Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 270 of 322
Found at i:89607787 original size:21 final size:20
Alignment explanation
Indices: 89607761--89607799 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
89607751 GATTATTTTT
89607761 ATGTTTAATGATAGATTATGA
1 ATGTTTAATGATAG-TTATGA
*
89607782 ATGTTTGATGATAGTTAT
1 ATGTTTAATGATAGTTAT
89607800 ACAAGTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (20 bp):
ATGTTTAATGATAGTTATGA
Found at i:89611240 original size:39 final size:39
Alignment explanation
Indices: 89611183--89611260 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
89611173 TGGGACTAAG
*
89611183 CCAATAACTTTAGGAACTTTTTGAACACTTAAAAAATTT
1 CCAATAACTTTAGAAACTTTTTGAACACTTAAAAAATTT
*
89611222 CCAATAACTTTAGAAACTTTTTGAACACTTAGAAAATTT
1 CCAATAACTTTAGAAACTTTTTGAACACTTAAAAAATTT
89611261 TCTCAAAAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.41, C:0.15, G:0.08, T:0.36
Consensus pattern (39 bp):
CCAATAACTTTAGAAACTTTTTGAACACTTAAAAAATTT
Found at i:89620610 original size:28 final size:28
Alignment explanation
Indices: 89620555--89620637 Score: 89
Period size: 28 Copynumber: 3.0 Consensus size: 28
89620545 AGCATGGCTG
* *
89620555 CCAG-AACAGAT-ATTGTGACAGAGTCA
1 CCAGAAACAGATAATTGTGGCAGAGCCA
** *
89620581 CCAGTTACAGATAATTGTGGCAGGGCCA
1 CCAGAAACAGATAATTGTGGCAGAGCCA
* *
89620609 CCAGAAACAGATATTTGTAGCAGAGCCA
1 CCAGAAACAGATAATTGTGGCAGAGCCA
89620637 C
1 C
89620638 TAAAATGCTT
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
26 4 0.09
27 6 0.13
28 36 0.78
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (28 bp):
CCAGAAACAGATAATTGTGGCAGAGCCA
Found at i:89621173 original size:169 final size:169
Alignment explanation
Indices: 89620894--89621232 Score: 669
Period size: 169 Copynumber: 2.0 Consensus size: 169
89620884 TTCTTACCGA
89620894 ATTGGGCCCATTGGCCCATTATCCCGTTTTCGGCTCGTTAAGCCCAAATATACCGAAGTGCACAA
1 ATTGGGCCCATTGGCCCATTATCCCGTTTTCGGCTCGTTAAGCCCAAATATACCGAAGTGCACAA
89620959 AATTACGCACTCTGTAATCCTATCACTTGAGATTACCAGGAATAGCAATTCAAACCATCTCACGA
66 AATTACGCACTCTGTAATCCTATCACTTGAGATTACCAGGAATAGCAATTCAAACCATCTCACGA
89621024 GCGCTCGCACGCTCGCAAGTCCCAAAATACCGGCTTTTC
131 GCGCTCGCACGCTCGCAAGTCCCAAAATACCGGCTTTTC
89621063 ATTGGGCCCATTGGCCCATTATCCCGTTTTCGGCTCGTTAAGCCCAAATATACCGAAGTGCACAA
1 ATTGGGCCCATTGGCCCATTATCCCGTTTTCGGCTCGTTAAGCCCAAATATACCGAAGTGCACAA
89621128 AATTACGCACTCTGTAATCCTATCACTTGAGATTACCAGGAATAGCAATTCAAACCATCTCACGA
66 AATTACGCACTCTGTAATCCTATCACTTGAGATTACCAGGAATAGCAATTCAAACCATCTCACGA
*
89621193 GCGCTCGCACGCTCGCAAGTCCCAAAATATCGGCTTTTC
131 GCGCTCGCACGCTCGCAAGTCCCAAAATACCGGCTTTTC
89621232 A
1 A
89621233 GCATTTTAGC
Statistics
Matches: 169, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
169 169 1.00
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (169 bp):
ATTGGGCCCATTGGCCCATTATCCCGTTTTCGGCTCGTTAAGCCCAAATATACCGAAGTGCACAA
AATTACGCACTCTGTAATCCTATCACTTGAGATTACCAGGAATAGCAATTCAAACCATCTCACGA
GCGCTCGCACGCTCGCAAGTCCCAAAATACCGGCTTTTC
Found at i:89622594 original size:168 final size:167
Alignment explanation
Indices: 89622317--89622647 Score: 500
Period size: 168 Copynumber: 2.0 Consensus size: 167
89622307 CGCCCTTGTA
* *
89622317 CCTTCACCCGAGCTGCTAGCCACTGCACCACACTTCTTCCTTCCTAATATGTGGTCACAATTAAT
1 CCTTCACCCGAGCTGCTAGCCACTGCACCACACTTCTTCCTTACTAATATATGGTCACAATTAAT
* *
89622382 TTTAACCATTAAACTGCTTCAGTTCTGGCCCGTTTAAAAAATAAAACAAAATTTGCCCTCCCCTG
66 TTTAACCATTAAACCGCTTCAGTTCTGGCCCGTTTAAAAAATAAAACAAAATTCGCCCTCCCCTG
89622447 AAATCAAACTCATAACCTCCCGACAGGCCTAGCTGCG
131 AAATCAAACTCATAACCTCCCGACAGGCCTAGCTGCG
* * * * *
89622484 CCTTCACCCGAGCTGCTGGCCACTGCACCACGCTTTTTCTTTTATTAATATATGGTCACAATTAA
1 CCTTCACCCGAGCTGCTAGCCACTGCACCACACTTCTTC-CTTACTAATATATGGTCACAATTAA
* * * * *
89622549 TTTTAACCTTTAATCCGCTTCAGTTCTGGCCCGTTTAAAAAATAAAACAGAATTCGCCTTCTCCT
65 TTTTAACCATTAAACCGCTTCAGTTCTGGCCCGTTTAAAAAATAAAACAAAATTCGCCCTCCCCT
* * *
89622614 GGAATCGAACTCATAACCTCCCGGCAGGCCTAGC
130 GAAATCAAACTCATAACCTCCCGACAGGCCTAGC
89622648 ACGCTGTTGC
Statistics
Matches: 146, Mismatches: 17, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
167 36 0.25
168 110 0.75
ACGTcount: A:0.27, C:0.31, G:0.14, T:0.29
Consensus pattern (167 bp):
CCTTCACCCGAGCTGCTAGCCACTGCACCACACTTCTTCCTTACTAATATATGGTCACAATTAAT
TTTAACCATTAAACCGCTTCAGTTCTGGCCCGTTTAAAAAATAAAACAAAATTCGCCCTCCCCTG
AAATCAAACTCATAACCTCCCGACAGGCCTAGCTGCG
Found at i:89623163 original size:16 final size:16
Alignment explanation
Indices: 89623142--89623175 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
89623132 TAAACCTACA
*
89623142 AAATAATAATAATAAT
1 AAATAATAATAACAAT
89623158 AAATAATAATAACAAT
1 AAATAATAATAACAAT
89623174 AA
1 AA
89623176 CATCCAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
AAATAATAATAACAAT
Found at i:89625536 original size:17 final size:16
Alignment explanation
Indices: 89625497--89625537 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
89625487 AATATAATGC
89625497 CCCAAAAATTTCAAAA
1 CCCAAAAATTTCAAAA
*
89625513 CCCAAAAATTTCGAAA
1 CCCAAAAATTTCAAAA
89625529 CCCAAAAAT
1 CCCAAAAAT
89625538 CCGGAAATCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.54, C:0.27, G:0.02, T:0.17
Consensus pattern (16 bp):
CCCAAAAATTTCAAAA
Found at i:89627068 original size:28 final size:29
Alignment explanation
Indices: 89627037--89627147 Score: 140
Period size: 28 Copynumber: 4.0 Consensus size: 29
89627027 CATGACTGTA
*
89627037 AATGTGATTTGGGCTTAAT-GGCCATATG
1 AATGTGATTTGGGCCTAATGGGCCATATG
* *
89627065 AATGTGATTTGGGCCTAATGGGCCACATA
1 AATGTGATTTGGGCCTAATGGGCCATATG
89627094 AATGTGA--TGGGCCTAATGGGCCATATG
1 AATGTGATTTGGGCCTAATGGGCCATATG
* * *
89627121 AAAGAGA-TTGGGCCTAGTGGGCCATAT
1 AATGTGATTTGGGCCTAATGGGCCATAT
89627148 ACAGGTATGT
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
27 23 0.32
28 36 0.49
29 14 0.19
ACGTcount: A:0.27, C:0.14, G:0.31, T:0.28
Consensus pattern (29 bp):
AATGTGATTTGGGCCTAATGGGCCATATG
Found at i:89627132 original size:55 final size:56
Alignment explanation
Indices: 89627035--89627144 Score: 152
Period size: 55 Copynumber: 2.0 Consensus size: 56
89627025 AGCATGACTG
* * *
89627035 TAAATGTGATTTGGGCTTAATGGCCATATGAATGTGATTTGGGCCTAATGGGCCACA
1 TAAATGTGA-TTGGGCCTAATGGCCATATGAAAGAGATTTGGGCCTAATGGGCCACA
*
89627092 TAAATGTGA-TGGGCCTAATGGGCCATATGAAAGAGA-TTGGGCCTAGTGGGCCA
1 TAAATGTGATTGGGCCTAAT-GGCCATATGAAAGAGATTTGGGCCTAATGGGCCA
89627145 TATACAGGTA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
55 25 0.52
56 14 0.29
57 9 0.19
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (56 bp):
TAAATGTGATTGGGCCTAATGGCCATATGAAAGAGATTTGGGCCTAATGGGCCACA
Found at i:89633032 original size:16 final size:17
Alignment explanation
Indices: 89633002--89633034 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
89632992 AGATTGAATT
*
89633002 GAAAAATCACTTAGTTA
1 GAAAAATAACTTAGTTA
89633019 GAAAAATAAC-TAGTTA
1 GAAAAATAACTTAGTTA
89633035 TCAATTGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.52, C:0.09, G:0.12, T:0.27
Consensus pattern (17 bp):
GAAAAATAACTTAGTTA
Found at i:89639793 original size:316 final size:316
Alignment explanation
Indices: 89639220--89639851 Score: 1174
Period size: 316 Copynumber: 2.0 Consensus size: 316
89639210 TAGGTGAAAT
89639220 CTATTTATTTTTCTATTTAATGGTAGAATATGAGGTTTTAAATTATGTTAGACAACTTGTGCTAC
1 CTATTTATTTTTCTATTTAATGGTAGAATATGAGGTTTTAAATTATGTTAGACAACTTGTGCTAC
* *
89639285 TCGGTTTTGAGTGAAAACGATTAAAAGGGCTTAATCGGTAAAAATACCTAATAGTCATAACTATA
66 TCGGTTTTGAGTGAAAACGAGTAAAAGGGCTTAATCAGTAAAAATACCTAATAGTCATAACTATA
89639350 TGTTAAAGTGAGAATTTGATGTTGCCATAGAAGGGAAAAGTAATCAGCATGTCATAAAACATAAG
131 TGTTAAAGTGAGAATTTGATGTTGCCATAGAAGGGAAAAGTAATCAGCATGTCATAAAACATAAG
89639415 AATAAGGGATGAAGTTTAATTCCCGAGCCTAGGGGCAAAAGTGTAAATATGCAAAAGTTTAGGGG
196 AATAAGGGATGAAGTTTAATTCCCGAGCCTAGGGGCAAAAGTGTAAATATGCAAAAGTTTAGGGG
*
89639480 CAAAATTGTAATTTTTACAAAGTTTGAGTTAAGGACTATTTTGAATATTAAATTAA
261 CAAAATTGTAATTTTTACAAAGTTTGAGTTAAGGACTATTTTGAATAGTAAATTAA
89639536 CTATTTATTTTTCTATTTAATGGTAGAATATGAGGTTTTAAATTATGTTAGACAACTTGTGCTAC
1 CTATTTATTTTTCTATTTAATGGTAGAATATGAGGTTTTAAATTATGTTAGACAACTTGTGCTAC
*
89639601 TCGGTTTTGAGTGAAAACGAGTAAAAGGGCTTAATCAGTAAAAATACCTAATAGTCATAAGTATA
66 TCGGTTTTGAGTGAAAACGAGTAAAAGGGCTTAATCAGTAAAAATACCTAATAGTCATAACTATA
* * *
89639666 TGTTAGAGTGAGAATTTGATGTTGCCATAGAAGGGAAAAGTGATCATCATGTCATAAAACATAAG
131 TGTTAAAGTGAGAATTTGATGTTGCCATAGAAGGGAAAAGTAATCAGCATGTCATAAAACATAAG
89639731 AATAAGGGATGAAGTTTAATTCCCGAGCCTAGGGGCAAAAGTGTAAATATGCAAAAGTTTAGGGG
196 AATAAGGGATGAAGTTTAATTCCCGAGCCTAGGGGCAAAAGTGTAAATATGCAAAAGTTTAGGGG
* * *
89639796 CAAAATTGTAATTTTTCCAAAGTTTGAGTTAAGGACTGTTTTGAATAGTACATTAA
261 CAAAATTGTAATTTTTACAAAGTTTGAGTTAAGGACTATTTTGAATAGTAAATTAA
89639852 TTAAATAAGT
Statistics
Matches: 306, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
316 306 1.00
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.33
Consensus pattern (316 bp):
CTATTTATTTTTCTATTTAATGGTAGAATATGAGGTTTTAAATTATGTTAGACAACTTGTGCTAC
TCGGTTTTGAGTGAAAACGAGTAAAAGGGCTTAATCAGTAAAAATACCTAATAGTCATAACTATA
TGTTAAAGTGAGAATTTGATGTTGCCATAGAAGGGAAAAGTAATCAGCATGTCATAAAACATAAG
AATAAGGGATGAAGTTTAATTCCCGAGCCTAGGGGCAAAAGTGTAAATATGCAAAAGTTTAGGGG
CAAAATTGTAATTTTTACAAAGTTTGAGTTAAGGACTATTTTGAATAGTAAATTAA
Found at i:89640603 original size:68 final size:67
Alignment explanation
Indices: 89640531--89640680 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
89640521 CATCATGTGT
* * * *
89640531 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
89640593 ATGTAG
62 ATGTAG
** * *
89640599 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
89640664 AG
66 AG
89640666 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
89640681 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:89640636 original size:64 final size:64
Alignment explanation
Indices: 89640555--89640738 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
89640545 AGACATTATG
* *
89640555 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
89640619 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
89640684 AA
63 AA
* * * *
89640686 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
89640739 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:89643192 original size:10 final size:10
Alignment explanation
Indices: 89643179--89643209 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
89643169 TAGAAAAATT
89643179 AGAAAATAAA
1 AGAAAATAAA
89643189 AGAAAATAAA
1 AGAAAATAAA
89643199 AGAAAATAAA
1 AGAAAATAAA
89643209 A
1 A
89643210 ACTTAAATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.10, T:0.10
Consensus pattern (10 bp):
AGAAAATAAA
Found at i:89650139 original size:23 final size:23
Alignment explanation
Indices: 89650112--89650158 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
89650102 TTTCTCAAAG
89650112 TAAGTTTAAGCTACTGTGTTTCT
1 TAAGTTTAAGCTACTGTGTTTCT
89650135 TAAGTTTAAGCTACTGTGTTTCT
1 TAAGTTTAAGCTACTGTGTTTCT
89650158 T
1 T
89650159 TCCTTTTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.21, C:0.13, G:0.17, T:0.49
Consensus pattern (23 bp):
TAAGTTTAAGCTACTGTGTTTCT
Found at i:89650857 original size:71 final size:71
Alignment explanation
Indices: 89650741--89650882 Score: 275
Period size: 71 Copynumber: 2.0 Consensus size: 71
89650731 TTTAAAAAGA
89650741 AATTCATTATACTGGGCCATTCCAACCAAGTGTTACTGTACTCTAACTCGTTCATTTGTGGGGAG
1 AATTCATTATACTGGGCCATTCCAACCAAGTGTTACTGTACTCTAACTCGTTCATTTGTGGGGAG
89650806 CCTAAT
66 CCTAAT
*
89650812 AATTCATTATACTGGGCCATTCCAACCAAGTGTTACTGTACTCTAACTCGTTCGTTTGTGGGGAG
1 AATTCATTATACTGGGCCATTCCAACCAAGTGTTACTGTACTCTAACTCGTTCATTTGTGGGGAG
89650877 CCTAAT
66 CCTAAT
89650883 CCGAAATCAT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.34
Consensus pattern (71 bp):
AATTCATTATACTGGGCCATTCCAACCAAGTGTTACTGTACTCTAACTCGTTCATTTGTGGGGAG
CCTAAT
Found at i:89650925 original size:47 final size:47
Alignment explanation
Indices: 89650852--89650947 Score: 165
Period size: 47 Copynumber: 2.0 Consensus size: 47
89650842 TGTTACTGTA
89650852 CTCTAACTCGTTCGTTTGTGGGGAGCCTAATCCGAAATCATTTCCAT
1 CTCTAACTCGTTCGTTTGTGGGGAGCCTAATCCGAAATCATTTCCAT
* * *
89650899 CTCTAACTCTTTCGTTTGTGGTGAGCCTAGTCCGAAATCATTTCCAT
1 CTCTAACTCGTTCGTTTGTGGGGAGCCTAATCCGAAATCATTTCCAT
89650946 CT
1 CT
89650948 ATCAGCATTG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.20, C:0.26, G:0.18, T:0.36
Consensus pattern (47 bp):
CTCTAACTCGTTCGTTTGTGGGGAGCCTAATCCGAAATCATTTCCAT
Found at i:89653706 original size:9 final size:9
Alignment explanation
Indices: 89653688--89653728 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
89653678 TTATACCAAA
89653688 AATAAAAAT
1 AATAAAAAT
*
89653697 AATAACAAT
1 AATAAAAAT
89653706 AATAATAAA-
1 AATAA-AAAT
89653715 AATAAAAAT
1 AATAAAAAT
89653724 AATAA
1 AATAA
89653729 TTAATTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 3 0.11
9 23 0.82
10 2 0.07
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (9 bp):
AATAAAAAT
Found at i:89654423 original size:19 final size:20
Alignment explanation
Indices: 89654380--89654423 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
89654370 GATTTTCAGG
* *
89654380 TATATTTTATTATGATTTAT
1 TATATTATATCATGATTTAT
89654400 T-TATTATATCATG-TTTAT
1 TATATTATATCATGATTTAT
89654418 TATATT
1 TATATT
89654424 TGGAGACCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 6 0.29
19 14 0.67
20 1 0.05
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.64
Consensus pattern (20 bp):
TATATTATATCATGATTTAT
Found at i:89655794 original size:75 final size:75
Alignment explanation
Indices: 89655671--89655821 Score: 302
Period size: 75 Copynumber: 2.0 Consensus size: 75
89655661 TAAAGAATTC
89655671 TAATTTGTTGCCTATTCTCAATGAAAATTGATTCTTAGAAACTCACTAGCTAAAATTGAGATTTA
1 TAATTTGTTGCCTATTCTCAATGAAAATTGATTCTTAGAAACTCACTAGCTAAAATTGAGATTTA
89655736 ATGTCTTGCA
66 ATGTCTTGCA
89655746 TAATTTGTTGCCTATTCTCAATGAAAATTGATTCTTAGAAACTCACTAGCTAAAATTGAGATTTA
1 TAATTTGTTGCCTATTCTCAATGAAAATTGATTCTTAGAAACTCACTAGCTAAAATTGAGATTTA
89655811 ATGTCTTGCA
66 ATGTCTTGCA
89655821 T
1 T
89655822 TTCTGAAATG
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 76 1.00
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (75 bp):
TAATTTGTTGCCTATTCTCAATGAAAATTGATTCTTAGAAACTCACTAGCTAAAATTGAGATTTA
ATGTCTTGCA
Found at i:89659079 original size:18 final size:18
Alignment explanation
Indices: 89659038--89659073 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
89659028 CATTCCGAAG
* *
89659038 TATATATATATATACATA
1 TATATGTATATATACACA
89659056 TATATGTATATATACACA
1 TATATGTATATATACACA
89659074 AGTATGCCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42
Consensus pattern (18 bp):
TATATGTATATATACACA
Found at i:89659586 original size:28 final size:28
Alignment explanation
Indices: 89659549--89659687 Score: 201
Period size: 28 Copynumber: 5.0 Consensus size: 28
89659539 TAAATTGTAC
*
89659549 AGCACTAAGTGTGCGAACTTGATTATGT
1 AGCACTAAGTGTGCGAACTTGATTATAT
* *
89659577 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAACTTGATTATAT
*
89659605 AGCACTAAGTGTGCGAGCTTGATTATAT
1 AGCACTAAGTGTGCGAACTTGATTATAT
*
89659633 AGCACTAAGTGTGCG-AGTTGATTATAT
1 AGCACTAAGTGTGCGAACTTGATTATAT
* *
89659660 AGCACTGAGTGTGCGGACTT-ATTATAT
1 AGCACTAAGTGTGCGAACTTGATTATAT
89659687 A
1 A
89659688 CTTTTGAAAC
Statistics
Matches: 104, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
27 32 0.31
28 72 0.69
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAACTTGATTATAT
Found at i:89669253 original size:231 final size:231
Alignment explanation
Indices: 89668850--89669310 Score: 913
Period size: 231 Copynumber: 2.0 Consensus size: 231
89668840 CAATTATGCG
89668850 AGTTGATATATCCGGGTTAAGACCCGAAGGCAACTGTGTTTGCGGCTGTATTCGGTTAAATACCG
1 AGTTGATATATCCGGGTTAAGACCCGAAGGCAACTGTGTTTGCGGCTGTATTCGGTTAAATACCG
89668915 AAGAAACTTGGGTTTGAATGTGAGCGTTTTGTGCTGTAACTAATTCAATAAATATGCTCAACCAA
66 AAGAAACTTGGGTTTGAATGTGAGCGTTTTGTGCTGTAACTAATTCAATAAATATGCTCAACCAA
89668980 CCCGAACGATAAGGTATGTTTGCATGTGCATTGGAAAAGTCGATTCGTTTTAAATAGTATTCGTG
131 CCCGAACGATAAGGTATGTTTGCATGTGCATTGGAAAAGTCGATTCGTTTTAAATAGTATTCGTG
89669045 CGATCGGCTAACGAATTTTCGGCTTTTAGAAAGGTA
196 CGATCGGCTAACGAATTTTCGGCTTTTAGAAAGGTA
*
89669081 AGTTGATATGTCCGGGTTAAGACCCGAAGGCAACTGTGTTTGCGGCTGTATTCGGTTAAATACCG
1 AGTTGATATATCCGGGTTAAGACCCGAAGGCAACTGTGTTTGCGGCTGTATTCGGTTAAATACCG
89669146 AAGAAACTTGGGTTTGAATGTGAGCGTTTTGTGCTGTAACTAATTCAATAAATATGCTCAACCAA
66 AAGAAACTTGGGTTTGAATGTGAGCGTTTTGTGCTGTAACTAATTCAATAAATATGCTCAACCAA
89669211 CCCGAACGATAAGGTATGTTTGCATGTGCATTGGAAAAGTCGATTCGTTTTAAATAGTATTCGTG
131 CCCGAACGATAAGGTATGTTTGCATGTGCATTGGAAAAGTCGATTCGTTTTAAATAGTATTCGTG
89669276 CGATCGGCTAACGAATTTTCGGCTTTTAGAAAGGT
196 CGATCGGCTAACGAATTTTCGGCTTTTAGAAAGGT
89669311 TGATACCTTG
Statistics
Matches: 229, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
231 229 1.00
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.32
Consensus pattern (231 bp):
AGTTGATATATCCGGGTTAAGACCCGAAGGCAACTGTGTTTGCGGCTGTATTCGGTTAAATACCG
AAGAAACTTGGGTTTGAATGTGAGCGTTTTGTGCTGTAACTAATTCAATAAATATGCTCAACCAA
CCCGAACGATAAGGTATGTTTGCATGTGCATTGGAAAAGTCGATTCGTTTTAAATAGTATTCGTG
CGATCGGCTAACGAATTTTCGGCTTTTAGAAAGGTA
Found at i:89671942 original size:18 final size:18
Alignment explanation
Indices: 89671901--89671936 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
89671891 CATTCCGAAG
* *
89671901 TATATATATATATACATA
1 TATATGTATATATACACA
89671919 TATATGTATATATACACA
1 TATATGTATATATACACA
89671937 AGTATGCCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42
Consensus pattern (18 bp):
TATATGTATATATACACA
Found at i:89672448 original size:28 final size:28
Alignment explanation
Indices: 89672410--89672573 Score: 233
Period size: 28 Copynumber: 5.9 Consensus size: 28
89672400 TAAATTGTAC
89672410 AGCACTAAGTGTGCGAACTTGATTATGT
1 AGCACTAAGTGTGCGAACTTGATTATGT
*
89672438 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAACTTGATTATGT
*
89672466 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAACTTGATTATGT
** *
89672494 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAACTTGATTATGT
* *
89672522 AGCACTAAGTGTGCG-AGTTGATTATAT
1 AGCACTAAGTGTGCGAACTTGATTATGT
* *
89672549 AGCACTGAGTGTGCGGACTT-ATTAT
1 AGCACTAAGTGTGCGAACTTGATTAT
89672574 ATACTTTTGA
Statistics
Matches: 128, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
27 29 0.23
28 99 0.77
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAACTTGATTATGT
Found at i:89674998 original size:19 final size:19
Alignment explanation
Indices: 89674976--89675015 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
89674966 ATGCCATGTC
89674976 AAGAGTTTTATGTCTATTG
1 AAGAGTTTTATGTCTATTG
89674995 AAGAGTTTTATGTCTATTG
1 AAGAGTTTTATGTCTATTG
89675014 AA
1 AA
89675016 TCATTGAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.30, C:0.05, G:0.20, T:0.45
Consensus pattern (19 bp):
AAGAGTTTTATGTCTATTG
Found at i:89677368 original size:18 final size:19
Alignment explanation
Indices: 89677342--89677379 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
89677332 TGTTTATATA
*
89677342 TATTATAGATTTAATATTT
1 TATTATAGAATTAATATTT
*
89677361 TATT-TAGAATTAGTATTT
1 TATTATAGAATTAATATTT
89677379 T
1 T
89677380 TATAATGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (19 bp):
TATTATAGAATTAATATTT
Found at i:89679322 original size:24 final size:24
Alignment explanation
Indices: 89679295--89679345 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
89679285 AAAAAATATC
*
89679295 AAAA-TTAAAATATATTTTAATAAT
1 AAAAGTTAAAACATATTTTAA-AAT
*
89679319 AAAAGTTAAAACATTTTTTAAAAT
1 AAAAGTTAAAACATATTTTAAAAT
89679343 AAA
1 AAA
89679346 TCAATTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 10 0.42
25 14 0.58
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (24 bp):
AAAAGTTAAAACATATTTTAAAAT
Found at i:89681163 original size:17 final size:18
Alignment explanation
Indices: 89681141--89681176 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
89681131 AATCTAGGCG
89681141 TATGGG-CCACACGGGCA
1 TATGGGCCCACACGGGCA
89681158 TATGGGCCCACACGGGCA
1 TATGGGCCCACACGGGCA
89681176 T
1 T
89681177 GGGGGCCCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.22, C:0.31, G:0.33, T:0.14
Consensus pattern (18 bp):
TATGGGCCCACACGGGCA
Found at i:89681182 original size:18 final size:18
Alignment explanation
Indices: 89681147--89681185 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
89681137 GGCGTATGGG
*
89681147 CCACACGGGCATATGGGC
1 CCACACGGGCATAGGGGC
*
89681165 CCACACGGGCATGGGGGC
1 CCACACGGGCATAGGGGC
89681183 CCA
1 CCA
89681186 TAATTCTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.21, C:0.36, G:0.36, T:0.08
Consensus pattern (18 bp):
CCACACGGGCATAGGGGC
Found at i:89689826 original size:37 final size:37
Alignment explanation
Indices: 89689785--89689859 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
89689775 TGTTAATTTC
* *
89689785 AAGACTTATGTAATGTTTTTAATTATGTAGTGGTTCA
1 AAGACTTATGTAATGTTTCTAATTATGTAGTGATTCA
*
89689822 AAGACTTATGTAATGTTTCTAATTATTTAGTGATTCA
1 AAGACTTATGTAATGTTTCTAATTATGTAGTGATTCA
89689859 A
1 A
89689860 TATCTAATCG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.32, C:0.07, G:0.16, T:0.45
Consensus pattern (37 bp):
AAGACTTATGTAATGTTTCTAATTATGTAGTGATTCA
Found at i:89696632 original size:187 final size:186
Alignment explanation
Indices: 89696293--89696640 Score: 534
Period size: 187 Copynumber: 1.9 Consensus size: 186
89696283 GGCGTGTGAT
*
89696293 CCACACGGCCTAGACACACGGGCGTGTCAAAGGCCGTGCGAAAATTGGAGCTAAATTTTCAAATT
1 CCACACGGCCTAGACACACGGGCGTGTCAAAGGCCGTGCAAAAATTGGAGCTAAATTTTCAAATT
* ** *
89696358 TTAAATAAGTCAGAGAGCTCCACGGGCAAGGCACACGATCGTGTGTTCAGACACGTGGGCGTGTG
66 TTAAATAAGTCAGAGAGCTCCACGGGCAAGGCACACGACCGTGTGTTCAGACACACGGGCGTGTA
** * *
89696423 GGAGACCACACGGGCTTGGGAGAAGTGAACACGGCCGTCCGATATGGGCTTGTAAC
131 GGAGACCACACGAACATGGGAGAAGCGAACACGGCCGTCCGATATGGGCTTGTAAC
* * *
89696479 CCACACGGCCTAGACATACGGGCGTGTCAAATGGCTGTGTAAAAATTGGAGCTAAATTTTCAAAT
1 CCACACGGCCTAGACACACGGGCGTGTCAAA-GGCCGTGCAAAAATTGGAGCTAAATTTTCAAAT
* * * *
89696544 TTTAAATAAGTTAGAGAGCTCCACGGGCAAGGCACATGGCCGTGTGTTCGGACACACGGGCGTGT
65 TTTAAATAAGTCAGAGAGCTCCACGGGCAAGGCACACGACCGTGTGTTCAGACACACGGGCGTGT
*
89696609 AGGAGACCACATGAACATGGGAGAAGCGAACA
130 AGGAGACCACACGAACATGGGAGAAGCGAACA
89696641 ACGTAGGACA
Statistics
Matches: 144, Mismatches: 17, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
186 30 0.21
187 114 0.79
ACGTcount: A:0.29, C:0.22, G:0.30, T:0.19
Consensus pattern (186 bp):
CCACACGGCCTAGACACACGGGCGTGTCAAAGGCCGTGCAAAAATTGGAGCTAAATTTTCAAATT
TTAAATAAGTCAGAGAGCTCCACGGGCAAGGCACACGACCGTGTGTTCAGACACACGGGCGTGTA
GGAGACCACACGAACATGGGAGAAGCGAACACGGCCGTCCGATATGGGCTTGTAAC
Found at i:89697302 original size:3 final size:3
Alignment explanation
Indices: 89697294--89697326 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
89697284 GATATATTGT
89697294 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
89697327 CTACTTTACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:89698869 original size:6 final size:6
Alignment explanation
Indices: 89698855--89698926 Score: 90
Period size: 6 Copynumber: 11.7 Consensus size: 6
89698845 TTGAGTCCGA
* * * *
89698855 TTATTT TTATGT TTATGT TTATGT TTATGT TTATTT TTATCTT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTAT-TT TTATTT
89698904 TTATCTT TTATTT TTATTT TTAT
1 TTAT-TT TTATTT TTATTT TTAT
89698927 GTCTATTTTG
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
6 50 0.81
7 12 0.19
ACGTcount: A:0.17, C:0.03, G:0.06, T:0.75
Consensus pattern (6 bp):
TTATTT
Found at i:89698875 original size:12 final size:12
Alignment explanation
Indices: 89698855--89698935 Score: 90
Period size: 12 Copynumber: 6.6 Consensus size: 12
89698845 TTGAGTCCGA
89698855 TTATTTTTATGT
1 TTATTTTTATGT
*
89698867 TTATGTTTATGT
1 TTATTTTTATGT
* *
89698879 TTATGTTTATTT
1 TTATTTTTATGT
*
89698891 TTATCTTTTATTT
1 TTAT-TTTTATGT
*
89698904 TTATCTTTTATTT
1 TTAT-TTTTATGT
89698917 TTATTTTTATGT
1 TTATTTTTATGT
*
89698929 CTATTTT
1 TTATTTT
89698936 GTTTTCCAAT
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
12 39 0.62
13 24 0.38
ACGTcount: A:0.16, C:0.04, G:0.06, T:0.74
Consensus pattern (12 bp):
TTATTTTTATGT
Found at i:89698933 original size:18 final size:18
Alignment explanation
Indices: 89698855--89698935 Score: 90
Period size: 18 Copynumber: 4.4 Consensus size: 18
89698845 TTGAGTCCGA
89698855 TTATTTTTATGTTTATGT
1 TTATTTTTATGTTTATGT
* *
89698873 TTATGTTTATGTTTATTT
1 TTATTTTTATGTTTATGT
* *
89698891 TTATCTTTTATTTTTATCTT
1 TTAT-TTTTATGTTTAT-GT
*
89698911 TTATTTTTATTTTTATGT
1 TTATTTTTATGTTTATGT
*
89698929 CTATTTT
1 TTATTTT
89698936 GTTTTCCAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
18 27 0.49
19 22 0.40
20 6 0.11
ACGTcount: A:0.16, C:0.04, G:0.06, T:0.74
Consensus pattern (18 bp):
TTATTTTTATGTTTATGT
Found at i:89709219 original size:21 final size:20
Alignment explanation
Indices: 89709176--89709220 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
89709166 ACTAAACTGA
*
89709176 AAACTTTAGAAATTTTTACT
1 AAACTTTAGAAATTTTCACT
89709196 AAAC-TTAGAAAATTTTCCACT
1 AAACTTTAG-AAATTTT-CACT
89709217 AAAC
1 AAAC
89709221 AGGGGTCACA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 4 0.18
20 11 0.50
21 7 0.32
ACGTcount: A:0.44, C:0.16, G:0.04, T:0.36
Consensus pattern (20 bp):
AAACTTTAGAAATTTTCACT
Found at i:89710144 original size:16 final size:16
Alignment explanation
Indices: 89710123--89710154 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
89710113 AACCTTACCA
89710123 CGAGTTTATCACTTAT
1 CGAGTTTATCACTTAT
*
89710139 CGAGTTTATTACTTAT
1 CGAGTTTATCACTTAT
89710155 GAATTTTACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.12, T:0.47
Consensus pattern (16 bp):
CGAGTTTATCACTTAT
Found at i:89711659 original size:129 final size:129
Alignment explanation
Indices: 89711429--89711687 Score: 491
Period size: 129 Copynumber: 2.0 Consensus size: 129
89711419 CCCGAATTTT
* *
89711429 AGTTTTTCTTGCTCTATCATTTAAAATATAGTCTAATTAGGACTCACATTATTCAAATTGACCCA
1 AGTTTTCCTTGCTCTATCATTTAAAATATAGCCTAATTAGGACTCACATTATTCAAATTGACCCA
*
89711494 AAATCATATTTTGAAAAAATTACAGTTTTGCCCCTAAACTTTTGCATATTTACACTTTTTCCCC
66 AAATCATATTTTGAAAAAATTACAATTTTGCCCCTAAACTTTTGCATATTTACACTTTTTCCCC
89711558 AGTTTTCCTTGCTCTATCATTTAAAATATAGCCTAATTAGGACTCACATTATTCAAATTGACCCA
1 AGTTTTCCTTGCTCTATCATTTAAAATATAGCCTAATTAGGACTCACATTATTCAAATTGACCCA
89711623 AAATCATATTTTGAAAAAATTACAATTTTGCCCCTAAACTTTTGCATATTTACACTTTTTCCCC
66 AAATCATATTTTGAAAAAATTACAATTTTGCCCCTAAACTTTTGCATATTTACACTTTTTCCCC
89711687 A
1 A
89711688 AAGCTCGTAA
Statistics
Matches: 127, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
129 127 1.00
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.39
Consensus pattern (129 bp):
AGTTTTCCTTGCTCTATCATTTAAAATATAGCCTAATTAGGACTCACATTATTCAAATTGACCCA
AAATCATATTTTGAAAAAATTACAATTTTGCCCCTAAACTTTTGCATATTTACACTTTTTCCCC
Found at i:89716491 original size:93 final size:93
Alignment explanation
Indices: 89716383--89716553 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
89716373 GCCCCTAAGT
* * *
89716383 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
89716448 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
89716476 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
89716541 CGAGTTCGGATGC
66 CGAGTTCGGATGC
89716554 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:89716550 original size:46 final size:46
Alignment explanation
Indices: 89716378--89716550 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
89716368 AACCCGCCCC
* * *
89716378 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
89716424 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* * *
89716472 TCA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
89716517 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
89716551 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 60 0.57
47 28 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:89717013 original size:30 final size:30
Alignment explanation
Indices: 89716979--89717038 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
89716969 ATTTAATACG
89716979 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
89717009 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
89717039 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:89717603 original size:28 final size:28
Alignment explanation
Indices: 89717569--89717623 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
89717559 CCTAATTTTG
89717569 TCCATGAACTTAAAATTGGTCAAATTGT
1 TCCATGAACTTAAAATTGGTCAAATTGT
89717597 TCCATGAACTTAAAATTGGTCAAATTG
1 TCCATGAACTTAAAATTGGTCAAATTG
89717624 CTATTTAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.35
Consensus pattern (28 bp):
TCCATGAACTTAAAATTGGTCAAATTGT
Found at i:89733126 original size:47 final size:47
Alignment explanation
Indices: 89733072--89733164 Score: 186
Period size: 47 Copynumber: 2.0 Consensus size: 47
89733062 ATAAGTGTGG
89733072 GCCTTAGCCCATTTCAGTAATAGCAATAGTAATGTAATCGAAAATCT
1 GCCTTAGCCCATTTCAGTAATAGCAATAGTAATGTAATCGAAAATCT
89733119 GCCTTAGCCCATTTCAGTAATAGCAATAGTAATGTAATCGAAAATC
1 GCCTTAGCCCATTTCAGTAATAGCAATAGTAATGTAATCGAAAATC
89733165 CTACTCATCC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (47 bp):
GCCTTAGCCCATTTCAGTAATAGCAATAGTAATGTAATCGAAAATCT
Found at i:89740398 original size:27 final size:27
Alignment explanation
Indices: 89740333--89740390 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
89740323 CAAATCTTAT
89740333 ATCAAATAAAGTCCATATACAAATATC
1 ATCAAATAAAGTCCATATACAAATATC
*
89740360 ATCAAATAAAGTCCATGTACAAATATC
1 ATCAAATAAAGTCCATATACAAATATC
89740387 ATCA
1 ATCA
89740391 TCTCAAGTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.50, C:0.19, G:0.05, T:0.26
Consensus pattern (27 bp):
ATCAAATAAAGTCCATATACAAATATC
Found at i:89744865 original size:27 final size:27
Alignment explanation
Indices: 89744827--89745157 Score: 464
Period size: 27 Copynumber: 12.3 Consensus size: 27
89744817 TAAGTTGTAA
89744827 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
89744854 AATTACTGAAATACCCCTATAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
89744881 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
89744908 AATTTCTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
89744935 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
89744962 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
89744989 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
89745016 AATTATTGAAATACCCTTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * **
89745043 AATTATCGAAATACCTCTGTAGAATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
89745070 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
89745097 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
89745124 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
89745151 AATTACC
1 AATTACC
89745158 ATTTTGCCCC
Statistics
Matches: 270, Mismatches: 34, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 270 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:89745852 original size:27 final size:26
Alignment explanation
Indices: 89745808--89745859 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
89745798 CTCGCTGCAA
*
89745808 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
89745835 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
89745860 GTAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:89750400 original size:40 final size:40
Alignment explanation
Indices: 89750318--89750539 Score: 304
Period size: 40 Copynumber: 5.6 Consensus size: 40
89750308 AACCCAAGTA
* * * *
89750318 CCTTCGGGATTTAG-CCGGATAT-AGCAACTCGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAA-TAGCACAAATG
* * * *
89750357 CCTTCGGGTCTTAGCCCAGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
* *
89750397 CCTTCGGGACTTAGCCCGAATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
89750437 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
* *
89750477 CCTTCGGGACTTAGCCCGGATATAATCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
*
89750517 CCTTCGGGACTTAACCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
89750540 CATTCGAATA
Statistics
Matches: 162, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 12 0.07
40 147 0.91
41 3 0.02
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
Found at i:89774844 original size:54 final size:54
Alignment explanation
Indices: 89773801--89774833 Score: 1967
Period size: 54 Copynumber: 19.1 Consensus size: 54
89773791 TAAGTTGTAA
* * * * *
89773801 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAGGATAG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTTCTGAAATACCCTTGTAGGGTAG
89773855 AATTACCGAAATACCCTTGTAGGGTAGAATTTCTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTTCTGAAATACCCTTGTAGGGTAG
89773909 AATTACCGAAATACCCTTGTAGGGTAGAATTTCTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTTCTGAAATACCCTTGTAGGGTAG
89773963 AATTACCGAAATACCCTTGTAGGGTAGAATTTCTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTTCTGAAATACCCTTGTAGGGTAG
89774017 AATTACCGAAATACCCTTGTAGGGTAGAATTTCTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTTCTGAAATACCCTTGTAGGGTAG
89774071 AATTACCGAAATACCCTTGTAGGGTAGAATTTCTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTTCTGAAATACCCTTGTAGGGTAG
89774125 AATTACCGAAATACCCTTGTAGGGTAGAATTTCTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTTCTGAAATACCCTTGTAGGGTAG
89774179 AATTACCGAAATACCCTTGTAGGGTAGAATTTCTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTTCTGAAATACCCTTGTAGGGTAG
89774233 AATTACCGAAATACCCTTGTAGGGTAGAATTTCTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTTCTGAAATACCCTTGTAGGGTAG
89774287 AATTACCGAAATACCCTTGTAGGGTAGAATTTCTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTTCTGAAATACCCTTGTAGGGTAG
89774341 AATTACCGAAATACCCTTGTAGGGTAGAATTTCTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTTCTGAAATACCCTTGTAGGGTAG
89774395 AATTACCGAAATACCCTTGTAGGGTAGAATTTCTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTTCTGAAATACCCTTGTAGGGTAG
89774449 AATTACCGAAATACCCTTGTAGGGTAGAATTTCTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTTCTGAAATACCCTTGTAGGGTAG
89774503 AATTACCGAAATACCCTTGTAGGGTAGAATTTCTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTTCTGAAATACCCTTGTAGGGTAG
89774557 AATTACCGAAATACCCTTGTAGGGTAGAATTTCTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTTCTGAAATACCCTTGTAGGGTAG
89774611 AATTACCGAAATACCCTTGTAGGGTAGAATTTCTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTTCTGAAATACCCTTGTAGGGTAG
89774665 AATTACCGAAATACCCTTGTAGGGTAGAATTTCTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTTCTGAAATACCCTTGTAGGGTAG
89774719 AATTACCGAAATACCCTTGTAGGGTAGAATTTCTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAATTTCTGAAATACCCTTGTAGGGTAG
* * * * * *
89774773 AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAGAATTTCTGAAATACCCTTGTAGGGTAG
89774827 AATTACC
1 AATTACC
89774834 ATTTTGCCCC
Statistics
Matches: 968, Mismatches: 11, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
54 968 1.00
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (54 bp):
AATTACCGAAATACCCTTGTAGGGTAGAATTTCTGAAATACCCTTGTAGGGTAG
Found at i:89775528 original size:27 final size:26
Alignment explanation
Indices: 89775484--89775535 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
89775474 CTCGCTGCAA
*
89775484 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
89775511 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
89775536 GTAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:89780076 original size:40 final size:40
Alignment explanation
Indices: 89779994--89780175 Score: 224
Period size: 40 Copynumber: 4.6 Consensus size: 40
89779984 AACCCAAGTA
* * * *
89779994 CCTTCGGGATTTAG-CCGGATAT-AGCAACTCGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAA-TAGCACAAATG
* * * *
89780033 CCTTCGGGTCTTAGCCCAGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
* *
89780073 CCTTCGGGACTTAGCCCGAATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
* *
89780113 CCTTCGGGACTTAGCCCGGATATAATCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
*
89780153 CCTTCGGGACTTAACCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
89780176 CATTCGAATA
Statistics
Matches: 124, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
39 12 0.10
40 109 0.88
41 3 0.02
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
Found at i:89786633 original size:10 final size:10
Alignment explanation
Indices: 89786610--89786649 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
89786600 TCATAGCTTT
*
89786610 AAAAGAAAAAA
1 AAAAG-AAAGA
89786621 AAAAGAAAGA
1 AAAAGAAAGA
89786631 AAAAGAAAGA
1 AAAAGAAAGA
*
89786641 AACAGAAAG
1 AAAAGAAAG
89786650 TTTATGCAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
10 22 0.81
11 5 0.19
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (10 bp):
AAAAGAAAGA
Found at i:89793545 original size:35 final size:35
Alignment explanation
Indices: 89793506--89793581 Score: 89
Period size: 35 Copynumber: 2.2 Consensus size: 35
89793496 ACAAGTAAGC
* *
89793506 TTATATCAAACTTGAGTATTCGGTTACATGTGAAT
1 TTATATCAAACATGAGAATTCGGTTACATGTGAAT
** * * *
89793541 TTATATTGAACATGTGAATTTGGTTACATGTGAGT
1 TTATATCAAACATGAGAATTCGGTTACATGTGAAT
89793576 TTATAT
1 TTATAT
89793582 TGAGCTTATA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.30, C:0.08, G:0.18, T:0.43
Consensus pattern (35 bp):
TTATATCAAACATGAGAATTCGGTTACATGTGAAT
Found at i:89793571 original size:16 final size:17
Alignment explanation
Indices: 89793527--89793578 Score: 52
Period size: 19 Copynumber: 3.0 Consensus size: 17
89793517 TTGAGTATTC
89793527 GGTTACATGTGAATTTA
1 GGTTACATGTGAATTTA
**
89793544 TATTGAACATGTGAATTT-
1 GGTT--ACATGTGAATTTA
*
89793562 GGTTACATGTGAGTTTA
1 GGTTACATGTGAATTTA
89793579 TATTGAGCTT
Statistics
Matches: 27, Mismatches: 5, Indels: 6
0.71 0.13 0.16
Matches are distributed among these distances:
16 11 0.41
17 2 0.07
18 2 0.07
19 12 0.44
ACGTcount: A:0.29, C:0.06, G:0.23, T:0.42
Consensus pattern (17 bp):
GGTTACATGTGAATTTA
Found at i:89799975 original size:27 final size:27
Alignment explanation
Indices: 89799944--89800151 Score: 299
Period size: 27 Copynumber: 7.7 Consensus size: 27
89799934 CCTCAATTTG
* *
89799944 TAAAATCACCAAAATACCCATGGTTTA
1 TAAAATTACCAAAATACCCCTGGTTTA
*
89799971 CAAAATTACCAAAATACCCCTGGTTTA
1 TAAAATTACCAAAATACCCCTGGTTTA
* * *
89799998 TAAAATTACTAAAATACCCTTTGTTTA
1 TAAAATTACCAAAATACCCCTGGTTTA
89800025 TAAAATTACCAAAATACCCCTGGTTTA
1 TAAAATTACCAAAATACCCCTGGTTTA
* * *
89800052 TAAAATTACTAAAATACCCTTTGTTTA
1 TAAAATTACCAAAATACCCCTGGTTTA
*
89800079 TAAAATTACCAAAATACCCCTGGTTTG
1 TAAAATTACCAAAATACCCCTGGTTTA
* * *
89800106 TAAAATTATCAAAATACCCCTAGTTTC
1 TAAAATTACCAAAATACCCCTGGTTTA
89800133 TAAAATTACCAAAATACCC
1 TAAAATTACCAAAATACCC
89800152 TTGATTTGTG
Statistics
Matches: 160, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 160 1.00
ACGTcount: A:0.42, C:0.21, G:0.06, T:0.31
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCCTGGTTTA
Found at i:89800049 original size:81 final size:81
Alignment explanation
Indices: 89799944--89800177 Score: 308
Period size: 81 Copynumber: 2.9 Consensus size: 81
89799934 CCTCAATTTG
* * *
89799944 TAAAATCACCAAAATACCCATGGTTTACAAAATTACCAAAATACCCCTGGTTTATAAAATTACTA
1 TAAAATTACCAAAATACCCCTGGTTTACAAAATTACCAAAATACCCTTGGTTTATAAAATTACTA
* *
89800009 AAATACCCTTTGTTTA
66 AAATACCCCTGGTTTA
* * * *
89800025 TAAAATTACCAAAATACCCCTGGTTTATAAAATTACTAAAATACCCTTTGTTTATAAAATTACCA
1 TAAAATTACCAAAATACCCCTGGTTTACAAAATTACCAAAATACCCTTGGTTTATAAAATTACTA
*
89800090 AAATACCCCTGGTTTG
66 AAATACCCCTGGTTTA
* * * * *
89800106 TAAAATTATCAAAATACCCCTAGTTT-CTAAAATTACCAAAATACCCTTGATTTGTGAAATTACT
1 TAAAATTACCAAAATACCCCTGGTTTAC-AAAATTACCAAAATACCCTTGGTTTATAAAATTACT
*
89800170 GAAATACC
65 AAAATACC
89800178 TTCAACCTGT
Statistics
Matches: 132, Mismatches: 20, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
81 132 1.00
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (81 bp):
TAAAATTACCAAAATACCCCTGGTTTACAAAATTACCAAAATACCCTTGGTTTATAAAATTACTA
AAATACCCCTGGTTTA
Found at i:89800160 original size:54 final size:54
Alignment explanation
Indices: 89799940--89800177 Score: 334
Period size: 54 Copynumber: 4.4 Consensus size: 54
89799930 ATGTCCTCAA
* * * * *
89799940 TTTGTAAAATCACCAAAATACCCATGGTTTACAAAATTACCAAAATACCCCTGG
1 TTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCCTGG
*
89799994 TTTATAAAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCCTGG
1 TTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCCTGG
*
89800048 TTTATAAAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCCTGG
1 TTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCCTGG
* * * * *
89800102 TTTGTAAAATTA-TCAAAATACCCCTAGTTTCTAAAATTACCAAAATACCCTTGA
1 TTTGTAAAATTACT-AAAATACCCTTTGTTTATAAAATTACCAAAATACCCCTGG
* *
89800156 TTTGTGAAATTACTGAAATACC
1 TTTGTAAAATTACTAAAATACC
89800178 TTCAACCTGT
Statistics
Matches: 168, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
53 1 0.01
54 166 0.99
55 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (54 bp):
TTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCCTGG
Found at i:89800165 original size:27 final size:27
Alignment explanation
Indices: 89799939--89800289 Score: 278
Period size: 27 Copynumber: 13.0 Consensus size: 27
89799929 AATGTCCTCA
* * *
89799939 ATTTGTAAAATCACCAAAATACCCATG
1 ATTTATAAAATTACCAAAATACCCTTG
* * *
89799966 GTTTACAAAATTACCAAAATACCCCTG
1 ATTTATAAAATTACCAAAATACCCTTG
* *
89799993 GTTTATAAAATTACTAAAATACCCTTTG
1 ATTTATAAAATTACCAAAATACCC-TTG
*
89800021 -TTTATAAAATTACCAAAATACCCCTG
1 ATTTATAAAATTACCAAAATACCCTTG
* *
89800047 GTTTATAAAATTACTAAAATACCCTTTG
1 ATTTATAAAATTACCAAAATACCC-TTG
*
89800075 -TTTATAAAATTACCAAAATACCCCTG
1 ATTTATAAAATTACCAAAATACCCTTG
* * * *
89800101 GTTTGTAAAATTATCAAAATACCCCT-
1 ATTTATAAAATTACCAAAATACCCTTG
*
89800127 AGTTTCTAAAATTACCAAAATACCCTTG
1 A-TTTATAAAATTACCAAAATACCCTTG
* * ** *
89800155 ATTTGTGAAATTACTGAAATA-CCTTCA
1 ATTTATAAAATTACCAAAATACCCTT-G
** * *** *
89800182 ACCTGTAAAATTATTGAAATACCCTCG
1 ATTTATAAAATTACCAAAATACCCTTG
* * *
89800209 ACTTGTAAAATTACCAAAGTACCCTTG
1 ATTTATAAAATTACCAAAATACCCTTG
* ****
89800236 ATTTATAGAATTACCGTTTTACCCTTG
1 ATTTATAAAATTACCAAAATACCCTTG
* * *
89800263 ATTTACAAAATTATCGAAATACCCTTG
1 ATTTATAAAATTACCAAAATACCCTTG
89800290 TAGGGTAGAA
Statistics
Matches: 266, Mismatches: 50, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
26 8 0.03
27 250 0.94
28 8 0.03
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (27 bp):
ATTTATAAAATTACCAAAATACCCTTG
Found at i:89800307 original size:27 final size:27
Alignment explanation
Indices: 89800271--89800466 Score: 241
Period size: 27 Copynumber: 7.3 Consensus size: 27
89800261 TGATTTACAA
*
89800271 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
89800298 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
** *
89800325 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
89800352 AATTACCGAAATACCCTTTTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
89800379 AAATACCTAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
** *
89800406 AATTATTGAAATACTCC-TGTAAGGTAG
1 AATTACCGAAATAC-CCTTGTAGGGTAG
* * *
89800433 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
89800460 AATTACC
1 AATTACC
89800467 ATTTTACCCC
Statistics
Matches: 143, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
26 2 0.01
27 139 0.97
28 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:89800475 original size:81 final size:81
Alignment explanation
Indices: 89800271--89800462 Score: 287
Period size: 81 Copynumber: 2.4 Consensus size: 81
89800261 TGATTTACAA
* *
89800271 AATTATCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACTAAAA
1 AATTACCGAAATACCCTTGTAGGGTAGAAATACCTAAATACCCCTGTAGGGTAGAATTACTAAAA
*
89800336 TACCCCTGTAGGGTAG
66 TACCCCTGTAAGGTAG
* * * *
89800352 AATTACCGAAATACCCTTTTAGGGTAGAAATACCTAAATACCCTTGTAGGGTAGAATTATTGAAA
1 AATTACCGAAATACCCTTGTAGGGTAGAAATACCTAAATACCCCTGTAGGGTAGAATTACTAAAA
*
89800417 TACTCCTGTAAGGTAG
66 TACCCCTGTAAGGTAG
* *
89800433 AATTACCGAGATACCCTTGTGGGGTA-AAAT
1 AATTACCGAAATACCCTTGTAGGGTAGAAAT
89800463 TACCATTTTA
Statistics
Matches: 100, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
80 4 0.04
81 96 0.96
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.27
Consensus pattern (81 bp):
AATTACCGAAATACCCTTGTAGGGTAGAAATACCTAAATACCCCTGTAGGGTAGAATTACTAAAA
TACCCCTGTAAGGTAG
Found at i:89800955 original size:6 final size:6
Alignment explanation
Indices: 89800890--89801011 Score: 52
Period size: 6 Copynumber: 19.8 Consensus size: 6
89800880 TTGCATTCAC
* * * *
89800890 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG GTTCTA ATTCT-
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * * *
89800938 ATCACCTA ATTCTG ATTCTA ATTCTG ATTTTG GTTCTG -TCACCTG ATTCTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG
* * *
89800989 ATCCTG ATTCTC ATTTTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATTCT
89801012 AGTTTTGATA
Statistics
Matches: 84, Mismatches: 23, Indels: 18
0.67 0.18 0.14
Matches are distributed among these distances:
5 5 0.06
6 67 0.80
7 8 0.10
8 4 0.05
ACGTcount: A:0.19, C:0.20, G:0.13, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:89800962 original size:37 final size:37
Alignment explanation
Indices: 89800912--89800999 Score: 95
Period size: 37 Copynumber: 2.4 Consensus size: 37
89800902 ATTCTGTTAC
*
89800912 CTGATACTGATTCTGGTTCTAATTCTATCACCTAATT
1 CTGATACTGATTCTGATTCTAATTCTATCACCTAATT
* * * ** * *
89800949 CTGATTCTAATTCTGATTTTGGTTCTGTCACCTGATT
1 CTGATACTGATTCTGATTCTAATTCTATCACCTAATT
*
89800986 CTGATCCTGATTCT
1 CTGATACTGATTCT
89801000 CATTTTGATT
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.19, C:0.22, G:0.14, T:0.45
Consensus pattern (37 bp):
CTGATACTGATTCTGATTCTAATTCTATCACCTAATT
Found at i:89801005 original size:37 final size:37
Alignment explanation
Indices: 89800933--89801012 Score: 106
Period size: 37 Copynumber: 2.2 Consensus size: 37
89800923 TCTGGTTCTA
* *
89800933 ATTCTATCACCTAATTCTGATTCTAATTCTGATTTTG
1 ATTCTATCACCTAATTCTGATCCTAATTCTCATTTTG
* * * *
89800970 GTTCTGTCACCTGATTCTGATCCTGATTCTCATTTTG
1 ATTCTATCACCTAATTCTGATCCTAATTCTCATTTTG
89801007 ATTCTA
1 ATTCTA
89801013 GTTTTGATAA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.20, C:0.21, G:0.11, T:0.47
Consensus pattern (37 bp):
ATTCTATCACCTAATTCTGATCCTAATTCTCATTTTG
Found at i:89809357 original size:48 final size:48
Alignment explanation
Indices: 89809214--89809360 Score: 222
Period size: 48 Copynumber: 3.1 Consensus size: 48
89809204 TGTGTAACAG
* ** *
89809214 TGTAAGACCATGTCTGGGACATGACATCGGCATTGTTACATGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTATGTGAGCCAA
* * * *
89809262 TGTAAGACCATATTTGGGACATGGCATCGACATTGTTATGCGAGCCAA
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTATGTGAGCCAA
89809310 TGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTATGTGAGCCAA
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTATGTGAGCCAA
89809358 TGT
1 TGT
89809361 TGGGACATGG
Statistics
Matches: 87, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 87 1.00
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTATGTGAGCCAA
Found at i:89809458 original size:43 final size:40
Alignment explanation
Indices: 89809309--89809459 Score: 134
Period size: 37 Copynumber: 3.7 Consensus size: 40
89809299 ATGCGAGCCA
*
89809309 ATGTAAGACCATGTCTGGGACATGGCATCGGCAT-TGTT-
1 ATGTAAGACCATGTCTGGGACATGGCATCGGCATGAGTTC
* *
89809347 ATGTGAG-CCAATGT-TGGGACATGGCATCGGCATGAGGCATC
1 ATGTAAGACC-ATGTCTGGGACATGGCATCGGCATGA-G-TTC
**
89809388 ATGTAAGACCATAG-CTGGG-CTATTGGCATCGATATGAGATTTCC
1 ATGTAAGACCAT-GTCTGGGAC-A-TGGCATCGGCATGAG--TT-C
89809432 ATGTAAGACCATGTCTGGGACATGGCAT
1 ATGTAAGACCATGTCTGGGACATGGCAT
89809460 TGGTATAATA
Statistics
Matches: 91, Mismatches: 8, Indels: 23
0.75 0.07 0.19
Matches are distributed among these distances:
37 21 0.23
38 10 0.11
39 1 0.01
40 1 0.01
41 9 0.10
42 9 0.10
43 20 0.22
44 19 0.21
45 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (40 bp):
ATGTAAGACCATGTCTGGGACATGGCATCGGCATGAGTTC
Found at i:89811332 original size:18 final size:20
Alignment explanation
Indices: 89811280--89811334 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
89811270 TACACGAGCA
*
89811280 TGTCCTGAGCCACATGGGCG
1 TGTCCTGAGCCACACGGGCG
89811300 TGTCCTGAGCCACACGGGCG
1 TGTCCTGAGCCACACGGGCG
*
89811320 TGT-GTGA-CCACACGG
1 TGTCCTGAGCCACACGG
89811335 CCTGCCCACA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.24
19 3 0.09
20 22 0.67
ACGTcount: A:0.16, C:0.31, G:0.35, T:0.18
Consensus pattern (20 bp):
TGTCCTGAGCCACACGGGCG
Found at i:89816500 original size:49 final size:48
Alignment explanation
Indices: 89816247--89816512 Score: 192
Period size: 49 Copynumber: 5.6 Consensus size: 48
89816237 ATGATGCCAG
* * * *
89816247 TGCCATGTTCCAAACATGGTCTTACACTAGCTTTCAC-ATCTAAG-TTAA
1 TGCCATGTCCCAGACA-GGTCTTACACTAGCTCTCACTATCT-AGCTCAA
* * *
89816295 TGCCATGTCCCAGACAGGTTTTACACTGGCTCTCACTTATCT-GTGTCAA
1 TGCCATGTCCCAGACAGGTCTTACACTAGCTCTCAC-TATCTAG-CTCAA
* * * * * * *
89816344 TGCCATGTCCCAGACAGGTCTTGCATTA--ACACACCA-CAAGC-CGA
1 TGCCATGTCCCAGACAGGTCTTACACTAGCTCTCACTATCTAGCTCAA
* * *
89816388 TGCCATGTTCCAGACAAGTCTTACACTAGCT-TGCA-TATCTTGAGGCT-GA
1 TGCCATGTCCCAGACAGGTCTTACACTAGCTCT-CACTATC-T-A-GCTCAA
* * * *
89816437 TGACATGACTCAGACAGGTCTTACACTAGCTCTCACTTATCTATCTCAA
1 TGCCATGTCCCAGACAGGTCTTACACTAGCTCTCAC-TATCTAGCTCAA
89816486 TGCCATGTCCCAGACAGGTCTTACACT
1 TGCCATGTCCCAGACAGGTCTTACACT
89816513 GACACACACA
Statistics
Matches: 167, Mismatches: 34, Indels: 33
0.71 0.15 0.14
Matches are distributed among these distances:
44 26 0.16
45 2 0.01
46 5 0.03
47 22 0.13
48 17 0.10
49 89 0.53
50 2 0.01
51 4 0.02
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.29
Consensus pattern (48 bp):
TGCCATGTCCCAGACAGGTCTTACACTAGCTCTCACTATCTAGCTCAA
Found at i:89825312 original size:43 final size:43
Alignment explanation
Indices: 89825237--89825321 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
89825227 TCTGAATTCA
* * * **
89825237 TTCACCGGCATTTCGGCTGCTAGGCTTGAAGCCCG-ATATCAT
1 TTCACCGGCATTTAGCCTACTAGGCCCGAAGCCCGTATATCAT
89825279 TTCACCGGCATTATAGCCTACTAGGCCCGAAGCCCGTATATCA
1 TTCACCGGCATT-TAGCCTACTAGGCCCGAAGCCCGTATATCA
89825322 CATTTCGATA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
42 12 0.33
43 18 0.50
44 6 0.17
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.26
Consensus pattern (43 bp):
TTCACCGGCATTTAGCCTACTAGGCCCGAAGCCCGTATATCAT
Found at i:89826210 original size:70 final size:70
Alignment explanation
Indices: 89826094--89826228 Score: 198
Period size: 70 Copynumber: 1.9 Consensus size: 70
89826084 TAGCACATAA
* * * * * * *
89826094 CACCATGATTTTGTCCTAATTTGGATAGCCAATAATTTACAGCATTACAGTAGCATATTTATTAG
1 CACCATAAATTTGTCCTAATTTGGACAGCCAATAATTTACAACATTACAGCAGCAAATTAATTAG
89826159 CTAAG
66 CTAAG
*
89826164 CACCATAAATTTGTCCTAATTTGGACAGCCAATATTTTACAACATTACAGCAGCAAATTAATTAG
1 CACCATAAATTTGTCCTAATTTGGACAGCCAATAATTTACAACATTACAGCAGCAAATTAATTAG
89826229 TAATAAACTA
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
70 57 1.00
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.33
Consensus pattern (70 bp):
CACCATAAATTTGTCCTAATTTGGACAGCCAATAATTTACAACATTACAGCAGCAAATTAATTAG
CTAAG
Found at i:89836745 original size:20 final size:20
Alignment explanation
Indices: 89836720--89836760 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
89836710 ATATGAGAGC
89836720 TTTTCAAGAGAACAAGGCAG
1 TTTTCAAGAGAACAAGGCAG
89836740 TTTTCAAGAGAACAAGGCAG
1 TTTTCAAGAGAACAAGGCAG
89836760 T
1 T
89836761 CATTTAGGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (20 bp):
TTTTCAAGAGAACAAGGCAG
Found at i:89843920 original size:51 final size:51
Alignment explanation
Indices: 89843808--89843909 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
89843798 TGGTACTGAC
89843808 TCAATCTTCACTTCAGTTACTTGAGTATTCAACATAAAAGTGAGATAAGCT
1 TCAATCTTCACTTCAGTTACTTGAGTATTCAACATAAAAGTGAGATAAGCT
89843859 TCAATCTTCACTTCAGTTACTTGAGTATTCAACATAAAAGTGAGATAAGCT
1 TCAATCTTCACTTCAGTTACTTGAGTATTCAACATAAAAGTGAGATAAGCT
89843910 ATCTGTTTCA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (51 bp):
TCAATCTTCACTTCAGTTACTTGAGTATTCAACATAAAAGTGAGATAAGCT
Found at i:89847348 original size:49 final size:47
Alignment explanation
Indices: 89847231--89847357 Score: 155
Period size: 49 Copynumber: 2.6 Consensus size: 47
89847221 GTACGATGTT
*
89847231 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCACATCTAAGTC
1 GATGCCAGGTTCCAAACA-GGTCTTACACTAGCTCTCACATCTAAGTC
* * * * **
89847279 GATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCACTTATCTGTGTC
1 GATGCCAGGTTCCAAACAGGTCTTACACTAGCTCTCAC--ATCTAAGTC
*
89847328 GATGCTAGGTTCCAAACAGGTCTTACACTA
1 GATGCCAGGTTCCAAACAGGTCTTACACTA
89847358 ACACAACTCA
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
47 19 0.28
48 16 0.24
49 32 0.48
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.29
Consensus pattern (47 bp):
GATGCCAGGTTCCAAACAGGTCTTACACTAGCTCTCACATCTAAGTC
Found at i:89847425 original size:93 final size:97
Alignment explanation
Indices: 89847228--89847404 Score: 229
Period size: 93 Copynumber: 1.9 Consensus size: 97
89847218 AGAGTACGAT
* * * *
89847228 GTTGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCACATCTAAGTCGATGCCATGTCCCA
1 GTTGATGCCAGGTTCCAAACATGGTCTTACACTAACACTAACATCTAAGTCGATGCCATGTCCCA
* *
89847293 GACAGGTCTTACACTGGCTCTCACTTATCTGT
66 GACAGGTCTTACACTAGCTCTCACTTATCTGG
* *
89847325 GTCGATGCTAGGTTCCAAACA-GGTCTTACACTAACAC-AAC-TC-AAG-CAGATGCCATGTCCC
1 GTTGATGCCAGGTTCCAAACATGGTCTTACACTAACACTAACATCTAAGTC-GATGCCATGTCCC
*
89847385 AGATAGGTCTTACACTAGCT
65 AGACAGGTCTTACACTAGCT
89847405 TACATATATT
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
92 1 0.01
93 34 0.48
94 2 0.03
95 2 0.03
96 14 0.20
97 18 0.25
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (97 bp):
GTTGATGCCAGGTTCCAAACATGGTCTTACACTAACACTAACATCTAAGTCGATGCCATGTCCCA
GACAGGTCTTACACTAGCTCTCACTTATCTGG
Found at i:89853914 original size:39 final size:40
Alignment explanation
Indices: 89853766--89853932 Score: 201
Period size: 40 Copynumber: 4.2 Consensus size: 40
89853756 CTAAGATCCA
* * *
89853766 AAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCG
1 AAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCG
* * *
89853806 AGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCG
1 AAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCG
** *
89853846 AAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTCCCG
1 AAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCG
* * * * *
89853886 AAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTCCCG
1 AAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCG
89853925 AAGGCATT
1 AAGGCATT
89853933 TGAACGAGGA
Statistics
Matches: 109, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 32 0.29
40 77 0.71
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (40 bp):
AAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCG
Found at i:89853952 original size:79 final size:80
Alignment explanation
Indices: 89853785--89853967 Score: 208
Period size: 79 Copynumber: 2.3 Consensus size: 80
89853775 GTGCGAGATA
* * * *
89853785 CTAAATCCGGGTTAAGTCCCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
89853850 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * * *
89853865 TTAAATCCGGGTTACGTCCCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
89853929 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
89853944 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
89853968 TACGCGAATT
Statistics
Matches: 85, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 14 0.16
79 47 0.55
80 24 0.28
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:89857393 original size:79 final size:79
Alignment explanation
Indices: 89857293--89857515 Score: 251
Period size: 79 Copynumber: 2.8 Consensus size: 79
89857283 GCTCCTCGTT
* *
89857293 CAAATGCCTTC-GAGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGAG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCG
*
89857357 GATTTAGTAACTCGCA
64 GAATTAGTAACTCGCA
* *
89857373 CAATTGCCTTCGG-GCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCGGAGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCG
*
89857435 GAATTAGTATCTCGCA
64 GAATTAGTAACTCGCA
* * * * *
89857451 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGAGCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
89857514 GA
64 GA
89857516 CATCATTCAA
Statistics
Matches: 122, Mismatches: 13, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
78 46 0.38
79 57 0.47
80 17 0.14
81 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGAGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:89857410 original size:39 final size:39
Alignment explanation
Indices: 89857293--89857515 Score: 233
Period size: 39 Copynumber: 5.6 Consensus size: 39
89857283 GCTCCTCGTT
* * *
89857293 CAAATGCCTTCGAGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCG-GGCTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
89857333 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
*
89857373 CAATTGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
89857412 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * *
89857451 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TCGCA
89857492 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
89857516 CATCATTCAA
Statistics
Matches: 161, Mismatches: 14, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
39 93 0.58
40 57 0.35
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:89866984 original size:40 final size:40
Alignment explanation
Indices: 89866830--89866976 Score: 249
Period size: 40 Copynumber: 3.7 Consensus size: 40
89866820 ATTTAGTCGA
* *
89866830 ATATAGCAACTCGCACAAATACCTTCGAAACTTAGCCCGG
1 ATATAGTAACTCGCACAAATGCCTTCGAAACTTAGCCCGG
89866870 ATATAGTAACTCGCACAAATGCCTTCGAAACTTAGCCCGG
1 ATATAGTAACTCGCACAAATGCCTTCGAAACTTAGCCCGG
** *
89866910 ATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCAG
1 ATATAGTAACTCGCACAAATGCCTTCGAAACTTAGCCCGG
89866950 ATATAGTAACTCGCACAAATGCCTTCG
1 ATATAGTAACTCGCACAAATGCCTTCG
89866977 GATCTTAGTC
Statistics
Matches: 102, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 102 1.00
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (40 bp):
ATATAGTAACTCGCACAAATGCCTTCGAAACTTAGCCCGG
Found at i:89872326 original size:40 final size:40
Alignment explanation
Indices: 89872282--89872506 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
89872272 TCTCCTCGTT
*
89872282 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
89872322 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
89872362 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
89872402 CAAATGACTTCGGG-CTTAGCCTGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
89872441 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
89872482 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
89872507 CATCATTCAA
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.19
40 118 0.72
41 13 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:89872466 original size:119 final size:120
Alignment explanation
Indices: 89872282--89872506 Score: 296
Period size: 119 Copynumber: 1.9 Consensus size: 120
89872272 TCTCCTCGTT
*
89872282 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGACTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
89872347 ATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * **
89872402 CAAATGACTTCGGG-CTTAGCCTGGATT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGACTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* * *
89872464 GGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 GGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
89872507 CATCATTCAA
Statistics
Matches: 91, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
118 3 0.03
119 65 0.71
120 23 0.25
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
CAAATGACTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:89888574 original size:26 final size:27
Alignment explanation
Indices: 89888545--89888596 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
89888535 GCGAGGCTGC
*
89888545 CAGATAT-TGTGACGAAGTCACCAGAA
1 CAGATATATGTGACGAAGCCACCAGAA
* *
89888571 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATATATGTGACGAAGCCACCAGA
89888597 TTGCAGTGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (27 bp):
CAGATATATGTGACGAAGCCACCAGAA
Found at i:89895491 original size:40 final size:40
Alignment explanation
Indices: 89895447--89895594 Score: 251
Period size: 40 Copynumber: 3.7 Consensus size: 40
89895437 GCAAACACAT
* * *
89895447 TTGCCTTCGGGTCTTAGCCCGAACATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
* *
89895487 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
89895527 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
89895567 TTGCCTTCGGGTCATAGCCCGGATATAT
1 TTGCCTTCGGGTCATAGCCCGGATATAT
89895595 TCCAATGCTC
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 103 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
Found at i:89905715 original size:40 final size:40
Alignment explanation
Indices: 89905660--89906023 Score: 602
Period size: 40 Copynumber: 9.1 Consensus size: 40
89905650 NNNNNNNNNN
* *
89905660 ATATCATCTCGCATAATTGCCTTCGGGTTTTAGCCCGGAT
1 ATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGAT
* *
89905700 ATATCATCTCGCATAATTGCCTTCGGGTTTTAGCCCGGAT
1 ATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGAT
* * *
89905740 ATATCATCTCGCATAATTGCCTTCGGGTCATAGCCCGGAC
1 ATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGAT
* *
89905780 ATATTAACTCGCATAATTGCTTTCGGGTCTTAGCCCGGAT
1 ATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGAT
89905820 ATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGAT
1 ATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGAT
* *
89905860 ATATCATCTCGCATAATTGCCTTCGGGTCCTAGCCCGGAT
1 ATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGAT
*
89905900 ATATCAACTCGCATAATTGCCTTCGGGTCCTAGCCCGGAT
1 ATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGAT
*
89905940 ATATCAACTCGCATAATTGCCTTCGGGTCCTAGCCCGGAT
1 ATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGAT
*
89905980 ATATCAACTCGCATAATTGCCTTCGGGTCATAGCCCGGAT
1 ATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGAT
89906020 ATAT
1 ATAT
89906024 TCCAATGCTC
Statistics
Matches: 310, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 310 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
ATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGAT
Found at i:89909971 original size:48 final size:48
Alignment explanation
Indices: 89909869--89910377 Score: 423
Period size: 48 Copynumber: 10.6 Consensus size: 48
89909859 TAAAATGTCA
* * * * * * * **
89909869 ATGCCATGTCCCAGACATGGTCTTCCACTGGCTCACTTGTTGAGGCCG
1 ATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATCTCAAGGCCG
* * *
89909917 ACGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATCTCAATGCTG
1 ATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATCTCAAGGCCG
* * * * *
89909965 ATGCCATGTTTCAAACATGGTCTTACACTGGCTCAT-ATATCGAGGCCA
1 ATGCCATGTTCCAAACATGGTCTTACACTAGCTC-TCATCTCAAGGCCG
* * * *
89910013 ATGCCATG-TCCTAGATATCGTCTTACACTAGCTCTCATCTCAATGCCG
1 ATGCCATGTTCC-AAACATGGTCTTACACTAGCTCTCATCTCAAGGCCG
* * * * * * *
89910061 ATGCCATGTTCCAAACATGATCTTATAGTGGCTCACATATCGAGGCCG
1 ATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATCTCAAGGCCG
* * * * * *
89910109 ATGCTATGTACTAGACATGGTCTTACACTAGCTCTCGTCTCAAGGTCG
1 ATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATCTCAAGGCCG
* * * * * *
89910157 ATGCCATGTTTCAAACATGGTCTTATACT-GCCTCACATATCGAGGCTG
1 ATGCCATGTTCCAAACATGGTCTTACACTAG-CTCTCATCTCAAGGCCG
* * * * * *
89910205 ATTCCATG-TCTCAGACATGGTTTTACTCTAGCTCTCGTCTCAATGCCG
1 ATGCCATGTTC-CAAACATGGTCTTACACTAGCTCTCATCTCAAGGCCG
** * * **
89910253 ATGCCATGTTCCAAACATAATCTTACACTAGCTCACATATTGAGGCCG
1 ATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATCTCAAGGCCG
* * * * *
89910301 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTTAATGCCG
1 ATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATCTCAAGGCCG
* *
89910349 ATGCCATGCTACAAACATGGTCTTACACT
1 ATGCCATGTTCCAAACATGGTCTTACACT
89910378 GTCTCACATA
Statistics
Matches: 351, Mismatches: 102, Indels: 16
0.75 0.22 0.03
Matches are distributed among these distances:
47 5 0.01
48 339 0.97
49 7 0.02
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (48 bp):
ATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATCTCAAGGCCG
Found at i:89910036 original size:96 final size:96
Alignment explanation
Indices: 89909869--89910387 Score: 655
Period size: 96 Copynumber: 5.4 Consensus size: 96
89909859 TAAAATGTCA
* * * * * * * *
89909869 ATGCCATGTCCCAGACATGGTCTTCCACTGGCTCACTTGTTGAGGCCGACGCCATGTTCC-AAAC
1 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATG-TCCTAGAC
* *
89909933 ATGGTCTTACACTAGCTCTCATCTCAATGCTG
65 ATGGTCTTACACTAGCTCTCGTCTCAATGCCG
* * * *
89909965 ATGCCATGTTTCAAACATGGTCTTACACTGGCTCATATATCGAGGCCAATGCCATGTCCTAGATA
1 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCCTAGACA
* *
89910030 TCGTCTTACACTAGCTCTCATCTCAATGCCG
66 TGGTCTTACACTAGCTCTCGTCTCAATGCCG
* * * * *
89910061 ATGCCATGTTCCAAACATGATCTTATAGTGGCTCACATATCGAGGCCGATGCTATGTACTAGACA
1 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCCTAGACA
* *
89910126 TGGTCTTACACTAGCTCTCGTCTCAAGGTCG
66 TGGTCTTACACTAGCTCTCGTCTCAATGCCG
* * * * *
89910157 ATGCCATGTTTCAAACATGGTCTTATACTGCCTCACATATCGAGGCTGATTCCATGT-CTCAGAC
1 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCCT-AGAC
* *
89910221 ATGGTTTTACTCTAGCTCTCGTCTCAATGCCG
65 ATGGTCTTACACTAGCTCTCGTCTCAATGCCG
** * * *
89910253 ATGCCATGTTCCAAACATAATCTTACACTAGCTCACATATTGAGGCCGATGCCATGTCCCAGACA
1 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCCTAGACA
*
89910318 TGGTCTTACACTAGCTCTCGTCTTAATGCCG
66 TGGTCTTACACTAGCTCTCGTCTCAATGCCG
* * *
89910349 ATGCCATGCTACAAACATGGTCTTACACTGTCTCACATA
1 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATA
89910388 CCCCTAGTAG
Statistics
Matches: 363, Mismatches: 57, Indels: 6
0.85 0.13 0.01
Matches are distributed among these distances:
95 5 0.01
96 357 0.98
97 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (96 bp):
ATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCCTAGACA
TGGTCTTACACTAGCTCTCGTCTCAATGCCG
Found at i:89922243 original size:49 final size:49
Alignment explanation
Indices: 89922188--89922378 Score: 296
Period size: 49 Copynumber: 3.9 Consensus size: 49
89922178 AGAGAGTGTA
89922188 TATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATG
1 TATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATG
* * *
89922237 TATATGTGATAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATG
1 TATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATG
89922286 TATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA--
1 --TATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATG
* * *
89922335 TATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGT
1 TATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGT
89922379 ATATATGTGT
Statistics
Matches: 131, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
47 41 0.31
49 46 0.35
51 44 0.34
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (49 bp):
TATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATG
Found at i:89922353 original size:47 final size:47
Alignment explanation
Indices: 89922182--89922393 Score: 298
Period size: 47 Copynumber: 4.4 Consensus size: 47
89922172 CAGCCAAGAG
*
89922182 AGTGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
89922229 AGTGTATGTATATGTGATAAGGTCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTA--TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
89922278 AGTGTATGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 A--G--TGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
89922329 AGTGTATATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
89922376 AGTATATATGTGTGATAA
1 AGTGTATATATGTGATAA
89922394 TGTGAAAGTG
Statistics
Matches: 149, Mismatches: 10, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
47 65 0.44
49 40 0.27
51 40 0.27
53 4 0.03
ACGTcount: A:0.34, C:0.08, G:0.27, T:0.31
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
Found at i:89922396 original size:24 final size:24
Alignment explanation
Indices: 89922362--89922417 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
89922352 AATAGCCGAC
*
89922362 GTGATGAATGTGAAAGTATATATGT
1 GTGAT-AATGTGAAAGTATATATAT
*
89922387 GTGATAATGTGAAAGTGTATATAT
1 GTGATAATGTGAAAGTATATATAT
*
89922411 GTAATAA
1 GTGATAA
89922418 GGCCTAATGG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 23 0.82
25 5 0.18
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (24 bp):
GTGATAATGTGAAAGTATATATAT
Found at i:89922397 original size:71 final size:71
Alignment explanation
Indices: 89922313--89922464 Score: 241
Period size: 71 Copynumber: 2.1 Consensus size: 71
89922303 CTAATAGCCG
* *
89922313 ATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAG
1 ATGTGAT-AATGTGAAAGTGTATATATGTAATAAGGCCTAATAGCCGACGTGATGAATGTGAAAG
89922378 TATATAT
65 TATATAT
* * *
89922385 GTGTGATAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
1 ATGTGATAATGTGAAAGTGTATATATGTAATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGT
*
89922450 GTATAT
66 ATATAT
89922456 ATGTGATAA
1 ATGTGATAA
89922465 GGCCTAATGG
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
71 67 0.92
72 6 0.08
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.32
Consensus pattern (71 bp):
ATGTGATAATGTGAAAGTGTATATATGTAATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGT
ATATAT
Found at i:89922431 original size:118 final size:118
Alignment explanation
Indices: 89922284--89922511 Score: 402
Period size: 118 Copynumber: 1.9 Consensus size: 118
89922274 TGAAAGTGTA
*
89922284 TGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGG
1 TGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
*
89922349 CCTAATAGCCGACGTGATGAATGTGAAAGTATATATGTGTGATAATGTGAAAG
66 CCTAATAGCCGACGCGATGAATGTGAAAGTATATATGTGTGATAATGTGAAAG
*
89922402 TGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
1 TGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
* * *
89922467 CCTAATGGCCGATGCGATGAATGTGAAAGTGTATATGTGTGATAA
66 CCTAATAGCCGACGCGATGAATGTGAAAGTATATATGTGTGATAA
89922512 GGCCTAATAG
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
118 104 1.00
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.31
Consensus pattern (118 bp):
TGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
CCTAATAGCCGACGCGATGAATGTGAAAGTATATATGTGTGATAATGTGAAAG
Found at i:89922453 original size:47 final size:47
Alignment explanation
Indices: 89922386--89922700 Score: 452
Period size: 47 Copynumber: 6.7 Consensus size: 47
89922376 AGTATATATG
*
89922386 TGTGAT-AATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGA
1 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA
89922432 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA
1 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA
* * *
89922479 TGCGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGA
1 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA
* * *
89922526 TGTGATGAATGTGCAAGTGTATATATGTAATGAGGCCTAATGGCCGA
1 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA
*
89922573 TGCGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA
1 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA
* * * * * *
89922620 TGTAATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAA
1 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA
* * * * *
89922667 CGTAATGGATGTGAAAGTGCATAAATGTGATAAG
1 TGTGATGAATGTGAAAGTGTATATATGTGATAAG
89922701 TCCCGAAAGG
Statistics
Matches: 241, Mismatches: 27, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
46 6 0.02
47 235 0.98
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.28
Consensus pattern (47 bp):
TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA
Found at i:89922499 original size:165 final size:169
Alignment explanation
Indices: 89922214--89922558 Score: 545
Period size: 165 Copynumber: 2.0 Consensus size: 169
89922204 TAATAGCCGA
* *
89922214 TGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGTCTAATGGCCGATGTGATGAATGTGAAA
1 TGTGATGAATGTGAAAGTGTA-GTATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
*
89922279 GTGTATGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
65 G-G-ATGTATATATGTAATAAGGCCTAATAGCCGATGCGATGAATGTGAAAGTGTATATGTGTGA
89922344 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTATATATG
128 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTATATATG
89922386 TGTGAT-AATGTGAAAGTGTA-TATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAA-
1 TGTGATGAATGTGAAAGTGTAGTATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* *
89922448 G-TGTATATATGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAAAGTGTATATGTGTGATAA
66 GATGTATATATGTAATAAGGCCTAATAGCCGATGCGATGAATGTGAAAGTGTATATGTGTGATAA
* * * *
89922512 GGCCTAATAGCCGATGTGATGAATGTGCAAGTGTATATA
131 GGCCTAATAGCCGACGTGATGAATGTGAAAGTATATATG
*
89922551 TGTAATGA
1 TGTGATGA
89922559 GGCCTAATGG
Statistics
Matches: 162, Mismatches: 10, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
165 100 0.62
166 1 0.01
167 1 0.01
169 40 0.25
171 14 0.09
172 6 0.04
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (169 bp):
TGTGATGAATGTGAAAGTGTAGTATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
GATGTATATATGTAATAAGGCCTAATAGCCGATGCGATGAATGTGAAAGTGTATATGTGTGATAA
GGCCTAATAGCCGACGTGATGAATGTGAAAGTATATATG
Found at i:89922875 original size:37 final size:37
Alignment explanation
Indices: 89922819--89922897 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
89922809 CCGAGCTCTA
* * *
89922819 AAGACACGATGACTACGTGTGGGGATTTTGTCCAGGT
1 AAGACACGATAACTACGTGTGGAGATTATGTCCAGGT
* * *
89922856 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACACGATAACTACGTGTGGAGATTATGTCCAGGT
89922893 AAGAC
1 AAGAC
89922898 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACACGATAACTACGTGTGGAGATTATGTCCAGGT
Found at i:89925583 original size:30 final size:30
Alignment explanation
Indices: 89925526--89925583 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
89925516 CAACCCATAT
*
89925526 TTTTCATTTATTCACACTTTTAACCCCACA
1 TTTTCATTTATTCACACATTTAACCCCACA
89925556 TTTTCATCTT-TTCACA-ATTTAATCCCCA
1 TTTTCAT-TTATTCACACATTTAA-CCCCA
89925584 ATACGCATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 5 0.20
30 18 0.72
31 2 0.08
ACGTcount: A:0.26, C:0.29, G:0.00, T:0.45
Consensus pattern (30 bp):
TTTTCATTTATTCACACATTTAACCCCACA
Found at i:89935281 original size:40 final size:39
Alignment explanation
Indices: 89935091--89935274 Score: 185
Period size: 40 Copynumber: 4.6 Consensus size: 39
89935081 CGAATGATGT
* * * *
89935091 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* * * *
89935131 CCAGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
* *
89935171 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAATTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
89935209 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
89935250 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
89935275 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 17, Indels: 14
0.79 0.11 0.09
Matches are distributed among these distances:
39 33 0.28
40 77 0.64
41 10 0.08
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:89935296 original size:79 final size:79
Alignment explanation
Indices: 89935143--89935307 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
89935133 AGACTAAGAT
* ** *
89935143 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAATTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAAGTACTAA
*
89935208 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
89935222 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACG-AGTAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAAGTA-C
* *
89935285 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
89935301 CCGAAGG
1 CCGAAGG
89935308 TACGTGATTC
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.67
80 22 0.30
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAAGTACTAA
ATCCGGGTTAAATC
Found at i:89936660 original size:47 final size:47
Alignment explanation
Indices: 89936592--89936746 Score: 229
Period size: 47 Copynumber: 3.3 Consensus size: 47
89936582 NNNNNNNNNN
89936592 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
*
89936639 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
* * * * * * *
89936686 ATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
*
89936733 ATAAATGTGATAAG
1 ATATATGTGATAAG
89936747 TCCCGAAGGG
Statistics
Matches: 96, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 96 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
Found at i:89936915 original size:37 final size:37
Alignment explanation
Indices: 89936865--89936943 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
89936855 CCGAGCTCTA
* * *
89936865 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATGACTACATGTGGAGATTATGTCCGGGT
*
89936902 AAGACCCGATGACTTCATGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACATGTGGAGATTATGTCCGGGT
89936939 AAGAC
1 AAGAC
89936944 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATGACTACATGTGGAGATTATGTCCGGGT
Found at i:89938734 original size:43 final size:43
Alignment explanation
Indices: 89938686--89938788 Score: 197
Period size: 43 Copynumber: 2.4 Consensus size: 43
89938676 TTGGTTTTCA
89938686 GCACTAAGTGTGCGGGCAATAAGTCTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTCTTCACGGTTGTGAGATTG
*
89938729 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTCTTCACGGTTGTGAGATTG
89938772 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
89938789 TTGAAATGCA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.22, C:0.17, G:0.35, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTCTTCACGGTTGTGAGATTG
Found at i:89938805 original size:29 final size:29
Alignment explanation
Indices: 89938770--89938843 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
89938760 GTTGTGAGAT
* *
89938770 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
* *
89938799 TGGCACTAAGTGTGCGAGTTTAAAGTATA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
89938828 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
89938844 TGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 5 0.12
29 35 0.88
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:89939255 original size:39 final size:40
Alignment explanation
Indices: 89939154--89939297 Score: 154
Period size: 40 Copynumber: 3.6 Consensus size: 40
89939144 TCGAATGATG
* *
89939154 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
89939193 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
89939234 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
89939273 TCCGGGCTAAGTCCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAG-GCATT
89939298 CATGCTAGTG
Statistics
Matches: 90, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
39 35 0.39
40 37 0.41
41 17 0.19
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:89939316 original size:40 final size:40
Alignment explanation
Indices: 89939272--89939428 Score: 224
Period size: 40 Copynumber: 3.9 Consensus size: 40
89939262 GAGTTACTAA
89939272 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
89939312 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
** * * * *
89939352 ATCCGGGCTAAGTTTCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * * *
89939392 ATCCGGGCTAGGTCCCAAAGAGCAATCATGCTGGTGA
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
89939429 CATGTATTCG
Statistics
Matches: 104, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 104 1.00
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
Found at i:89943375 original size:27 final size:26
Alignment explanation
Indices: 89943317--89943379 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 26
89943307 ATAGCTGAAT
*
89943317 TTTAATATGTCTTAGTTCATACATGT
1 TTTAATATGTCTTAGTTCATACATGA
* * *
89943343 TGTTAATTTGTCTTAGTTTATTGCATGA
1 T-TTAATATGTCTTAGTTCA-TACATGA
89943371 TTTAA-ATGT
1 TTTAATATGT
89943380 GTCTTTGAGC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
26 4 0.13
27 20 0.67
28 6 0.20
ACGTcount: A:0.25, C:0.08, G:0.14, T:0.52
Consensus pattern (26 bp):
TTTAATATGTCTTAGTTCATACATGA
Found at i:89943466 original size:18 final size:20
Alignment explanation
Indices: 89943428--89943469 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
89943418 GTATAACTGA
*
89943428 ATTTATTGTGTCTCAATTTG
1 ATTTAATGTGTCTCAATTTG
89943448 ATTTAATGTGT-TC-ATTTG
1 ATTTAATGTGTCTCAATTTG
89943466 ATTT
1 ATTT
89943470 GTGCAGTAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.43
19 2 0.10
20 10 0.48
ACGTcount: A:0.21, C:0.07, G:0.14, T:0.57
Consensus pattern (20 bp):
ATTTAATGTGTCTCAATTTG
Found at i:89944133 original size:14 final size:14
Alignment explanation
Indices: 89944086--89944133 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
89944076 GTACGAATGG
*
89944086 AATGGTAGGAACGA
1 AATGGTAGGAACAA
*
89944100 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
89944114 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
89944128 ATTGGT
1 AATGGT
89944134 CGGTTTAGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:89950109 original size:13 final size:13
Alignment explanation
Indices: 89950089--89950124 Score: 65
Period size: 12 Copynumber: 2.8 Consensus size: 13
89950079 AACCGTATGC
89950089 AATTTTTTTTTC-
1 AATTTTTTTTTCA
89950101 AATTTTTTTTTCA
1 AATTTTTTTTTCA
89950114 AATTTTTTTTT
1 AATTTTTTTTT
89950125 TGAACTCCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 12 0.52
13 11 0.48
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (13 bp):
AATTTTTTTTTCA
Found at i:89950481 original size:85 final size:86
Alignment explanation
Indices: 89950385--89950555 Score: 308
Period size: 85 Copynumber: 2.0 Consensus size: 86
89950375 ATGGAAGAGT
*
89950385 TCGGTTTAGGATAATTAAGAAATAGTATTTGGTTTTGGTACGTTTTGGTATTTGGGAATTGGTAC
1 TCGGTTTAGGATAATTAAGAAATAGTATTTGGTTTTGGTACGTTTTGATATTTGGGAATTGGTAC
89950450 GAAATGGTATGG-AATTGGTA
66 GAAATGGTATGGTAATTGGTA
*
89950470 TCGGTTTAGGATAATTAAGAAATGGTATTTGGTTTTGGTACGTTTTGATATTTGGGAATTGGTAC
1 TCGGTTTAGGATAATTAAGAAATAGTATTTGGTTTTGGTACGTTTTGATATTTGGGAATTGGTAC
*
89950535 GAAATGGTATGGTATTTGGTA
66 GAAATGGTATGGTAATTGGTA
89950556 CGAATTGGTA
Statistics
Matches: 82, Mismatches: 3, Indels: 1
0.95 0.03 0.01
Matches are distributed among these distances:
85 75 0.91
86 7 0.09
ACGTcount: A:0.26, C:0.04, G:0.29, T:0.41
Consensus pattern (86 bp):
TCGGTTTAGGATAATTAAGAAATAGTATTTGGTTTTGGTACGTTTTGATATTTGGGAATTGGTAC
GAAATGGTATGGTAATTGGTA
Found at i:89953431 original size:9 final size:9
Alignment explanation
Indices: 89953418--89953452 Score: 52
Period size: 10 Copynumber: 3.7 Consensus size: 9
89953408 CTTTTCACTT
89953418 TTTTTTCTTC
1 TTTTTT-TTC
89953428 TTTTTTTTAC
1 TTTTTTTT-C
89953438 TTTTTTTTC
1 TTTTTTTTC
89953447 TTTTTT
1 TTTTTT
89953453 GCTCACTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 9 0.38
10 15 0.62
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.86
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:89953439 original size:22 final size:22
Alignment explanation
Indices: 89953409--89953490 Score: 87
Period size: 22 Copynumber: 3.7 Consensus size: 22
89953399 CTCGCAAGAC
89953409 TTTTCACTTTTTTTTCTTCTTT
1 TTTTCACTTTTTTTTCTTCTTT
*
89953431 TTTTTACTTTTTTTTCTT-TTT
1 TTTTCACTTTTTTTTCTTCTTT
**
89953452 TGCTCACTTCTTTTTTTCTT-TTT
1 TTTTCAC-T-TTTTTTTCTTCTTT
*
89953475 TTTTCGAATTTTTTTT
1 TTTTC-ACTTTTTTTT
89953491 TGAATTTCGA
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
21 7 0.14
22 25 0.50
23 17 0.34
24 1 0.02
ACGTcount: A:0.06, C:0.15, G:0.02, T:0.77
Consensus pattern (22 bp):
TTTTCACTTTTTTTTCTTCTTT
Found at i:89953488 original size:23 final size:22
Alignment explanation
Indices: 89953416--89953491 Score: 73
Period size: 23 Copynumber: 3.4 Consensus size: 22
89953406 GACTTTTCAC
* *
89953416 TTTTTTTTCTTCTTTTTTT-TAC
1 TTTTTTTTCTT-TTTTTTTCAAT
** *
89953438 TTTTTTTTCTTTTTTGCTCACT
1 TTTTTTTTCTTTTTTTTTCAAT
89953460 TCTTTTTTTCTTTTTTTTTCGAAT
1 T-TTTTTTTCTTTTTTTTTC-AAT
89953484 TTTTTTTT
1 TTTTTTTT
89953492 GAATTTCGAT
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
21 5 0.12
22 12 0.28
23 23 0.53
24 3 0.07
ACGTcount: A:0.05, C:0.13, G:0.03, T:0.79
Consensus pattern (22 bp):
TTTTTTTTCTTTTTTTTTCAAT
Found at i:89955043 original size:10 final size:10
Alignment explanation
Indices: 89955028--89955076 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
89955018 TTGGGTTAAG
89955028 ATTGAGCTGA
1 ATTGAGCTGA
89955038 ATTGAGCTCGA
1 ATTGAGCT-GA
89955049 A-TGAGCTGA
1 ATTGAGCTGA
* *
89955058 CTTGAGCTCA
1 ATTGAGCTGA
*
89955068 AGTGAGCTG
1 ATTGAGCTG
89955077 GAAACGAGCT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
9 2 0.06
10 27 0.84
11 3 0.09
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.27
Consensus pattern (10 bp):
ATTGAGCTGA
Found at i:89955053 original size:20 final size:20
Alignment explanation
Indices: 89955030--89955076 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
89955020 GGGTTAAGAT
89955030 TGAGCTGAATTGAGCTCGAA-
1 TGAGCTGAATTGAGCTC-AAG
*
89955050 TGAGCTGACTTGAGCTCAAG
1 TGAGCTGAATTGAGCTCAAG
89955070 TGAGCTG
1 TGAGCTG
89955077 GAAACGAGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.26
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCAAG
Found at i:89964691 original size:72 final size:72
Alignment explanation
Indices: 89964574--89964715 Score: 266
Period size: 72 Copynumber: 2.0 Consensus size: 72
89964564 AAGGTGGATG
*
89964574 AACGCCACACCAGGATGGTGATAAGTTCAAGAAGTCGGGTTGACGCCACTAACGAGCTAGATAAG
1 AACGCCACACCAGGATGGTGATAAGTTCAAGAAGTCGAGTTGACGCCACTAACGAGCTAGATAAG
89964639 TCAGAAC
66 TCAGAAC
*
89964646 AACGCCACACCAGGATGGTGATAAGTTCAAGAAGTCGAGTTGACGCCACTAGCGAGCTAGATAAG
1 AACGCCACACCAGGATGGTGATAAGTTCAAGAAGTCGAGTTGACGCCACTAACGAGCTAGATAAG
89964711 TCAGA
66 TCAGA
89964716 TGAGACTCAA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 68 1.00
ACGTcount: A:0.35, C:0.22, G:0.27, T:0.17
Consensus pattern (72 bp):
AACGCCACACCAGGATGGTGATAAGTTCAAGAAGTCGAGTTGACGCCACTAACGAGCTAGATAAG
TCAGAAC
Found at i:89965748 original size:20 final size:19
Alignment explanation
Indices: 89965725--89965789 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
89965715 AAGCTCAAAC
89965725 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
89965745 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
89965765 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
89965785 GAGCT
1 GAGCT
89965790 GGGAAAACTA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:89967667 original size:79 final size:79
Alignment explanation
Indices: 89967573--89967729 Score: 296
Period size: 79 Copynumber: 2.0 Consensus size: 79
89967563 GGAAATCAAG
* *
89967573 TTGCTGGAATTTGGGGTTTTTATTGTCGGTTTGTTCTTGGGTAGATTCGGCTTGTGGGATTTCAT
1 TTGCTGGAATTTGGGGTTTTTATTGTCGGTTTGTTCTTGGGCAGATTCGGCTTGTGGGATTTCAC
89967638 TATTGGAGTTCGAC
66 TATTGGAGTTCGAC
89967652 TTGCTGGAATTTGGGGTTTTTATTGTCGGTTTGTTCTTGGGCAGATTCGGCTTGTGGGATTTCAC
1 TTGCTGGAATTTGGGGTTTTTATTGTCGGTTTGTTCTTGGGCAGATTCGGCTTGTGGGATTTCAC
89967717 TATTGGAGTTCGA
66 TATTGGAGTTCGA
89967730 TTTCATCTTC
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
79 76 1.00
ACGTcount: A:0.13, C:0.11, G:0.32, T:0.45
Consensus pattern (79 bp):
TTGCTGGAATTTGGGGTTTTTATTGTCGGTTTGTTCTTGGGCAGATTCGGCTTGTGGGATTTCAC
TATTGGAGTTCGAC
Found at i:89977802 original size:12 final size:12
Alignment explanation
Indices: 89977787--89977849 Score: 60
Period size: 12 Copynumber: 5.2 Consensus size: 12
89977777 TCAAGCTCTC
89977787 TTTCAATTTCTT
1 TTTCAATTTCTT
*
89977799 TTTCCACTCTTTCTT
1 TTT-CA--ATTTCTT
89977814 TTTC---TTCTT
1 TTTCAATTTCTT
89977823 TTTCAATTTCTT
1 TTTCAATTTCTT
*
89977835 TTTCAATCTCTT
1 TTTCAATTTCTT
89977847 TTT
1 TTT
89977850 GCTTTTCACT
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
9 9 0.21
12 22 0.51
13 2 0.05
14 1 0.02
15 9 0.21
ACGTcount: A:0.11, C:0.22, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTCAATTTCTT
Found at i:89977908 original size:15 final size:14
Alignment explanation
Indices: 89977888--89977935 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 14
89977878 CTCATTTTCA
89977888 TCTTTTTCTTTTATT
1 TCTTTTTCTTTT-TT
*
89977903 TCTTTTTCTTTTTC
1 TCTTTTTCTTTTTT
*
89977917 TCTCATTTCTTTTTT
1 TCT-TTTTCTTTTTT
89977932 TCTT
1 TCTT
89977936 CTCTCAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
14 4 0.14
15 24 0.86
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (14 bp):
TCTTTTTCTTTTTT
Found at i:89977940 original size:22 final size:21
Alignment explanation
Indices: 89977888--89977946 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
89977878 CTCATTTTCA
* *
89977888 TCTTTTTCTTTTATTTCTTTT
1 TCTTTTTCTCTCATTTCTTTT
89977909 TCTTTTTCTCTCATTTCTTTT
1 TCTTTTTCTCTCATTTCTTTT
*
89977930 T-TTCTTCTCTCAATTTC
1 TCTTTTTCTCTC-ATTTC
89977947 ATTCAAGATT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 9 0.26
21 25 0.74
ACGTcount: A:0.07, C:0.22, G:0.00, T:0.71
Consensus pattern (21 bp):
TCTTTTTCTCTCATTTCTTTT
Found at i:89978873 original size:25 final size:28
Alignment explanation
Indices: 89978837--89978896 Score: 74
Period size: 26 Copynumber: 2.2 Consensus size: 28
89978827 CAATCACTCT
89978837 TTTTTTTCAATT-TCG-ATTTTTTTC-TA
1 TTTTTTTCAATTCT-GAATTTTTTTCTTA
*
89978863 TTTTTTT-AATTCTGAATTTTTTTCTTC
1 TTTTTTTCAATTCTGAATTTTTTTCTTA
89978890 TTTTTTT
1 TTTTTTT
89978897 TTCCTTCAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 5 0.17
26 17 0.57
27 8 0.27
ACGTcount: A:0.13, C:0.10, G:0.03, T:0.73
Consensus pattern (28 bp):
TTTTTTTCAATTCTGAATTTTTTTCTTA
Found at i:89978961 original size:11 final size:11
Alignment explanation
Indices: 89978945--89978994 Score: 84
Period size: 11 Copynumber: 4.6 Consensus size: 11
89978935 AATACAAACT
89978945 TTTTTTTTGAA
1 TTTTTTTTGAA
89978956 TTTTTTTTGAA
1 TTTTTTTTGAA
89978967 TTTTTTTTGAA
1 TTTTTTTTGAA
*
89978978 TTTTTTTT-TA
1 TTTTTTTTGAA
89978988 TTTTTTT
1 TTTTTTT
89978995 GCAATACCAT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
10 8 0.21
11 30 0.79
ACGTcount: A:0.14, C:0.00, G:0.06, T:0.80
Consensus pattern (11 bp):
TTTTTTTTGAA
Done.