTCCTACC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 21 0.91
29 2 0.09
ACGTcount: A:0.30, C:0.13, G:0.07, T:0.50
Consensus pattern (28 bp):
TTTCATTATTTTCCAAAAAGGATATTTT
Found at i:29205564 original size:14 final size:14
Alignment explanation
Indices: 29205545--29205584 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
29205535 CTTCCCTAAA
29205545 CAAAATTTCATCCT
1 CAAAATTTCATCCT
*
29205559 CAAAATTTCAACCT
1 CAAAATTTCATCCT
*
29205573 GAATAATTTCAT
1 CAA-AATTTCAT
29205585 GAATAATTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 15 0.68
15 7 0.32
ACGTcount: A:0.40, C:0.23, G:0.03, T:0.35
Consensus pattern (14 bp):
CAAAATTTCATCCT
Found at i:29218243 original size:47 final size:47
Alignment explanation
Indices: 29218173--29218345 Score: 283
Period size: 47 Copynumber: 3.7 Consensus size: 47
29218163 CCCTTCGGGA
* *
29218173 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTTGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
* *
29218220 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
* *
29218267 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
*
29218314 CTTATCACATATATACACTTTCACATTCATCA
1 CTTATCACATATATACACTTTCACATCCATCA
29218346 ATTTCATCAT
Statistics
Matches: 118, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 118 1.00
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
Found at i:29218320 original size:22 final size:22
Alignment explanation
Indices: 29218248--29218323 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
29218238 CTTCACATCC
*
29218248 ATCACATCGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * *
29218270 ATCACATATATACACATTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
29218294 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
29218317 ATCACAT
1 ATCACAT
29218324 ATATACACTT
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 19 0.47
23 4 0.10
24 5 0.12
25 12 0.30
ACGTcount: A:0.28, C:0.32, G:0.11, T:0.30
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:29227867 original size:20 final size:18
Alignment explanation
Indices: 29227820--29227868 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
29227810 CAATATAAAC
29227820 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
29227837 ATTAAGA-TAATCATTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
29227857 ATTAAATTAATA
1 ATTAAATTAATA
29227869 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:29236884 original size:39 final size:40
Alignment explanation
Indices: 29236834--29237023 Score: 212
Period size: 39 Copynumber: 4.8 Consensus size: 40
29236824 GGATATAGCT
* *
29236834 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
*
29236874 ACTCG-ACAAATGCCTTCGGGACTTAACCCGGATT-TAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTATAGTA
* *
29236913 ACTCGCACTAATGCCTTCGGG-CTTAGCCCGG-AATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA
* * *
29236952 ACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATAGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTA
* *
29236992 ACTTAGCACAAAAGCCTTC-GGACTTAGCCCGG
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGG
29237024 ATATCATTCG
Statistics
Matches: 129, Mismatches: 13, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
38 2 0.02
39 64 0.50
40 45 0.35
41 18 0.14
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:29236962 original size:79 final size:77
Alignment explanation
Indices: 29236808--29237024 Score: 233
Period size: 79 Copynumber: 2.7 Consensus size: 77
29236798 GAATCACATA
* * * * *
29236808 CCTTCGGAATTTAACCGGATATAGCTACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTATAG
1 CCTTCGGGACTTAACCGGATATAG-TACTCGCACAAATGCCTTCGGG-CTTAGCCCGGAATATAG
29236872 TAACTCGACAAATG
64 TAACTCGACAAATG
* *
29236886 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACTAATGCCTTCGGGCTTAGCCCGGAAT-TAG
1 CCTTCGGGACTTAA-CCGGATATAGT-ACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATATAG
29236950 TAACTCGCACAAATG
64 TAACTCG-ACAAATG
* * * *
29236965 CCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAAAGCCTTCGGACTTAGCCCGGA
1 CCTTCGGGA-CTTA-ACCGGATATAGT-AC-TCGCACAAATGCCTTCGGGCTTAGCCCGGA
29237025 TATCATTCGA
Statistics
Matches: 118, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
78 35 0.30
79 57 0.48
80 26 0.22
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (77 bp):
CCTTCGGGACTTAACCGGATATAGTACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATATAGTA
ACTCGACAAATG
Found at i:29237742 original size:2 final size:2
Alignment explanation
Indices: 29237735--29237764 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
29237725 TCATGTGCAA
29237735 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
29237765 GCAAGAGCTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:29240567 original size:40 final size:39
Alignment explanation
Indices: 29240403--29240567 Score: 181
Period size: 40 Copynumber: 4.1 Consensus size: 39
29240393 CGGAGTTTAA
** * *
29240403 CCGGATATAGCTACTCGTTCAAATACCTTCGGGACATAGC
1 CCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGC
* *
29240443 CCGGTTATAGTAGCTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTA-CTCGCACAAATGCCTTCGGGACTTAGC
* *
29240483 CCGGATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGT-ACTCGCACAAATGCCTTCGGGA-CTTAGC
*
29240523 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGT-AC-TCGCACAAATGCCTTCGGGACTTAGC
29240563 CCGGA
1 CCGGA
29240568 CATCATTCGA
Statistics
Matches: 106, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
39 5 0.05
40 89 0.84
41 12 0.11
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
CCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:29247168 original size:40 final size:40
Alignment explanation
Indices: 29247006--29247170 Score: 162
Period size: 39 Copynumber: 4.2 Consensus size: 40
29246996 AAATTGAATG
* * **
29247006 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTGATT
* * *
29247045 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG-GT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATT
* *
29247084 ATATCCGGGCTAAGGCCCGAA-GC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGATT
* *
29247123 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGATT
29247163 ATATCCGG
1 ATATCCGG
29247171 TTATATTCCG
Statistics
Matches: 102, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
37 3 0.03
38 9 0.09
39 54 0.53
40 34 0.33
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATT
Found at i:29249812 original size:39 final size:39
Alignment explanation
Indices: 29249706--29249912 Score: 185
Period size: 39 Copynumber: 5.3 Consensus size: 39
29249696 GAATCACATA
* * * *
29249706 CCTTCGGAATTTAACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAACCGGATTTAG-TAACTCGCACAAATG
*
29249745 -CTTCGGGAC-TAGCCGG-TTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAACCGGATT-TAGTAACTCGCACAAATG
* *
29249782 CCTTCGGGACTTAACCGGATTTAGTAACTCGGACCAATG
1 CCTTCGGGACTTAACCGGATTTAGTAACTCGCACAAATG
* *
29249821 CCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATG
1 CCTTCGGGACTTA-ACCGGATTTAGTAACTCGCACAAATG
* * * * *
29249860 CC-TC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAAAG
1 CCTTCGGGA-CTTA-ACCGGATTTAGTAAC-TCGCACAAATG
29249900 CCTTCGGGACTTA
1 CCTTCGGGACTTA
29249913 GCCCGGATAT
Statistics
Matches: 139, Mismatches: 18, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
36 2 0.01
37 23 0.17
38 22 0.16
39 70 0.50
40 13 0.09
41 6 0.04
42 3 0.02
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CCTTCGGGACTTAACCGGATTTAGTAACTCGCACAAATG
Found at i:29249878 original size:78 final size:80
Alignment explanation
Indices: 29249706--29249919 Score: 205
Period size: 78 Copynumber: 2.8 Consensus size: 80
29249696 GAATCACATA
* * * * * *
29249706 CCTTCGGAATTTAACCGGATATAGCT-AC-TCGCTCAAATG-CTTCGGGAC-TAG-CCGG-TTAT
1 CCTTCGGGACTTAACCGGATATAG-TAACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGAAT-T
29249765 AGTAACTCGCACAAATG
64 AGTAACTCGCACAAATG
* * * * *
29249782 CCTTCGGGACTTAACCGGATTTAGTAAC-TCGGACCAATGCCTTCGGG-CTTAGCCCGGAATTAG
1 CCTTCGGGACTTAACCGGATATAGTAACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGAATTAG
29249845 TAACTCGCACAAATG
66 TAACTCGCACAAATG
* *
29249860 CC-TC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTA-ACCGGATATAGTAACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
29249920 TATCATTCGA
Statistics
Matches: 115, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
75 1 0.01
76 35 0.30
77 16 0.14
78 36 0.31
79 16 0.14
80 11 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
CCTTCGGGACTTAACCGGATATAGTAACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGAATTAG
TAACTCGCACAAATG
Found at i:29252629 original size:26 final size:26
Alignment explanation
Indices: 29252588--29252639 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
29252578 GGCAAAAAGA
*
29252588 TTGATGTAGACGCAATACTTCACCAG
1 TTGATGTAGACACAATACTTCACCAG
* *
29252614 TTGATGTAGGCACAATACTTTACCAG
1 TTGATGTAGACACAATACTTCACCAG
29252640 GAAATTGTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (26 bp):
TTGATGTAGACACAATACTTCACCAG
Found at i:29255861 original size:40 final size:40
Alignment explanation
Indices: 29255776--29255926 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
29255766 AATTGAATGA
* * *
29255776 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
29255816 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
29255857 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
29255896 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
29255927 ACGTGATTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:29255940 original size:40 final size:40
Alignment explanation
Indices: 29255812--29255942 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
29255802 TATGCTGGAA
* * *
29255812 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
29255852 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
29255892 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
29255932 ATTATATCCGG
1 ATTATATCCGG
29255943 TTATATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:29263878 original size:40 final size:40
Alignment explanation
Indices: 29263793--29263943 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
29263783 AATTGAATGA
* * *
29263793 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
29263833 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
29263874 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
29263913 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
29263944 ACGTGATTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:29263957 original size:40 final size:40
Alignment explanation
Indices: 29263829--29263959 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
29263819 TATGCTGGAA
* * *
29263829 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
29263869 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
29263909 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
29263949 ATTATATCCGG
1 ATTATATCCGG
29263960 TTATATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:29266471 original size:25 final size:25
Alignment explanation
Indices: 29266443--29266494 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
29266433 TCAAACAAGT
29266443 TGAGAATCGAA-AAGCTCAT-ACGAGC
1 TGAGAATC-AATAAGCTC-TCACGAGC
29266468 TGAGAATCAATAAGCTCTCACGAGC
1 TGAGAATCAATAAGCTCTCACGAGC
29266493 TG
1 TG
29266495 CAAATTGGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 3 0.12
25 22 0.88
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (25 bp):
TGAGAATCAATAAGCTCTCACGAGC
Found at i:29267361 original size:13 final size:13
Alignment explanation
Indices: 29267332--29267360 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
29267322 CATGGCTAGG
29267332 TTTTCTTTTCTTT
1 TTTTCTTTTCTTT
29267345 TTTTCTTTT-TTT
1 TTTTCTTTTCTTT
29267357 TTTT
1 TTTT
29267361 TAATTTTGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (13 bp):
TTTTCTTTTCTTT
Found at i:29281531 original size:40 final size:40
Alignment explanation
Indices: 29281446--29281596 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
29281436 AATTGAATGA
* * *
29281446 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
29281486 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
29281527 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
29281566 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
29281597 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:29281610 original size:40 final size:40
Alignment explanation
Indices: 29281483--29281612 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
29281473 ATGCTGGAAA
* * * *
29281483 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
29281523 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
29281563 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
29281603 TTATATCCGG
1 TTATATCCGG
29281613 TTATGTTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:29287045 original size:42 final size:42
Alignment explanation
Indices: 29286998--29287106 Score: 209
Period size: 42 Copynumber: 2.6 Consensus size: 42
29286988 AGTATTGGTC
29286998 TTGGCACTAAGTGTGCGGGTATAAATGGACGCGGTGACAAGA
1 TTGGCACTAAGTGTGCGGGTATAAATGGACGCGGTGACAAGA
29287040 TTGGCACTAAGTGTGCGGGTATAAATGGACGCGGTGACAAGA
1 TTGGCACTAAGTGTGCGGGTATAAATGGACGCGGTGACAAGA
*
29287082 TTGGCACTAAGTGTGCGGGTTTAAA
1 TTGGCACTAAGTGTGCGGGTATAAA
29287107 ATTTGTACAG
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 66 1.00
ACGTcount: A:0.28, C:0.14, G:0.35, T:0.24
Consensus pattern (42 bp):
TTGGCACTAAGTGTGCGGGTATAAATGGACGCGGTGACAAGA
Found at i:29287172 original size:27 final size:28
Alignment explanation
Indices: 29287115--29287184 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
29287105 AAATTTGTAC
**
29287115 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
29287143 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
29287170 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
29287185 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:29287193 original size:27 final size:27
Alignment explanation
Indices: 29287115--29287196 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
29287105 AAATTTGTAC
* *
29287115 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
29287143 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
29287170 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
29287197 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:29295258 original size:65 final size:65
Alignment explanation
Indices: 29295149--29295279 Score: 226
Period size: 65 Copynumber: 2.0 Consensus size: 65
29295139 AGTCCCATGC
* * * *
29295149 ATCAGATAATAATAAGATGGCATGTAGTAAATAGTAACAGTCAAACATGCATTCAGTTCAACCTT
1 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAATCAAACATGCATTCAGGTCAACCTT
29295214 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAATCAAACATGCATTCAGGTCAACCTT
1 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAATCAAACATGCATTCAGGTCAACCTT
29295279 A
1 A
29295280 ACCCTAGGGG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
65 62 1.00
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.26
Consensus pattern (65 bp):
ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAATCAAACATGCATTCAGGTCAACCTT
Found at i:29302010 original size:40 final size:40
Alignment explanation
Indices: 29301955--29302132 Score: 236
Period size: 40 Copynumber: 4.5 Consensus size: 40
29301945 TGGATGATAA
* *
29301955 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTA-TAT
*
29301995 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTATAT
*
29302035 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTATAT
* * *
29302075 CCGGGCTATGTCCCGAAGGTATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTA-CTATAT
* *
29302115 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
29302133 TACTTGGCTT
Statistics
Matches: 126, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
39 16 0.13
40 110 0.87
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTATAT
Found at i:29308002 original size:47 final size:48
Alignment explanation
Indices: 29307931--29308290 Score: 196
Period size: 47 Copynumber: 7.6 Consensus size: 48
29307921 GTATAATGTT
*
29307931 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCATC-CATCAAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACATCAAGTC
* * * * * *
29307978 GATGCCATGTCCCAGACATAGTCTTACACTGACT-ATCGAAATTGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-ACA-TCAAGTC
* * *
29308027 GACGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCACAT-ATCTGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACATCA--AGT--C
* * * * ** * * *
29308077 AATGCCATGTCCCAGATATGGCCTTCCACTAACACATCTCGT--AGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACATCAAGTC
* * * ** *
29308123 GATG-CATGTCTCAAACAT-GTCTTACACTGGCTTATGTCA-CAAGGC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACATCAAGTC
* * *
29308168 TGATG-CATGTCCTAGACAT-GTCTTACACTTGCTC-TCGTC-TCAA-TGC
1 -GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-ACATCAAGT-C
* * * ***
29308214 GGATGCCATGTCCTAGACATGGTTTTACACTGGCTC-TCATAGTGTGGTC
1 -GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACA-TCAAGTC
29308263 GATG-CATGTCCCAGACAT-GTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
29308291 AGTGCACAAA
Statistics
Matches: 239, Mismatches: 54, Indels: 41
0.72 0.16 0.12
Matches are distributed among these distances:
44 13 0.05
45 15 0.06
46 55 0.23
47 59 0.25
48 25 0.10
49 38 0.16
50 30 0.13
51 4 0.02
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACATCAAGTC
Found at i:29308219 original size:46 final size:46
Alignment explanation
Indices: 29308123--29308290 Score: 146
Period size: 46 Copynumber: 3.6 Consensus size: 46
29308113 TCTCGTAGTC
* * *
29308123 GATGCATGT-CTCAAACATGTCTTACACTGGCT-TATGTCACAAGGCT
1 GATGCATGTCCT-AGACATGTCTTACACTGGCTCT-CGTCACAAGGCG
* * *
29308169 GATGCATGTCCTAGACATGTCTTACACTTGCTCTCGTCTCAATGCG
1 GATGCATGTCCTAGACATGTCTTACACTGGCTCTCGTCACAAGGCG
* * ***
29308215 GATGCCATGTCCTAGACATGGTTTTACACTGGCTCTCAT-AGTGTGGTC-
1 GATG-CATGTCCTAGACAT-GTCTTACACTGGCTCTCGTCA-CAAGG-CG
*
29308263 GATGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCTAGACATGTCTTACACT
29308291 AGTGCACAAA
Statistics
Matches: 100, Mismatches: 16, Indels: 12
0.78 0.12 0.09
Matches are distributed among these distances:
46 48 0.48
47 30 0.30
48 21 0.21
49 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.32
Consensus pattern (46 bp):
GATGCATGTCCTAGACATGTCTTACACTGGCTCTCGTCACAAGGCG
Found at i:29310003 original size:27 final size:28
Alignment explanation
Indices: 29309947--29310016 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
29309937 AAATTTGTAC
29309947 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
29309975 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
29310002 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
29310017 GACTCACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:29317927 original size:27 final size:28
Alignment explanation
Indices: 29317871--29317940 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
29317861 AAATTTGTAC
29317871 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
29317899 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
29317926 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
29317941 GACTCACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:29323605 original size:39 final size:39
Alignment explanation
Indices: 29323540--29323798 Score: 387
Period size: 39 Copynumber: 6.7 Consensus size: 39
29323530 CCAACACAAT
*
29323540 TGCCTTC-GGACTTAGCCCGGATATAACACCAACACGAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
*
29323578 TGCCTTCGGGATTTAGCCCGGATATAACACCAGCACGAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
* * * * *
29323617 TGCCTTTGAGATTTAGCCCGGATATAAGACCAGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
* * *
29323656 TGCCTTCGGGACATAGCCCGAATATAACACCAGCATGAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
*
29323695 TGCCTTCGGGACTTAGCCCAGATATAACACCAGCACGAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
* *
29323734 TGCCTTCGGGACTTAGCCCAGATATAACATCAGCACGAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
29323773 TGCCTTC-GGACTTAGCCCGGATATAA
1 TGCCTTCGGGACTTAGCCCGGATATAA
29323799 ATCTCACACA
Statistics
Matches: 200, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
38 25 0.12
39 175 0.88
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.20
Consensus pattern (39 bp):
TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
Found at i:29327942 original size:39 final size:39
Alignment explanation
Indices: 29327861--29328023 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
29327851 TATGGTAACC
* *
29327861 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
29327901 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
29327940 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
29327979 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
29328018 CGCACA
1 CGCACA
29328024 TTCATACACA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:29331330 original size:14 final size:14
Alignment explanation
Indices: 29331308--29331341 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
29331298 ACTTTATGTC
29331308 ATAAAAAATATAAT
1 ATAAAAAATATAAT
* *
29331322 ATAATAAATTTAAT
1 ATAAAAAATATAAT
29331336 ATAAAA
1 ATAAAA
29331342 TAAGCCATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAAAAAATATAAT
Found at i:29335256 original size:53 final size:53
Alignment explanation
Indices: 29335076--29335282 Score: 200
Period size: 53 Copynumber: 3.8 Consensus size: 53
29335066 ATTAGGGTTT
* * * *
29335076 AAGGATACCAAGTAAGACCATGCCAAGGCATGG-AATTGGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAA-TGGTAAG-TTCATAAGGC
* * * * * * * *
29335130 AAGGAAATCATGTAAGACTATGTCAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * * * *
29335185 AAAGATCCCATGTAAGACCGTGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* *
29335238 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
29335283 TAAAAAGGAA
Statistics
Matches: 118, Mismatches: 32, Indels: 7
0.75 0.20 0.04
Matches are distributed among these distances:
53 45 0.38
54 34 0.29
55 39 0.33
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:29339340 original size:27 final size:26
Alignment explanation
Indices: 29339309--29339363 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 26
29339299 ATTTAACATC
* * * *
29339309 TAGGGGTATTTTGGTCATTTTTACCCT
1 TAGGGGCATTTCGGTAAATTTT-CCCT
29339336 TAGGGGCATTTCGGTAAATTTTCCCT
1 TAGGGGCATTTCGGTAAATTTTCCCT
29339362 TA
1 TA
29339364 ATTACGGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 6 0.25
27 18 0.75
ACGTcount: A:0.18, C:0.16, G:0.22, T:0.44
Consensus pattern (26 bp):
TAGGGGCATTTCGGTAAATTTTCCCT
Found at i:29339699 original size:29 final size:29
Alignment explanation
Indices: 29339642--29339756 Score: 137
Period size: 29 Copynumber: 4.0 Consensus size: 29
29339632 TACCTGTATC
* * * *
29339642 TGGCCCATTAAGCAC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
29339670 TGGCCCATTAGGCCCAAATCAC-TTGTATA
1 TGGCCCATTAGGCCCAAATCACATT-TATA
29339699 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
* * *
29339728 TGGCCCGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
29339756 T
1 T
29339757 TCATGCTCAC
Statistics
Matches: 77, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
28 27 0.35
29 48 0.62
30 2 0.03
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTTATA
Found at i:29340009 original size:16 final size:16
Alignment explanation
Indices: 29339973--29340009 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
29339963 AAACTTTCAG
*
29339973 CTTTTCGGCATTTCTA
1 CTTTTCGGCATTTCGA
*
29339989 TTTTTCGGCATTTCGA
1 CTTTTCGGCATTTCGA
29340005 CTTTT
1 CTTTT
29340010 GCCGATACAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.11, C:0.22, G:0.14, T:0.54
Consensus pattern (16 bp):
CTTTTCGGCATTTCGA
Found at i:29341117 original size:17 final size:17
Alignment explanation
Indices: 29341078--29341113 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
29341068 ACAAAGAAAG
29341078 TTTGGGATTTCAGGATT
1 TTTGGGATTTCAGGATT
*
29341095 TTTGGG-TTTTAGGATT
1 TTTGGGATTTCAGGATT
29341111 TTT
1 TTT
29341114 TGGGCATTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.14, C:0.03, G:0.28, T:0.56
Consensus pattern (17 bp):
TTTGGGATTTCAGGATT
Found at i:29345985 original size:40 final size:40
Alignment explanation
Indices: 29345941--29346126 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
29345931 GCTACTCGTT
* * *
29345941 CAAATACCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
29345981 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
29346021 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * *
29346061 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
29346102 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
29346127 CATCATTCGA
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 3 0.02
40 116 0.88
41 13 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:29354080 original size:40 final size:40
Alignment explanation
Indices: 29353991--29354175 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
29353981 GCTACTCGTT
* * *
29353991 CAAATACCTTCGGGACATAGCCCGG-TTATAGT-AGTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
29354030 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
29354070 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * *
29354110 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
29354151 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
29354176 CATCATTCGA
Statistics
Matches: 131, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
39 29 0.22
40 91 0.69
41 11 0.08
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:29359613 original size:42 final size:42
Alignment explanation
Indices: 29359552--29359672 Score: 145
Period size: 42 Copynumber: 2.9 Consensus size: 42
29359542 TAGGGTTATT
* *
29359552 AAGACTACGTGTAACACCATATCTGGGATATGGCATCGATAT
1 AAGACTACGTGTAAGACCATATCTGGGATATGGCATCGATAC
* * * *
29359594 GAGACTACGTGTAAGACCATAGCTGGAATATTGGCATTGATAC
1 AAGACTACGTGTAAGACCATATCTGGGATA-TGGCATCGATAC
* *
29359637 AAGA-TCACATGTAAGACCATATCTAGGATATGGCAT
1 AAGACT-ACGTGTAAGACCATATCTGGGATATGGCAT
29359673 TGGTATGGTA
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
42 33 0.50
43 33 0.50
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (42 bp):
AAGACTACGTGTAAGACCATATCTGGGATATGGCATCGATAC
Found at i:29359869 original size:15 final size:16
Alignment explanation
Indices: 29359843--29359872 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
29359833 ATGAACCATC
29359843 AGTAAGGTTATGATTG
1 AGTAAGGTTATGATTG
29359859 AGTAA-GTTATGATT
1 AGTAAGGTTATGATT
29359873 TTAAGATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.40
Consensus pattern (16 bp):
AGTAAGGTTATGATTG
Found at i:29364077 original size:25 final size:24
Alignment explanation
Indices: 29364059--29364207 Score: 120
Period size: 25 Copynumber: 6.0 Consensus size: 24
29364049 TGCTAATTCG
* *
29364059 AGCTATGAATCGGTATGCTTTCACA
1 AGCTATGAATCGGTAAGCTAT-ACA
*
29364084 AGCTATGAATCGGTAAGCTTATACG
1 AGCTATGAATCGGTAAGC-TATACA
29364109 AGCTGA-GAATCGGTAAGCTCATACA
1 AGCT-ATGAATCGGTAAGCT-ATACA
* *
29364134 AGCTAAGAATCGGTAAGCTCTCACA
1 AGCTATGAATCGGTAAGCTAT-ACA
*** *
29364159 AGCTGCAAATCGGTAAGCTCTCACA
1 AGCTATGAATCGGTAAGCTAT-ACA
***
29364184 AGCTGCAAATCGGTAAGCTCATAC
1 AGCTATGAATCGGTAAGCT-ATAC
29364208 GAGTTGTGGT
Statistics
Matches: 109, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
24 3 0.03
25 102 0.94
26 4 0.04
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.23
Consensus pattern (24 bp):
AGCTATGAATCGGTAAGCTATACA
Found at i:29364135 original size:50 final size:50
Alignment explanation
Indices: 29364066--29364210 Score: 163
Period size: 50 Copynumber: 2.9 Consensus size: 50
29364056 TCGAGCTATG
* * *
29364066 AATCGGTATGCTTTCACAAGCTATGAATCGGTAAGCTTATACGAGCTG-A
1 AATCGGTAAGCTCTCACAAGCTAAGAATCGGTAAGCTTATACGAGCTGCA
* *
29364115 GAATCGGTAAGCTCAT-ACAAGCTAAGAATCGGTAAGCTCT-CACAAGCTGCA
1 -AATCGGTAAGCTC-TCACAAGCTAAGAATCGGTAAGCT-TATACGAGCTGCA
* *
29364166 AATCGGTAAGCTCTCACAAGCTGCA-AATCGGTAAGCTCATACGAG
1 AATCGGTAAGCTCTCACAAGCT-AAGAATCGGTAAGCTTATACGAG
29364211 TTGTGGTGTG
Statistics
Matches: 80, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
49 1 0.01
50 75 0.94
51 4 0.05
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (50 bp):
AATCGGTAAGCTCTCACAAGCTAAGAATCGGTAAGCTTATACGAGCTGCA
Found at i:29364188 original size:75 final size:75
Alignment explanation
Indices: 29364059--29364207 Score: 194
Period size: 75 Copynumber: 2.0 Consensus size: 75
29364049 TGCTAATTCG
* * * ** * *
29364059 AGCTATGAATCGGTATGCTTTCACAAGCTATGAATCGGTAAGCTTATACGAGCTG-AGAATCGGT
1 AGCTAAGAATCGGTAAGCTCTCACAAGCTACAAATCGGTAAGCTTACACAAGCTGCA-AATCGGT
29364123 AAGCTCATACA
65 AAGCTCATACA
*
29364134 AGCTAAGAATCGGTAAGCTCTCACAAGCTGCAAATCGGTAAGCTCT-CACAAGCTGCAAATCGGT
1 AGCTAAGAATCGGTAAGCTCTCACAAGCTACAAATCGGTAAGCT-TACACAAGCTGCAAATCGGT
29364198 AAGCTCATAC
65 AAGCTCATAC
29364208 GAGTTGTGGT
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
75 62 0.97
76 2 0.03
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.23
Consensus pattern (75 bp):
AGCTAAGAATCGGTAAGCTCTCACAAGCTACAAATCGGTAAGCTTACACAAGCTGCAAATCGGTA
AGCTCATACA
Found at i:29373745 original size:6 final size:6
Alignment explanation
Indices: 29373734--29373778 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
29373724 TCCTCTTATC
* * * *
29373734 TTTTTA TTTTTA TTTTTA TTTTTC TCTTTA TTTCTA TTTTCA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
29373779 CAAATTTATT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.13, C:0.09, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:29378417 original size:80 final size:80
Alignment explanation
Indices: 29378219--29378420 Score: 300
Period size: 80 Copynumber: 2.5 Consensus size: 80
29378209 GGGACATAGC
* * * *
29378219 CCGGTTATAGTAGCTCGCACAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCACAAATG
1 CCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCAGATTTAGTAACTCGCACAAATG
29378284 CCTTCGGATCTTAGT
66 CCTTCGGATCTTAGT
* * *
29378299 CCGGATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCAGATTTAGTAACTCGCACAAAT
1 CCGGATATAGTAACTAGCACAAATGCCTTCGGGA-CTTAGCCCAGATTTAGTAACTCGCACAAAT
29378363 GCCTTCGGATCTTAGT
65 GCCTTCGGATCTTAGT
*
29378379 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CCGGATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAGCCC
29378421 GGACATCATT
Statistics
Matches: 110, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
79 3 0.03
80 96 0.87
81 11 0.10
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (80 bp):
CCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCAGATTTAGTAACTCGCACAAATG
CCTTCGGATCTTAGT
Found at i:29378423 original size:40 final size:40
Alignment explanation
Indices: 29378198--29378423 Score: 264
Period size: 40 Copynumber: 5.7 Consensus size: 40
29378188 GCTACTCGTT
* * *
29378198 CAAATACCTTCGGGA-CATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTC-GGATCTTAGCCCGGATT-TAGTAACTCGCA
* *
29378238 CAAATGCCTTCGGGA-CTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGCCCGGATTTAGTAACTCGCA
*
29378278 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
* *
29378318 CAAATGCCTTCGGATCTTAGTCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
* * * *
29378358 CAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAAC-TCGCA
29378399 CAAA-GCCTTCGGGA-CTTAGCCCGGA
1 CAAATGCCTTC-GGATCTTAGCCCGGA
29378424 CATCATTCGA
Statistics
Matches: 168, Mismatches: 14, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
39 3 0.02
40 152 0.90
41 13 0.08
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
Found at i:29385508 original size:53 final size:54
Alignment explanation
Indices: 29385440--29385646 Score: 202
Period size: 53 Copynumber: 3.8 Consensus size: 54
29385430 TTCCTTTTTA
* *
29385440 AACTTACCATTGTCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCAATGTCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * * * *
29385493 AACTCACCATTGTCATG-CTTTGGCATGGTCATACATGGGATCTTTACCTTATAG
1 AACTTACCAATGTCATGTC-TTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * * *
29385547 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTTACCAATGTCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * *
29385602 AACTTACCAATGTCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGTCATGTCTTGACATGGTCTTACATGGTATCCTT
29385647 AAACCCTAAT
Statistics
Matches: 119, Mismatches: 31, Indels: 7
0.76 0.20 0.04
Matches are distributed among these distances:
52 1 0.01
53 43 0.36
54 37 0.31
55 37 0.31
56 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.18, T:0.39
Consensus pattern (54 bp):
AACTTACCAATGTCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:29388327 original size:47 final size:48
Alignment explanation
Indices: 29388274--29388385 Score: 199
Period size: 49 Copynumber: 2.3 Consensus size: 48
29388264 TTAGGATTTT
*
29388274 ATGTGATGAATGTGAAAGTGTATG-TATGTGATAAGGCCGAATGGCCC
1 ATGTGATGAATGTGAAAGTGTATGATATGTGATAAGGCCGAATGGCCA
29388321 ATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATG-ATATGTGATAAGGCCGAATGGCCA
29388370 ATGTGATGAATGTGAA
1 ATGTGATGAATGTGAA
29388386 TGTAATGCCC
Statistics
Matches: 62, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
47 24 0.39
49 38 0.61
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (48 bp):
ATGTGATGAATGTGAAAGTGTATGATATGTGATAAGGCCGAATGGCCA
Found at i:29389810 original size:93 final size:93
Alignment explanation
Indices: 29389698--29389869 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
29389688 CGCCCATAAG
* *
29389698 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
29389763 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
29389791 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
29389856 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
29389870 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:29389866 original size:46 final size:46
Alignment explanation
Indices: 29389691--29389866 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
29389681 TGTAACCCGC
* * * *
29389691 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * *
29389737 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
*
29389787 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
*
29389830 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
29389867 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 6 0.05
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:29391292 original size:49 final size:49
Alignment explanation
Indices: 29391156--29391455 Score: 479
Period size: 49 Copynumber: 6.2 Consensus size: 49
29391146 GGATATTACA
29391156 GTGAAAGTGTATG--TATGTGATAAGGCCGAATGGCCAATGTGATGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAAT
29391203 GTGAAAGTGTATG--TATGTGATAAGGCCGAATGGCCAATGTGATGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAAT
* *
29391250 GTGAAAGTGTATGTATATGTGATAAGGTCGAATGGCCCATGTGATGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAAT
*
29391299 GTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAAAGTGATGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAAT
29391348 GTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAAT
* * *
29391397 GTGAAA--GTATATATATATGATAAGGTCGAATGGCCAATGTGATGGAA-
1 GTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGAT-GAAT
*
29391444 GTGGAAGTGTAT
1 GTGAAAGTGTAT
29391456 AACTGTGATA
Statistics
Matches: 238, Mismatches: 10, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
47 99 0.42
48 3 0.01
49 136 0.57
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (49 bp):
GTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAAT
Found at i:29391347 original size:98 final size:98
Alignment explanation
Indices: 29391156--29391455 Score: 479
Period size: 96 Copynumber: 3.1 Consensus size: 98
29391146 GGATATTACA
29391156 GTGAAAGTGTATG--TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG--T
1 GTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTAT
29391217 ATGTGATAAGGCCGAATGGCCAATGTGATGAAT
66 ATGTGATAAGGCCGAATGGCCAATGTGATGAAT
* *
29391250 GTGAAAGTGTATGTATATGTGATAAGGTCGAATGGCCCATGTGATGAATGTGAAAGTGTATGTAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTAT
*
29391315 ATGTGATAAGGCCGAATGGCCAAAGTGATGAAT
66 ATGTGATAAGGCCGAATGGCCAATGTGATGAAT
*
29391348 GTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA--GTATATAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTAT
* *
29391411 ATATGATAAGGTCGAATGGCCAATGTGATGGAA-
66 ATGTGATAAGGCCGAATGGCCAATGTGAT-GAAT
*
29391444 GTGGAAGTGTAT
1 GTGAAAGTGTAT
29391456 AACTGTGATA
Statistics
Matches: 191, Mismatches: 10, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
94 13 0.07
96 89 0.47
97 3 0.02
98 86 0.45
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (98 bp):
GTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTAT
ATGTGATAAGGCCGAATGGCCAATGTGATGAAT
Found at i:29391389 original size:40 final size:43
Alignment explanation
Indices: 29391345--29391438 Score: 104
Period size: 47 Copynumber: 2.2 Consensus size: 43
29391335 CAAAGTGATG
* *
29391345 AATGTGA-AA-GT-GTATGTATATGTGATAAGGCCGAATGGCC
1 AATGTGAGAATGTAGTATATATATATGATAAGGCCGAATGGCC
*
29391385 AATGTGATGAATGTGAAAGTATATATATATGATAAGGTCGAATGGCC
1 AATGTGA-GAATGT---AGTATATATATATGATAAGGCCGAATGGCC
29391432 AATGTGA
1 AATGTGA
29391439 TGGAAGTGGA
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
40 7 0.16
42 2 0.05
43 2 0.05
47 33 0.75
ACGTcount: A:0.36, C:0.07, G:0.28, T:0.29
Consensus pattern (43 bp):
AATGTGAGAATGTAGTATATATATATGATAAGGCCGAATGGCC
Found at i:29392600 original size:26 final size:26
Alignment explanation
Indices: 29392564--29392615 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
29392554 ACGGGATAGG
29392564 GGTGTTACAGTTCAACCGGAACTTTT
1 GGTGTTACAGTTCAACCGGAACTTTT
29392590 GGTGTTACAGTTCAACCGGAACTTTT
1 GGTGTTACAGTTCAACCGGAACTTTT
29392616 AAGTATCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (26 bp):
GGTGTTACAGTTCAACCGGAACTTTT
Found at i:29396022 original size:71 final size:67
Alignment explanation
Indices: 29395929--29396070 Score: 151
Period size: 67 Copynumber: 2.1 Consensus size: 67
29395919 TCACCAGATA
* * * *
29395929 CAGATATTGTGGCTAGGCCACCAAAACAGATTTATATAAGTGGCAAAGCCACCAGATTGCAGCGA
1 CAGATATTGTGACGAAGCCACCAAAACAGA--TATAT--GTGGCAAAGCCACCAAATTGCAGCGA
29395994 TG-CTGC
62 -GCCTGC
* * * * *
29396000 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACCAAATTGCAGTGAGCCT
1 CAGATATTGTGACGAAGCCACCAAAACAGATATATGTGGCAAAGCCACCAAATTGCAGCGAGCCT
29396065 GC
66 GC
29396067 CAGA
1 CAGA
29396071 ATGCTTCCTC
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
66 1 0.02
67 30 0.49
69 5 0.08
71 25 0.41
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAAAACAGATATATGTGGCAAAGCCACCAAATTGCAGCGAGCCT
GC
Found at i:29402377 original size:29 final size:27
Alignment explanation
Indices: 29402302--29402383 Score: 94
Period size: 27 Copynumber: 3.0 Consensus size: 27
29402292 GCGAGCCTGC
* *
29402302 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGGCGAAGCCACCAGATA
* *
29402329 CAGATATTGTGGCTAGGCCACCAGA-A
1 CAGATATTGTGGCGAAGCCACCAGATA
29402355 CAGATATATATGTGGCGAAGCCACCAGAT
1 CAG--ATAT-TGTGGCGAAGCCACCAGAT
29402384 TGTAGCGAGG
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
26 4 0.09
27 21 0.47
28 4 0.09
29 16 0.36
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (27 bp):
CAGATATTGTGGCGAAGCCACCAGATA
Found at i:29408714 original size:27 final size:27
Alignment explanation
Indices: 29408666--29408718 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
29408656 GCGAGGCTGC
*
29408666 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGATA
* * *
29408693 CAGATATTGTGGCTAGGCCACCAGAT
1 CAGATATTGTGACGAAGCCACCAGAT
29408719 TGCAGCGAGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.23
Consensus pattern (27 bp):
CAGATATTGTGACGAAGCCACCAGATA
Found at i:29408768 original size:26 final size:26
Alignment explanation
Indices: 29408731--29408782 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
29408721 CAGCGAGGCT
*
29408731 ACAGATATTGTGACGAAGTCACCAGA
1 ACAGATATTGTGACGAAGCCACCAGA
* *
29408757 ACAG-TATATGTGGCGAGGCCACCAGA
1 ACAGATAT-TGTGACGAAGCCACCAGA
29408783 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 3 0.14
26 19 0.86
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
ACAGATATTGTGACGAAGCCACCAGA
Found at i:29408790 original size:65 final size:67
Alignment explanation
Indices: 29408650--29408801 Score: 247
Period size: 65 Copynumber: 2.3 Consensus size: 67
29408640 CACCACAGAA
* *
29408650 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACC
1 ATTGCAGCGAGGCTGACAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCGAGGCCACC
29408715 AG
66 AG
29408717 ATTGCAGCGAGGCT-ACAGATATTGTGACGAAGTCACCAGA-ACAG-TATATGTGGCGAGGCCAC
1 ATTGCAGCGAGGCTGACAGATATTGTGACGAAGTCACCAGATACAGATAT-TGTGGCGAGGCCAC
29408779 CAG
65 CAG
*
29408782 ATTGCAGCGAGGCTGCCAGA
1 ATTGCAGCGAGGCTGACAGA
29408802 ATGCTTCCTC
Statistics
Matches: 80, Mismatches: 3, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
64 3 0.04
65 34 0.43
66 29 0.36
67 14 0.17
ACGTcount: A:0.29, C:0.22, G:0.30, T:0.19
Consensus pattern (67 bp):
ATTGCAGCGAGGCTGACAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCGAGGCCACC
AG
Found at i:29413949 original size:31 final size:31
Alignment explanation
Indices: 29413867--29413951 Score: 138
Period size: 31 Copynumber: 2.8 Consensus size: 31
29413857 TCAATCTCAG
*
29413867 CATAT-ACTGGG-CGAAGCCTTCACATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
*
29413896 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
29413927 CATATCACTGGGCCGAAGCCTTTAC
1 CATATCACTGGGCCGAAGCCTTTAC
29413952 TGTAACGATA
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
29 5 0.10
30 6 0.12
31 40 0.78
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.31
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTATT
Found at i:29414182 original size:25 final size:25
Alignment explanation
Indices: 29414154--29414238 Score: 93
Period size: 26 Copynumber: 3.4 Consensus size: 25
29414144 CTGGAGGCCT
29414154 AGCCTCTTTTAAT-AACTGGGGCAAA
1 AGCC-CTTTTAATAAACTGGGGCAAA
*
29414179 AGCCCTTTTTGATAAACTGGGGCAAA
1 AGCCC-TTTTAATAAACTGGGGCAAA
** *
29414205 AGCCCTTTTCGGTAAACTGGGGC-AT
1 AGCCCTTTT-AATAAACTGGGGCAAA
29414230 AGCCCTTTT
1 AGCCCTTTT
29414239 GCACTTCCTC
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
24 1 0.02
25 24 0.44
26 29 0.54
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTGGGGCAAA
Found at i:29414203 original size:26 final size:26
Alignment explanation
Indices: 29414167--29414238 Score: 110
Period size: 26 Copynumber: 2.8 Consensus size: 26
29414157 CTCTTTTAAT
*
29414167 AACTGGGGCAAAAGCCCTTTTTGATA
1 AACTGGGGCAAAAGCCCTTTTCGATA
*
29414193 AACTGGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAAGCCCTTTTCGATA
*
29414219 AACTGGGGC-ATAGCCCTTTT
1 AACTGGGGCAAAAGCCCTTTT
29414239 GCACTTCCTC
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
25 10 0.23
26 33 0.77
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.26
Consensus pattern (26 bp):
AACTGGGGCAAAAGCCCTTTTCGATA
Found at i:29414310 original size:20 final size:20
Alignment explanation
Indices: 29414285--29414331 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
29414275 AAATGAATAC
*
29414285 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAA
* *
29414305 ATCATGTGTATATCATTCAA
1 ATCATGTGCATATCATACAA
29414325 ATCATGT
1 ATCATGT
29414332 ATATCAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.38
Consensus pattern (20 bp):
ATCATGTGCATATCATACAA
Found at i:29421968 original size:31 final size:31
Alignment explanation
Indices: 29421922--29422036 Score: 187
Period size: 31 Copynumber: 3.7 Consensus size: 31
29421912 TCAATCTCAG
**
29421922 CATAT-ACTGGGCCGAAGCCTTCACATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
* *
29421952 CATATCACTGGACCGAAGCTTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
29421983 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
29422014 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
29422037 ATGTAACGAT
Statistics
Matches: 78, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
30 5 0.06
31 73 0.94
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATTATT
Found at i:29422269 original size:25 final size:25
Alignment explanation
Indices: 29422241--29422326 Score: 77
Period size: 26 Copynumber: 3.4 Consensus size: 25
29422231 CTGGAGGCCT
* *
29422241 AGCCTCTTTTAAT-AATTGGGGTAAA
1 AGCC-CTTTTAATAAACTGGGGCAAA
*
29422266 AGCCCTTTTTGATAAACTGGGGCAAA
1 AGCCC-TTTTAATAAACTGGGGCAAA
** *
29422292 AGCCCTTTTTGGTAAACTGGGGC-AT
1 AGCCC-TTTTAATAAACTGGGGCAAA
29422317 AGCCCTTTTA
1 AGCCCTTTTA
29422327 CACTTCCTCC
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
24 5 0.09
25 16 0.30
26 32 0.60
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.33
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTGGGGCAAA
Found at i:29422293 original size:26 final size:26
Alignment explanation
Indices: 29422257--29422325 Score: 104
Period size: 26 Copynumber: 2.7 Consensus size: 26
29422247 TTTTAATAAT
*
29422257 TGGGGTAAAAGCCCTTTTTGATAAAC
1 TGGGGCAAAAGCCCTTTTTGATAAAC
*
29422283 TGGGGCAAAAGCCCTTTTTGGTAAAC
1 TGGGGCAAAAGCCCTTTTTGATAAAC
*
29422309 TGGGGC-ATAGCCCTTTT
1 TGGGGCAAAAGCCCTTTT
29422326 ACACTTCCTC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
25 10 0.25
26 30 0.75
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (26 bp):
TGGGGCAAAAGCCCTTTTTGATAAAC
Found at i:29422403 original size:11 final size:11
Alignment explanation
Indices: 29422372--29422419 Score: 57
Period size: 11 Copynumber: 4.6 Consensus size: 11
29422362 AAATGAATAC
29422372 ATCATGTGCAT
1 ATCATGTGCAT
*
29422383 ATCA--TACAT
1 ATCATGTGCAT
29422392 ATCATGTGCAT
1 ATCATGTGCAT
*
29422403 ATCATGT-CAA
1 ATCATGTGCAT
29422413 ATCATGT
1 ATCATGT
29422420 ATATCAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 8 0.25
10 9 0.28
11 15 0.47
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.35
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:29422502 original size:25 final size:25
Alignment explanation
Indices: 29422456--29422503 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
29422446 ATAATTAAAC
* ** *
29422456 CCTAGGGGTAAAATGGTTATTTTTA
1 CCTAGGGGCAAAACAGTCATTTTTA
29422481 CCTAGGGGCAAAACAGTCATTTT
1 CCTAGGGGCAAAACAGTCATTTT
29422504 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACAGTCATTTTTA
Found at i:29424343 original size:31 final size:31
Alignment explanation
Indices: 29424308--29424391 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
29424298 CATTTACAGT
29424308 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* *
29424339 AAAGGCTTCGGCCCAGTGGTATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
29424370 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
29424392 CTGAGATTGA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
30 4 0.08
31 46 0.92
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:29428126 original size:15 final size:16
Alignment explanation
Indices: 29428104--29428150 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 16
29428094 AGTATCGTAA
29428104 CTTGGGTTTCTTTATT
1 CTTGGGTTTCTTTATT
*
29428120 C-TGGGTTTCTCTA-T
1 CTTGGGTTTCTTTATT
*
29428134 CTTGGATTTCTTTATT
1 CTTGGGTTTCTTTATT
29428150 C
1 C
29428151 GATTTTCTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 21 0.81
16 3 0.12
ACGTcount: A:0.09, C:0.17, G:0.17, T:0.57
Consensus pattern (16 bp):
CTTGGGTTTCTTTATT
Found at i:29434531 original size:27 final size:27
Alignment explanation
Indices: 29434501--29434678 Score: 112
Period size: 27 Copynumber: 6.6 Consensus size: 27
29434491 CAAATTGTAA
*
29434501 AATTACCAAAGTACCCTCGATTTACAG
1 AATTACCAAAATACCCTCGATTTACAG
***** *
29434528 AATTACTGTTTTACCCTCGATTTATAG
1 AATTACCAAAATACCCTCGATTTACAG
**** *
29434555 AATTACCGTTTTACCCT-TATTTACAG
1 AATTACCAAAATACCCTCGATTTACAG
***** *
29434581 AATTACTGTTTTACCCTCGATTTACAA
1 AATTACCAAAATACCCTCGATTTACAG
* * *
29434608 AATTACTAAAATACCCT-TAGTTTACAA
1 AATTACCAAAATACCCTCGA-TTTACAG
29434635 AATTACCAAAATACCCTCGATTAGTA-A-
1 AATTACCAAAATACCCTCGATT--TACAG
29434662 AATTACCAAAATACCCT
1 AATTACCAAAATACCCT
29434679 AGTCTGTAAA
Statistics
Matches: 127, Mismatches: 19, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
26 24 0.19
27 99 0.78
28 2 0.02
29 2 0.02
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.34
Consensus pattern (27 bp):
AATTACCAAAATACCCTCGATTTACAG
Found at i:29434583 original size:26 final size:27
Alignment explanation
Indices: 29434512--29434614 Score: 163
Period size: 27 Copynumber: 3.9 Consensus size: 27
29434502 ATTACCAAAG
29434512 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
29434539 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
29434566 TACCCT-TATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
29434592 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTACAGAATTACT
29434615 AAAATACCCT
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
26 23 0.34
27 45 0.66
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:29434623 original size:53 final size:53
Alignment explanation
Indices: 29434499--29434678 Score: 182
Period size: 54 Copynumber: 3.4 Consensus size: 53
29434489 CTCAAATTGT
* * *
29434499 AAAATTACCAAAGTACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTAT
1 AAAATTACCAAAATACCCT-TATTTACAGAATTACTGTTTTACCCTCGATTTAC
* ****
29434553 AGAATTACCGTTTTACCCTTATTTACAGAATTACTGTTTTACCCTCGATTTAC
1 AAAATTACCAAAATACCCTTATTTACAGAATTACTGTTTTACCCTCGATTTAC
* * ***** *
29434606 AAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAATACCCTCGA-TTAGT
1 AAAATTACCAAAATACCCTTA-TTTACAGAATTACTGTTTTACCCTCGATTTA-C
29434660 AAAATTACCAAAATACCCT
1 AAAATTACCAAAATACCCT
29434679 AGTCTGTAAA
Statistics
Matches: 103, Mismatches: 21, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
53 50 0.49
54 53 0.51
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.34
Consensus pattern (53 bp):
AAAATTACCAAAATACCCTTATTTACAGAATTACTGTTTTACCCTCGATTTAC
Found at i:29434656 original size:54 final size:53
Alignment explanation
Indices: 29434592--29434812 Score: 191
Period size: 54 Copynumber: 4.1 Consensus size: 53
29434582 ATTACTGTTT
* *
29434592 TACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAATACCC-TAGTTTACAAAATTACCAAAA
* ** * *
29434646 TACCCTCGA-TTAGTAAAATTACCAAAATACCCTAGTCTGTAAAATTGCTAAAA
1 TACCCTCGATTTA-TAAAATTACCAAAATACCCTAGTTTACAAAATTACCAAAA
* * * *** *
29434699 TACCACT-GGTTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAA
1 TACC-CTCGATTTATAAAATTACCAAAATACC-CTAGTTTACAAAATTACCAAAA
* *
29434753 TACCCTC-ACTTTGTAAAATTACCAAAATACCCCT-GATTTACAAAGTTA-CAGAAA
1 TACCCTCGA-TTTATAAAATTACCAAAATA-CCCTAG-TTTACAAAATTACCA-AAA
29434807 TACCCT
1 TACCCT
29434813 TGACTTTCTA
Statistics
Matches: 137, Mismatches: 21, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
53 46 0.34
54 89 0.65
55 2 0.01
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (53 bp):
TACCCTCGATTTATAAAATTACCAAAATACCCTAGTTTACAAAATTACCAAAA
Found at i:29434690 original size:80 final size:78
Alignment explanation
Indices: 29434606--29434812 Score: 220
Period size: 80 Copynumber: 2.6 Consensus size: 78
29434596 CTCGATTTAC
29434606 AAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAATACCCTCGATTAGTAAAATTACCAA
1 AAAATTACTAAAATACCC-T-GTTTACAAAATTACCAAAATACCCT-GATTAGTAAAATTACCAA
*
29434671 AATACCCT-AGTCTGT
63 AATACCCTCACTCTGT
* ** * * * *
29434686 AAAATTGCTAAAATACCACTGGTTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGA
1 AAAATTACTAAAATACC-CT-GTTTACAAAATTACCAAAATACC-CTGATTAGTAAAATTACCAA
*
29434751 AATACCCTCACTTTGT
63 AATACCCTCACTCTGT
* *
29434767 AAAATTACCAAAATACCCCTGATTTACAAAGTTA-CAGAAATACCCT
1 AAAATTACTAAAATA-CCCTG-TTTACAAAATTACCA-AAATACCCT
29434813 TGACTTTCTA
Statistics
Matches: 106, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
80 65 0.61
81 39 0.37
82 2 0.02
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.29
Consensus pattern (78 bp):
AAAATTACTAAAATACCCTGTTTACAAAATTACCAAAATACCCTGATTAGTAAAATTACCAAAAT
ACCCTCACTCTGT
Found at i:29434717 original size:27 final size:26
Alignment explanation
Indices: 29434606--29434784 Score: 187
Period size: 27 Copynumber: 6.7 Consensus size: 26
29434596 CTCGATTTAC
* * **
29434606 AAAATTACTAAAATACCCTTAGTTTAC
1 AAAATTACCAAAATACCC-TGGTTTGT
* *
29434633 AAAATTACCAAAATACCCTCGATTAGT
1 AAAATTACCAAAATACCCT-GGTTTGT
* *
29434660 AAAATTACCAAAATACCCTAGTCTGT
1 AAAATTACCAAAATACCCTGGTTTGT
* *
29434686 AAAATTGCTAAAATACCACTGGTTTGT
1 AAAATTACCAAAATACC-CTGGTTTGT
29434713 AAAATTACCAAAATACCACTGGTTTGT
1 AAAATTACCAAAATACC-CTGGTTTGT
* * **
29434740 GAAATTACCGAAATACCCTCACTTTGT
1 AAAATTACCAAAATACCCT-GGTTTGT
29434767 AAAATTACCAAAATACCC
1 AAAATTACCAAAATACCC
29434785 CTGATTTACA
Statistics
Matches: 127, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
26 21 0.17
27 106 0.83
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.28
Consensus pattern (26 bp):
AAAATTACCAAAATACCCTGGTTTGT
Found at i:29434801 original size:27 final size:26
Alignment explanation
Indices: 29434592--29434812 Score: 151
Period size: 27 Copynumber: 8.2 Consensus size: 26
29434582 ATTACTGTTT
*
29434592 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCT-GATTTACAAAATTACCAAAA
*
29434619 TACCCTTAGTTTACAAAATTACCAAAA
1 TACCCTGA-TTTACAAAATTACCAAAA
*
29434646 TACCCTCGA-TTAGTAAAATTACCAAAA
1 TACCCT-GATTTA-CAAAATTACCAAAA
* ** * *
29434673 TACCCT-AGTCTGTAAAATTGCTAAAA
1 TACCCTGA-TTTACAAAATTACCAAAA
* **
29434699 TACCACTGGTTTGTAAAATTACCAAAA
1 TACC-CTGATTTACAAAATTACCAAAA
* *** *
29434726 TACCACTGGTTTGTGAAATTACCGAAA
1 TACC-CTGATTTACAAAATTACCAAAA
* **
29434753 TACCCTCACTTTGTAAAATTACCAAAA
1 TACCCTGA-TTTACAAAATTACCAAAA
*
29434780 TACCCCTGATTTACAAAGTTA-CAGAAA
1 TA-CCCTGATTTACAAAATTACCA-AAA
29434807 TACCCT
1 TACCCT
29434813 TGACTTTCTA
Statistics
Matches: 162, Mismatches: 22, Indels: 21
0.79 0.11 0.10
Matches are distributed among these distances:
25 1 0.01
26 28 0.17
27 127 0.78
28 6 0.04
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (26 bp):
TACCCTGATTTACAAAATTACCAAAA
Found at i:29434960 original size:27 final size:27
Alignment explanation
Indices: 29434917--29434990 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
29434907 AAATGACTAA
*
29434917 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
29434944 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
29434971 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
29434991 TGACGAATAC
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:29434994 original size:27 final size:27
Alignment explanation
Indices: 29434930--29434994 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
29434920 ACCCCTAATA
*
29434930 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
29434957 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
29434984 GGTAAAATGAC
1 GGTAAAATGAC
29434995 GAATACGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:29436185 original size:25 final size:25
Alignment explanation
Indices: 29436156--29436203 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
29436146 TTATAAAATG
* *
29436156 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
29436181 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
29436204 GTTTAAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:29436287 original size:11 final size:11
Alignment explanation
Indices: 29436251--29436306 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
29436241 CATGGTATGT
29436251 ATGATATGCAC
1 ATGATATGCAC
* *
29436262 ATGACATG--T
1 ATGATATGCAC
29436271 ATGATATGCAC
1 ATGATATGCAC
*
29436282 ATGATATG--T
1 ATGATATGCAC
29436291 ATGATATGCAC
1 ATGATATGCAC
29436302 ATGAT
1 ATGAT
29436307 GTATTCATAA
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:29436306 original size:20 final size:20
Alignment explanation
Indices: 29436240--29436306 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
29436230 ATTTTGATAA
*
29436240 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
29436260 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
29436280 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
29436300 ACATGAT
1 ACATGAT
29436307 GTATTCATAA
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
Done.