Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167971.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_23, whole genome shotgun sequence
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: 19268551
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 68000 characters in sequence are not A, C, G, or T
File 75 of 120
Found at i:9331423 original size:43 final size:42
Alignment explanation
Indices: 9331375--9331556 Score: 181
Period size: 43 Copynumber: 4.3 Consensus size: 42
9331365 ATGACCTTAT
*
9331375 TTTAAAATAAGAAATGAGCTTCTTTATACAAAGGCAAAACGAA-
1 TTTAAAATAAGAAATGAGC-TCTTTATACAGAGGCAAAAC-AAC
*
9331418 TTTAAAATAAGAAATTG-GCTCTTCTATACAGAGACAAAACAAC
1 TTTAAAATAAGAAA-TGAGCTCTT-TATACAGAGGCAAAACAAC
* * * ** *
9331461 TTTAAAAT-AGAAAATGAGCTCTTTAAATAGAGGTAAAATGAT
1 TTTAAAATAAG-AAATGAGCTCTTTATACAGAGGCAAAACAAC
* * * *
9331503 TTTAAAATAAGAAATGGGCTTTTTTATTCAGAGGCTAAACAAC
1 TTTAAAATAAGAAATGAGC-TCTTTATACAGAGGCAAAACAAC
9331546 TTTAAAATAAG
1 TTTAAAATAAG
9331557 TGACTAGGAC
Statistics
Matches: 113, Mismatches: 19, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
42 37 0.33
43 74 0.65
44 2 0.02
ACGTcount: A:0.46, C:0.10, G:0.14, T:0.29
Consensus pattern (42 bp):
TTTAAAATAAGAAATGAGCTCTTTATACAGAGGCAAAACAAC
Found at i:9331535 original size:85 final size:86
Alignment explanation
Indices: 9331375--9331556 Score: 233
Period size: 85 Copynumber: 2.1 Consensus size: 86
9331365 ATGACCTTAT
* *
9331375 TTTAAAATAAGAAATGAGCTTCTTTATACAAAGGCAAAACGAATTTAAAATAAGAAATTGGCTCT
1 TTTAAAATAAGAAATGAGCTTCTTTAAACAAAGGCAAAACGAATTTAAAATAAGAAATGGGCTCT
9331440 TCTATACAGAGACAAAACAAC
66 TCTATACAGAGACAAAACAAC
* * * * * *
9331461 TTTAAAAT-AGAAAATGAGC-TCTTTAAATAGAGGTAAAATGATTTTAAAATAAGAAATGGGCTT
1 TTTAAAATAAG-AAATGAGCTTCTTTAAACAAAGGCAAAACGAATTTAAAATAAGAAATGGGCTC
* * * *
9331524 TTTTATTCAGAGGCTAAACAAC
65 TTCTATACAGAGACAAAACAAC
9331546 TTTAAAATAAG
1 TTTAAAATAAG
9331557 TGACTAGGAC
Statistics
Matches: 82, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
85 64 0.78
86 18 0.22
ACGTcount: A:0.46, C:0.10, G:0.14, T:0.29
Consensus pattern (86 bp):
TTTAAAATAAGAAATGAGCTTCTTTAAACAAAGGCAAAACGAATTTAAAATAAGAAATGGGCTCT
TCTATACAGAGACAAAACAAC
Found at i:9331721 original size:34 final size:33
Alignment explanation
Indices: 9331646--9331748 Score: 115
Period size: 34 Copynumber: 3.2 Consensus size: 33
9331636 ACCGTAAATC
* *
9331646 AAAAAAATAAATGACCTGA-ATTG-AGTCAAGGT
1 AAAAAAATAAATGACC-GAGACTGAACTCAAGGT
*
9331678 -AAAAAATAAATGACCGAGACTGAACTGCAAGTT
1 AAAAAAATAAATGACCGAGACTGAACT-CAAGGT
* *
9331711 AAAAAAATAAATGACCTAGACTAAAC-CAAGGT
1 AAAAAAATAAATGACCGAGACTGAACTCAAGGT
9331743 AAAAAA
1 AAAAAA
9331749 TGACTAGGTC
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
30 2 0.03
31 18 0.30
32 13 0.21
33 5 0.08
34 23 0.38
ACGTcount: A:0.54, C:0.13, G:0.16, T:0.17
Consensus pattern (33 bp):
AAAAAAATAAATGACCGAGACTGAACTCAAGGT
Found at i:9331749 original size:65 final size:65
Alignment explanation
Indices: 9331576--9331749 Score: 197
Period size: 65 Copynumber: 2.7 Consensus size: 65
9331566 CTAAACCACA
* * * ** * *
9331576 AAGTTAGAAAAATAAATGACATAGAATGAGCCGAGGTTGAAAACAAAGGACCGAGACTGAACCGT
1 AAGTTAAAAAAATAAATGACCTAGAATGAGCCAAGGTAAAAAATAAAGGACCGAGACTGAACCGC
* * * * *
9331641 AAATCAAAAAAATAAATGACCT-GAATTGAGTCAAGGTAAAAAATAAATGACCGAGACTGAACTG
1 AAGTTAAAAAAATAAATGACCTAGAA-TGAGCCAAGGTAAAAAATAAAGGACCGAGACTGAACCG
9331705 C
65 C
* * *
9331706 AAGTTAAAAAAATAAATGACCTAGACTAAACCAAGGTAAAAAAT
1 AAGTTAAAAAAATAAATGACCTAGAATGAGCCAAGGTAAAAAAT
9331750 GACTAGGTCT
Statistics
Matches: 89, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
64 3 0.03
65 84 0.94
66 2 0.02
ACGTcount: A:0.51, C:0.13, G:0.18, T:0.17
Consensus pattern (65 bp):
AAGTTAAAAAAATAAATGACCTAGAATGAGCCAAGGTAAAAAATAAAGGACCGAGACTGAACCGC
Found at i:9332104 original size:17 final size:17
Alignment explanation
Indices: 9332063--9332110 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
9332053 AGATTCGTAA
* *
9332063 AAAATTCATAATGATTTC
1 AAAATTCACAAAGA-TTC
*
9332081 AAAATTCGCAAAGATTC
1 AAAATTCACAAAGATTC
*
9332098 AAGATTCACAAAG
1 AAAATTCACAAAG
9332111 GTTTTTAGAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 14 0.56
18 11 0.44
ACGTcount: A:0.48, C:0.15, G:0.10, T:0.27
Consensus pattern (17 bp):
AAAATTCACAAAGATTC
Found at i:9332766 original size:22 final size:22
Alignment explanation
Indices: 9332741--9332809 Score: 75
Period size: 22 Copynumber: 3.1 Consensus size: 22
9332731 ATTCAAAAAT
* *
9332741 TTTCATTTAAAAAATTTTAGGA
1 TTTCATTCAAAAAATTTAAGGA
* * *
9332763 TTTCACATCAAAAAATTAAAGAA
1 TTTCA-TTCAAAAAATTTAAGGA
*
9332786 TTTCATTCGAAAAATTTAAGGA
1 TTTCATTCAAAAAATTTAAGGA
9332808 TT
1 TT
9332810 AATATCCAAA
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
22 20 0.54
23 17 0.46
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.38
Consensus pattern (22 bp):
TTTCATTCAAAAAATTTAAGGA
Found at i:9332902 original size:81 final size:81
Alignment explanation
Indices: 9332733--9332904 Score: 188
Period size: 81 Copynumber: 2.1 Consensus size: 81
9332723 TAGCCAAAAT
* * * *
9332733 TCAAAAATTTTCATTTAAAAAATTTTAGGATTTCACATCAAAAAATTAAAGAATTTCATTCGAAA
1 TCAAAAATTTTCATTCAAAAAATTTTAGAAATTAACATCAAAAAATTAAAGAATTTCATTCGAAA
* *
9332798 AATTTAAGGATTAATA
66 AACTTAAGGATTAACA
* * * *
9332814 TCCAAAATTTAT-ATTCAAAAAATTTTAGAAATTAACATTC-AAAAGTTAAAGAGTTTTATTCGA
1 TCAAAAATTT-TCATTCAAAAAATTTTAGAAATTAACA-TCAAAAAATTAAAGAATTTCATTCGA
* *
9332877 ACAACTT-AGAGATTCACA
64 AAAACTTAAG-GATTAACA
9332895 TCAAAAATTT
1 TCAAAAATTT
9332905 CAAAATTCAC
Statistics
Matches: 75, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
80 2 0.03
81 70 0.93
82 3 0.04
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.35
Consensus pattern (81 bp):
TCAAAAATTTTCATTCAAAAAATTTTAGAAATTAACATCAAAAAATTAAAGAATTTCATTCGAAA
AACTTAAGGATTAACA
Found at i:9332914 original size:21 final size:22
Alignment explanation
Indices: 9332886--9332945 Score: 77
Period size: 21 Copynumber: 2.7 Consensus size: 22
9332876 AACAACTTAG
*
9332886 AGATTCACATCAAAAATTTCAA
1 AGATTCACATCAAAAATTTAAA
*
9332908 A-ATTCACATCCAAAATTTAAA
1 AGATTCACATCAAAAATTTAAA
*
9332929 AGATTCATATTCAAAAA
1 AGATTCACA-TCAAAAA
9332946 ATTTTAGGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 19 0.59
22 7 0.22
23 6 0.19
ACGTcount: A:0.52, C:0.17, G:0.03, T:0.28
Consensus pattern (22 bp):
AGATTCACATCAAAAATTTAAA
Found at i:9333059 original size:44 final size:44
Alignment explanation
Indices: 9332995--9333107 Score: 147
Period size: 44 Copynumber: 2.6 Consensus size: 44
9332985 TTAACAACTT
* * *
9332995 TTAGAGATTCACATTCAAAGTTTCAAAGACT-CATATTCGAAAAA
1 TTAGAGATTCATATTCAAAGTTTCAAAGA-TGCACATTCAAAAAA
* * *
9333039 TTAGAGAGTCATATTTAAAGTTTCAAAGATGTACATTCAAAAAA
1 TTAGAGATTCATATTCAAAGTTTCAAAGATGCACATTCAAAAAA
*
9333083 TTAGAGATTCATATTCAAAGATTCA
1 TTAGAGATTCATATTCAAAGTTTCA
9333108 CATTCAAAGT
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
43 1 0.02
44 58 0.98
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.32
Consensus pattern (44 bp):
TTAGAGATTCATATTCAAAGTTTCAAAGATGCACATTCAAAAAA
Found at i:9333098 original size:22 final size:22
Alignment explanation
Indices: 9333025--9333101 Score: 59
Period size: 22 Copynumber: 3.5 Consensus size: 22
9333015 TTTCAAAGAC
* *
9333025 TCATATTCGAAAAATTAGAGAG
1 TCATATTCAAAAAATTAGAGAT
* ** *
9333047 TCATATT-TAAAGTTTCAAAGAT
1 TCATATTCAAAAAATT-AGAGAT
*
9333069 GT-ACATTCAAAAAATTAGAGAT
1 -TCATATTCAAAAAATTAGAGAT
9333091 TCATATTCAAA
1 TCATATTCAAA
9333102 GATTCACATT
Statistics
Matches: 40, Mismatches: 11, Indels: 8
0.68 0.19 0.14
Matches are distributed among these distances:
21 6 0.15
22 28 0.70
23 6 0.15
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.32
Consensus pattern (22 bp):
TCATATTCAAAAAATTAGAGAT
Found at i:9333106 original size:14 final size:14
Alignment explanation
Indices: 9333087--9333121 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
9333077 AAAAAATTAG
*
9333087 AGATTCATATTCAA
1 AGATTCACATTCAA
9333101 AGATTCACATTCAA
1 AGATTCACATTCAA
*
9333115 AGTTTCA
1 AGATTCA
9333122 AATGTTCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (14 bp):
AGATTCACATTCAA
Found at i:9334445 original size:10 final size:11
Alignment explanation
Indices: 9334426--9334458 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
9334416 TTAGTCTTTA
9334426 TTCTTCTTTTT
1 TTCTTCTTTTT
9334437 TTCTT-TTTTT
1 TTCTTCTTTTT
*
9334447 TTCTCCTTTTT
1 TTCTTCTTTTT
9334458 T
1 T
9334459 AGGCTATTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (11 bp):
TTCTTCTTTTT
Found at i:9335148 original size:13 final size:13
Alignment explanation
Indices: 9335112--9335150 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
9335102 TTGCAATCGA
*
9335112 TTTTTTTTTAT-T
1 TTTTTTTTTCTCT
9335124 TTTTTTTGTTCTCT
1 TTTTTTT-TTCTCT
9335138 TTTTTTTTTCTCT
1 TTTTTTTTTCTCT
9335151 CTCTCTCTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 7 0.29
13 9 0.38
14 8 0.33
ACGTcount: A:0.03, C:0.10, G:0.03, T:0.85
Consensus pattern (13 bp):
TTTTTTTTTCTCT
Found at i:9336281 original size:133 final size:131
Alignment explanation
Indices: 9335976--9336281 Score: 375
Period size: 132 Copynumber: 2.3 Consensus size: 131
9335966 ACATACAAAA
* * * * *
9335976 ATGTATATATAAATACATGTATGCAATACATAGTAACAACAAGAATTCATATTCAAAACTATGTA
1 ATGTATATGTAAATACATGTATGCAATACATAGTAAAAATAAAAATTCATATCCAAAACTATGTA
* *
9336041 CAAAATTGAAATGGCAAAGATTTTCCTAGACAAATGAAATAACGTACATACAAAGATTTTTACAT
66 CAAAATTGAAATGGCAAAGATTTTCCTAGACAAATGAAATAACGCACATA-AAAGATGTTTACAT
9336106 AG
130 AG
* * *
9336108 ATCTATATGTAAATACATGT-TGGCAATACATAAATGAAAATAAAAATTCATATCCAAAACTATG
1 ATGTATATGTAAATACATGTAT-GCAATACAT-AGTAAAAATAAAAATTCATATCCAAAACTATG
* * *
9336172 TATAAAATTGAAA-GGCAAATATTTTCCTAGACAAATGAAATAATGCACAT-AAAGATGTTTACA
64 TACAAAATTGAAATGGCAAAGATTTTCCTAGACAAATGAAATAACGCACATAAAAGATGTTTACA
9336235 TGGATG
129 T--A-G
* * * *
9336241 TATGTATATGCAAATACATATATGTAATGCATAGTAAAAAT
1 -ATGTATATGTAAATACATGTATGCAATACATAGTAAAAAT
9336282 TCATATTCTC
Statistics
Matches: 147, Mismatches: 20, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
130 13 0.09
131 1 0.01
132 62 0.42
133 46 0.31
134 24 0.16
135 1 0.01
ACGTcount: A:0.47, C:0.11, G:0.12, T:0.30
Consensus pattern (131 bp):
ATGTATATGTAAATACATGTATGCAATACATAGTAAAAATAAAAATTCATATCCAAAACTATGTA
CAAAATTGAAATGGCAAAGATTTTCCTAGACAAATGAAATAACGCACATAAAAGATGTTTACATA
G
Found at i:9343589 original size:20 final size:21
Alignment explanation
Indices: 9343541--9343590 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
9343531 TCAATAAATC
9343541 CGTTGGTAATAATAAAAATTT
1 CGTTGGTAATAATAAAAATTT
* *
9343562 CATCGGTAATAAT-AAAATTT
1 CGTTGGTAATAATAAAAATTT
*
9343582 TGTTGGTAA
1 CGTTGGTAA
9343591 ATCCATCAGT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.40, C:0.06, G:0.16, T:0.38
Consensus pattern (21 bp):
CGTTGGTAATAATAAAAATTT
Found at i:9345128 original size:19 final size:20
Alignment explanation
Indices: 9345104--9345147 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
9345094 TTGCCTCATT
9345104 GTTTTGTAGT-CCTGTTTAA
1 GTTTTGTAGTGCCTGTTTAA
*
9345123 GTTTTGTAGTGCTTGTTTAA
1 GTTTTGTAGTGCCTGTTTAA
9345143 GTTTT
1 GTTTT
9345148 ACAATTAGGC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.14, C:0.07, G:0.23, T:0.57
Consensus pattern (20 bp):
GTTTTGTAGTGCCTGTTTAA
Found at i:9345267 original size:15 final size:15
Alignment explanation
Indices: 9345247--9345276 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
9345237 GTGAAGAAAT
9345247 TACAACACATGATTA
1 TACAACACATGATTA
9345262 TACAACACATGATTA
1 TACAACACATGATTA
9345277 GGCATAGGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.20, G:0.07, T:0.27
Consensus pattern (15 bp):
TACAACACATGATTA
Found at i:9351681 original size:132 final size:133
Alignment explanation
Indices: 9351505--9351744 Score: 367
Period size: 132 Copynumber: 1.8 Consensus size: 133
9351495 GATCATCTTT
** *
9351505 AAACATTTAATACCACAATTTTATAATTAGAATGATATGCTAATGGTATTTTAATGCATTTCATT
1 AAACATTTAATACCACAATTTTATAATTAGAATGATATGCTAATGGTATTTTAATGCA-TGAATG
* ** *
9351570 CAT-TCATGCATTAATGATTATTCTCTATAAAACTATTATTGATTGAAATTTTATTTAAGCAAAG
65 AATGAAATACATTAATGATTATTCTCTATAAAACTATTATTGATTGAAATTTTATTTAAGCAAAG
9351634 TCTC
130 TCTC
* * *
9351638 AAACCTTTAATACCATAA-TTTATAATTAGAATGATATGTTAATGGTATTTTAATGCATGAATGA
1 AAACATTTAATACCACAATTTTATAATTAGAATGATATGCTAATGGTATTTTAATGCATGAATGA
9351702 ATGAAATACATTAATGATTATTCTCTATAAAACTATTATTGAT
66 ATGAAATACATTAATGATTATTCTCTATAAAACTATTATTGAT
9351745 AAAGGAAATC
Statistics
Matches: 96, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
131 5 0.05
132 75 0.78
133 16 0.17
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (133 bp):
AAACATTTAATACCACAATTTTATAATTAGAATGATATGCTAATGGTATTTTAATGCATGAATGA
ATGAAATACATTAATGATTATTCTCTATAAAACTATTATTGATTGAAATTTTATTTAAGCAAAGT
CTC
Found at i:9352601 original size:64 final size:64
Alignment explanation
Indices: 9352500--9352627 Score: 238
Period size: 64 Copynumber: 2.0 Consensus size: 64
9352490 TTAGTATGCC
9352500 ATACAAAATACTCATGAATAACATCATACATAAGTTTCCCTTAGTTAACTTTGATTGTTTGTTT
1 ATACAAAATACTCATGAATAACATCATACATAAGTTTCCCTTAGTTAACTTTGATTGTTTGTTT
* *
9352564 ATACAAAATACTCATGAATAATATCATACATAAGTTTCCCTTTGTTAACTTTGATTGTTTGTTT
1 ATACAAAATACTCATGAATAACATCATACATAAGTTTCCCTTAGTTAACTTTGATTGTTTGTTT
9352628 TCATGCCTTT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.42
Consensus pattern (64 bp):
ATACAAAATACTCATGAATAACATCATACATAAGTTTCCCTTAGTTAACTTTGATTGTTTGTTT
Found at i:9355797 original size:50 final size:51
Alignment explanation
Indices: 9355717--9355817 Score: 177
Period size: 50 Copynumber: 2.0 Consensus size: 51
9355707 TGCCACATCA
9355717 TCCTCAAGTCATTTTTCTTAACCAATAAAAAAAGACTTAATACCATGTCAT
1 TCCTCAAGTCATTTTTCTTAACCAATAAAAAAAGACTTAATACCATGTCAT
* *
9355768 TCCT-AAGTCATTTTTCTTAACCAATAAAAAAAGATTTAATGCCATGTCAT
1 TCCTCAAGTCATTTTTCTTAACCAATAAAAAAAGACTTAATACCATGTCAT
9355818 CCATTAGTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
50 44 0.92
51 4 0.08
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.35
Consensus pattern (51 bp):
TCCTCAAGTCATTTTTCTTAACCAATAAAAAAAGACTTAATACCATGTCAT
Found at i:9356120 original size:21 final size:20
Alignment explanation
Indices: 9356090--9356129 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
9356080 ATTCTAATGC
9356090 ATCAAGAATTATCCAAGATTG
1 ATCAAGAATTAT-CAAGATTG
*
9356111 ATCAATAATTATCAAGATT
1 ATCAAGAATTATCAAGATT
9356130 CTTCAAGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (20 bp):
ATCAAGAATTATCAAGATTG
Found at i:9356135 original size:20 final size:21
Alignment explanation
Indices: 9356089--9356137 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
9356079 CATTCTAATG
9356089 CATCAAGAATTATCCAAGATT
1 CATCAAGAATTATCCAAGATT
* *
9356110 GATCAATAATTAT-CAAGATT
1 CATCAAGAATTATCCAAGATT
*
9356130 CTTCAAGA
1 CATCAAGA
9356138 TTCATTCTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.31
Consensus pattern (21 bp):
CATCAAGAATTATCCAAGATT
Found at i:9369299 original size:13 final size:13
Alignment explanation
Indices: 9369269--9369298 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
9369259 CTCAATTTGG
9369269 TTTTTATTTTATA
1 TTTTTATTTTATA
9369282 TTTTTA-TTTATA
1 TTTTTATTTTATA
9369294 TTTTT
1 TTTTT
9369299 TTTCCTTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTATTTTATA
Found at i:9369329 original size:4 final size:4
Alignment explanation
Indices: 9369316--9369548 Score: 72
Period size: 4 Copynumber: 57.8 Consensus size: 4
9369306 TCTTTTGTAT
* * * * *
9369316 TTTA TGTA TTTA -TTA TTTA TTTA -TTA TTACTA TGTA TTAA TATA TGTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT--TA TTTA TTTA TTTA TTTA
* * * * * * * *
9369364 TATC TTTA TTTA TTTA TTCA TTTT TTTG TTAATA TCTA TATA TGTA TTTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT--TA TTTA TTTA TTTA -TTTA
* * *
9369415 TTTA TCTA GTTA TATA TTTA -TTA TTATAA TTTA TTTA -TTA -TTA -TTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TT-T-A TTTA TTTA TTTA TTTA TTTA
* * *
9369461 TTT- TTTA TTTA TCTTG TAATA TTT- TTTA TTTA TCTTA -TTA TTATT
1 TTTA TTTA TTTA T-TTA T-TTA TTTA TTTA TTTA T-TTA TTTA TT-TA
* * * * *
9369506 TTTA ATTA TCTG TTATA TTTT TTTA TTT- TTTA TTTT TTTA TTT
1 TTTA TTTA TTTA TT-TA TTTA TTTA TTTA TTTA TTTA TTTA TTT
9369549 TTTCGTTTAT
Statistics
Matches: 166, Mismatches: 44, Indels: 38
0.67 0.18 0.15
Matches are distributed among these distances:
3 30 0.18
4 109 0.66
5 19 0.11
6 8 0.05
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.67
Consensus pattern (4 bp):
TTTA
Found at i:9369420 original size:21 final size:20
Alignment explanation
Indices: 9369396--9369533 Score: 75
Period size: 21 Copynumber: 7.0 Consensus size: 20
9369386 TTTTTGTTAA
9369396 TATCTATATATGTATTTTATT
1 TATCTATATAT-TATTTTATT
9369417 TATCTAGT-TA-TATATTTA-T
1 TATCTA-TATATTAT-TTTATT
9369436 TAT-TATA-ATT-TATTTA-T
1 TATCTATATATTAT-TTTATT
9369453 TAT-TAT-TATT-TTTTATT
1 TATCTATATATTATTTTATT
*
9369470 TATCTTGTAATATT-TTTTATT
1 TATC-TAT-ATATTATTTTATT
*
9369491 TATCT-TATTATTATTTTTAAT
1 TATCTATA-TATTA-TTTTATT
* *
9369512 TATCTGTTATATTTTTTTATT
1 TATCT-ATATATTATTTTATT
9369533 T
1 T
9369534 TTTATTTTTT
Statistics
Matches: 98, Mismatches: 4, Indels: 30
0.74 0.03 0.23
Matches are distributed among these distances:
16 4 0.04
17 23 0.23
18 4 0.04
19 14 0.14
20 5 0.05
21 41 0.42
22 5 0.05
23 2 0.02
ACGTcount: A:0.27, C:0.04, G:0.03, T:0.67
Consensus pattern (20 bp):
TATCTATATATTATTTTATT
Found at i:9369436 original size:20 final size:19
Alignment explanation
Indices: 9369316--9369548 Score: 96
Period size: 17 Copynumber: 12.2 Consensus size: 19
9369306 TCTTTTGTAT
*
9369316 TTTATGTATT-TATTATTTA
1 TTTATCTATTATATT-TTTA
*
9369335 TTTAT-TATTACTA--TGTA
1 TTTATCTATTA-TATTTTTA
* * *
9369352 TTAATATATGTATATCTTTA
1 TTTATCTAT-TATATTTTTA
* * *
9369372 TTTATTTATTCATTTTTTTG
1 TTTATCTATT-ATATTTTTA
*
9369392 TTAATATCTATATATGTATTTTA
1 TT--TATCTAT-TATAT-TTTTA
*
9369415 TTTATCTAGTTATATATTTA
1 TTTATCTA-TTATATTTTTA
*
9369435 -TTAT-TATAAT-TTATTTA
1 TTTATCTATTATATT-TTTA
9369452 -TTAT-TATTAT-TTTTTA
1 TTTATCTATTATATTTTTA
9369468 TTTATCT-TGTAATATTTTTTA
1 TTTATCTAT-T-ATA-TTTTTA
9369489 TTTATCTTATTATTATTTTTA
1 TTTATC-TATTA-TATTTTTA
* *
9369510 ATTATCTGTTATA-TTTT-
1 TTTATCTATTATATTTTTA
* * *
9369527 TTTATTTTTTATTTTTTTA
1 TTTATCTATTATATTTTTA
9369546 TTT
1 TTT
9369549 TTTCGTTTAT
Statistics
Matches: 168, Mismatches: 22, Indels: 48
0.71 0.09 0.20
Matches are distributed among these distances:
16 5 0.03
17 39 0.23
18 21 0.12
19 19 0.11
20 28 0.17
21 34 0.20
22 14 0.08
23 8 0.05
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.67
Consensus pattern (19 bp):
TTTATCTATTATATTTTTA
Found at i:9369472 original size:17 final size:17
Alignment explanation
Indices: 9369271--9369551 Score: 70
Period size: 17 Copynumber: 15.9 Consensus size: 17
9369261 CAATTTGGTT
9369271 TTTATT-TTATATTTTTA
1 TTTATTATTAT-TTTTTA
*
9369288 TTTA-TATT-TTTTTTCC
1 TTTATTATTATTTTTT-A
* * *
9369304 TTTCTT-TTGTATTTTA
1 TTTATTATTATTTTTTA
*
9369320 TGTATTTATTATTTATTTA
1 TTTA-TTATTATTT-TTTA
* * *
9369339 -TTATTACTATGTATTAA
1 TTTATTATTAT-TTTTTA
* *
9369356 TATATGTATATCTTTATTTA
1 TTTAT-TAT-TATTT-TTTA
*
9369376 TTTATTCATTTTTTTGTTA
1 TTTATT-ATTATTTT-TTA
*
9369395 -ATATCTATATATGTATTTTA
1 TTTAT-TAT-TAT-T-TTTTA
*
9369415 TTTATCTAGTTATATATTTA
1 TTTAT-TA-TTAT-TTTTTA
*
9369435 -TTATTATAATTTATTTA
1 TTTATTATTATTT-TTTA
9369452 -TTATTATTATTTTTTA
1 TTTATTATTATTTTTTA
*
9369468 TTTATCTTGTAATATTTTTTA
1 TTTA---T-TATTATTTTTTA
* *
9369489 TTTA-TCTTA-TTATTA
1 TTTATTATTATTTTTTA
*
9369504 TTT-TTAATTATCTGTTATA
1 TTTATT-ATTAT-T-TTTTA
9369523 TTT-TT-TTATTTTTTA
1 TTTATTATTATTTTTTA
9369538 TTT-TT-TTATTTTTT
1 TTTATTATTATTTTTT
9369552 CGTTTATCTG
Statistics
Matches: 198, Mismatches: 35, Indels: 64
0.67 0.12 0.22
Matches are distributed among these distances:
15 32 0.16
16 21 0.11
17 48 0.24
18 19 0.10
19 30 0.15
20 20 0.10
21 27 0.14
22 1 0.01
ACGTcount: A:0.24, C:0.04, G:0.03, T:0.69
Consensus pattern (17 bp):
TTTATTATTATTTTTTA
Found at i:9369524 original size:41 final size:42
Alignment explanation
Indices: 9369444--9369539 Score: 126
Period size: 42 Copynumber: 2.3 Consensus size: 42
9369434 ATTATTATAA
*
9369444 TTTATTTATTATTATTATTTTTTATTTATCTTGTAATA-TTT
1 TTTATTTATTATTATTATTTTTTAATTATCTTGTAATATTTT
*
9369485 TTTATTTATCTTATTATTA-TTTTTAATTATC-TGTTATATTTT
1 TTTATTTA--TTATTATTATTTTTTAATTATCTTGTAATATTTT
*
9369527 TTTATTTTTTATT
1 TTTATTTATTATT
9369540 TTTTTATTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
40 5 0.10
41 14 0.29
42 21 0.43
43 9 0.18
ACGTcount: A:0.23, C:0.03, G:0.02, T:0.72
Consensus pattern (42 bp):
TTTATTTATTATTATTATTTTTTAATTATCTTGTAATATTTT
Found at i:9369547 original size:42 final size:43
Alignment explanation
Indices: 9369443--9369550 Score: 125
Period size: 42 Copynumber: 2.5 Consensus size: 43
9369433 TATTATTATA
*
9369443 ATTTATTTATTATTATTATTTTTTATTTATCTTGTAATATTTTTT
1 ATTTATTTATT-TTATTA-TTTTTAATTATCTTGTAATATTTTTT
*
9369488 ATTTATCTTA--TTATTATTTTTAATTATC-TGTTATATTTTTTT
1 ATTTAT-TTATTTTATTATTTTTAATTATCTTGTAATA-TTTTTT
*
9369530 ATTT-TTTATTTTTTTATTTTT
1 ATTTATTTATTTTATTATTTTT
9369551 TCGTTTATCT
Statistics
Matches: 56, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
40 3 0.05
41 7 0.12
42 31 0.55
43 6 0.11
45 6 0.11
46 3 0.05
ACGTcount: A:0.22, C:0.03, G:0.02, T:0.73
Consensus pattern (43 bp):
ATTTATTTATTTTATTATTTTTAATTATCTTGTAATATTTTTT
Found at i:9369566 original size:22 final size:21
Alignment explanation
Indices: 9369541--9369595 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 21
9369531 TTTTTTATTT
*
9369541 TTTTATTTTTTCGTTTATCTGA
1 TTTT-TTTTTTCGTTTATCAGA
9369563 TTTTTTTTTCTCGTTTATCAGA
1 TTTTTTTTT-TCGTTTATCAGA
9369585 TTTCTTTTTTT
1 TTT-TTTTTTT
9369596 TTTTTTGGGT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 5 0.17
22 19 0.63
23 6 0.20
ACGTcount: A:0.11, C:0.11, G:0.07, T:0.71
Consensus pattern (21 bp):
TTTTTTTTTTCGTTTATCAGA
Found at i:9370514 original size:17 final size:17
Alignment explanation
Indices: 9370494--9370565 Score: 51
Period size: 17 Copynumber: 4.2 Consensus size: 17
9370484 ATTTAATATT
9370494 TTTTTATCTTTATTTTA
1 TTTTTATCTTTATTTTA
* *
9370511 TTTTTATTTTTGTTTTA
1 TTTTTATCTTTATTTTA
* * *
9370528 -CTCT-TCTTTATTTTT
1 TTTTTATCTTTATTTTA
9370543 TTATTTAT-TTTCACTTTTA
1 TT-TTTATCTTT-A-TTTTA
9370562 TTTT
1 TTTT
9370566 GTTTTATTAT
Statistics
Matches: 40, Mismatches: 10, Indels: 9
0.68 0.17 0.15
Matches are distributed among these distances:
15 8 0.20
16 2 0.05
17 20 0.50
18 4 0.10
19 6 0.15
ACGTcount: A:0.14, C:0.08, G:0.01, T:0.76
Consensus pattern (17 bp):
TTTTTATCTTTATTTTA
Found at i:9370662 original size:59 final size:57
Alignment explanation
Indices: 9370580--9370813 Score: 273
Period size: 57 Copynumber: 4.1 Consensus size: 57
9370570 TATTATTCTA
* * *
9370580 TTTTCTT-TAAATAAAA-ATCAAAA-AGTATTTTTGGAGAAAAGTTGAAAGTATCAAT
1 TTTTCTTGAAAATAAAATTTCAAAAGAATATTTTTGG-GAAAAGTTGAAAGTATCAAT
*
9370635 TTTTCTTGAAAATCAAAGTTTTCAAAA-AATATTTTTGGGAAAAAGTTGAAAGTATCAA-
1 TTTTCTTGAAAAT-AAA-ATTTCAAAAGAATATTTTTGGG-AAAAGTTGAAAGTATCAAT
* **
9370693 TTTTCTTTAAAAATAAAATTTCAAAAG-AGGTTTTTGAGGAAAAGTTGAAAGTATCAAT
1 TTTTC-TTGAAAATAAAATTTCAAAAGAATATTTTTG-GGAAAAGTTGAAAGTATCAAT
* * *
9370751 TTTCCTCGAAATTAAAATTTCAAAAGAATATTTTTAGGGAAAAGTTGAAAGTATCAAT
1 TTTTCTTGAAAATAAAATTTCAAAAGAATATTTTT-GGGAAAAGTTGAAAGTATCAAT
9370809 TTTTC
1 TTTTC
9370814 CTGCACAAGA
Statistics
Matches: 153, Mismatches: 15, Indels: 19
0.82 0.08 0.10
Matches are distributed among these distances:
55 7 0.05
56 4 0.03
57 54 0.35
58 46 0.30
59 42 0.27
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.37
Consensus pattern (57 bp):
TTTTCTTGAAAATAAAATTTCAAAAGAATATTTTTGGGAAAAGTTGAAAGTATCAAT
Found at i:9370719 original size:115 final size:112
Alignment explanation
Indices: 9370579--9370811 Score: 305
Period size: 115 Copynumber: 2.0 Consensus size: 112
9370569 TTATTATTCT
* *
9370579 ATTTTCTTTAAATAAAAATCAAAAAGTA-TTTTTG-GAGAAAAGTTGAAAGTATCAATTTTTCTT
1 ATTTTCTTTAAATAAAAATCAAAAAG-AGTTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTC
*
9370642 GAAAATCAAAGTTTTCAAAA-AATATTTTT-GGGAAAAAGTTGAAAGTATCA
64 G-AAATCAAA-ATTTCAAAAGAATATTTTTAGGG-AAAAGTTGAAAGTATCA
*
9370692 ATTTTCTTTAAAAATAAAATTTC-AAAAGAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
1 ATTTTCTTT--AAATAAAA-ATCAAAAAGA-GTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
*
9370756 TCGAAATTAAAATTTCAAAAGAATATTTTTAGGGAAAAGTTGAAAGTATCA
62 TCGAAATCAAAATTTCAAAAGAATATTTTTAGGGAAAAGTTGAAAGTATCA
9370807 ATTTT
1 ATTTT
9370812 TCCTGCACAA
Statistics
Matches: 107, Mismatches: 5, Indels: 14
0.85 0.04 0.11
Matches are distributed among these distances:
113 9 0.08
114 9 0.08
115 51 0.48
116 37 0.35
117 1 0.01
ACGTcount: A:0.43, C:0.06, G:0.14, T:0.36
Consensus pattern (112 bp):
ATTTTCTTTAAATAAAAATCAAAAAGAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGA
AATCAAAATTTCAAAAGAATATTTTTAGGGAAAAGTTGAAAGTATCA
Found at i:9370860 original size:12 final size:12
Alignment explanation
Indices: 9370843--9370877 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
9370833 CTTTTCTTCC
9370843 TTTTTATTCTTA
1 TTTTTATTCTTA
*
9370855 TTTTTATTTTTA
1 TTTTTATTCTTA
*
9370867 TTTTTTTTCTT
1 TTTTTATTCTT
9370878 TAAATAATCC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.11, C:0.06, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTTATTCTTA
Found at i:9374614 original size:22 final size:22
Alignment explanation
Indices: 9374588--9374661 Score: 60
Period size: 23 Copynumber: 3.1 Consensus size: 22
9374578 ATCAATAATG
9374588 GATGAAAAATGAAAAAAAAAAA
1 GATGAAAAATGAAAAAAAAAAA
*
9374610 GATGATAAAA-AAAAAGAAAAAAA
1 GATGA-AAAATGAAAA-AAAAAAA
*
9374633 GAAGGAAAAAATGAGAAAATGAAAAAA
1 G-ATG-AAAAATGA-AAAA--AAAAAA
9374660 GA
1 GA
9374662 GATTCAAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
22 9 0.22
23 12 0.29
24 6 0.15
25 3 0.07
26 4 0.10
27 7 0.17
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (22 bp):
GATGAAAAATGAAAAAAAAAAA
Found at i:9374619 original size:15 final size:15
Alignment explanation
Indices: 9374592--9374626 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
9374582 ATAATGGATG
9374592 AAAA-ATGAAAAAAA
1 AAAAGATGAAAAAAA
*
9374606 AAAAGATGATAAAAA
1 AAAAGATGAAAAAAA
9374621 AAAAGA
1 AAAAGA
9374627 AAAAAAGAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.80, C:0.00, G:0.11, T:0.09
Consensus pattern (15 bp):
AAAAGATGAAAAAAA
Found at i:9374663 original size:15 final size:14
Alignment explanation
Indices: 9374593--9374659 Score: 52
Period size: 12 Copynumber: 4.9 Consensus size: 14
9374583 TAATGGATGA
*
9374593 AAAATGAAAAAAAA
1 AAAATGAAAAAAAG
*
9374607 AAAGATGATAAAAA-
1 AAA-ATGAAAAAAAG
9374621 AAAA-GAAAAAAAG
1 AAAATGAAAAAAAG
*
9374634 --AAGGAAAAAATGAG
1 AAAATGAAAAAA--AG
9374648 AAAATGAAAAAA
1 AAAATGAAAAAA
9374660 GAGATTCAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
11 2 0.05
12 14 0.33
13 1 0.02
14 8 0.19
15 9 0.21
16 9 0.21
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (14 bp):
AAAATGAAAAAAAG
Found at i:9375955 original size:41 final size:41
Alignment explanation
Indices: 9375909--9376382 Score: 644
Period size: 41 Copynumber: 11.4 Consensus size: 41
9375899 GTCAAAGAGT
*
9375909 AATTTACTTTCCAAAGTCATGGTGCCTCTGTTTAGAGGAGC
1 AATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
* *
9375950 AATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAGC
1 AATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
* *
9375991 AATTTACTTTCCAAAGTCATGGTGCCTTTGTTTAGAGGAGC
1 AATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
* *
9376032 AATTTACTTTCTCAAAGTCTTGGTGCTTCTGTTTAGAGGAGC
1 AATTTACTTTC-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
*
9376074 AATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
1 AATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
* *
9376115 AA-TTACTTTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGC
1 AATTTAC--TTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
*
9376157 AATTTACTTTCCAAATTCGTGGTGCCTCTGTTTAGAGGAGC
1 AATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
** *
9376198 AATTTACTTTTTAAAGTCGTGGTGCTTCTGTTTAGAGGAGC
1 AATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
* * *
9376239 AATTTACTTTCCAAATTCGTGGTGCCTCTATTTAGATGAGC
1 AATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
* * *
9376280 AATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAGT
1 AATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
* * * * *
9376321 AATTTATTTTTCCAAAGTTGTTGAGCCTCTGATTAGAGGAGC
1 AATTTA-CTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
* *
9376363 CATTTATATTTCTCAAAGTC
1 AATTTA-CTTTC-CAAAGTC
9376383 ATTGAGCCTC
Statistics
Matches: 385, Mismatches: 42, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
40 4 0.01
41 262 0.68
42 109 0.28
43 10 0.03
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.38
Consensus pattern (41 bp):
AATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
Found at i:9376074 original size:124 final size:123
Alignment explanation
Indices: 9375909--9376393 Score: 650
Period size: 124 Copynumber: 3.9 Consensus size: 123
9375899 GTCAAAGAGT
*
9375909 AATTTACTTTCCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTG
1 AATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTG
*
9375974 CCTCTATTTAGAGGAGCAATTTACTTTCCAAAGTCATGGTGCCTTTGTTTAGAGGAGC
66 CCTCTATTTAGAGGAGCAATTTACTTTCCAAAGTCATGGTGCCTCTGTTTAGAGGAGC
* *
9376032 AATTTACTTTCTCAAAGTCTTGGTGCTTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGT
1 AATTTACTTTC-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGT
* * * *
9376097 GCCTCTGTTTAGAGGAGCAA-TTACTTTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGC
65 GCCTCTATTTAGAGGAGCAATTTAC--TTTCCAAAGTCATGGTGCCTCTGTTTAGAGGAGC
* *
9376157 AATTTACTTTCCAAATTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTAAAGTCGTGGTG
1 AATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTG
* * * * * *
9376222 CTTCTGTTTAGAGGAGCAATTTACTTTCCAAATTCGTGGTGCCTCTATTTAGATGAGC
66 CCTCTATTTAGAGGAGCAATTTACTTTCCAAAGTCATGGTGCCTCTGTTTAGAGGAGC
* * * * * * *
9376280 AATTTACTTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAGTAATTTATTTTTCCAAAGTTGTTGA
1 AATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAGTCGTGGT
* * * *
9376345 GCCTCTGA-TTAGAGGAGCCATTTATATTTCTCAAAGTCATTGAGCCTCT
65 GCCTCT-ATTTAGAGGAGCAATTTA-CTTTC-CAAAGTCATGGTGCCTCT
9376394 ACCTAGAGGA
Statistics
Matches: 320, Mismatches: 34, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
123 91 0.28
124 166 0.52
125 49 0.15
126 14 0.04
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.38
Consensus pattern (123 bp):
AATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTG
CCTCTATTTAGAGGAGCAATTTACTTTCCAAAGTCATGGTGCCTCTGTTTAGAGGAGC
Found at i:9376099 original size:83 final size:82
Alignment explanation
Indices: 9375909--9376382 Score: 680
Period size: 83 Copynumber: 5.7 Consensus size: 82
9375899 GTCAAAGAGT
*
9375909 AATTTACTTTCCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTG
1 AATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTG
*
9375974 CCTCTATTTAGAGGAGC
66 CCTCTGTTTAGAGGAGC
* * *
9375991 AATTTACTTTCCAAAGTCATGGTGCCTTTGTTTAGAGGAGCAATTTACTTTCTCAAAGTCTTGGT
1 AATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTT-TCAAAGTCGTGGT
*
9376056 GCTTCTGTTTAGAGGAGC
65 GCCTCTGTTTAGAGGAGC
*
9376074 AATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAA-TTACTTTTTTCAAAGTCGTGG
1 AATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAC--TTTTCAAAGTCGTGG
*
9376138 TACCTCTGTTTAGAGGAGC
64 TGCCTCTGTTTAGAGGAGC
* *
9376157 AATTTACTTTCCAAATTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTAAAGTCGTGGTG
1 AATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTG
*
9376222 CTTCTGTTTAGAGGAGC
66 CCTCTGTTTAGAGGAGC
* * *
9376239 AATTTACTTTCCAAATTCGTGGTGCCTCTATTTAGATGAGCAATTTACTTTTCAAAGTCGTGGTG
1 AATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTG
* *
9376304 CCTCTATTTAGAGGAGT
66 CCTCTGTTTAGAGGAGC
* * * * * * *
9376321 AATTTATTTTTCCAAAGTTGTTGAGCCTCTGATTAGAGGAGCCATTTATATTTCTCAAAGTC
1 AATTTA-CTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA-CTTT-TCAAAGTC
9376383 ATTGAGCCTC
Statistics
Matches: 354, Mismatches: 31, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
82 167 0.47
83 169 0.48
84 10 0.03
85 8 0.02
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.38
Consensus pattern (82 bp):
AATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTG
CCTCTGTTTAGAGGAGC
Found at i:9376604 original size:13 final size:13
Alignment explanation
Indices: 9376582--9376616 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
9376572 GTAAGCCCAA
9376582 TTTG-ATTTTTAT
1 TTTGTATTTTTAT
9376594 TTTGTATTTTTAT
1 TTTGTATTTTTAT
9376607 TTT-TATTTTT
1 TTTGTATTTTT
9376617 TTCCTTTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.14, C:0.00, G:0.06, T:0.80
Consensus pattern (13 bp):
TTTGTATTTTTAT
Found at i:9376751 original size:21 final size:20
Alignment explanation
Indices: 9376714--9376854 Score: 77
Period size: 21 Copynumber: 7.2 Consensus size: 20
9376704 TTTTTGTTAA
9376714 TATCTA-TATATGCATTTTATT
1 TATCTATTATAT--ATTTTATT
9376735 TATCTAGTTATATA-TTTA-T
1 TATCTA-TTATATATTTTATT
* *
9376754 TAT-TATAATTTATTTTA-T
1 TATCTATTATATATTTTATT
* *
9376772 TAT-TATTATTGTTTTTTATT
1 TATCTATTA-TATATTTTATT
*
9376792 TATCT-TGTAATATTTTTTATT
1 TATCTAT-T-ATATATTTTATT
*
9376813 TATCTTATTAT-TATTTTTAAT
1 TATC-TATTATATA-TTTTATT
*
9376834 TATCTGTTATAT-TTTT-TT
1 TATCTATTATATATTTTATT
9376852 TAT
1 TAT
9376855 TTTTTTTCGT
Statistics
Matches: 98, Mismatches: 10, Indels: 27
0.73 0.07 0.20
Matches are distributed among these distances:
17 5 0.05
18 18 0.18
19 15 0.15
20 15 0.15
21 36 0.37
22 3 0.03
23 6 0.06
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.66
Consensus pattern (20 bp):
TATCTATTATATATTTTATT
Found at i:9376772 original size:18 final size:19
Alignment explanation
Indices: 9376749--9376791 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
9376739 TAGTTATATA
9376749 TTTATTATTATAATT-TAT
1 TTTATTATTATAATTGTAT
* *
9376767 TTTATTATTATTATTGTTT
1 TTTATTATTATAATTGTAT
9376786 TTTATT
1 TTTATT
9376792 TATCTTGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (19 bp):
TTTATTATTATAATTGTAT
Found at i:9376897 original size:22 final size:21
Alignment explanation
Indices: 9376854--9376905 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
9376844 ATTTTTTTTA
**
9376854 TTTTTTTTCGTTTATCTGATT
1 TTTTTTTTCGTTTATCAAATT
9376875 TTTTTTTCTCGTTTATCAAATT
1 TTTTTTT-TCGTTTATCAAATT
9376897 TCTTTTTTT
1 T-TTTTTTT
9376906 TTTCTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 7 0.26
22 14 0.52
23 6 0.22
ACGTcount: A:0.12, C:0.12, G:0.06, T:0.71
Consensus pattern (21 bp):
TTTTTTTTCGTTTATCAAATT
Found at i:9377766 original size:4 final size:4
Alignment explanation
Indices: 9377759--9377881 Score: 61
Period size: 4 Copynumber: 31.0 Consensus size: 4
9377749 TTTTTTTTGA
*
9377759 ATTT ATTT ATTT ATTT A-TT -TTT ATTT A-TT ATATT AGGTTT ATTT A-AT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT AT-TT A--TTT ATTT ATTT
9377806 ATTCT -TTT ATCTTT ATTT -TATT -TTT ATTT -TTGT -TTT ATTT -TTT
1 ATT-T ATTT A--TTT ATTT AT-TT ATTT ATTT ATT-T ATTT ATTT ATTT
*
9377849 -TTT ACTTT TTTT ATTTT ATTT ATTT ATTT ATTT
1 ATTT A-TTT ATTT A-TTT ATTT ATTT ATTT ATTT
9377882 TCACTTTTAT
Statistics
Matches: 97, Mismatches: 4, Indels: 36
0.71 0.03 0.26
Matches are distributed among these distances:
3 22 0.23
4 56 0.58
5 11 0.11
6 7 0.07
7 1 0.01
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:9377830 original size:17 final size:15
Alignment explanation
Indices: 9377764--9377873 Score: 68
Period size: 14 Copynumber: 7.1 Consensus size: 15
9377754 TTTGAATTTA
9377764 TTTA-TTTATTTATT
1 TTTATTTTATTTATT
9377778 TTTA-TTTATTATATT
1 TTTATTTTATT-TATT
* *
9377793 AGGTTTATTTAATATT-CT
1 ---TTTATTTTAT-TTATT
9377811 TTTATCTTTATTTTATT
1 TTTAT-TTTA-TTTATT
*
9377828 TTTATTTTTGTTTTATT
1 TTTA-TTTT-ATTTATT
*
9377845 TTT-TTTTACTT-TT
1 TTTATTTTATTTATT
9377858 TTTATTTTATTTATT
1 TTTATTTTATTTATT
9377873 T
1 T
9377874 ATTTATTTTC
Statistics
Matches: 75, Mismatches: 8, Indels: 25
0.69 0.07 0.23
Matches are distributed among these distances:
13 5 0.07
14 19 0.25
15 16 0.21
16 5 0.07
17 18 0.24
18 6 0.08
19 5 0.07
20 1 0.01
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (15 bp):
TTTATTTTATTTATT
Found at i:9377857 original size:9 final size:8
Alignment explanation
Indices: 9377817--9377882 Score: 55
Period size: 9 Copynumber: 8.0 Consensus size: 8
9377807 TTCTTTTATC
9377817 TTTATTTT
1 TTTATTTT
9377825 ATTT-TTATT
1 -TTTATT-TT
*
9377834 TTTGTTTT
1 TTTATTTT
*
9377842 ATT-TTTT
1 TTTATTTT
9377849 TTTACTTTT
1 TTTA-TTTT
9377858 TTTATTTT
1 TTTATTTT
*
9377866 ATTTATTTA
1 -TTTATTTT
9377875 TTTATTTT
1 TTTATTTT
9377883 CACTTTTATT
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
7 6 0.12
8 20 0.42
9 22 0.46
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.82
Consensus pattern (8 bp):
TTTATTTT
Found at i:9377863 original size:36 final size:38
Alignment explanation
Indices: 9377759--9377882 Score: 107
Period size: 36 Copynumber: 3.2 Consensus size: 38
9377749 TTTTTTTTGA
* *
9377759 ATTTATTTATTTATTTATTTTTA-TTTATTATA-TTAGGTTT
1 ATTTATTT-TTT-TTTATCTTTATTTTATTTTATTTA--TTT
* *
9377799 ATTTAATATTCTTTTATCTTTATTTTATTTTTATTT-TTGT
1 ATTT-ATTTTTTTTTATCTTTATTTTA-TTTTATTTATT-T
9377839 -TTTATTTTTTTTTA-CTTT-TTTTATTTTATTTATTT
1 ATTTATTTTTTTTTATCTTTATTTTATTTTATTTATTT
9377874 ATTTATTTT
1 ATTTATTTT
9377883 CACTTTTATT
Statistics
Matches: 71, Mismatches: 6, Indels: 18
0.75 0.06 0.19
Matches are distributed among these distances:
35 9 0.13
36 15 0.21
37 4 0.06
38 9 0.13
39 14 0.20
40 11 0.15
41 7 0.10
42 2 0.03
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.75
Consensus pattern (38 bp):
ATTTATTTTTTTTTATCTTTATTTTATTTTATTTATTT
Found at i:9377881 original size:47 final size:47
Alignment explanation
Indices: 9377805--9377917 Score: 115
Period size: 47 Copynumber: 2.4 Consensus size: 47
9377795 GTTTATTTAA
* ** *
9377805 TATTCTTTTATCTTTATTT-TATTTTTATTTT-TGTTTTATTTTTTTT
1 TATTATTTTAT-TTTATTTATATTTTTATTTTCACTTTTATTTTGTTT
*
9377851 TACTTTTTTTATTTTATTTAT-TTATTTATTTTCACTTTTATTTTGTTT
1 TA-TTATTTTATTTTATTTATATT-TTTATTTTCACTTTTATTTTGTTT
* *
9377899 TATTATTCTATTTTCTTTA
1 TATTATTTTATTTTATTTA
9377918 AATAAAAATC
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
46 11 0.20
47 31 0.55
48 14 0.25
ACGTcount: A:0.16, C:0.06, G:0.02, T:0.76
Consensus pattern (47 bp):
TATTATTTTATTTTATTTATATTTTTATTTTCACTTTTATTTTGTTT
Found at i:9377991 original size:58 final size:58
Alignment explanation
Indices: 9377917--9378075 Score: 200
Period size: 59 Copynumber: 2.8 Consensus size: 58
9377907 TATTTTCTTT
* * *
9377917 AAATAAAA-ATCAAAAAAGTATTTTTGGAGAAAAGTTAAAAGTATCAATTTTCCTTGA
1 AAATAAAATTTCAAAAAAGTATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTAA
* * *
9377974 AAATCAAAGTTTCAAAAAAATATTTTTGG-GAAAAAGTTGAAAGTATCAATTTTCTTTAA
1 AAAT-AAAATTTCAAAAAAGTATTTTTGGAG-AAAAGTTGAAAGTATCAATTTTCCTTAA
*
9378033 AAATAAAATTTCAAAAAAG-GTTTTT-GAGGAAAAGTTGAAAGTA
1 AAATAAAATTTCAAAAAAGTATTTTTGGA-GAAAAGTTGAAAGTA
9378076 AAATTTCAAA
Statistics
Matches: 88, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
56 1 0.01
57 23 0.26
58 18 0.20
59 46 0.52
ACGTcount: A:0.48, C:0.06, G:0.14, T:0.32
Consensus pattern (58 bp):
AAATAAAATTTCAAAAAAGTATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTAA
Found at i:9378096 original size:95 final size:97
Alignment explanation
Indices: 9377983--9378171 Score: 253
Period size: 95 Copynumber: 2.0 Consensus size: 97
9377973 AAAATCAAAG
*
9377983 TTTCAAAAAAATATTTTTG-GGAAAAAGTTGAAAGTATCAA-TTTTCTTTAAAAATAAAATTTCA
1 TTTCAAAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTTC-TCAAAAATAAAATTTCA
* *
9378046 AAA-AAGGTTTTT-GAGGAAAAGTTGAAAGTAAAA
64 AAAGAAGATTTTTAGA-AAAAAGTTGAAAGTAAAA
* * *
9378079 TTTCAAAAAAA-GTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAATTTCAAA
1 TTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCAAAAATAAAATTTCAAA
*
9378143 AGAATATTTTTAGAAAAAAGTTGAAAGTA
66 AGAAGATTTTTAGAAAAAAGTTGAAAGTA
9378172 TCAATTTTCC
Statistics
Matches: 82, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
95 41 0.50
96 39 0.48
97 2 0.02
ACGTcount: A:0.47, C:0.05, G:0.14, T:0.34
Consensus pattern (97 bp):
TTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCAAAAATAAAATTTCAAA
AGAAGATTTTTAGAAAAAAGTTGAAAGTAAAA
Found at i:9378120 original size:39 final size:38
Alignment explanation
Indices: 9378036--9378113 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
9378026 TCTTTAAAAA
*
9378036 TAAAATTTCAAAAAAGGTTTTTGAGGAAAAGTTGAAAG
1 TAAAATTTCAAAAAAAGTTTTTGAGGAAAAGTTGAAAG
9378074 TAAAATTTCAAAAAAAGTTTTTGAGGAAAAGTTGAAAG
1 TAAAATTTCAAAAAAAGTTTTTGAGGAAAAGTTGAAAG
9378112 TA
1 TA
9378114 TCAATTTTTC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.49, C:0.03, G:0.19, T:0.29
Consensus pattern (38 bp):
TAAAATTTCAAAAAAAGTTTTTGAGGAAAAGTTGAAAG
Found at i:9378140 original size:57 final size:58
Alignment explanation
Indices: 9378069--9378179 Score: 165
Period size: 58 Copynumber: 1.9 Consensus size: 58
9378059 AGGAAAAGTT
*
9378069 GAAAGTAAAATTTCAAAA-AA-AGTTTTT-GAGGAAAAGTTGAAAGTATCAATTTTTCTC
1 GAAAGTAAAATTTCAAAAGAATA-TTTTTAGA-AAAAAGTTGAAAGTATCAATTTTTCTC
*
9378126 GAAATTAAAATTTCAAAAGAATATTTTTAGAAAAAAGTTGAAAGTATCAATTTT
1 GAAAGTAAAATTTCAAAAGAATATTTTTAGAAAAAAGTTGAAAGTATCAATTTT
9378180 CCCTGCACAT
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
57 17 0.35
58 29 0.59
59 3 0.06
ACGTcount: A:0.47, C:0.05, G:0.14, T:0.34
Consensus pattern (58 bp):
GAAAGTAAAATTTCAAAAGAATATTTTTAGAAAAAAGTTGAAAGTATCAATTTTTCTC
Found at i:9378221 original size:18 final size:17
Alignment explanation
Indices: 9378198--9378243 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
9378188 ATGAACAATC
9378198 ATTCTTTTCTTCATTTTT
1 ATTCTTTT-TTCATTTTT
*
9378216 ATTCTTATTTTTATTTTT
1 ATTCTT-TTTTCATTTTT
9378234 ATT-TTTTTTC
1 ATTCTTTTTTC
9378244 TTTAAATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 4 0.16
17 2 0.08
18 17 0.68
19 2 0.08
ACGTcount: A:0.13, C:0.11, G:0.00, T:0.76
Consensus pattern (17 bp):
ATTCTTTTTTCATTTTT
Found at i:9378225 original size:12 final size:12
Alignment explanation
Indices: 9378204--9378245 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
9378194 AATCATTCTT
9378204 TTCTTCATTTTTA
1 TTCTT-ATTTTTA
9378217 TTCTTATTTTTA
1 TTCTTATTTTTA
* *
9378229 TTTTTATTTTTT
1 TTCTTATTTTTA
9378241 TTCTT
1 TTCTT
9378246 TAAATAATCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
12 21 0.81
13 5 0.19
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.79
Consensus pattern (12 bp):
TTCTTATTTTTA
Found at i:9378229 original size:6 final size:6
Alignment explanation
Indices: 9378210--9378239 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
9378200 TCTTTTCTTC
*
9378210 ATTTTT ATTCTT ATTTTT ATTTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
9378240 TTTCTTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (6 bp):
ATTTTT
Found at i:9385590 original size:23 final size:24
Alignment explanation
Indices: 9385534--9385590 Score: 62
Period size: 28 Copynumber: 2.2 Consensus size: 24
9385524 TCGAGATTAA
*
9385534 ATATTTTTATTTTAGAATATAAATT
1 ATATTTTTATTTTA-AATAAAAATT
9385559 ATTTAATTTTTATTTT-AATAAAAATT
1 A--T-ATTTTTATTTTAAATAAAAATT
9385585 ATATTT
1 ATATTT
9385591 ATTTAGCTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
23 4 0.14
24 1 0.04
25 1 0.04
26 10 0.36
27 1 0.04
28 11 0.39
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (24 bp):
ATATTTTTATTTTAAATAAAAATT
Found at i:9385749 original size:21 final size:20
Alignment explanation
Indices: 9385709--9385755 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 20
9385699 TTATATTATG
9385709 TTAAAATTTAATATGTAA-T
1 TTAAAATTTAATATGTAATT
*
9385728 TTAAAATGTTATTATAGTAATT
1 TTAAAAT-TTAATAT-GTAATT
9385750 TTAAAA
1 TTAAAA
9385756 CAAAAGTCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 7 0.29
20 6 0.25
21 4 0.17
22 7 0.29
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (20 bp):
TTAAAATTTAATATGTAATT
Found at i:9385907 original size:61 final size:60
Alignment explanation
Indices: 9385824--9385999 Score: 180
Period size: 61 Copynumber: 2.9 Consensus size: 60
9385814 TATAAGAAGT
* *
9385824 ATTATAGTAATTTTAGCC-AATTATGGTAAAATGGATATTTTTGTAATTATGATAGAAGGGC
1 ATTATAGTAATTTTA-CCTAATTATGGTAAAAAGAATATTTTT-TAATTATGATAGAAGGGC
* * * *
9385885 ATTATAGTAATTTTACCTAATTATGGTAAGAGAAGCAT-TTATTTAATTATGGTAGAAGTGC
1 ATTATAGTAATTTTACCTAATTATGGTAA-A-AAGAATATTTTTTAATTATGATAGAAGGGC
* * *
9385946 ATTACAATAATTTTGA-CTAATTAT-GAAAAAAGCAATATTTTTATAATTATGATA
1 ATTATAGTAATTTT-ACCTAATTATGGTAAAAAG-AATATTTTT-TAATTATGATA
9386000 AAAAGACATT
Statistics
Matches: 97, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
58 3 0.03
59 3 0.03
60 9 0.09
61 72 0.74
62 6 0.06
63 4 0.04
ACGTcount: A:0.39, C:0.06, G:0.15, T:0.40
Consensus pattern (60 bp):
ATTATAGTAATTTTACCTAATTATGGTAAAAAGAATATTTTTTAATTATGATAGAAGGGC
Found at i:9393848 original size:19 final size:19
Alignment explanation
Indices: 9393824--9393871 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
9393814 TTTTTTTGGA
* *
9393824 GAATTTTCAGATTTCGGTT
1 GAATTTTCAGATGTCGATT
9393843 GAATTTTTCA-ATGTCGATT
1 GAA-TTTTCAGATGTCGATT
9393862 GAATTTTCAG
1 GAATTTTCAG
9393872 GCAAGATTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 6 0.24
19 13 0.52
20 6 0.24
ACGTcount: A:0.25, C:0.10, G:0.19, T:0.46
Consensus pattern (19 bp):
GAATTTTCAGATGTCGATT
Found at i:9398920 original size:9 final size:9
Alignment explanation
Indices: 9398906--9398987 Score: 55
Period size: 9 Copynumber: 9.1 Consensus size: 9
9398896 ATCACTAATG
9398906 AATGAAAAA
1 AATGAAAAA
*
9398915 AATG-AAAT
1 AATGAAAAA
9398923 AAT--AAAA
1 AATGAAAAA
9398930 AAT-AAAAA
1 AATGAAAAA
*
9398938 GATGAAAAA
1 AATGAAAAA
*
9398947 AAAGAAAAA
1 AATGAAAAA
*
9398956 AATTTTAAAAA
1 AA--TGAAAAA
*
9398967 AAGAGAGAAAA
1 AA-TGA-AAAA
9398978 AATGAAAAA
1 AATGAAAAA
9398987 A
1 A
9398988 GAGAGAAAAA
Statistics
Matches: 57, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
7 6 0.11
8 12 0.21
9 23 0.40
10 3 0.05
11 13 0.23
ACGTcount: A:0.76, C:0.00, G:0.11, T:0.13
Consensus pattern (9 bp):
AATGAAAAA
Found at i:9398954 original size:23 final size:23
Alignment explanation
Indices: 9398910--9398955 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
9398900 CTAATGAATG
*
9398910 AAAAAAATGAAATAATAAAAAAT
1 AAAAAAATGAAATAAAAAAAAAT
* *
9398933 AAAAAGATGAAAAAAAAGAAAAA
1 AAAAAAATGAAATAAAA-AAAAA
9398956 AATTTTAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.80, C:0.00, G:0.09, T:0.11
Consensus pattern (23 bp):
AAAAAAATGAAATAAAAAAAAAT
Found at i:9398955 original size:19 final size:19
Alignment explanation
Indices: 9398909--9398999 Score: 76
Period size: 20 Copynumber: 4.4 Consensus size: 19
9398899 ACTAATGAAT
*
9398909 GAAAAAAATGAAATAATAAAA
1 GAAAAAAATGAAA-AA-AAGA
*
9398930 AATAAAAAGATGAAAAAAA-A
1 GA-AAAAA-ATGAAAAAAAGA
*
9398950 GAAAAAAATTTTAAAAAAAGA
1 GAAAAAAA--TGAAAAAAAGA
9398971 GAGAAAAAATGAAAAAAGAGA
1 GA-AAAAAATGAAAAAA-AGA
9398992 GAAAAAAA
1 GAAAAAAA
9399000 AAAGACGCAA
Statistics
Matches: 59, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
18 1 0.02
19 5 0.08
20 23 0.39
21 11 0.19
22 13 0.22
23 6 0.10
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (19 bp):
GAAAAAAATGAAAAAAAGA
Found at i:9400145 original size:22 final size:22
Alignment explanation
Indices: 9400116--9400202 Score: 133
Period size: 22 Copynumber: 4.0 Consensus size: 22
9400106 CTTTTAAGAT
*
9400116 AGAA-CTTTTAGTTTTCAAATG
1 AGAATCTTTGAGTTTTCAAATG
9400137 AGAATCTTTGAGTTTTTCAAATG
1 AGAATCTTTGAG-TTTTCAAATG
*
9400160 AGAATATTTGAGTTTTCAAATG
1 AGAATCTTTGAGTTTTCAAATG
9400182 AGAATCTTTGAG-TTTCAAATG
1 AGAATCTTTGAGTTTTCAAATG
9400203 TGAAGCTTCA
Statistics
Matches: 61, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
21 13 0.21
22 27 0.44
23 21 0.34
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.41
Consensus pattern (22 bp):
AGAATCTTTGAGTTTTCAAATG
Found at i:9400157 original size:23 final size:23
Alignment explanation
Indices: 9400127--9400196 Score: 124
Period size: 23 Copynumber: 3.1 Consensus size: 23
9400117 GAACTTTTAG
9400127 TTTTCAAATGAGAATCTTTGAGT
1 TTTTCAAATGAGAATCTTTGAGT
*
9400150 TTTTCAAATGAGAATATTTGAG-
1 TTTTCAAATGAGAATCTTTGAGT
9400172 TTTTCAAATGAGAATCTTTGAGT
1 TTTTCAAATGAGAATCTTTGAGT
9400195 TT
1 TT
9400197 CAAATGTGAA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
22 21 0.48
23 23 0.52
ACGTcount: A:0.31, C:0.07, G:0.17, T:0.44
Consensus pattern (23 bp):
TTTTCAAATGAGAATCTTTGAGT
Found at i:9400468 original size:21 final size:21
Alignment explanation
Indices: 9400444--9400486 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
9400434 AACTTTTTGG
9400444 TGTGAATCTCTAGAATTTGAA
1 TGTGAATCTCTAGAATTTGAA
9400465 TGTGAATCTCTAGAATTTGAA
1 TGTGAATCTCTAGAATTTGAA
9400486 T
1 T
9400487 CTTTAAATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.40
Consensus pattern (21 bp):
TGTGAATCTCTAGAATTTGAA
Found at i:9400730 original size:18 final size:19
Alignment explanation
Indices: 9400683--9400731 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
9400673 TTTGGTGAAC
*
9400683 TCTTATGAAGCTAAAAAGT
1 TCTTATGAATCTAAAAAGT
* *
9400702 TCTTTTAAATCTAAAAA-T
1 TCTTATGAATCTAAAAAGT
*
9400720 TCTTGTGAATCT
1 TCTTATGAATCT
9400732 TTGAATTATG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 11 0.44
19 14 0.56
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (19 bp):
TCTTATGAATCTAAAAAGT
Found at i:9400892 original size:43 final size:43
Alignment explanation
Indices: 9400844--9401196 Score: 324
Period size: 43 Copynumber: 8.2 Consensus size: 43
9400834 GTTGAGGAGC
* *
9400844 TTTATTTTTCAAAGTTGTTGAGCCTCTATTTTGAAGAGTCA-TA
1 TTTATTTTTCAAAGTTGTTAAGCCTCTATTTAGAAGAG-CATTA
* * *
9400887 TTTATTTTTCAAAGTTGTTAAGCCTTTGTTTAGAGGAGACA-TA
1 TTTATTTTTCAAAGTTGTTAAGCCTCTATTTAGAAGAG-CATTA
* * *
9400930 TTTATTTTTAAAAGTTGTTAAGCCTCTGTTTAGATGAGCCA-TA
1 TTTATTTTTCAAAGTTGTTAAGCCTCTATTTAGAAGAG-CATTA
* ***
9400973 TTTATTTTTCAAAGTTGTTAAGCATCTGA-TTAG-AGAAGCCCGA
1 TTTATTTTTCAAAGTTGTTAAGCCTCT-ATTTAGAAG-AGCATTA
* * *
9401016 TTTATTTTTCAAAAGTTATTGAGCCTCTGTTTA-AGAGAGCATTA
1 TTTATTTTTC-AAAGTTGTTAAGCCTCTATTTAGA-AGAGCATTA
* * * * * * *
9401060 TTTATTTTCCAAAAGTTATTGAGCTTTTCTTTAGATGAGCATTA
1 TTTATTTTTC-AAAGTTGTTAAGCCTCTATTTAGAAGAGCATTA
* * *
9401104 TTTATTTTTCAAAGTTGTTGAGCCTCTATTTAAAATCA-CATTA
1 TTTATTTTTCAAAGTTGTTAAGCCTCTATTTAGAA-GAGCATTA
* * *
9401147 TTTATATTCCAAAGTTGTTAAGCCTCTATTTAGAGGAGCATTA
1 TTTATTTTTCAAAGTTGTTAAGCCTCTATTTAGAAGAGCATTA
9401190 TTTATTT
1 TTTATTT
9401197 CCAAAGTCAT
Statistics
Matches: 257, Mismatches: 43, Indels: 20
0.80 0.13 0.06
Matches are distributed among these distances:
42 3 0.01
43 183 0.71
44 68 0.26
45 3 0.01
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.44
Consensus pattern (43 bp):
TTTATTTTTCAAAGTTGTTAAGCCTCTATTTAGAAGAGCATTA
Found at i:9401243 original size:86 final size:87
Alignment explanation
Indices: 9400844--9401245 Score: 312
Period size: 86 Copynumber: 4.7 Consensus size: 87
9400834 GTTGAGGAGC
* * *
9400844 TTTATTTTTC-AAAGTTGTTGAGCCTCTATTTTGAA-GAGTCA-TATTTATTTTT-CAAAGTTGT
1 TTTA-TTTTCAAAAGTTATTGAACCTCTA-TTTAAATGAG-CATTATTTATTTTTCCAAAGTTGT
* *
9400905 TAAGCCTTTGTTTAGAGGAGACA-TA
63 TAAGCCTCTATTTAGAGGAG-CATTA
* * * *
9400930 TTTATTTTTAAAAGTTGTT-AAGCCTCTGTTTAGATGAGCCA-TATTTATTTTT-CAAAGTTGTT
1 TTTATTTTCAAAAGTTATTGAA-CCTCTATTTAAATGAG-CATTATTTATTTTTCCAAAGTTGTT
* * ***
9400992 AAGCATCTGA-TTAGAGAAGCCCGA
64 AAGCCTCT-ATTTAGAGGAGCATTA
* * *
9401016 TTTATTTTTCAAAAGTTATTGAGCCTCTGTTTAAGA-GAGCATTATTTA-TTTTCCAAAAGTTAT
1 TTTA-TTTTCAAAAGTTATTGAACCTCTATTTAA-ATGAGCATTATTTATTTTTCC-AAAGTTGT
* * * * *
9401079 TGAGCTTTTCTTTAGATGAGCATTA
63 TAAGCCTCTATTTAGAGGAGCATTA
* * * *
9401104 TTTATTTTTC-AAAGTTGTTGAGCCTCTATTTAAAATCA-CATTATTTA-TATTCCAAAGTTGTT
1 TTTA-TTTTCAAAAGTTATTGAACCTCTATTT-AAATGAGCATTATTTATTTTTCCAAAGTTGTT
9401166 AAGCCTCTATTTAGAGGAGCATTA
64 AAGCCTCTATTTAGAGGAGCATTA
* * * * *
9401190 TTTA-TTTCCAAAGTCATTGAACCTTTATTTAAATAAGCCTTATTTATTTTTCCAAA
1 TTTATTTTCAAAAGTTATTGAACCTCTATTTAAATGAGCATTATTTATTTTTCCAAA
9401246 AGTCATGAGC
Statistics
Matches: 256, Mismatches: 43, Indels: 34
0.77 0.13 0.10
Matches are distributed among these distances:
84 9 0.04
85 35 0.14
86 108 0.42
87 67 0.26
88 37 0.14
ACGTcount: A:0.29, C:0.13, G:0.14, T:0.44
Consensus pattern (87 bp):
TTTATTTTCAAAAGTTATTGAACCTCTATTTAAATGAGCATTATTTATTTTTCCAAAGTTGTTAA
GCCTCTATTTAGAGGAGCATTA
Found at i:9401257 original size:86 final size:86
Alignment explanation
Indices: 9401015--9401257 Score: 213
Period size: 87 Copynumber: 2.8 Consensus size: 86
9401005 GAGAAGCCCG
* * * * * * * *
9401015 ATTTATTTTTCAAAAGTTATTGAGCCTCTGTTTAAGAGAGCATTATTTATTTTCCAAAAGTTATT
1 ATTTA-TTTTCCAAAGTCATTGAACCTCTATTTAAAATAACATTATTTATTTTCCAAAAGTCA-T
* * * *
9401080 GAGCTTTTCTTTAGATGAGCATT
64 GAGCCTCTATTTAGAGGAGCATT
* ** * * * ** *
9401103 ATTTATTTTTCAAAGTTGTTGAGCCTCTATTTAAAATCACATTATTTATATTCC-AAAGTTGTTA
1 ATTTATTTTCCAAAGTCATTGAACCTCTATTTAAAATAACATTATTTATTTTCCAAAAG-TCATG
9401167 AGCCTCTATTTAGAGGAGCATT
65 AGCCTCTATTTAGAGGAGCATT
* *
9401189 ATTTA-TTTCCAAAGTCATTGAACCTTTATTT-AAATAAGCCTTATTTATTTTTCCAAAAGTCAT
1 ATTTATTTTCCAAAGTCATTGAACCTCTATTTAAAATAA-CATTATTTA-TTTTCCAAAAGTCAT
9401252 GAGCCT
64 GAGCCT
9401258 TTGTTTAGGG
Statistics
Matches: 124, Mismatches: 27, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
84 5 0.04
85 29 0.23
86 40 0.32
87 45 0.36
88 5 0.04
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (86 bp):
ATTTATTTTCCAAAGTCATTGAACCTCTATTTAAAATAACATTATTTATTTTCCAAAAGTCATGA
GCCTCTATTTAGAGGAGCATT
Found at i:9402842 original size:33 final size:34
Alignment explanation
Indices: 9402778--9402843 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 34
9402768 TAAAATTTCA
*** *
9402778 ATAAAAATAATTAATATTTATTTTTTAAAAAAAG
1 ATAAAAATAATTAATAAAAATTTTTGAAAAAAAG
*
9402812 ATAAAAAT-ATTAATAAAAATTTTTGGAAAAAA
1 ATAAAAATAATTAATAAAAATTTTTGAAAAAAA
9402844 TACTAATTAC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
33 19 0.70
34 8 0.30
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (34 bp):
ATAAAAATAATTAATAAAAATTTTTGAAAAAAAG
Found at i:9404827 original size:186 final size:184
Alignment explanation
Indices: 9404490--9404827 Score: 427
Period size: 186 Copynumber: 1.8 Consensus size: 184
9404480 ACACTTACTT
9404490 TTATTGAAATTTCATCTAAATTATTTCACCATTTGGGACAAATTTAGAGAAATTTCTCACCTAAA
1 TTATTGAAATTTCATCTAAATTATTTCACCATTTGGGACAAATTTAGAGAAATTTCTCACCTAAA
* * * * *
9404555 GATTTCTTAAAAATTTACCATTTGAAATTTCTAAGAATTTCATCCTTGGGTAATTAGTATTTTTT
66 GATTTCTTAAAAATTTACCATTTGAAATTTCTAAGAATTCCATCATTGGATAATTAATATTTTTC
9404620 CCAAAATTTTTATTAATATTTTTTCTTTTTTTTTTAAATAAATATTAATTATTG
131 CCAAAATTTTTATTAATATTTTTTCTTTTTTTTTTAAATAAATATTAATTATTG
* * * * * *
9404674 TTATTGAAATTTTTATGTAAATTA-TTCGACCATTTGGGATAAATTTAGATAAATTTTTTTACCT
1 TTATTGAAA-TTTCATCTAAATTATTTC-ACCATTTGGGACAAATTTAGAGAAA-TTTCTCACCT
* * * *
9404738 -AGGAATTT-TATATAAATTTATCATTTGAAATTTCTATA-AATTCCATTATTGGATAATTAATA
63 AAAG-ATTTCT-TAAAAATTTACCATTTGAAATTTCTA-AGAATTCCATCATTGGATAATTAATA
9404800 TTTATTCCCAAAATTTATT-TT-ATATTTT
125 TTT-TTCCCAAAATTT-TTATTAATATTTT
9404828 CCTTAAACTT
Statistics
Matches: 131, Mismatches: 15, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
184 12 0.09
185 38 0.29
186 65 0.50
187 14 0.11
188 2 0.02
ACGTcount: A:0.34, C:0.09, G:0.08, T:0.49
Consensus pattern (184 bp):
TTATTGAAATTTCATCTAAATTATTTCACCATTTGGGACAAATTTAGAGAAATTTCTCACCTAAA
GATTTCTTAAAAATTTACCATTTGAAATTTCTAAGAATTCCATCATTGGATAATTAATATTTTTC
CCAAAATTTTTATTAATATTTTTTCTTTTTTTTTTAAATAAATATTAATTATTG
Found at i:9407330 original size:77 final size:77
Alignment explanation
Indices: 9407244--9407406 Score: 317
Period size: 77 Copynumber: 2.1 Consensus size: 77
9407234 TTTATTTTAC
9407244 TTTAAAATTTTTTAATTTTTTATTAAAATTATTATTTTTATGAAAGAAAAGAGAAATTTTTATGA
1 TTTAAAATTTTTTAATTTTTTATTAAAATTATTATTTTTATGAAAGAAAAGAGAAATTTTTATGA
9407309 TATTGAAAATTT
66 TATTGAAAATTT
9407321 TTTAAAATTTTTTAATTTTTTATTAAAATTATTATTTTTATGAAAGAAAAGAGAAATTTTTATGA
1 TTTAAAATTTTTTAATTTTTTATTAAAATTATTATTTTTATGAAAGAAAAGAGAAATTTTTATGA
9407386 TATTGAAAATTT
66 TATTGAAAATTT
9407398 TTTATAAAT
1 TTTA-AAAT
9407407 ATTCTAATAT
Statistics
Matches: 85, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
77 81 0.95
78 4 0.05
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (77 bp):
TTTAAAATTTTTTAATTTTTTATTAAAATTATTATTTTTATGAAAGAAAAGAGAAATTTTTATGA
TATTGAAAATTT
Found at i:9408396 original size:73 final size:71
Alignment explanation
Indices: 9408239--9408425 Score: 184
Period size: 73 Copynumber: 2.6 Consensus size: 71
9408229 TGTTCCAAGG
* *
9408239 CATACCCAATCGATTCCTTTC-ATAAGGGGATCGATTGGTTCATGTTTAGTGCCATTTACACCTT
1 CATACCCAATCGA-TCCTTTCAATGAGGGGATCGATTGGTTCATATTTAGTGCCATTTACACCTT
9408303 CAAAAAT
65 CAAAAAT
* ** *
9408310 CATGACCCGATCGATCCTTTCAATGAGAAGATCGATTGGTTCATATTTTG-GAACCAATTT-CAC
1 CAT-ACCCAATCGATCCTTTCAATGAGGGGATCGATTGGTTCATATTTAGTG--CC-ATTTACAC
**
9408373 CTTTGAAAAT
62 CTTCAAAAAT
* * *
9408383 GCCTACCCAATCGATCCCTT-AAGTGAGGGGATCAATTGGTTCA
1 -CATACCCAATCGATCCTTTCAA-TGAGGGGATCGATTGGTTCA
9408426 AGGGGGTGAT
Statistics
Matches: 95, Mismatches: 14, Indels: 12
0.79 0.12 0.10
Matches are distributed among these distances:
71 11 0.12
72 34 0.36
73 44 0.46
74 6 0.06
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (71 bp):
CATACCCAATCGATCCTTTCAATGAGGGGATCGATTGGTTCATATTTAGTGCCATTTACACCTTC
AAAAAT
Found at i:9415768 original size:21 final size:21
Alignment explanation
Indices: 9415726--9415769 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
9415716 CCATTTTTTA
* *
9415726 TTAATTTTATTCTTATTTTAG
1 TTAATTTTATTCTCATTATAG
9415747 TTAATTTTATT-TCATTAATAG
1 TTAATTTTATTCTCATT-ATAG
9415768 TT
1 TT
9415770 TTTGGTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.64
Consensus pattern (21 bp):
TTAATTTTATTCTCATTATAG
Found at i:9415970 original size:11 final size:11
Alignment explanation
Indices: 9415942--9416008 Score: 55
Period size: 12 Copynumber: 5.8 Consensus size: 11
9415932 TTAGATAAAA
9415942 ATTTATTTTCTT
1 ATTT-TTTTCTT
9415954 ATTTTTTTCATT
1 ATTTTTTTC-TT
*
9415966 ATTTTTAT-TT
1 ATTTTTTTCTT
*
9415976 ATTTTTTTAGTT
1 ATTTTTTT-CTT
*
9415988 ATTATTCTTCTT
1 ATT-TTTTTCTT
*
9416000 TTTTTTTTC
1 ATTTTTTTC
9416009 AAATTTACAA
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
10 9 0.20
11 10 0.22
12 22 0.49
13 4 0.09
ACGTcount: A:0.15, C:0.07, G:0.01, T:0.76
Consensus pattern (11 bp):
ATTTTTTTCTT
Found at i:9416002 original size:22 final size:19
Alignment explanation
Indices: 9415944--9416005 Score: 52
Period size: 21 Copynumber: 2.9 Consensus size: 19
9415934 AGATAAAAAT
*
9415944 TTATTTTCTTATTTTTTTCA
1 TTATTTTCTT-TTTTTTTTA
*
9415964 TTATTTTTATTTATTTTTTTA
1 TTA-TTTTCTTT-TTTTTTTA
9415985 GTTATTATTCTTCTTTTTTTT
1 -TTATT-TTCTT-TTTTTTTT
9416006 TTCAAATTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
20 4 0.12
21 15 0.44
22 14 0.41
23 1 0.03
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.77
Consensus pattern (19 bp):
TTATTTTCTTTTTTTTTTA
Found at i:9416193 original size:3 final size:3
Alignment explanation
Indices: 9416187--9416230 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
9416177 TTTTGGACTC
9416187 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
9416231 AAAAAATAAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:9417444 original size:17 final size:17
Alignment explanation
Indices: 9417422--9417462 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
9417412 CCCCTTGCCT
9417422 TTTTTTATTTT-TTTATG
1 TTTTTTATTTTCTTT-TG
*
9417439 TTTTTTGTTTTCTTTTG
1 TTTTTTATTTTCTTTTG
9417456 TTTTTTA
1 TTTTTTA
9417463 GTTTAATCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 18 0.86
18 3 0.14
ACGTcount: A:0.07, C:0.02, G:0.07, T:0.83
Consensus pattern (17 bp):
TTTTTTATTTTCTTTTG
Found at i:9417527 original size:17 final size:17
Alignment explanation
Indices: 9417507--9417539 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9417497 ATATAAATGA
*
9417507 TAAAATTAAAATAAAAG
1 TAAAATGAAAATAAAAG
9417524 TAAAATGAAAATAAAA
1 TAAAATGAAAATAAAA
9417540 AAGTGGGTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.21
Consensus pattern (17 bp):
TAAAATGAAAATAAAAG
Found at i:9417939 original size:51 final size:52
Alignment explanation
Indices: 9417863--9418001 Score: 203
Period size: 51 Copynumber: 2.7 Consensus size: 52
9417853 AATTTAAAAT
* *
9417863 AGCTCCTCTAAGCAGAGGTTTAGCAACTTTAAAAAATT-TCATCTTGAGAAA
1 AGCTCCTCTAAGCAGAGGCTCAGCAACTTTAAAAAATTATCATCTTGAGAAA
9417914 AGCTCCGT-TAAGCAGAGGCTCAGCAACTTT-AAAAATTATCATCTTGAGAAA
1 AGCTCC-TCTAAGCAGAGGCTCAGCAACTTTAAAAAATTATCATCTTGAGAAA
* *
9417965 AGACTCTTCTAAGCAGAGGCTCAACAACTTTAAAAAA
1 AG-CTCCTCTAAGCAGAGGCTCAGCAACTTTAAAAAA
9418002 ATTTAAACAT
Statistics
Matches: 79, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
50 7 0.09
51 42 0.53
52 25 0.32
53 5 0.06
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (52 bp):
AGCTCCTCTAAGCAGAGGCTCAGCAACTTTAAAAAATTATCATCTTGAGAAA
Found at i:9418321 original size:23 final size:23
Alignment explanation
Indices: 9418272--9418332 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 23
9418262 AAGTGCCAAC
* * * *
9418272 TAATTTAGGCCTAAGGTGCTAGT
1 TAATCTAGGCTTAAAGTGCTAGG
*
9418295 TAATCTAGGCTTAAAGTGTTAGG
1 TAATCTAGGCTTAAAGTGCTAGG
*
9418318 TAATCTGGGCTTAAA
1 TAATCTAGGCTTAAA
9418333 ATGCCCACTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (23 bp):
TAATCTAGGCTTAAAGTGCTAGG
Found at i:9418438 original size:22 final size:22
Alignment explanation
Indices: 9418413--9418499 Score: 66
Period size: 22 Copynumber: 3.7 Consensus size: 22
9418403 GCTTAAAGTT
*
9418413 CAACTAATCTGGGCTTGGGTGC
1 CAACTAATCTAGGCTTGGGTGC
* *
9418435 CAACTAATCAACTTTGGGCTTAGGTGC
1 CAACTAAT---C--TAGGCTTGGGTGC
* *
9418462 CGACTGATCTAGGCTTGGGTGC
1 CAACTAATCTAGGCTTGGGTGC
* *
9418484 TAGCTAATCTAGGCTT
1 CAACTAATCTAGGCTT
9418500 AAAGTACCAA
Statistics
Matches: 51, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
22 31 0.61
24 1 0.02
25 1 0.02
27 18 0.35
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.30
Consensus pattern (22 bp):
CAACTAATCTAGGCTTGGGTGC
Found at i:9420101 original size:22 final size:23
Alignment explanation
Indices: 9420071--9420114 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
9420061 AATTTTAGCA
9420071 TTCTATTTTCTT-GAATTCTATC
1 TTCTATTTTCTTGGAATTCTATC
* *
9420093 TTCTTTTTTCTTGGGATTCTAT
1 TTCTATTTTCTTGGAATTCTAT
9420115 TGATACTTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.14, C:0.16, G:0.09, T:0.61
Consensus pattern (23 bp):
TTCTATTTTCTTGGAATTCTATC
Found at i:9426975 original size:10 final size:10
Alignment explanation
Indices: 9426960--9426989 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
9426950 GTAATAATTC
9426960 TTAAAATGTT
1 TTAAAATGTT
9426970 TTAAAATGTT
1 TTAAAATGTT
9426980 TTAAAATGTT
1 TTAAAATGTT
9426990 GGTAACATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (10 bp):
TTAAAATGTT
Found at i:9427390 original size:21 final size:20
Alignment explanation
Indices: 9427357--9427399 Score: 52
Period size: 22 Copynumber: 2.1 Consensus size: 20
9427347 TTTCATCATT
*
9427357 TTTTATT-ATTTTTATTCTTA
1 TTTTATTAATTTTAATT-TTA
9427377 TTTTAGTTAATTTTAATTTTA
1 TTTTA-TTAATTTTAATTTTA
9427398 TT
1 TT
9427400 AATAGTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 5 0.25
21 7 0.35
22 8 0.40
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.72
Consensus pattern (20 bp):
TTTTATTAATTTTAATTTTA
Found at i:9427608 original size:13 final size:13
Alignment explanation
Indices: 9427576--9427618 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
9427566 ATCAAATAAA
9427576 ATTTTATTTTC-TT
1 ATTTT-TTTTCATT
9427589 ATATTTTTTTCATT
1 AT-TTTTTTTCATT
*
9427603 ATTTTTTTTTATT
1 ATTTTTTTTCATT
9427616 ATT
1 ATT
9427619 CTTCTACATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 20 0.74
14 7 0.26
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.77
Consensus pattern (13 bp):
ATTTTTTTTCATT
Found at i:9427818 original size:3 final size:3
Alignment explanation
Indices: 9427810--9427893 Score: 168
Period size: 3 Copynumber: 28.0 Consensus size: 3
9427800 TTTTGTACTC
9427810 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
9427858 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
9427894 TAAAAAACAA
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 81 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:9429195 original size:6 final size:6
Alignment explanation
Indices: 9429186--9429222 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
9429176 TATAAATGAT
9429186 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA A
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA A
9429223 TGGGTTCAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:9431364 original size:13 final size:12
Alignment explanation
Indices: 9431335--9431386 Score: 52
Period size: 13 Copynumber: 4.2 Consensus size: 12
9431325 AATAATATAC
9431335 AAATAAAAAACA
1 AAATAAAAAACA
*
9431347 AAATAAAATAAGA
1 AAATAAAA-AACA
*
9431360 AAAT-AAAAATA
1 AAATAAAAAACA
*
9431371 AAATGAAAAAAGA
1 AAAT-AAAAAACA
9431384 AAA
1 AAA
9431387 ACCTGCGATC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
11 7 0.21
12 11 0.32
13 16 0.47
ACGTcount: A:0.81, C:0.02, G:0.06, T:0.12
Consensus pattern (12 bp):
AAATAAAAAACA
Found at i:9431367 original size:24 final size:25
Alignment explanation
Indices: 9431335--9431386 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 25
9431325 AATAATATAC
9431335 AAATAAAAAACAAAAT-AAAATAAGA
1 AAATAAAAAACAAAATGAAAA-AAGA
*
9431360 AAAT-AAAAATAAAATGAAAAAAGA
1 AAATAAAAAACAAAATGAAAAAAGA
9431384 AAA
1 AAA
9431387 ACCTGCGATC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 17 0.68
25 8 0.32
ACGTcount: A:0.81, C:0.02, G:0.06, T:0.12
Consensus pattern (25 bp):
AAATAAAAAACAAAATGAAAAAAGA
Found at i:9431380 original size:37 final size:37
Alignment explanation
Indices: 9431310--9431386 Score: 88
Period size: 37 Copynumber: 2.1 Consensus size: 37
9431300 AACTTTTTTT
*
9431310 AAATAAAACTAGAAAAATAATATACAAATAAAAAACA
1 AAATAAAACTAGAAAAATAAAATACAAATAAAAAACA
*
9431347 AAATAAAA-TA-AGAAAATAAAAATA-AAATGAAAAAAGA
1 AAATAAAACTAGA-AAAAT-AAAATACAAAT-AAAAAACA
9431384 AAA
1 AAA
9431387 ACCTGCGATC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
35 1 0.03
36 11 0.31
37 23 0.66
ACGTcount: A:0.77, C:0.04, G:0.05, T:0.14
Consensus pattern (37 bp):
AAATAAAACTAGAAAAATAAAATACAAATAAAAAACA
Found at i:9431381 original size:19 final size:19
Alignment explanation
Indices: 9431346--9431387 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
9431336 AATAAAAAAC
*
9431346 AAAATAAAATAAGAAAATA
1 AAAATAAAATAAGAAAAGA
9431365 AAAATAAAATGAA-AAAAGA
1 AAAATAAAAT-AAGAAAAGA
9431384 AAAA
1 AAAA
9431388 CCTGCGATCG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.81, C:0.00, G:0.07, T:0.12
Consensus pattern (19 bp):
AAAATAAAATAAGAAAAGA
Found at i:9432257 original size:3 final size:3
Alignment explanation
Indices: 9432251--9432320 Score: 67
Period size: 3 Copynumber: 24.3 Consensus size: 3
9432241 TGAAAATATA
*
9432251 AAT AAT -AT AAT AAT -AC AAT AAT AA- ATAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT
* * *
9432294 -AT AAT AAT AAT AGT GAT ATT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
9432321 GTATACCATA
Statistics
Matches: 54, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
2 6 0.11
3 47 0.87
4 1 0.02
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:9432297 original size:26 final size:25
Alignment explanation
Indices: 9432252--9432300 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 25
9432242 GAAAATATAA
9432252 ATAATATAATAATACAATAATAAAT
1 ATAATATAATAATACAATAATAAAT
9432277 ATAATAATAATAATA-ATATAATAA
1 ATAAT-ATAATAATACA-ATAATAA
9432301 TAATAGTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 6 0.27
26 16 0.73
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (25 bp):
ATAATATAATAATACAATAATAAAT
Found at i:9432318 original size:15 final size:14
Alignment explanation
Indices: 9432252--9432359 Score: 78
Period size: 15 Copynumber: 7.5 Consensus size: 14
9432242 GAAAATATAA
*
9432252 ATAAT-ATAATAAT
1 ATAATAATAATAGT
*
9432265 ACAATAATAAATA-T
1 ATAATAAT-AATAGT
*
9432279 AATAATAATAATAAT
1 -ATAATAATAATAGT
9432294 ATAATAATAATAGT
1 ATAATAATAATAGT
*
9432308 GATATTAATAATAGT
1 -ATAATAATAATAGT
*
9432323 ATACCATAATACTA-T
1 ATA--ATAATAATAGT
* *
9432338 ATTATAATATATACT
1 ATAATAATA-ATAGT
9432353 ATAATAA
1 ATAATAA
9432360 CAAAAATACA
Statistics
Matches: 77, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
13 10 0.13
14 25 0.32
15 35 0.45
16 7 0.09
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (14 bp):
ATAATAATAATAGT
Found at i:9432325 original size:29 final size:29
Alignment explanation
Indices: 9432244--9432359 Score: 96
Period size: 29 Copynumber: 4.0 Consensus size: 29
9432234 AAAAAAATGA
*
9432244 AAATATAAATAAT-ATAATAATACAATAAT
1 AAATAT-AATAATAATAATAATATAATAAT
9432273 AAATATAATAATAATAATAATATAATAAT
1 AAATATAATAATAATAATAATATAATAAT
* * *
9432302 -AATAGTGATATTAATAATAGTATACCATAAT
1 AAATA-TAATAATAATAATAATATA--ATAAT
* * *
9432333 -ACTAT-ATTATAATATATACTATAATAA
1 AAATATAATAATAATA-ATAATATAATAA
9432360 CAAAAATACA
Statistics
Matches: 74, Mismatches: 8, Indels: 11
0.80 0.09 0.12
Matches are distributed among these distances:
28 14 0.19
29 44 0.59
30 8 0.11
31 8 0.11
ACGTcount: A:0.58, C:0.04, G:0.03, T:0.35
Consensus pattern (29 bp):
AAATATAATAATAATAATAATATAATAAT
Found at i:9432333 original size:13 final size:12
Alignment explanation
Indices: 9432315--9432358 Score: 52
Period size: 13 Copynumber: 3.5 Consensus size: 12
9432305 AGTGATATTA
*
9432315 ATAATAGTATACC
1 ATAATA-TATACT
*
9432328 ATAATACTATATT
1 ATAATA-TATACT
9432341 ATAATATATACT
1 ATAATATATACT
9432353 ATAATA
1 ATAATA
9432359 ACAAAAATAC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
12 11 0.41
13 16 0.59
ACGTcount: A:0.50, C:0.09, G:0.02, T:0.39
Consensus pattern (12 bp):
ATAATATATACT
Found at i:9432936 original size:119 final size:116
Alignment explanation
Indices: 9432792--9433060 Score: 252
Period size: 119 Copynumber: 2.3 Consensus size: 116
9432782 ACCACGAATT
* ** * **
9432792 ATAAGAAATAATCTAAACTGAGCCAAGACCAAATAATCAAAATGAAACCATA-AGTCAAAATGAA
1 ATAAGAAATGATCTGGACTAAGCCAAGACCAAATAATCAAAACAAAACCA-AGAGTCAAAATGAA
** * * ** *
9432856 ATGACTGAGACTGAGTCGAGGTCAGAAATAAACGACCAGGATGAAATCATAAATT
65 ATGACCAAAACTGAGTCGAGGTCAG--A-AAACGACCAGAACAAAATCATAAATC
* * * * * * * *
9432911 ATATGAAATGATCTGGACTAGGCCAAGATCTAATGATCGAGACAAAATCAAGAGTCAAAATGAAA
1 ATAAGAAATGATCTGGACTAAGCCAAGACCAAATAATCAAAACAAAACCAAGAGTCAAAATGAAA
* * * * *
9432976 TGACCAAAATTGAGTTGAGGTCAGAAAATGATCAGAACAAAATCATGAATC
66 TGACCAAAACTGAGTCGAGGTCAGAAAACGACCAGAACAAAATCATAAATC
*
9433027 ATAAGAAATGATTTGGACTAAGCCAAGACCAAAT
1 ATAAGAAATGATCTGGACTAAGCCAAGACCAAAT
9433061 GATTGGGATA
Statistics
Matches: 118, Mismatches: 31, Indels: 5
0.77 0.20 0.03
Matches are distributed among these distances:
116 48 0.41
117 1 0.01
118 1 0.01
119 68 0.58
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (116 bp):
ATAAGAAATGATCTGGACTAAGCCAAGACCAAATAATCAAAACAAAACCAAGAGTCAAAATGAAA
TGACCAAAACTGAGTCGAGGTCAGAAAACGACCAGAACAAAATCATAAATC
Found at i:9439167 original size:25 final size:25
Alignment explanation
Indices: 9439138--9439186 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
9439128 CTCATTTTCT
*
9439138 TTCTTTTTAGTTGCTATTTTAGAAA
1 TTCTTCTTAGTTGCTATTTTAGAAA
*
9439163 TTCTTCTTATTTGCTATTTTAGAA
1 TTCTTCTTAGTTGCTATTTTAGAA
9439187 GGCTTCCCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.22, C:0.10, G:0.10, T:0.57
Consensus pattern (25 bp):
TTCTTCTTAGTTGCTATTTTAGAAA
Found at i:9443022 original size:37 final size:37
Alignment explanation
Indices: 9442969--9443052 Score: 100
Period size: 37 Copynumber: 2.3 Consensus size: 37
9442959 AAAGAAAGAC
* * * *
9442969 AAATGAATAATTAAGCAAGTATACA-CAATGAAATGGA
1 AAATAAATAATAAAGCAAATATA-AGCAATGAAAGGGA
9443006 AAATAAATAATAAAGCAAATATAAGCAATGAAAGGGA
1 AAATAAATAATAAAGCAAATATAAGCAATGAAAGGGA
*
9443043 ACA-AAATAAT
1 AAATAAATAAT
9443053 TTCAAATTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
36 8 0.20
37 33 0.80
ACGTcount: A:0.60, C:0.07, G:0.14, T:0.19
Consensus pattern (37 bp):
AAATAAATAATAAAGCAAATATAAGCAATGAAAGGGA
Found at i:9443952 original size:21 final size:20
Alignment explanation
Indices: 9443927--9443965 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
9443917 ATAAAACCAG
*
9443927 AAAAATAATATACAAATAACA
1 AAAAATAAAATA-AAATAACA
9443948 AAAAATAAAATAAAATAA
1 AAAAATAAAATAAAATAA
9443966 AATTAGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (20 bp):
AAAAATAAAATAAAATAACA
Found at i:9443981 original size:24 final size:25
Alignment explanation
Indices: 9443927--9443987 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
9443917 ATAAAACCAG
*
9443927 AAAAATAATATACAAATAACAAAAA
1 AAAAATAAAATACAAATAACAAAAA
* * *
9443952 ATAAAATAAAATA-AAATTAGAAAAC
1 A-AAAATAAAATACAAATAACAAAAA
9443977 AAAAATAAAAT
1 AAAAATAAAAT
9443988 GGAAAAAGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
24 10 0.32
25 11 0.35
26 10 0.32
ACGTcount: A:0.75, C:0.05, G:0.02, T:0.18
Consensus pattern (25 bp):
AAAAATAAAATACAAATAACAAAAA
Found at i:9443999 original size:24 final size:23
Alignment explanation
Indices: 9443927--9443987 Score: 59
Period size: 26 Copynumber: 2.5 Consensus size: 23
9443917 ATAAAACCAG
* * *
9443927 AAAAATAATATACAAATAACAAAAA
1 AAAAATAAAATA-AAAT-AGAAAAC
9443952 ATAAAATAAAATAAAATTAGAAAAC
1 A-AAAATAAAATAAAA-TAGAAAAC
9443977 AAAAATAAAAT
1 AAAAATAAAAT
9443988 GGAAAAAGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
24 10 0.32
25 10 0.32
26 11 0.35
ACGTcount: A:0.75, C:0.05, G:0.02, T:0.18
Consensus pattern (23 bp):
AAAAATAAAATAAAATAGAAAAC
Found at i:9444251 original size:20 final size:19
Alignment explanation
Indices: 9444226--9444278 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
9444216 AACTTTAATG
9444226 GATTCTGGAAACTTTTGGCA
1 GATTCTGGAAA-TTTTGGCA
* *
9444246 GATTCTAGAAATTTTGTCA
1 GATTCTGGAAATTTTGGCA
*
9444265 -AATCTGGAAATTTT
1 GATTCTGGAAATTTT
9444279 CACCAAATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 12 0.41
19 7 0.24
20 10 0.34
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (19 bp):
GATTCTGGAAATTTTGGCA
Found at i:9444333 original size:20 final size:20
Alignment explanation
Indices: 9444308--9444351 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
9444298 CGCTGGAAAC
*
9444308 TTCAAACCCTCACCGAAAAA
1 TTCAAACACTCACCGAAAAA
* *
9444328 TTCAAACATTCATCGAAAAA
1 TTCAAACACTCACCGAAAAA
9444348 TTCA
1 TTCA
9444352 TCCCAACCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.45, C:0.27, G:0.05, T:0.23
Consensus pattern (20 bp):
TTCAAACACTCACCGAAAAA
Found at i:9444815 original size:16 final size:16
Alignment explanation
Indices: 9444773--9444816 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
9444763 TGTGCAGATT
*
9444773 GGAACAAAAAAGGAAA
1 GGAACAAAAAAGAAAA
* *
9444789 GAAAAAAAAAAGAAAA
1 GGAACAAAAAAGAAAA
9444805 GGAACAGAAAAA
1 GGAACA-AAAAA
9444817 AATGAAAATA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
16 17 0.77
17 5 0.23
ACGTcount: A:0.75, C:0.05, G:0.20, T:0.00
Consensus pattern (16 bp):
GGAACAAAAAAGAAAA
Found at i:9444831 original size:6 final size:6
Alignment explanation
Indices: 9444822--9444856 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
9444812 AAAAAAATGA
*
9444822 AAATAT AAATAT AAATAT AAATAG AAATAT AAATA
1 AAATAT AAATAT AAATAT AAATAT AAATAT AAATA
9444857 ATAATAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (6 bp):
AAATAT
Found at i:9444861 original size:3 final size:3
Alignment explanation
Indices: 9444853--9444913 Score: 65
Period size: 3 Copynumber: 21.3 Consensus size: 3
9444843 TAGAAATATA
*
9444853 AAT AAT AAT AAT -AT AAT AAT -AC AAT AAT -AT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
9444898 AGT GAT ATT AAT AAT A
1 AAT AAT AAT AAT AAT A
9444914 GTATACCATG
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
2 5 0.11
3 42 0.89
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:9444870 original size:8 final size:8
Alignment explanation
Indices: 9444857--9444898 Score: 66
Period size: 8 Copynumber: 5.1 Consensus size: 8
9444847 AATATAAATA
9444857 ATAATAAT
1 ATAATAAT
9444865 ATAATAAT
1 ATAATAAT
*
9444873 ACAATAAT
1 ATAATAAT
9444881 ATAATAAT
1 ATAATAAT
9444889 AATAATAAT
1 -ATAATAAT
9444898 A
1 A
9444899 GTGATATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
8 23 0.74
9 8 0.26
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (8 bp):
ATAATAAT
Found at i:9444870 original size:11 final size:11
Alignment explanation
Indices: 9444850--9444898 Score: 59
Period size: 11 Copynumber: 4.5 Consensus size: 11
9444840 AAATAGAAAT
9444850 ATAA-ATAATA
1 ATAATATAATA
9444860 ATAATATAATA
1 ATAATATAATA
9444871 ATACA-ATAAT-
1 ATA-ATATAATA
9444881 ATAATAATAATA
1 ATAAT-ATAATA
9444893 ATAATA
1 ATAATA
9444899 GTGATATTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
9 1 0.03
10 7 0.21
11 20 0.59
12 6 0.18
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (11 bp):
ATAATATAATA
Found at i:9445571 original size:18 final size:18
Alignment explanation
Indices: 9445548--9445582 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
9445538 TGTGCATGTG
9445548 CTTAATAGATATATATGC
1 CTTAATAGATATATATGC
*
9445566 CTTAATATATATATATG
1 CTTAATAGATATATATG
9445583 TAAGTTGTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.43
Consensus pattern (18 bp):
CTTAATAGATATATATGC
Found at i:9446058 original size:152 final size:151
Alignment explanation
Indices: 9445710--9446127 Score: 538
Period size: 152 Copynumber: 2.8 Consensus size: 151
9445700 GTTTTCCTAA
* * * *
9445710 AAAACATGCATTATTTAATGGGGA-CTTTTC-AAATAATTTTAAAAAATCTTAAATGTTTTAAAA
1 AAAA-ATGCATTGTTTAAAGGGGAGTTTTTCAAAATAGTTTTAAAAAATCTTAAATG-TTTAAAA
* *
9445773 GAAAGTTTTTCATCAATCAAATATATTTTTAAGTTTTGTCATATCAAAAAAAATGAAGAATCATT
64 GAAAGTTTTTCATCAATCAAATTTATTTTTAAGTTTTGTCATAT-AAAAAAAATAAAGAATCATT
* * **
9445838 AGTTGAAAAGGGAGTTTTACAATT
128 AATTGAAAAGGGAGTTTGACAAGG
* *
9445862 AAACATGCATTGTTT-AAGCGGTAGTTTTTCAAAATAGTTTTAAAAAATCTTAAATGTATTAAAA
1 AAAAATGCATTGTTTAAAG-GGGAGTTTTTCAAAATAGTTTTAAAAAATCTTAAATGT-TTAAAA
* * *
9445926 AAAAGTTTTTCATTAATTAAATTTATTTTTAAGTTTTGTCATATAAAAAAAATAAAGAATGCATT
64 GAAAGTTTTTCATCAATCAAATTTATTTTTAAGTTTTGTCATATAAAAAAAATAAAGAAT-CATT
* * *
9445991 AATTG-ATAGGGAGTTTGGCTAGG
128 AATTGAAAAGGGAGTTTGACAAGG
* * *
9446014 AAAAATGCATTGTTTAAAGGGGAGTTTTTCAAAATAGTTTTAAAAAATCTTAAGTGTTTTAAAGC
1 AAAAATGCATTGTTTAAAGGGGAGTTTTTCAAAATAGTTTTAAAAAATCTTAAATGTTTAAAAGA
* * *
9446079 AAGTTTTTTATCAAGCAAATTTATCTTTAAGTTTTGTCATATAAAAAAA
66 AAGTTTTTCATCAATCAAATTTATTTTTAAGTTTTGTCATATAAAAAAA
9446128 GTGGGAGATT
Statistics
Matches: 231, Mismatches: 29, Indels: 13
0.85 0.11 0.05
Matches are distributed among these distances:
150 2 0.01
151 62 0.27
152 86 0.37
153 81 0.35
ACGTcount: A:0.41, C:0.07, G:0.13, T:0.39
Consensus pattern (151 bp):
AAAAATGCATTGTTTAAAGGGGAGTTTTTCAAAATAGTTTTAAAAAATCTTAAATGTTTAAAAGA
AAGTTTTTCATCAATCAAATTTATTTTTAAGTTTTGTCATATAAAAAAAATAAAGAATCATTAAT
TGAAAAGGGAGTTTGACAAGG
Found at i:9458595 original size:13 final size:13
Alignment explanation
Indices: 9458550--9458593 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
9458540 TTGTGTTGAG
*
9458550 AAAAGTGTGTTTA
1 AAAAGTGTGGTTA
*
9458563 AAAAGTGTGGTAA
1 AAAAGTGTGGTTA
*
9458576 GAAAATTGTGGTTA
1 -AAAAGTGTGGTTA
9458590 AAAA
1 AAAA
9458594 TTTTAAGTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
13 15 0.58
14 11 0.42
ACGTcount: A:0.45, C:0.00, G:0.25, T:0.30
Consensus pattern (13 bp):
AAAAGTGTGGTTA
Found at i:9459138 original size:18 final size:19
Alignment explanation
Indices: 9459104--9459157 Score: 60
Period size: 18 Copynumber: 3.0 Consensus size: 19
9459094 AATTATTAAA
*
9459104 TTAAAAAAT-TATT-ATAT
1 TTAAATAATATATTAATAT
*
9459121 TTTAATAATAT-TTAATAT
1 TTAAATAATATATTAATAT
*
9459139 TTAAATATTATATTAATAT
1 TTAAATAATATATTAATAT
9459158 AAAAAGAACT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
17 9 0.30
18 14 0.47
19 7 0.23
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
TTAAATAATATATTAATAT
Found at i:9459589 original size:29 final size:28
Alignment explanation
Indices: 9459537--9459592 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
9459527 AAATATTATT
*
9459537 TAATATATTTTATTATTTATTGAAATAA
1 TAATATATTCTATTATTTATTGAAATAA
9459565 TAATATATTACTATT-TATTATTGAAATA
1 TAATATATT-CTATTAT-TTATTGAAATA
9459593 TTAAAAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 10 0.40
29 15 0.60
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.52
Consensus pattern (28 bp):
TAATATATTCTATTATTTATTGAAATAA
Found at i:9462713 original size:2 final size:2
Alignment explanation
Indices: 9462700--9462741 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
9462690 CCAATGCTTC
*
9462700 CT CT CC CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
9462742 GTGTGCCATT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:9463960 original size:2 final size:2
Alignment explanation
Indices: 9463953--9463979 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9463943 GGGAGGTAAA
9463953 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
9463980 AATGTTTCTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:9483871 original size:12 final size:12
Alignment explanation
Indices: 9483840--9483890 Score: 52
Period size: 12 Copynumber: 4.1 Consensus size: 12
9483830 AGTTTTTAAA
9483840 TATATTTTATAAATT
1 TATATTTTAT--A-T
9483855 TATATTTTATAT
1 TATATTTTATAT
9483867 TATA-TTTATAT
1 TATATTTTATAT
9483878 T-TATATTTATAT
1 TATAT-TTTATAT
9483890 T
1 T
9483891 TTATAAAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
10 2 0.06
11 8 0.24
12 13 0.38
13 1 0.03
15 10 0.29
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TATATTTTATAT
Found at i:9483875 original size:6 final size:6
Alignment explanation
Indices: 9483852--9483891 Score: 64
Period size: 6 Copynumber: 6.7 Consensus size: 6
9483842 TATTTTATAA
9483852 ATTTAT ATTT-T ATATTAT ATTTAT ATTTAT ATTTAT ATTT
1 ATTTAT ATTTAT AT-TTAT ATTTAT ATTTAT ATTTAT ATTT
9483892 TATAAAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 3 0.09
6 26 0.81
7 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
ATTTAT
Done.