Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold27
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: 2789374
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 115785 characters in sequence are not A, C, G, or T
File 6 of 16
Found at i:989808 original size:138 final size:138
Alignment explanation
Indices: 989619--989895 Score: 486
Period size: 137 Copynumber: 2.0 Consensus size: 138
989609 TGTTGCAAGC
*
989619 CAATGTATCGATACATTTTATGGTGTATCGATACAAGTTTGGCTACTGCCAAGAAATCCCAATGA
1 CAATGTATCGATACATCTTATGGTGTATCGATACAAGTTTGGCTACTGCCAAGAAATCCCAATGA
* *
989684 CATGTATCGATACATTTTTTTTCATGTATCGATACAATGCAACATGTATCGATACTTTTAAATGT
66 CATGTATCGATACA-TCTTTTTCATGTATCAATACAATGCAACATGTATCGATACTTTTAAATGT
989749 GTATCGATA
130 GTATCGATA
*
989758 CAATGTATCGATACATACTT-T-GTGTATCGATACAAGTTTGTCTACTGCCAAGAAATCCCAATG
1 CAATGTATCGATACAT-CTTATGGTGTATCGATACAAGTTTGGCTACTGCCAAGAAATCCCAATG
989821 ACATGTATCGATACATCTTTTTCATGTATCAATACAATGCAACATGTATCGATACTTTTAAATGT
65 ACATGTATCGATACATCTTTTTCATGTATCAATACAATGCAACATGTATCGATACTTTTAAATGT
989886 GTATCGATA
130 GTATCGATA
989895 C
1 C
989896 TTTTCAGGGT
Statistics
Matches: 133, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
137 58 0.44
138 56 0.42
139 17 0.13
140 2 0.02
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (138 bp):
CAATGTATCGATACATCTTATGGTGTATCGATACAAGTTTGGCTACTGCCAAGAAATCCCAATGA
CATGTATCGATACATCTTTTTCATGTATCAATACAATGCAACATGTATCGATACTTTTAAATGTG
TATCGATA
Found at i:994000 original size:13 final size:13
Alignment explanation
Indices: 993982--994008 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
993972 ACATATTGCT
993982 TTGTATCGATACA
1 TTGTATCGATACA
993995 TTGTATCGATACA
1 TTGTATCGATACA
994008 T
1 T
994009 ATTCTTAGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:994005 original size:33 final size:32
Alignment explanation
Indices: 993963--994027 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 32
993953 CATACCCAGA
*
993963 TGTATCGATACATATTGCTTTGTATCGATACAT
1 TGTATCGATACATATT-CTTAGTATCGATACAT
*
993996 TGTATCGATACATATTCTTAGTATTGATACAT
1 TGTATCGATACATATTCTTAGTATCGATACAT
994028 AATAAATTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 14 0.47
33 16 0.53
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (32 bp):
TGTATCGATACATATTCTTAGTATCGATACAT
Found at i:994043 original size:16 final size:16
Alignment explanation
Indices: 994018--994050 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
994008 TATTCTTAGT
994018 ATTGATACATA-ATAA
1 ATTGATACATACATAA
994033 ATTGTATACATACATAA
1 ATTG-ATACATACATAA
994050 A
1 A
994051 ACTGGTAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 7 0.44
17 5 0.31
ACGTcount: A:0.52, C:0.09, G:0.06, T:0.33
Consensus pattern (16 bp):
ATTGATACATACATAA
Found at i:1000779 original size:155 final size:151
Alignment explanation
Indices: 1000564--1001225 Score: 547
Period size: 155 Copynumber: 4.3 Consensus size: 151
1000554 AAAGGGCTCG
* * * * * *
1000564 AAAAGGATGATAGATGGCATAAACCTATCCTAAATACCCACCTTCAGCATAGAAGTGAACCCGGT
1 AAAAGGATTATA-ATGGGATGAA-CTATCCTAAATACCCACCTTCGGCATAAAAGCGAACCCGGT
* * * * * *
1000629 GACAACTTAAGACTCGATTTTAAAAAAATTATAAAAATGCTCGTAAAGGATATCTTCGACGTAGA
64 GACAACTTAGGACTCAATTCT-AAAAAATTATAAAAATACCCCTAAAGGATA-CTTCGACGTAGA
1000694 AGTGTCTGATACCCTAAAGGA-TTA
127 AGTGTCTGATACCCTAAAGGACTTA
* * *
1000718 AGAAAGGATTATGAATGGGATGAACATATCCTAAATGCCTACCTTCGGCATAAAAGCGAACCTGG
1 A-AAAGGATTAT-AATGGGATGAAC-TATCCTAAATACCCACCTTCGGCATAAAAGCGAACCCGG
* * *
1000783 TGACAACCTAGGACTCAATTCTAAAAAATTATAAAAATACCCCT-ATGAGATACCTTCGATGT-G
63 TGACAACTTAGGACTCAATTCTAAAAAATTATAAAAATACCCCTAAAG-GATA-CTTCGACGTAG
* * *
1000846 AAAGTATCTCGGTACTCTTAAAGGACTT-
126 -AAGTGTCT-GATAC-CCTAAAGGACTTA
* * * * * * *
1000874 AAAA-TATTATAGATGAGATGAATCTATCTTAAATGCTCACTTTCGGCATAAAAGTGAACCCGGT
1 AAAAGGATTATA-ATGGGATGAA-CTATCCTAAATACCCACCTTCGGCATAAAAGCGAACCCGGT
* * * * * * ** * *
1000938 GACAACTTAGGACTTAGTTCTAAAAGACTACAAAAATACCCCCAGGGGATACTTTCGACTTAAAA
64 GACAACTTAGGACTCAATTCTAAAAAATTATAAAAATACCCCTAAAGGATAC-TTCGACGTAGAA
* *
1001003 ATGCCTGATACCCTTAAAGGACTTA
128 GTGTCTGATACCC-TAAAGGACTTA
*
1001028 AAAAGGATTATAAATGGGATGAACCTATCTTAAATACCCACCTTCGGCATAAAAGC-AGACCCGG
1 AAAAGGATTAT-AATGGGATGAA-CTATCCTAAATACCCACCTTCGGCATAAAAGCGA-ACCCGG
* * * ** * *
1001092 TGACAACTTAGGACTCAGTTCTAGAAAATTACT-AAAATGCCCCTAGCGAATACTTTCGACATAG
63 TGACAACTTAGGACTCAATTCTAAAAAATTA-TAAAAATACCCCTAAAGGATAC-TTCGACGTAG
* *
1001156 AAGT-ACTCGATACCCTTAAAGGATTTA
126 AAGTGTCT-GATACCC-TAAAGGACTTA
* * *
1001183 AAAAGG--TA-AA-AGGATGAACCTATCCTAAATGCACACCTTCGGC
1 AAAAGGATTATAATGGGATGAA-CTATCCTAAATACCCACCTTCGGC
1001226 GTAGAAGCAG
Statistics
Matches: 416, Mismatches: 72, Indels: 44
0.78 0.14 0.08
Matches are distributed among these distances:
150 29 0.07
151 2 0.00
152 1 0.00
153 21 0.05
154 146 0.35
155 204 0.49
156 11 0.03
157 2 0.00
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (151 bp):
AAAAGGATTATAATGGGATGAACTATCCTAAATACCCACCTTCGGCATAAAAGCGAACCCGGTGA
CAACTTAGGACTCAATTCTAAAAAATTATAAAAATACCCCTAAAGGATACTTCGACGTAGAAGTG
TCTGATACCCTAAAGGACTTA
Found at i:1001310 original size:150 final size:153
Alignment explanation
Indices: 1000585--1001303 Score: 474
Period size: 155 Copynumber: 4.7 Consensus size: 153
1000575 AGATGGCATA
* * * * * * *
1000585 AACCTATCCTAAATACCCACCTTCAGCATAGAAG-TGAACCCGGTGACAACTTAAGACTC-GATT
1 AACCTATCCTAAATACACACCTTCGGCATAAAAGCAG-ACCCGATGACAACCTAGGACTCAG-TT
* * * * * *
1000648 TTAAAAAAATTA-TAAAAATGCTCGTA--AAGGATATCTTCGACGTAGAAGT-GTCTGATACCC-
64 CT-AAAAAATTACT-AAAATGCCCCTAGCAA--ATACCTTCGACATAGAAGTACTC-GATACCCT
*
1000708 TAAAGGA-TTAAGAAAGGATTATGAATGGGATG
124 TAAAGGACTTAA-AAAGGA-TAT-AAAGGGATG
* * * * *
1000740 AACATATCCTAAATGC-CTACCTTCGGCATAAAAGC-GAACCTGGTGACAACCTAGGACTCAATT
1 AACCTATCCTAAATACAC-ACCTTCGGCATAAAAGCAG-ACCCGATGACAACCTAGGACTCAGTT
* * ** * *
1000803 CTAAAAAATTA-TAAAAATACCCCTATG-AGATACCTTCGATGT-GAAAGTATCTCGGTACTCTT
64 CTAAAAAATTACT-AAAATGCCCCTA-GCAAATACCTTCGACATAG-AAGTA-CTCGATACCCTT
* * *
1000865 AAAGGACTTAAAATA--TTATAGATGAGATG
125 AAAGGACTTAAAA-AGGATATA-AAGGGATG
* * * * * * * * *
1000894 AATCTATCTTAAATGCTCACTTTCGGCATAAAAG-TGAACCCGGTGACAACTTAGGACTTAGTTC
1 AACCTATCCTAAATACACACCTTCGGCATAAAAGCAG-ACCCGATGACAACCTAGGACTCAGTTC
* * * * * *** * * * * *
1000958 TAAAAGACTACAAAAATACCCCCAGGGGATACTTTCGACTTAAAAATGC-CTGATACCCTTAAAG
65 TAAAAAATTACTAAAATGCCCCTAGCAAATACCTTCGACATAGAAGTACTC-GATACCCTTAAAG
1001022 GACTTAAAAAGGATTATAAATGGGATG
129 GACTTAAAAAGGA-TATAAA-GGGATG
* * * *
1001049 AACCTATCTTAAATACCCACCTTCGGCATAAAAGCAGACCCGGTGACAACTTAGGACTCAGTTCT
1 AACCTATCCTAAATACACACCTTCGGCATAAAAGCAGACCCGATGACAACCTAGGACTCAGTTCT
* * *
1001114 AGAAAATTACTAAAATGCCCCTAGCGAATACTTTCGACATAGAAGTACTCGATACCCTTAAAGGA
66 AAAAAATTACTAAAATGCCCCTAGCAAATACCTTCGACATAGAAGTACTCGATACCCTTAAAGGA
*
1001179 TTTAAAAAGG-TA-AAA-GGATG
131 CTTAAAAAGGATATAAAGGGATG
* * * * * **
1001199 AACCTATCCTAAATGCACACCTTCGGCGTAGAAGCAGACCCGATGATAACCTAGGAGTTGGTT-T
1 AACCTATCCTAAATACACACCTTCGGCATAAAAGCAGACCCGATGACAACCTAGGACTCAGTTCT
*
1001263 CAAAAAATTACTAAAATGCCCTTAG-AATATACCTTCGACAT
66 -AAAAAATTACTAAAATGCCCCTAGCAA-ATACCTTCGACAT
1001304 TAAAGTATCC
Statistics
Matches: 460, Mismatches: 78, Indels: 57
0.77 0.13 0.10
Matches are distributed among these distances:
149 2 0.00
150 91 0.20
152 5 0.01
153 26 0.06
154 133 0.29
155 184 0.40
156 14 0.03
157 5 0.01
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (153 bp):
AACCTATCCTAAATACACACCTTCGGCATAAAAGCAGACCCGATGACAACCTAGGACTCAGTTCT
AAAAAATTACTAAAATGCCCCTAGCAAATACCTTCGACATAGAAGTACTCGATACCCTTAAAGGA
CTTAAAAAGGATATAAAGGGATG
Found at i:1005334 original size:117 final size:116
Alignment explanation
Indices: 1004992--1005444 Score: 438
Period size: 117 Copynumber: 3.9 Consensus size: 116
1004982 ACCATTCACT
* * *
1004992 TTCATTAGGGAAATTGAATCTTAACCTAAA-GCAAAGTAAATTATTCAACCCTTTTTGAATAAG-
1 TTCATTAGAGAGATTGTATCTTAACCTAAATG--AAGTAAATTATTCAACCCTTTTTGAATAAGT
* ** * ** * **
1005055 CATCTGT-GGCCAA-GATACAAGCGATTATAGCTATAGCTAAAGGGAACTATCTAC
64 GA-CT-TAGGCCAATG-TATGAGCAATTATAGCTGCAGCCAAAGAAAACTATCTAC
* *
1005109 TTCATGA-AGGAGATTGTATCTTAACCT---TGAAGTAAATTATTCAACCCTTTTTCGAATAATT
1 TTCATTAGA-GAGATTGTATCTTAACCTAAATGAAGTAAATTATTCAACCCTTTTT-GAATAAGT
* ** * **
1005170 AACTTAGGCCAATGTATGAGTGATTATAGCTGCAGCCAAGGGGAACTATCTAC
64 GACTTAGGCCAATGTATGAGCAATTATAGCTGCAGCCAAAGAAAACTATCTAC
*
1005223 TTCATTAGAGAGATTGTATCTTAACCTTAAATGAAGAAAATTATTCAACCCTTTTTGAATAAGTG
1 TTCATTAGAGAGATTGTATCTTAACC-TAAATGAAGTAAATTATTCAACCCTTTTTGAATAAGTG
* * * ** * *
1005288 ATTTAGGCCAATGTATGAGCAATTATTGTTGTGGCCAAAGAAAACTAACTAT
65 ACTTAGGCCAATGTATGAGCAATTATAGCTGCAGCCAAAGAAAACTATCTAC
* * * *
1005340 TTCATTAG-GAAGATTGTATCTCAACCATAAATGAAGTAAATTATTCAACCTTTTTTCAGATATG
1 TTCATTAGAG-AGATTGTATCTTAACC-TAAATGAAGTAAATTATTCAACCCTTTTTGA-ATAAG
* *
1005404 TGACTTAGGCTAATGTATGAGCAATTATAGCTGCGGCCAAA
63 TGACTTAGGCCAATGTATGAGCAATTATAGCTGCAGCCAAA
1005445 CTTTAAGCAT
Statistics
Matches: 283, Mismatches: 40, Indels: 25
0.81 0.11 0.07
Matches are distributed among these distances:
113 24 0.08
114 69 0.24
115 5 0.02
116 1 0.00
117 120 0.42
118 64 0.23
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.32
Consensus pattern (116 bp):
TTCATTAGAGAGATTGTATCTTAACCTAAATGAAGTAAATTATTCAACCCTTTTTGAATAAGTGA
CTTAGGCCAATGTATGAGCAATTATAGCTGCAGCCAAAGAAAACTATCTAC
Found at i:1009445 original size:7 final size:7
Alignment explanation
Indices: 1009428--1009470 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
1009418 TTCTTGGTAT
1009428 TTTATTTA
1 TTTA-TTA
1009436 TTTATTA
1 TTTATTA
1009443 TTTATTA
1 TTTATTA
*
1009450 ATTATTA
1 TTTATTA
1009457 -TTATTA
1 TTTATTA
1009463 -TTATTA
1 TTTATTA
1009469 TT
1 TT
1009471 ATCACTTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
6 12 0.36
7 17 0.52
8 4 0.12
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
TTTATTA
Found at i:1009456 original size:3 final size:3
Alignment explanation
Indices: 1009437--1009472 Score: 54
Period size: 3 Copynumber: 11.3 Consensus size: 3
1009427 TTTTATTTAT
1009437 TTA TTA TTTA TTAA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA -TTA TT-A TTA TTA TTA TTA TTA TTA TTA T
1009473 CACTTTATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 25 0.81
4 6 0.19
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:1016026 original size:10 final size:9
Alignment explanation
Indices: 1015999--1016023 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
1015989 CATAAGAATA
1015999 TTGAAAATT
1 TTGAAAATT
1016008 TTGAAAATT
1 TTGAAAATT
1016017 TTGAAAA
1 TTGAAAA
1016024 ATTAGGATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (9 bp):
TTGAAAATT
Found at i:1016076 original size:13 final size:14
Alignment explanation
Indices: 1016058--1016086 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1016048 AGGTATTTAG
1016058 TTATTA-TTTTATT
1 TTATTATTTTTATT
1016071 TTATTATTTTTATT
1 TTATTATTTTTATT
1016085 TT
1 TT
1016087 TGAAAATTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TTATTATTTTTATT
Found at i:1018523 original size:30 final size:29
Alignment explanation
Indices: 1018463--1018525 Score: 117
Period size: 29 Copynumber: 2.2 Consensus size: 29
1018453 GCAAAAATAA
1018463 TTTTCAAAATTTATCAAGAAAAATAAATT
1 TTTTCAAAATTTATCAAGAAAAATAAATT
*
1018492 TTTTCAAAATTTATCAAGAAAAATAAAAT
1 TTTTCAAAATTTATCAAGAAAAATAAATT
1018521 TTTTC
1 TTTTC
1018526 CTTTGAGGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.40
Consensus pattern (29 bp):
TTTTCAAAATTTATCAAGAAAAATAAATT
Found at i:1019072 original size:85 final size:85
Alignment explanation
Indices: 1018940--1019433 Score: 261
Period size: 85 Copynumber: 5.8 Consensus size: 85
1018930 TGGGCCAAAG
* ** *
1018940 AGTAAACAATGAAATGGAGGTTGATTGGAGACTAAGCTCACAGGTCACCA-AGGGGATAAGGGGT
1 AGTAAACAATGAAATGAAGGTTGACCGGAGACTAAGCTCACAAGTCACCATAGGGG-TAAGGGGT
1019004 TTACCGAGGACTAAGCCAACA
65 TTACCGAGGACTAAGCCAACA
* * * * * * *
1019025 AGTAAACAATGAGATGAAGGTTGACCGGATACTGAGTTGACAAGTCACTATAGGTGTAAGGGGTT
1 AGTAAACAATGAAATGAAGGTTGACCGGAGACTAAGCTCACAAGTCACCATAGGGGTAAGGGGTT
* * * *
1019090 TATCGGGGACTAAGCCGATA
66 TACCGAGGACTAAGCCAACA
* * * ** *
1019110 GGTAAA-AA-AAAGATGAAGAGTTGATCAGG-GACTAAG-TCA-ATAGGTCACTGTAGGGGTAAT
1 AGTAAACAATGAA-ATGAAG-GTTGA-CCGGAGACTAAGCTCACA-A-GTCACCATAGGGGTAAG
* * * *
1019170 AGGTTTACC-AGGGACTGAGCCGATA
61 GGGTTTACCGA-GGACTAAGCCAACA
* * * * * * * ** *
1019195 AGTAAACAATGAGATAAAGGTTGGCTGGAGACTGAGCTAACAGGTCACCATAGCTGTAAGGAGTT
1 AGTAAACAATGAAATGAAGGTTGACCGGAGACTAAGCTCACAAGTCACCATAGGGGTAAGGGGTT
* * ***
1019260 TGCC-AGGGACTGAGCTGGCA
66 TACCGA-GGACTAAGCCAACA
* * * * * * * *
1019280 GGTAAACAATGAGATGGAGGTTGACTGGAGACTAAGCTGATAGGTCACCATAGGGGTAATGGGTT
1 AGTAAACAATGAAATGAAGGTTGACCGGAGACTAAGCTCACAAGTCACCATAGGGGTAAGGGGTT
* * **
1019345 TATCGGGGACTGAA-CTGACA
66 TACCGAGGACT-AAGCCAACA
* * * * * * * * * *
1019365 AGTAAATAAGGAGATGAAGGGTTGACTAGG-GACCAAGCTGACAGGTCACTATAGGAGTAATGGG
1 AGTAAACAATGAAATGAA-GGTTGAC-CGGAGACTAAGCTCACAAGTCACCATAGGGGTAAGGGG
1019429 TTTAC
64 TTTAC
1019434 AGGGGACTGA
Statistics
Matches: 318, Mismatches: 75, Indels: 31
0.75 0.18 0.07
Matches are distributed among these distances:
83 2 0.01
84 14 0.04
85 240 0.75
86 58 0.18
87 4 0.01
ACGTcount: A:0.34, C:0.14, G:0.31, T:0.21
Consensus pattern (85 bp):
AGTAAACAATGAAATGAAGGTTGACCGGAGACTAAGCTCACAAGTCACCATAGGGGTAAGGGGTT
TACCGAGGACTAAGCCAACA
Found at i:1019285 original size:170 final size:167
Alignment explanation
Indices: 1018957--1019497 Score: 468
Period size: 170 Copynumber: 3.2 Consensus size: 167
1018947 AATGAAATGG
* * * ** *
1018957 AGGTTGAT-TGGAGACTAAGCTCACAGGTCACCA-AGGGGATAAGGGGTTTACCGAGGACTAAGC
1 AGGTTGATCAGGAGACTAAGCTAATAGGTCACCATAGGGG-TAATAGGTTTACCG-GGACTGAGC
* * * * * *
1019020 CAACAAGTAAACAATGAGATGAAGGTTGACCGGATACTGAGTTGACAAGTCACTATAGGTGTAAG
64 CGACAAGTAAACAATGAGATAAAGGTTGACTGGAGACTGAGCTGACAGGTCACTATAGGTGTAA-
* * * *
1019085 GGGTTTATCGGGGACTAAGCCGATAGGTAAAAAAAAGATGA
128 GGGTTTA-CAGGGACTGAGCTGACAGGTAAAAAAAAGATGA
**
1019126 AGAGTTGATCAGG-GACTAAG-TCAATAGGTCACTGTAGGGGTAATAGGTTTACCAGGGACTGAG
1 AG-GTTGATCAGGAGACTAAGCT-AATAGGTCACCATAGGGGTAATAGGTTTACC-GGGACTGAG
* * * * *
1019189 CCGATAAGTAAACAATGAGATAAAGGTTGGCTGGAGACTGAGCTAACAGGTCACCATAGCTGTAA
63 CCGACAAGTAAACAATGAGATAAAGGTTGACTGGAGACTGAGCTGACAGGTCACTATAGGTGTAA
* * ** *
1019254 GGAGTTTGCCAGGGACTGAGCTGGCAGGTAAACAATGAGATGG
128 GG-GTTT-ACAGGGACTGAGCTGACAGGTAAA-AAAAAGATGA
* * * * * *
1019297 AGGTTGA-CTGGAGACTAAGCTGATAGGTCACCATAGGGGTAATGGGTTTATCGGGGACTGAACT
1 AGGTTGATCAGGAGACTAAGCTAATAGGTCACCATAGGGGTAATAGGTTTA-CCGGGACTGAGCC
* * * ** *
1019361 GACAAGTAAATAAGGAGATGAAGGGTTGACTAGG-GACCAAGCTGACAGGTCACTATAGGAGTAA
65 GACAAGTAAACAATGAGAT-AAAGGTTGACT-GGAGACTGAGCTGACAGGTCACTATAGGTGTAA
* * *
1019425 TGGGTTTACAGGGGACTGAGCTGACGGGTAAACAAAGGATGA
128 -GGGTTTACA-GGGACTGAGCTGACAGGTAAAAAAAAGATGA
* *
1019467 AGGGTTGAT--TGAGGACTAAGCTGATAGGTCA
1 A-GGTTGATCAGGA-GACTAAGCTAATAGGTCA
1019498 TGAAAAGGAT
Statistics
Matches: 298, Mismatches: 56, Indels: 34
0.77 0.14 0.09
Matches are distributed among these distances:
169 8 0.03
170 187 0.63
171 99 0.33
172 4 0.01
ACGTcount: A:0.33, C:0.14, G:0.32, T:0.21
Consensus pattern (167 bp):
AGGTTGATCAGGAGACTAAGCTAATAGGTCACCATAGGGGTAATAGGTTTACCGGGACTGAGCCG
ACAAGTAAACAATGAGATAAAGGTTGACTGGAGACTGAGCTGACAGGTCACTATAGGTGTAAGGG
TTTACAGGGACTGAGCTGACAGGTAAAAAAAAGATGA
Found at i:1019430 original size:43 final size:42
Alignment explanation
Indices: 1019298--1019430 Score: 101
Period size: 43 Copynumber: 3.1 Consensus size: 42
1019288 ATGAGATGGA
* * * *
1019298 GGTTGACTGGAGACTAAGCTGATAGGTCACCATAGGGGTAATG
1 GGTTGACTGG-GACCAAGCTGACAGGTCACTATAGGAGTAATG
* * * * * *
1019341 GGTTTATCGGGGACTGAA-CTGACAAGTAAATA-AGGAGATGAA-G
1 GGTTGA-CTGGGAC-CAAGCTGACAGGTCACTATAGGAG-T-AATG
1019384 GGTTGACTAGGGACCAAGCTGACAGGTCACTATAGGAGTAATG
1 GGTTGACT-GGGACCAAGCTGACAGGTCACTATAGGAGTAATG
1019427 GGTT
1 GGTT
1019431 TACAGGGGAC
Statistics
Matches: 67, Mismatches: 15, Indels: 16
0.68 0.15 0.16
Matches are distributed among these distances:
42 9 0.13
43 46 0.69
44 12 0.18
ACGTcount: A:0.31, C:0.13, G:0.34, T:0.23
Consensus pattern (42 bp):
GGTTGACTGGGACCAAGCTGACAGGTCACTATAGGAGTAATG
Found at i:1019440 original size:43 final size:43
Alignment explanation
Indices: 1019313--1019449 Score: 104
Period size: 43 Copynumber: 3.2 Consensus size: 43
1019303 ACTGGAGACT
* * * *
1019313 AAGCTGATAGGTCACCATAGGGGTAATGGGTTTATC-GGGGACTG
1 AAGCTGACAGGTCACTATAGGAGTAATGGGTTTA-CAGGGGAC-C
* * * *
1019357 AA-CTGACAAGTAAATA-AGGAGATGAA-GGGTTGACTA-GGGACC
1 AAGCTGACAGGTCACTATAGGAG-T-AATGGGTTTAC-AGGGGACC
*
1019399 AAGCTGACAGGTCACTATAGGAGTAATGGGTTTACAGGGGACT
1 AAGCTGACAGGTCACTATAGGAGTAATGGGTTTACAGGGGACC
*
1019442 GAGCTGAC
1 AAGCTGAC
1019450 GGGTAAACAA
Statistics
Matches: 71, Mismatches: 14, Indels: 17
0.70 0.14 0.17
Matches are distributed among these distances:
42 10 0.14
43 52 0.73
44 9 0.13
ACGTcount: A:0.31, C:0.14, G:0.34, T:0.21
Consensus pattern (43 bp):
AAGCTGACAGGTCACTATAGGAGTAATGGGTTTACAGGGGACC
Found at i:1019525 original size:85 final size:85
Alignment explanation
Indices: 1019263--1019526 Score: 252
Period size: 85 Copynumber: 3.1 Consensus size: 85
1019253 AGGAGTTTGC
* * *
1019263 CAGGGACTGAGCTGGCAGGTAAACAATGAGATGGA-GGTTGACTG-GAGACTAAGCTGATAGGTC
1 CAGGGACTGAGCTGACAGGTAAACAAAGAGATGAAGGGTTGACTGAG-GACTAAGCTGATAGGTC
* * * *
1019326 ACCATAGGGGTAATGGGTTTAT
65 A-TAAAAGGATAATGGGTTTAT
* * * * * * *
1019348 CGGGGACTGAACTGACAAGTAAATAAGGAGATGAAGGGTTGACT-AGGGACCAAGCTGACAGGTC
1 CAGGGACTGAGCTGACAGGTAAACAAAGAGATGAAGGGTTGACTGA-GGACTAAGCTGATAGGTC
*
1019412 ACT-ATAGGAGTAATGGGTTTA-
65 A-TAAAAGGA-TAATGGGTTTAT
* *
1019433 CAGGGGACTGAGCTGACGGGTAAACAAAG-GATGAAGGGTTGATTGAGGACTAAGCTGATAGGTC
1 CA-GGGACTGAGCTGACAGGTAAACAAAGAGATGAAGGGTTGACTGAGGACTAAGCTGATAGGTC
*
1019497 ATGAAAAGGATAAAGGGTTTAT
65 AT-AAAAGGATAATGGGTTTAT
*
1019519 TAGGGACT
1 CAGGGACT
1019527 ACGTCGATAA
Statistics
Matches: 144, Mismatches: 26, Indels: 18
0.77 0.14 0.10
Matches are distributed among these distances:
84 1 0.01
85 78 0.54
86 64 0.44
87 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.21
Consensus pattern (85 bp):
CAGGGACTGAGCTGACAGGTAAACAAAGAGATGAAGGGTTGACTGAGGACTAAGCTGATAGGTCA
TAAAAGGATAATGGGTTTAT
Found at i:1019759 original size:44 final size:41
Alignment explanation
Indices: 1019710--1020216 Score: 253
Period size: 44 Copynumber: 11.5 Consensus size: 41
1019700 ATGCAAATCG
*
1019710 TTTGACTAGGGTGGTAACCATACGTCAAACATGAAGGAAGCAAA
1 TTTGACCAGGGTGGTAACCATACGTCAAACA-GAAGGAA--AAA
* * *
1019754 TTTGACCAGGGTGGCAACCATAAGTCAAATCAGAATGAAAAGAA
1 TTTGACCAGGGTGGTAACCATACGTCAAA-CAGAA-GGAAA-AA
* *
1019798 TCTGACCAGGGTGGTAACCATACGTCAAACAGAAATGAAAAGA
1 TTTGACCAGGGTGGTAACCATACGTCAAACAG-AAGGAAAA-A
* * * ** *
1019841 GTTTAACTAGGGTGGTAACCATACATCAAACAAGAAAGAGGTAGA
1 -TTTGACCAGGGTGGTAACCATACGTCAAAC-AG-AAG-GAAAAA
* * *
1019886 CTTGACCAGGGTAGTAACCATACATCAAATCAG-AGTGAAAGAA
1 TTTGACCAGGGTGGTAACCATACGTCAAA-CAGAAG-GAAA-AA
* * *
1019929 TTTGACCAGGGTGGTAACCATACGTCAGACCTAAAATGAAAAGA
1 TTTGACCAGGGTGGTAACCATACGTCA-AAC-AGAAGGAAAA-A
* * *
1019973 GTTTGACCAAGGTGGTAACCATACATCAAACAAAAGAGATGAAAA
1 -TTTGACCAGGGTGGTAACCATACGTCAAACAGAAG-GA--AAAA
* * * * * * *
1020018 TTTGACCAAGATGGTAGCCATATGTTAAATCAAAATGAAAAGAA
1 TTTGACCAGGGTGGTAACCATACGTCAAA-CAGAA-GGAAA-AA
* * * * * **
1020062 TCTGACCAAGGTGGTAATCATACGTTAGACCTA-AAATAAGAAGA
1 TTTGACCAGGGTGGTAACCATACGTCA-AAC-AGAAGGAA-AA-A
* * * * *
1020106 GTTTGACTAAGGTGGTAACTATACGTCAAATAGAAGAAAGGAAAA
1 -TTTGACCAGGGTGGTAACCATACGTCAAACAGAAG---GAAAAA
* * * * *
1020151 TTTTACTAGGGTGGTAACCATACATCAAATCAAAATGAAAAGAA
1 TTTGACCAGGGTGGTAACCATACGTCAAA-CAGAA-GGAAA-AA
* *
1020195 TCTAACCAGGGTGGTAACCATA
1 TTTGACCAGGGTGGTAACCATA
1020217 TGTCGCAACG
Statistics
Matches: 360, Mismatches: 70, Indels: 66
0.73 0.14 0.13
Matches are distributed among these distances:
42 5 0.01
43 47 0.13
44 225 0.62
45 73 0.20
46 9 0.03
47 1 0.00
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.21
Consensus pattern (41 bp):
TTTGACCAGGGTGGTAACCATACGTCAAACAGAAGGAAAAA
Found at i:1019853 original size:88 final size:88
Alignment explanation
Indices: 1019712--1020216 Score: 379
Period size: 88 Copynumber: 5.7 Consensus size: 88
1019702 GCAAATCGTT
* * * * * *
1019712 TGACTAGGGTGGTAACCATACGTCAAACATGAAGGAAGCA-AATTTGACCAGGGTGGCAACCATA
1 TGACCAGGGTGGTAACCATACATCAAACA-AAATGAAGAAGAATTTGACCAGGGTGGTAACCATA
1019776 AGTCAAATCAGAATGAAAAGAATC
65 AGTCAAATCAGAATGAAAAGAATC
* * * *
1019800 TGACCAGGGTGGTAACCATACGTCAAACAGAAATGAA-AAGAGTTTAACTAGGGTGGTAACCATA
1 TGACCAGGGTGGTAACCATACATCAAACA-AAATGAAGAAGAATTTGACCAGGGTGGTAACCATA
* ** *
1019864 CA-TCAAA-CAAGAAAGAGGTAGACT-
65 -AGTCAAATC-AGAATGA-AAAGAATC
* * *
1019888 TGACCAGGGTAGTAACCATACATCAAATCAGAGTG-A-AAGAATTTGACCAGGGTGGTAACCATA
1 TGACCAGGGTGGTAACCATACATCAAA-CAAAATGAAGAAGAATTTGACCAGGGTGGTAACCATA
* * * * * *
1019951 CGTCAGACCTAAAATGAAAAGAGTT
65 AGTCAAATC-AGAATGAAAAGAATC
* * * *
1019976 TGACCAAGGTGGTAACCATACATCAAACAAAA-GAGATGAA-AATTTGACCAAGATGGTAGCCAT
1 TGACCAGGGTGGTAACCATACATCAAACAAAATGA-A-GAAGAATTTGACCAGGGTGGTAACCAT
* * *
1020039 ATGTTAAATCAAAATGAAAAGAATC
64 AAGTCAAATCAGAATGAAAAGAATC
* * * * * * * * *
1020064 TGACCAAGGTGGTAATCATACGTTAGACCTAAAAT-AAGAAGAGTTTGACTAAGGTGGTAACTAT
1 TGACCAGGGTGGTAACCATACATCA-AAC-AAAATGAAGAAGAATTTGACCAGGGTGGTAACCAT
* * *
1020128 ACGTCAAAT-AGAA-GAAAGGAAAATT
64 AAGTCAAATCAGAATGAAA--AGAATC
* * * *
1020153 TTACTAGGGTGGTAACCATACATCAAATCAAAATGAA-AAGAATCTAACCAGGGTGGTAACCATA
1 TGACCAGGGTGGTAACCATACATCAAA-CAAAATGAAGAAGAATTTGACCAGGGTGGTAACCATA
1020217 TGTCGCAACG
Statistics
Matches: 329, Mismatches: 68, Indels: 40
0.75 0.16 0.09
Matches are distributed among these distances:
86 1 0.00
87 42 0.13
88 192 0.58
89 87 0.26
90 7 0.02
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.20
Consensus pattern (88 bp):
TGACCAGGGTGGTAACCATACATCAAACAAAATGAAGAAGAATTTGACCAGGGTGGTAACCATAA
GTCAAATCAGAATGAAAAGAATC
Found at i:1019966 original size:132 final size:134
Alignment explanation
Indices: 1019709--1020216 Score: 611
Period size: 132 Copynumber: 3.8 Consensus size: 134
1019699 AATGCAAATC
* * * * * *
1019709 GTTTGACTAGGGTGGTAACCATACGTCAAACATGAAG-GAAGCAAATTTGACCAGGGTGGCAACC
1 GTTTGACTAAGGTGGTAACCATACATCAAACAAGAAGAGAGGAAAATTTGACCAGGGTGGTAACC
* *
1019773 ATA-AGTCAAATCAGAATGAAAAGAATCTGACCAGGGTGGTAACCATACGTCA-AAC-AGAAATG
66 ATACA-TCAAATCAAAATGAAAAGAATCTGACCAGGGTGGTAACCATACGTCAGACCTA-AAATG
1019835 AAAAGA
129 AAAAGA
* * * * * *
1019841 GTTTAACTAGGGTGGTAACCATACATCAAACAAGAA-AGAGGTAGACTTGACCAGGGTAGTAACC
1 GTTTGACTAAGGTGGTAACCATACATCAAACAAGAAGAGAGGAAAATTTGACCAGGGTGGTAACC
* * *
1019905 ATACATCAAATCAGAGTG-AAAGAATTTGACCAGGGTGGTAACCATACGTCAGACCTAAAATGAA
66 ATACATCAAATCAAAATGAAAAGAATCTGACCAGGGTGGTAACCATACGTCAGACCTAAAATGAA
1019969 AAGA
131 AAGA
* * * * *
1019973 GTTTGACCAAGGTGGTAACCATACATCAAACAA-AAGAGATGAAAATTTGACCAAGATGGTAGCC
1 GTTTGACTAAGGTGGTAACCATACATCAAACAAGAAGAGAGGAAAATTTGACCAGGGTGGTAACC
** * * * *
1020037 ATATGTTAAATCAAAATGAAAAGAATCTGACCAAGGTGGTAATCATACGTTAGACCTAAAAT-AA
66 ATACATCAAATCAAAATGAAAAGAATCTGACCAGGGTGGTAACCATACGTCAGACCTAAAATGAA
1020101 GAAGA
131 -AAGA
* * * * * *
1020106 GTTTGACTAAGGTGGTAACTATACGTCAAA-TAGAAGAAAGGAAAATTTTACTAGGGTGGTAACC
1 GTTTGACTAAGGTGGTAACCATACATCAAACAAGAAGAGAGGAAAATTTGACCAGGGTGGTAACC
*
1020170 ATACATCAAATCAAAATGAAAAGAATCTAACCAGGGTGGTAACCATA
66 ATACATCAAATCAAAATGAAAAGAATCTGACCAGGGTGGTAACCATA
1020217 TGTCGCAACG
Statistics
Matches: 319, Mismatches: 49, Indels: 15
0.83 0.13 0.04
Matches are distributed among these distances:
131 34 0.11
132 148 0.46
133 137 0.43
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.21
Consensus pattern (134 bp):
GTTTGACTAAGGTGGTAACCATACATCAAACAAGAAGAGAGGAAAATTTGACCAGGGTGGTAACC
ATACATCAAATCAAAATGAAAAGAATCTGACCAGGGTGGTAACCATACGTCAGACCTAAAATGAA
AAGA
Found at i:1023633 original size:79 final size:79
Alignment explanation
Indices: 1023542--1024126 Score: 753
Period size: 79 Copynumber: 7.4 Consensus size: 79
1023532 AATTTTAATA
* * * * * * *
1023542 TTTTGGAGATAAAAATGGGGTCGGAGTACCCCCTCAAAAATAACGAGGTTGGAGTATCCCCAATG
1 TTTTGGAAATAAAACTGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATT
* *
1023607 GTGGAAAATTGATG
66 GTGAAAAATTGGTG
* * * * *
1023621 TTTTGGAAATAAAA-TCGGGGTAGGAGTATCCCCCCGAAAATAACAGGGTTGGAGTATCCTCGAT
1 TTTTGGAAATAAAACT-GGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGAT
1023685 TGTGAAAAATTGGTG
65 TGTGAAAAATTGGTG
* * *
1023700 TTTTAGAAATAAAACTGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTAGAGTATCCCCGATT
1 TTTTGGAAATAAAACTGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATT
1023765 GTGAAAAATTGGTG
66 GTGAAAAATTGGTG
* * * * *
1023779 TTTTAGAAATAAAACCT-GGGTTGGAGTATTCCCTCAGAAATAATGGGATTGGAGTATCCCCGAT
1 TTTTGGAAATAAAA-CTGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGAT
1023843 TGTGAAAAATTGGTG
65 TGTGAAAAATTGGTG
** *
1023858 TTTTGGAAATAAAACCAGGGTTGGAGTATCCCCTAAAAAATAACGGGGTTGGAGTATCCCCGATT
1 TTTTGGAAATAAAACTGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATT
*
1023923 GTAAAAAATTGGTG
66 GTGAAAAATTGGTG
* * *
1023937 TTTTGAGAAATAAAACT-GGGTTGAAGTATCCCCTCAAAAATAATGGGGTTGGAGAATCCCCGAT
1 TTTTG-GAAATAAAACTGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGAT
*
1024001 TGTGAAGAATTGGTG
65 TGTGAAAAATTGGTG
* *** *
1024016 TTTTGAAAATAAAACTGGGGTTGGAGTATCCCCTTGGAAATAACGGGGTTGGAGTATCCCTGATT
1 TTTTGGAAATAAAACTGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATT
** *
1024081 GTGAAAAATTACTA
66 GTGAAAAATTGGTG
* * *
1024095 TCTTAGAAATAAAACCGGGGTTGGAGTATCCC
1 TTTTGGAAATAAAACTGGGGTTGGAGTATCCC
1024127 TGATTATGAA
Statistics
Matches: 445, Mismatches: 55, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
78 12 0.03
79 420 0.94
80 13 0.03
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (79 bp):
TTTTGGAAATAAAACTGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATT
GTGAAAAATTGGTG
Found at i:1024125 original size:51 final size:51
Alignment explanation
Indices: 1024059--1024177 Score: 202
Period size: 51 Copynumber: 2.3 Consensus size: 51
1024049 TTGGAAATAA
*
1024059 CGGGGTTGGAGTATCCCTGATTGTGAAAAATTACTATCTTAGAAATAAAAC
1 CGGGGTTGGAGTATCCCTGATTATGAAAAATTACTATCTTAGAAATAAAAC
** *
1024110 CGGGGTTGGAGTATCCCTGATTATGAAAAATTGGTATTTTAGAAATAAAAC
1 CGGGGTTGGAGTATCCCTGATTATGAAAAATTACTATCTTAGAAATAAAAC
1024161 CGGGGTTGGAGTATCCC
1 CGGGGTTGGAGTATCCC
1024178 CTCGGAAATA
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 64 1.00
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.29
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCTGATTATGAAAAATTACTATCTTAGAAATAAAAC
Found at i:1024142 original size:130 final size:130
Alignment explanation
Indices: 1023981--1024257 Score: 378
Period size: 130 Copynumber: 2.1 Consensus size: 130
1023971 CAAAAATAAT
* * * * *
1023981 GGGGTTGGAGAATCCCCGATTGTGAAGAATTGGTGTTTT-GAAAATAAAACTGGGGTTGGAGTAT
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTAG-AAATAAAACCGGGGTTGGAGTAT
* * *
1024045 CCCCTTGGAAATAACGGGGTTGGAGTATCCCTGATTGT-GAAAAATTACTATCTTAGAAATAAAA
65 CCCCTCGGAAATAACAGGGTTGGAGTATCCCTAATTGTAGAAAAA-TACTATCTTAGAAATAAAA
1024109 CC
129 CC
*
1024111 GGGGTTGGAGTATCCCTGATTATGAAAAATTGGTATTTTAGAAATAAAACCGGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTAGAAATAAAACCGGGGTTGGAGTATC
** * * * *
1024176 CCCTCGGAAATAACAGGGTTGGAGTATCCCTAATTGTAGAAAAATGGTGTTTTGGAAATAAAATC
66 CCCTCGGAAATAACAGGGTTGGAGTATCCCTAATTGTAGAAAAATACTATCTTAGAAATAAAACC
*
1024241 GGGATTGGAGTATCCCC
1 GGGGTTGGAGTATCCCC
1024258 TTGGAAATAA
Statistics
Matches: 128, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
130 121 0.95
131 7 0.05
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (130 bp):
GGGGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTAGAAATAAAACCGGGGTTGGAGTATC
CCCTCGGAAATAACAGGGTTGGAGTATCCCTAATTGTAGAAAAATACTATCTTAGAAATAAAACC
Found at i:1024195 original size:79 final size:79
Alignment explanation
Indices: 1024112--1024267 Score: 233
Period size: 79 Copynumber: 2.0 Consensus size: 79
1024102 AATAAAACCG
* *
1024112 GGGTTGGAGTATCCCTGATTAT-GAAAAATTGGTATTTTAGAAATAAAACCGGGGTTGGAGTATC
1 GGGTTGGAGTATCCCTAATTATAGAAAAA-TGGTATTTTAGAAATAAAACCGGGATTGGAGTATC
1024176 CCCTCGGAAATAACA
65 CCCTCGGAAATAACA
* * * *
1024191 GGGTTGGAGTATCCCTAATTGTAGAAAAATGGTGTTTTGGAAATAAAATCGGGATTGGAGTATCC
1 GGGTTGGAGTATCCCTAATTATAGAAAAATGGTATTTTAGAAATAAAACCGGGATTGGAGTATCC
*
1024256 CCTTGGAAATAA
66 CCTCGGAAATAA
1024268 AAACATGAAT
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
79 63 0.91
80 6 0.09
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (79 bp):
GGGTTGGAGTATCCCTAATTATAGAAAAATGGTATTTTAGAAATAAAACCGGGATTGGAGTATCC
CCTCGGAAATAACA
Found at i:1026688 original size:20 final size:20
Alignment explanation
Indices: 1026663--1026717 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
1026653 TAAAACCTAG
1026663 AATGTATCGATACAATGAAA
1 AATGTATCGATACAATGAAA
*
1026683 AATGTATCGATACAATGAAC
1 AATGTATCGATACAATGAAA
1026703 AATGTATCGATACAA
1 AATGTATCGATACAA
1026718 ATTGTGAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.47, C:0.13, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAATGAAA
Found at i:1027432 original size:35 final size:35
Alignment explanation
Indices: 1027307--1027440 Score: 110
Period size: 35 Copynumber: 3.7 Consensus size: 35
1027297 AAGGGGCGTT
* **
1027307 CTGCTCTTCGAGGATAAAGG-AAAAGGAGCACGTC
1 CTGCTCTTCGAGGACAAAGGAAAAAGGAATACGTC
* **
1027341 CTGCTCTTCGAGGACAAAAGAAAAGAGAAAGAAATGGGTC
1 CTGCTCTTCGAGGACAAAGGAAAA-AG---G-AATACGTC
* *
1027381 CTGCTCCTT-GAAGACAAAGGAAAAAGGAATACATC
1 CTGCT-CTTCGAGGACAAAGGAAAAAGGAATACGTC
* *
1027416 TTGCTCTTCGAGGACAAACGAAAAA
1 CTGCTCTTCGAGGACAAAGGAAAAA
1027441 CAAGAAGTAA
Statistics
Matches: 78, Mismatches: 14, Indels: 15
0.73 0.13 0.14
Matches are distributed among these distances:
34 21 0.27
35 26 0.33
36 3 0.04
39 3 0.04
40 22 0.28
41 3 0.04
ACGTcount: A:0.40, C:0.19, G:0.25, T:0.17
Consensus pattern (35 bp):
CTGCTCTTCGAGGACAAAGGAAAAAGGAATACGTC
Found at i:1027675 original size:120 final size:119
Alignment explanation
Indices: 1027518--1027897 Score: 473
Period size: 120 Copynumber: 3.2 Consensus size: 119
1027508 GGAGAAAGCA
* * * *
1027518 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTAGGCTTTAAAA-GAACAGGCTCCTC
1 TCCTACTCTTTGAAGACTAGAAGGTGCCACCAACTTGTGT-GGCTTTAAAAGGAAAAGGCTCCTA
* * *
1027582 CTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGTTTTAAAAGAATAAGGCG
65 CTCTTTAAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAA-AAGGCG
1027638 TCCTACTCTTTGAAGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCT
1 TCCTACTCTTTGAAGACTAGAAGGTGCCACCAACTTGTGT-GGCTTTAAAAGGAAAAGGC-TCCT
* *
1027703 ACT-TTTCAAGGACTGAAAAGTGCCACCAACTTGGTGTGGGCTTTGAAAG-AAA-GTG
64 ACTCTTT-AAGGACTGAAAAGTGCCACCAACTT-GTGTGGGCTTTAAAAGAAAAGGCG
* * * *
1027758 TCCTGCTCTTTGGATACT-GAAAGGTGCCACCAACTTGTGTGCGCTTTAAAAGGAAAAGGTGTCC
1 TCCTACTCTTTGAAGACTAG-AAGGTGCCACCAACTTGTGTG-GCTTTAAAAGGAAAAGG-CTCC
* * * *
1027822 TGCTCTTTAAGGACTGGAAAGTGCCACCAACTTGCGTGGACTTTAAAAGGAAAAGGCG
63 TACTCTTTAAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGCG
*
1027880 TCCTACTCTTTGAGGACT
1 TCCTACTCTTTGAAGACT
1027898 GGAAAGGATA
Statistics
Matches: 225, Mismatches: 24, Indels: 20
0.84 0.09 0.07
Matches are distributed among these distances:
119 14 0.06
120 133 0.59
121 18 0.08
122 46 0.20
123 14 0.06
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.27
Consensus pattern (119 bp):
TCCTACTCTTTGAAGACTAGAAGGTGCCACCAACTTGTGTGGCTTTAAAAGGAAAAGGCTCCTAC
TCTTTAAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
Found at i:1027769 original size:181 final size:181
Alignment explanation
Indices: 1027456--1027903 Score: 552
Period size: 181 Copynumber: 2.5 Consensus size: 181
1027446 AGTAAAATGT
** * ** *
1027456 GTCCTGCTCTTTGAAGACTAGAAGGTGCCATTAACTTGCATGGGCTTTGCAAGGAGAAA-GCATC
1 GTCCTGCTCTTTGAAGACTAGAAGGTGCCACCAACTTGCGTGGGCTTTAAAAGGA-AAAGGCGTC
* *
1027520 CTGCTCTTTGAGGACT-AGAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGAACAGGCTCCTCCT
65 CTACTCTTTGAGGACTGA-AAAGTGCCACCAACTTGTGTAGGCTTTAAAAGAACAGGCTCCTCCT
* *
1027584 CTTT-GAGGACTAAAAAGTGCCACCAACTTGTGTGGGTTTTAAAA-GAATAAGGC
129 CTTTGGA-GACTAAAAAGTGCCACCAACTTGTGTGCGCTTTAAAAGGAA-AAGGC
* *
1027637 GTCCTACTCTTTGAAGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
1 GTCCTGCTCTTTGAAGACTAGAAGGTGCCACCAACTTGCGTGGGCTTTAAAAGGAAAAGGCGTCC
* * * *
1027702 TACT-TTTCAAGGACTGAAAAGTGCCACCAACTTGGTGTGGGCTTTGAAAGAA-AGTG-TCCTGC
66 TACTCTTT-GAGGACTGAAAAGTGCCACCAACTT-GTGTAGGCTTTAAAAGAACAG-GCTCCTCC
* * * *
1027764 TCTTTGGATACTGAAAGGTGCCACCAACTTGTGTGCGCTTTAAAAGGAAAAGGT
128 TCTTTGGAGACTAAAAAGTGCCACCAACTTGTGTGCGCTTTAAAAGGAAAAGGC
* * *
1027818 GTCCTGCTCTTT-AAGGACTGGAAAGTGCCACCAACTTGCGTGGACTTTAAAAGGAAAAGGCGTC
1 GTCCTGCTCTTTGAA-GACTAGAAGGTGCCACCAACTTGCGTGGGCTTTAAAAGGAAAAGGCGTC
*
1027882 CTACTCTTTGAGGACTGGAAAG
65 CTACTCTTTGAGGACTGAAAAG
1027904 GATAAAAGGT
Statistics
Matches: 231, Mismatches: 27, Indels: 18
0.84 0.10 0.07
Matches are distributed among these distances:
180 8 0.03
181 197 0.85
182 26 0.11
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (181 bp):
GTCCTGCTCTTTGAAGACTAGAAGGTGCCACCAACTTGCGTGGGCTTTAAAAGGAAAAGGCGTCC
TACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTAGGCTTTAAAAGAACAGGCTCCTCCTCT
TTGGAGACTAAAAAGTGCCACCAACTTGTGTGCGCTTTAAAAGGAAAAGGC
Found at i:1027898 original size:61 final size:61
Alignment explanation
Indices: 1027456--1027903 Score: 477
Period size: 61 Copynumber: 7.4 Consensus size: 61
1027446 AGTAAAATGT
* * ** ** **
1027456 GTCCTGCTCTTTGAAGACTAGAAGGTGCCATTAACTTGCATGGGCTTTGCAAGGAGAAA-GC
1 GTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGGC
* * * *
1027517 ATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTAGGCTTTAAAA-GAACAGGC
1 GTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * *
1027577 -TCCTCCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGTTTTAAAA-GAATAAGGC
1 GTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAA-AAGGC
* * *
1027637 GTCCTACTCTTTGAAGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * * *
1027698 GTCCTACT-TTTCAAGGACT-GAAAAGTGCCACCAACTTGGTGTGGGCTTTGAAA-G-AAA-GT
1 GTCCTGCTCTTT-GAGGACTAG-AAAGTGCCACCAACTT-GTGTGGGCTTTAAAAGGAAAAGGC
* * *
1027757 GTCCTGCTCTTTG-GATACT-GAAAGGTGCCACCAACTTGTGTGCGCTTTAAAAGGAAAAGGT
1 GTCCTGCTCTTTGAG-GACTAGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * * *
1027818 GTCCTGCTCTTTAAGGACTGGAAAGTGCCACCAACTTGCGTGGACTTTAAAAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* *
1027879 GTCCTACTCTTTGAGGACTGGAAAG
1 GTCCTGCTCTTTGAGGACTAGAAAG
1027904 GATAAAAGGT
Statistics
Matches: 333, Mismatches: 39, Indels: 30
0.83 0.10 0.07
Matches are distributed among these distances:
58 17 0.05
59 77 0.23
60 21 0.06
61 196 0.59
62 22 0.07
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (61 bp):
GTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
Found at i:1028862 original size:7 final size:7
Alignment explanation
Indices: 1028832--1028915 Score: 64
Period size: 7 Copynumber: 11.6 Consensus size: 7
1028822 AAGTAGGTTC
1028832 TTTTCTT
1 TTTTCTT
*
1028839 TTCTCTT
1 TTTTCTT
*
1028846 TTCTCTT
1 TTTTCTT
1028853 TTTTCTT
1 TTTTCTT
1028860 TTTTCATT
1 TTTTC-TT
*
1028868 TTTTTTT
1 TTTTCTT
1028875 GTTGTTCTT
1 -TT-TTCTT
*
1028884 TTTTGTT
1 TTTTCTT
*
1028891 TCATTT-TG
1 T--TTTCTT
1028899 TTTT-TT
1 TTTTCTT
1028905 TTTTCTT
1 TTTTCTT
1028912 TTTT
1 TTTT
1028916 TGAAAAAAAG
Statistics
Matches: 64, Mismatches: 7, Indels: 12
0.77 0.08 0.14
Matches are distributed among these distances:
6 8 0.12
7 37 0.58
8 12 0.19
9 7 0.11
ACGTcount: A:0.02, C:0.12, G:0.05, T:0.81
Consensus pattern (7 bp):
TTTTCTT
Found at i:1028902 original size:28 final size:28
Alignment explanation
Indices: 1028861--1028915 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
1028851 TTTTTTCTTT
*
1028861 TTTCATTTTTTTTTGTTGTTCTTTTTTG
1 TTTCATTTTGTTTTGTTGTTCTTTTTTG
* *
1028889 TTTCATTTTGTTTTTTTTTTCTTTTTT
1 TTTCATTTTGTTTTGTTGTTCTTTTTT
1028916 TGAAAAAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.04, C:0.07, G:0.07, T:0.82
Consensus pattern (28 bp):
TTTCATTTTGTTTTGTTGTTCTTTTTTG
Found at i:1030371 original size:153 final size:151
Alignment explanation
Indices: 1030085--1030358 Score: 327
Period size: 151 Copynumber: 1.8 Consensus size: 151
1030075 AAAGGATGAA
* * * * * *
1030085 CCTATCCTAACTATCTACCTTTGACATAAAAGTGGACCCAATGACGACCTAAGAGTTAGTTCTAA
1 CCTACCCTAAATATCTACCTTCGACATAAAAGTGGACCCAATAACAACCTAAGACTTAGTTCTAA
* * * * ** ** *
1030150 AAATTATGAAAATGCTCCTAGGGGATACCTTAGACGTAAAAGTACTTGATACCTTTAAATAACTT
66 AAAATATGAAAATACTCCTAAGGGATACCTTAGACATAAAAGTACCCGATACCCCTAAAGAACTT
1030215 AAAAAAGACTTTAAAAGGGAG
131 AAAAAAGACTTTAAAAGGGAG
* * *
1030236 CCTACCCTAAATATCTACCTTCGGCATAAAAGTGGACCCAATAATAACCTAGGACTT-GATTCTA
1 CCTACCCTAAATATCTACCTTCGACATAAAAGTGGACCCAATAACAACCTAAGACTTAG-TTCTA
*
1030300 GAAAAAT-TGCAAAAATACTCCTAAGGGATACCTTCGACATAAAAGTACCCGATACCCCT
65 -AAAAATATG--AAAATACTCCTAAGGGATACCTTAGACATAAAAGTACCCGATACCCCT
1030359 GAGGGATTTA
Statistics
Matches: 101, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
150 1 0.01
151 55 0.54
152 5 0.05
153 40 0.40
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.26
Consensus pattern (151 bp):
CCTACCCTAAATATCTACCTTCGACATAAAAGTGGACCCAATAACAACCTAAGACTTAGTTCTAA
AAAATATGAAAATACTCCTAAGGGATACCTTAGACATAAAAGTACCCGATACCCCTAAAGAACTT
AAAAAAGACTTTAAAAGGGAG
Found at i:1033353 original size:20 final size:19
Alignment explanation
Indices: 1033327--1033399 Score: 69
Period size: 20 Copynumber: 3.7 Consensus size: 19
1033317 CTTCCAGTTT
*
1033327 CATGTATCGATACAATTG-T
1 CATGTATCGATACAA-TGAA
*
1033346 CAATGTATCGATATAATGAA
1 C-ATGTATCGATACAATGAA
*
1033366 CATGTATCGATACAAAGCATA
1 CATGTATCGATACAATG-A-A
1033387 -ATGTATCGATACA
1 CATGTATCGATACA
1033400 TCTGAGTGTG
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
19 17 0.37
20 28 0.61
21 1 0.02
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1040145 original size:52 final size:52
Alignment explanation
Indices: 1040060--1040184 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
1040050 ATATGAAAAG
* *
1040060 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
* *
1040112 TTGCCTGCATGTATCGATACATTTTATAATGTATTGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
1040164 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
1040185 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:1040197 original size:52 final size:51
Alignment explanation
Indices: 1040060--1040204 Score: 202
Period size: 52 Copynumber: 2.8 Consensus size: 51
1040050 ATATGAAAAG
*
1040060 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* * *
1040112 TTGCCTGCATGTATCGATACATTTTATAATGTATTGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
1040164 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
1040205 ATGTATCGAT
Statistics
Matches: 83, Mismatches: 8, Indels: 4
0.87 0.08 0.04
Matches are distributed among these distances:
51 2 0.02
52 81 0.98
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.35
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:1040211 original size:13 final size:13
Alignment explanation
Indices: 1040193--1040217 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1040183 CAAAGATCAG
1040193 TGTATCGATACAA
1 TGTATCGATACAA
1040206 TGTATCGATACA
1 TGTATCGATACA
1040218 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1040296 original size:33 final size:33
Alignment explanation
Indices: 1040257--1040326 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
1040247 GGCAGTAGCT
1040257 TACATTGTATCGATACAAAAAAATATGTATCGA
1 TACATTGTATCGATACAAAAAAATATGTATCGA
* ***
1040290 TACATTGTATCGATACAACATTTTATGTATCGA
1 TACATTGTATCGATACAAAAAAATATGTATCGA
1040323 TACA
1 TACA
1040327 AATCGTTGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.34
Consensus pattern (33 bp):
TACATTGTATCGATACAAAAAAATATGTATCGA
Found at i:1040300 original size:13 final size:13
Alignment explanation
Indices: 1040282--1040306 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1040272 CAAAAAAATA
1040282 TGTATCGATACAT
1 TGTATCGATACAT
1040295 TGTATCGATACA
1 TGTATCGATACA
1040307 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1040910 original size:52 final size:52
Alignment explanation
Indices: 1040821--1041034 Score: 175
Period size: 52 Copynumber: 4.2 Consensus size: 52
1040811 GTCATCGACA
* * * * * *
1040821 TTAAACATGATAATGGTGCTAATGTGCTGATTTAAGGCCAATGATATTAGGC
1 TTAAAAATGATAAAGGTGCCAATGTGCTAATTCAAGGCCAATGACATTAGGC
* * ** * **
1040873 TTAAAAATGATAAAGGTGCCAATATGCTAATTCAAGGCTAGCGACATCAGAT
1 TTAAAAATGATAAAGGTGCCAATGTGCTAATTCAAGGCCAATGACATTAGGC
* * * *
1040925 TTAAAGATAACT-AAGGTG-C-TTGTACTAATTCAAGGCCAATGACATT-GGAC
1 TTAAAAATGA-TAAAGGTGCCAATGTGCTAATTCAAGGCCAATGACATTAGG-C
* * * * * *
1040975 TTAAACATGATAAGGGTGCCAATGTGCTGATTTAAGGCCAGTGACATTAGGT
1 TTAAAAATGATAAAGGTGCCAATGTGCTAATTCAAGGCCAATGACATTAGGC
1041027 TTAAAAAT
1 TTAAAAAT
1041035 ATGACGGTTT
Statistics
Matches: 122, Mismatches: 34, Indels: 12
0.73 0.20 0.07
Matches are distributed among these distances:
49 2 0.02
50 33 0.27
51 2 0.02
52 82 0.67
53 3 0.02
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (52 bp):
TTAAAAATGATAAAGGTGCCAATGTGCTAATTCAAGGCCAATGACATTAGGC
Found at i:1041226 original size:34 final size:33
Alignment explanation
Indices: 1041082--1041412 Score: 259
Period size: 34 Copynumber: 10.0 Consensus size: 33
1041072 CAACGACATG
**
1041082 AAAGAGATGCCACCAACTTGTGTGGGCTT-TTAA
1 AAAG-GATGCCACCAACTTGTGTGGGCTTGAAAA
* * * *
1041115 GAGGGTTGCCACCAACTTGTGTGGGCTT--TAA
1 AAAGGATGCCACCAACTTGTGTGGGCTTGAAAA
* * * * * * *
1041146 AAAGGTTGTCATCGACTTGTGTAGGCTTTAGAA
1 AAAGGATGCCACCAACTTGTGTGGGCTTGAAAA
*
1041179 AAATGATGCCACCAACTTGTGTGGGCTTGGAAAA
1 AAAGGATGCCACCAACTTGTGTGGGCTT-GAAAA
*
1041213 AAAGGATGTCACCAACTTGTGTGGGCTTTGAAAAAA
1 AAAGGATGCCACCAACTTGTGTGGGC-TTG--AAAA
* *
1041249 AAAGG-TGCCACCAACTTGTATGGTCTGTGAAAA
1 AAAGGATGCCACCAACTTGTGTGGGCT-TGAAAA
*
1041282 AAAGAATGCCACCAACTTGTGTGGGCTTTGAAAA
1 AAAGGATGCCACCAACTTGTGTGGGC-TTGAAAA
* * *
1041316 AAAAGATGCCATCAACTTGTGTAGGCTTTG--AA
1 AAAGGATGCCACCAACTTGTGTGGGC-TTGAAAA
* * * *
1041348 AAA-GATGTCACTAGA-TTGTATGGGCTT-AAGA
1 AAAGGATGCCACCA-ACTTGTGTGGGCTTGAAAA
* *
1041379 AAAGG-TCACCACCAACTTGTGTGGGCTTTAAAA
1 AAAGGAT-GCCACCAACTTGTGTGGGCTTGAAAA
1041412 A
1 A
1041413 GAGTCACTCT
Statistics
Matches: 241, Mismatches: 41, Indels: 32
0.77 0.13 0.10
Matches are distributed among these distances:
30 2 0.01
31 46 0.19
32 45 0.19
33 38 0.16
34 79 0.33
35 22 0.09
36 9 0.04
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (33 bp):
AAAGGATGCCACCAACTTGTGTGGGCTTGAAAA
Found at i:1041295 original size:69 final size:68
Alignment explanation
Indices: 1041082--1041350 Score: 246
Period size: 69 Copynumber: 4.0 Consensus size: 68
1041072 CAACGACATG
* * ** * *
1041082 AAAGAGATGCCACCAACTTGTGTGGGCTTT--TAAGAGGGTTGCCACCAACTTGTGTGGGCTT--
1 AAAGA-ATGCCACCAACTTGTGTGGGCTTTGAAAAAAAAGATGCCACCAACTTGTATGGGCTTGG
*
1041143 -TAA
65 AAAA
** * * * * * * *
1041146 AAAGGTTGTCATCGACTTGTGTAGGCTTT-AGAAAAATGATGCCACCAACTTGTGTGGGCTTGGA
1 AAAGAATGCCACCAACTTGTGTGGGCTTTGAAAAAAAAGATGCCACCAACTTGTATGGGCTTGGA
1041210 AAA
66 AAA
* * * *
1041213 AAAGGATGTCACCAACTTGTGTGGGCTTTGAAAAAAAAAGGTGCCACCAACTTGTATGGTC-TGT
1 AAAGAATGCCACCAACTTGTGTGGGCTTTG-AAAAAAAAGATGCCACCAACTTGTATGGGCTTG-
1041277 GAAAA
64 GAAAA
* * * *
1041282 AAAGAATGCCACCAACTTGTGTGGGCTTTGAAAAAAAAGATGCCATCAACTTGTGTAGGCTTTGA
1 AAAGAATGCCACCAACTTGTGTGGGCTTTGAAAAAAAAGATGCCACCAACTTGTATGGGCTTGGA
1041347 AAA
66 AAA
1041350 A
1 A
1041351 GATGTCACTA
Statistics
Matches: 168, Mismatches: 29, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
63 19 0.11
64 30 0.18
67 27 0.16
68 33 0.20
69 59 0.35
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.26
Consensus pattern (68 bp):
AAAGAATGCCACCAACTTGTGTGGGCTTTGAAAAAAAAGATGCCACCAACTTGTATGGGCTTGGA
AAA
Found at i:1042127 original size:14 final size:14
Alignment explanation
Indices: 1042100--1042159 Score: 86
Period size: 14 Copynumber: 4.4 Consensus size: 14
1042090 TGTGATGGTA
1042100 ATGT-GAATGCATG
1 ATGTGGAATGCATG
*
1042113 ATGTGGAATGTATG
1 ATGTGGAATGCATG
*
1042127 ATGTGGAATGCATT
1 ATGTGGAATGCATG
*
1042141 ATGTTGAATGCATG
1 ATGTGGAATGCATG
1042155 ATGTG
1 ATGTG
1042160 AAGTCTAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
13 4 0.10
14 36 0.90
ACGTcount: A:0.28, C:0.05, G:0.32, T:0.35
Consensus pattern (14 bp):
ATGTGGAATGCATG
Found at i:1042331 original size:46 final size:46
Alignment explanation
Indices: 1042264--1042354 Score: 155
Period size: 46 Copynumber: 2.0 Consensus size: 46
1042254 ATCTCCTTGA
1042264 TTCCACTGAGGATTGTAGGTTGCCCGATTTGTATCGATACAATTAG
1 TTCCACTGAGGATTGTAGGTTGCCCGATTTGTATCGATACAATTAG
* **
1042310 TTCCACTGGGGATTGTAGGTTGCTTGATTTGTATCGATACAATTA
1 TTCCACTGAGGATTGTAGGTTGCCCGATTTGTATCGATACAATTA
1042355 ATGCATGTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.23, C:0.15, G:0.24, T:0.37
Consensus pattern (46 bp):
TTCCACTGAGGATTGTAGGTTGCCCGATTTGTATCGATACAATTAG
Found at i:1046343 original size:28 final size:28
Alignment explanation
Indices: 1046312--1046368 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
1046302 TAAGACACAA
* *
1046312 TGGATAAGCTTATTTTAACAAGACAATG
1 TGGATAAACTTATTTTAACAAAACAATG
*
1046340 TGGATAAACTTGTTTTAACAAAACAATG
1 TGGATAAACTTATTTTAACAAAACAATG
1046368 T
1 T
1046369 CTAAAGTAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.33
Consensus pattern (28 bp):
TGGATAAACTTATTTTAACAAAACAATG
Found at i:1046476 original size:28 final size:28
Alignment explanation
Indices: 1046408--1046476 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 28
1046398 TCTTGATATT
* * * *
1046408 TTAATAAGACAAAATGGATAAGCTTATC
1 TTAACAAGACAATATGGATAAACTTATA
* *
1046436 TTAACAAGACAATTTGGATAAACTTGTA
1 TTAACAAGACAATATGGATAAACTTATA
1046464 TTAACAAGACAAT
1 TTAACAAGACAAT
1046477 GTCTTAAGTA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.29
Consensus pattern (28 bp):
TTAACAAGACAATATGGATAAACTTATA
Found at i:1046486 original size:110 final size:110
Alignment explanation
Indices: 1046280--1046560 Score: 402
Period size: 110 Copynumber: 2.6 Consensus size: 110
1046270 TTCAATTGAA
* * * *
1046280 ATAAGTTATCTTGATGA-CTTAATAAGACACAATGGATAAGCTTATTTTAACAAGACAATGTGGA
1 ATAAATTATCTTAAT-ATCTTAATAAGACAAAATGGATAAGCTTATCTTAACAAGACAATGTGGA
* *
1046344 TAAACTTGTTTTAACAAAACAATGTCTAAAGTAGATATGTCTTAAG
65 TAAACTTGTATTAACAAAACAATGTCTAAAGTAGATAGGTCTTAAG
* * * *
1046390 ATAAATTGTCTTGATATTTTAATAAGACAAAATGGATAAGCTTATCTTAACAAGACAATTTGGAT
1 ATAAATTATCTTAATATCTTAATAAGACAAAATGGATAAGCTTATCTTAACAAGACAATGTGGAT
* *
1046455 AAACTTGTATTAACAAGACAATGTCTTAAGTAGATAGGTCTTAAG
66 AAACTTGTATTAACAAAACAATGTCTAAAGTAGATAGGTCTTAAG
* * * *
1046500 ATTAATTATCTTAATGTCTTAATAAGACAAGATGGATAAGCTTATCTTAGCAAGACAATGT
1 ATAAATTATCTTAATATCTTAATAAGACAAAATGGATAAGCTTATCTTAACAAGACAATGT
1046561 CTAAAGTAGA
Statistics
Matches: 152, Mismatches: 18, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
109 1 0.01
110 151 0.99
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (110 bp):
ATAAATTATCTTAATATCTTAATAAGACAAAATGGATAAGCTTATCTTAACAAGACAATGTGGAT
AAACTTGTATTAACAAAACAATGTCTAAAGTAGATAGGTCTTAAG
Found at i:1047943 original size:65 final size:65
Alignment explanation
Indices: 1047862--1048012 Score: 180
Period size: 65 Copynumber: 2.3 Consensus size: 65
1047852 ATGAACATTT
** **
1047862 AAGATCAAGTTCCATTACAACCATAAAATTGAACATCAAAATAA-CCTTAAAAAACTAT-ACTAT
1 AAGATCAAGTTCCATTACAACCATAAAATAAAAC-TCAAAATAAGCC-TAAAAAACTATAAAAAT
1047925 TA
64 TA
* * *
1047927 AAGATCAAGTTCCATTACAACTATAAACTAAAACTCAAAATAAGCCTAAACAACTATAAAAATTA
1 AAGATCAAGTTCCATTACAACCATAAAATAAAACTCAAAATAAGCCTAAAAAACTATAAAAATTA
* **
1047992 AAGGTCAAGTTTAATTACAAC
1 AAGATCAAGTTCCATTACAAC
1048013 TTTATTTCAC
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
64 19 0.26
65 55 0.74
ACGTcount: A:0.51, C:0.18, G:0.06, T:0.25
Consensus pattern (65 bp):
AAGATCAAGTTCCATTACAACCATAAAATAAAACTCAAAATAAGCCTAAAAAACTATAAAAATTA
Found at i:1048513 original size:196 final size:194
Alignment explanation
Indices: 1048143--1048526 Score: 536
Period size: 196 Copynumber: 2.0 Consensus size: 194
1048133 GTCTCTTCAT
* * * *
1048143 TTTTTTCATAACTATTATCCTAGTGTTGATGTTGGTAGCAAAAGTAATCAAGTTATTTAATTGGT
1 TTTTTTCATAACTATTATCCTAGTATTGATGTTCGTAGAAAAAGTAATCAAATTATTTAATTGGT
* * * * *
1048208 AAAAAGTGACTTTATAACTCCTCGAGTATTAAAATTTTGGCTAGAATAGCATACACCAACATCAT
66 AAAAAGTGACTCTATAACTCCTCGACTACTAAAATTTTGGCTAAAAGAGCATACACCAACATCAT
*
1048273 ATACCTCCAATTAGATTTCAACCTTTTCTACCCAATTAGCCCTTTGTTCATCTATAGCTCTTAG
131 ATACCTCCAATTAGATTTCAACCTTTTCTACCCAATTAGCCCTTTATTCATCTATAGCTCTTAG
*
1048337 TTTTTTCTATAACTGTTATCCTAGTATTGATGTTCGTAGAAAAAGTAATCAAATTATTTAATTTG
1 TTTTTTC-ATAACTATTATCCTAGTATTGATGTTCGTAGAAAAAGTAATCAAATTATTTAA-TTG
* * *
1048402 GTCAAAAGTGACTCTATAACTCCTTGACTACTAAAATTTTGGCTAAAAGAGCATGCACCAACATC
64 GTAAAAAGTGACTCTATAACTCCTCGACTACTAAAATTTTGGCTAAAAGAGCATACACCAACATC
* * ** ** * *
1048467 ATTTACCTCCAATTGGATTTTGACCTCTTT-TGTCCAATTGGCCCTTTATTCATTTATAGC
129 ATATACCTCCAATTAGATTTCAACCT-TTTCTACCCAATTAGCCCTTTATTCATCTATAGC
1048527 ATTTTTTTGC
Statistics
Matches: 165, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
194 7 0.04
195 48 0.29
196 107 0.65
197 3 0.02
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.38
Consensus pattern (194 bp):
TTTTTTCATAACTATTATCCTAGTATTGATGTTCGTAGAAAAAGTAATCAAATTATTTAATTGGT
AAAAAGTGACTCTATAACTCCTCGACTACTAAAATTTTGGCTAAAAGAGCATACACCAACATCAT
ATACCTCCAATTAGATTTCAACCTTTTCTACCCAATTAGCCCTTTATTCATCTATAGCTCTTAG
Found at i:1051389 original size:80 final size:79
Alignment explanation
Indices: 1051206--1051837 Score: 461
Period size: 80 Copynumber: 8.1 Consensus size: 79
1051196 TAAAATGTCG
* * * * * **
1051206 ATTTTCCACCATCGGGGATACTCCAACCCCGTTATTTTCGAAGGGATAGTCTAA-CCTCAATTTT
1 ATTTTTCACAATCGGGGATACTCCAACCCCGTTA-TTTCTAAGGGATACTCCAACCCT-GGTTTT
* * *
1051270 -TTTTTAGAACACCAA
64 ATTTTCAAAACATCAA
* * * * * *
1051285 TTTTTTCACAATAGGAGATACTCCACCCCCGTCATTTCTAAGGGGATACTCAAACCCTGGTTTTA
1 ATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCTAA-GGGATACTCCAACCCTGGTTTTA
1051350 TTTTCAAAACATCAA
65 TTTTCAAAACATCAA
* * * * *
1051365 ATTTTTCACAATCGGGGATGCTCCAACCTCGTTATTTTCGAATGGATACTTCAACCCTGGTTTTA
1 ATTTTTCACAATCGGGGATACTCCAACCCCGTTA-TTTCTAAGGGATACTCCAACCCTGGTTTTA
*
1051430 -TTTCTAAAACA-CCA
65 TTTTC-AAAACATCAA
* * * * *
1051444 A-TTTTCTACCATCAGGGATACTCCAACCTCGTTATTTTTAAGGG---------CCCTAGTTTTA
1 ATTTTTC-ACAATCGGGGATACTCCAACCCCGTTATTTCTAAGGGATACTCCAACCCTGGTTTTA
* *
1051499 TTTCCAAAACATCGA
65 TTTTCAAAACATCAA
* ** * * ** ***
1051514 TTTTTTCACAATTAGAGATGCTCCAACCCCGTTATTTCCGAGAGGATACTCCAACCCCAATTTTA
1 ATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCTAAG-GGATACTCCAACCCTGGTTTTA
1051579 -TTTCTAAAACATCAA
65 TTTTC-AAAACATCAA
* * *
1051594 ATTTTTCACAATCGGGGATACTCTAACCCCGTTATTTCTAAGGGGATACTCCAACCCCGATTTTA
1 ATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCTAA-GGGATACTCCAACCCTGGTTTTA
*
1051659 TTTTCAAAAC-TCTGA
65 TTTTCAAAACATC-AA
* * * * * * * *
1051674 TTTTTTCATAATCGAGGATACTCTAACCTCATTATTTCTGAGGGATACTCCAACCTTGGTTTTAT
1 ATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCTAAGGGATACTCCAACCCTGGTTTTAT
*
1051739 TTTCAAAACATC-G
66 TTTCAAAACATCAA
* * * ** * * * * *
1051752 ATTTTCCACCATCGGGGATATTCCAACCTTGTTATTTTTTAGGAGATACTCTAACCCCGTTTTTA
1 ATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCTAAGG-GATACTCCAACCCTGGTTTTA
* * *
1051817 TTTCCAAAATATTAA
65 TTTTCAAAACATCAA
1051832 ATTTTT
1 ATTTTT
1051838 TATCGGGGGA
Statistics
Matches: 438, Mismatches: 89, Indels: 51
0.76 0.15 0.09
Matches are distributed among these distances:
69 16 0.04
70 32 0.07
71 7 0.02
78 50 0.11
79 134 0.31
80 188 0.43
81 11 0.03
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (79 bp):
ATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCTAAGGGATACTCCAACCCTGGTTTTAT
TTTCAAAACATCAA
Found at i:1051808 original size:158 final size:160
Alignment explanation
Indices: 1051494--1051825 Score: 386
Period size: 158 Copynumber: 2.1 Consensus size: 160
1051484 AGGGCCCTAG
* * *
1051494 TTTTATTTCCAAAACATCGATTTTTTCACAATTAGAGATGCTCCAACCCCGTTATTTCCGAGAGG
1 TTTTATTTCCAAAACATCGATTTTTTCACAATGAGAGATACTCCAACCCCATTATTTCCGAGAGG
* *
1051559 ATACTCCAACCCCAATTTTATTTCTAAAACATCAAATTTTTCACAATCGGGGATACTCTAACCCC
66 ATACTCCAACCCCAATTTTATTTCTAAAACATCAAATTTTCCACAATCGGGGATACTCCAACCCC
*
1051624 GTTATTTCTAAGGGGATACTCCAACCCCGA
131 GTTATTTCTAAGGAGATACTCCAACCCCGA
* * * * *
1051654 TTTTATTTTCAAAAC-TCTGATTTTTTCATAATCGAG-GATACTCTAACCTCATTATTTCTGAG-
1 TTTTATTTCCAAAACATC-GATTTTTTCACAAT-GAGAGATACTCCAACCCCATTATTTCCGAGA
**** * * *
1051716 GGATACTCCAACCTTGGTTTTATTT-TCAAAACATC-GATTTTCCACCATCGGGGATATTCCAAC
64 GGATACTCCAACCCCAATTTTATTTCT-AAAACATCAAATTTTCCACAATCGGGGATACTCCAAC
** * * * *
1051779 CTTGTTATTTTTTAGGAGATACTCTAACCCCGT
128 CCCGTTATTTCTAAGGAGATACTCCAACCCCGA
1051812 TTTTATTTCCAAAA
1 TTTTATTTCCAAAA
1051826 TATTAAATTT
Statistics
Matches: 144, Mismatches: 25, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
158 63 0.44
159 31 0.22
160 48 0.33
161 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.36
Consensus pattern (160 bp):
TTTTATTTCCAAAACATCGATTTTTTCACAATGAGAGATACTCCAACCCCATTATTTCCGAGAGG
ATACTCCAACCCCAATTTTATTTCTAAAACATCAAATTTTCCACAATCGGGGATACTCCAACCCC
GTTATTTCTAAGGAGATACTCCAACCCCGA
Found at i:1060233 original size:13 final size:13
Alignment explanation
Indices: 1060215--1060244 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1060205 ACAATTCATC
*
1060215 ATGTATTGATACA
1 ATGTATCGATACA
1060228 ATGTATCGATACA
1 ATGTATCGATACA
1060241 ATGT
1 ATGT
1060245 GCCATGTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1060251 original size:33 final size:32
Alignment explanation
Indices: 1060193--1060261 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 32
1060183 CCGTTTAAAG
*
1060193 CAATGTATCGATACAATTCATCATGTATTGATA
1 CAATGTATCGATACAATTCA-CATGTATCGATA
1060226 CAATGTATCGATACAATGTGC-CATGTATCGATA
1 CAATGTATCGATACAAT-T-CACATGTATCGATA
1060259 CAA
1 CAA
1060262 ACAGTGGTAG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
33 31 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.32
Consensus pattern (32 bp):
CAATGTATCGATACAATTCACATGTATCGATA
Found at i:1060334 original size:19 final size:20
Alignment explanation
Indices: 1060290--1060342 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
1060280 CTACCAGTTT
* **
1060290 CATGTATCAATACAATTGTC
1 CATGTATCGATACAATTGAA
1060310 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
*
1060329 CATGTATCGCTACA
1 CATGTATCGATACA
1060343 TTGTATCGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:1062903 original size:13 final size:13
Alignment explanation
Indices: 1062882--1062914 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
1062872 CCCTTAGATT
1062882 GATACAATGTATC
1 GATACAATGTATC
*
1062895 GATATAATGTATC
1 GATACAATGTATC
1062908 GATACAA
1 GATACAA
1062915 ATAATATTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (13 bp):
GATACAATGTATC
Found at i:1063927 original size:20 final size:20
Alignment explanation
Indices: 1063902--1063957 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
1063892 CTGCCAAGGA
1063902 AATGTATCGATACATT-ATTC
1 AATGTATCGATACATTGA-TC
1063922 AATGTATCGATACATTGATC
1 AATGTATCGATACATTGATC
**
1063942 TTTGTATCGATACATT
1 AATGTATCGATACATT
1063958 TGGGGACTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 32 0.97
21 1 0.03
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.41
Consensus pattern (20 bp):
AATGTATCGATACATTGATC
Found at i:1077725 original size:26 final size:26
Alignment explanation
Indices: 1077689--1077778 Score: 112
Period size: 26 Copynumber: 3.3 Consensus size: 26
1077679 TCCTCCACAA
1077689 AAAAAAAAACAAAAACAAAACAAAAC
1 AAAAAAAAACAAAAACAAAACAAAAC
1077715 AAAAAAAAACAAAAACAAAACAAAAC
1 AAAAAAAAACAAAAACAAAACAAAAC
*
1077741 AAACCAAAAAA-ACCAAACAAAA-AAAAC
1 AAA--AAAAAACA-AAAACAAAACAAAAC
1077768 AACAACAAAAA
1 AA-AA-AAAAA
1077779 GGGTCTAGAT
Statistics
Matches: 58, Mismatches: 1, Indels: 9
0.85 0.01 0.13
Matches are distributed among these distances:
26 30 0.52
27 13 0.22
28 15 0.26
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (26 bp):
AAAAAAAAACAAAAACAAAACAAAAC
Found at i:1077739 original size:49 final size:49
Alignment explanation
Indices: 1077685--1077778 Score: 120
Period size: 49 Copynumber: 1.9 Consensus size: 49
1077675 GGCGTCCTCC
1077685 ACAAAA-AAAAAAACAAAAACAAAACAAAACAAAA-AAAAACAAAAACAAA
1 ACAAAACAAAAAAA-AAAAACAAAACAAAA-AAAACAAAAACAAAAACAAA
** * *
1077734 ACAAAACAAACCAAAAAAACCAAACAAAAAAAACAACAACAAAAA
1 ACAAAACAAAAAAAAAAAACAAAACAAAAAAAACAAAAACAAAAA
1077779 GGGTCTAGAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
48 4 0.10
49 30 0.77
50 5 0.13
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (49 bp):
ACAAAACAAAAAAAAAAAACAAAACAAAAAAAACAAAAACAAAAACAAA
Found at i:1077740 original size:5 final size:5
Alignment explanation
Indices: 1077689--1077777 Score: 94
Period size: 5 Copynumber: 17.8 Consensus size: 5
1077679 TCCTCCACAA
* *
1077689 AAAAA AAAAC AAAAAC AAAAC AAAAC AAAAA AAAAC AAAAAC AAAAC AAAAC
1 AAAAC AAAAC -AAAAC AAAAC AAAAC AAAAC AAAAC -AAAAC AAAAC AAAAC
* *
1077741 -AAAC CAAA- AAAAC CAAAC AAAA- AAAAC AACAAC AAAA
1 AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AA-AAC AAAA
1077778 AGGGTCTAGA
Statistics
Matches: 72, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
4 11 0.15
5 46 0.64
6 15 0.21
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:1079289 original size:34 final size:34
Alignment explanation
Indices: 1079231--1079354 Score: 178
Period size: 34 Copynumber: 3.7 Consensus size: 34
1079221 CTTCAAAAGC
* *
1079231 CCACAAGTCTGTGGCA-TCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGT
* * *
1079264 CCATAACTCTGTGGCACTCTTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGT
*
1079298 CCACAACTCCATGGCACTCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGT
*
1079332 CCACAACTCCGTGGCACCCTTTT
1 CCACAACTCCGTGGCACTCTTTT
1079355 AAGTCTACAA
Statistics
Matches: 81, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
33 14 0.17
34 67 0.83
ACGTcount: A:0.19, C:0.31, G:0.12, T:0.38
Consensus pattern (34 bp):
CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGT
Found at i:1079366 original size:61 final size:60
Alignment explanation
Indices: 1079227--1079414 Score: 153
Period size: 68 Copynumber: 3.0 Consensus size: 60
1079217 CAACCTTCAA
* ** * * *
1079227 AAGCCCACAAGTCTGTGGCATCTTTTTCCTTTTAAGTCCATAACTCTGTGGCACTCTTTTTCCTT
1 AAGCCCACAACTCCATGGCATC-TTTTCCTTTTAAGCCCACAACTCCGTGGCA-TC-----CCTT
1079292 TT
59 TT
*
1079294 AAGCCCACAACTCCATGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTT
1 AAGCCCACAACTCCATGGCA-TC-TTTTCCTTTTAAGCCCACAACTCCGTGGCATCCCTTTT
* * *** * * *
1079355 AAGTCTACAACTTTGTGGCATCTTTTCTTTTTAAGCCCACACCTCTGTGGCATCCCTTTT
1 AAGCCCACAACTCCATGGCATCTTTTCCTTTTAAGCCCACAACTCCGTGGCATCCCTTTT
1079415 TCCTGTAAGC
Statistics
Matches: 105, Mismatches: 14, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
59 26 0.25
60 9 0.09
61 21 0.20
66 1 0.01
67 17 0.16
68 31 0.30
ACGTcount: A:0.19, C:0.30, G:0.13, T:0.38
Consensus pattern (60 bp):
AAGCCCACAACTCCATGGCATCTTTTCCTTTTAAGCCCACAACTCCGTGGCATCCCTTTT
Found at i:1079406 original size:93 final size:95
Alignment explanation
Indices: 1079254--1079443 Score: 242
Period size: 93 Copynumber: 2.0 Consensus size: 95
1079244 GCATCTTTTT
* *
1079254 CCTTTTAAGTCCATAACTCTGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCATGGCA-CTCT
1 CCTTTTAAGTCCACAACTCTGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCATGGCATCCCT
* *
1079318 TTTTCCTTTTAAGTCCACAACTCCGTGGCAC
66 TTTTCC-TGTAAGCCCACAACTCCGTGGCAC
* * * * **
1079349 CCTTTTAAGTCTACAACTTTGTGGCA-TC-TTTTCTTTTTAAGCCCACACCTCTGTGGCATCCCT
1 CCTTTTAAGTCCACAACTCTGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCATGGCATCCCT
* *
1079412 TTTTCCTGTAAGCCCACAAGTCGGTGGCAC
66 TTTTCCTGTAAGCCCACAACTCCGTGGCAC
1079442 CC
1 CC
1079444 CTTTCAAAAG
Statistics
Matches: 82, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
93 48 0.59
94 11 0.13
95 23 0.28
ACGTcount: A:0.19, C:0.32, G:0.14, T:0.35
Consensus pattern (95 bp):
CCTTTTAAGTCCACAACTCTGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCATGGCATCCCT
TTTTCCTGTAAGCCCACAACTCCGTGGCAC
Found at i:1079457 original size:30 final size:29
Alignment explanation
Indices: 1079421--1079513 Score: 109
Period size: 28 Copynumber: 3.2 Consensus size: 29
1079411 TTTTTCCTGT
1079421 AAGCCCACAAGTCGGTGGCACCCCTTTCAA
1 AAGCCCACAAGTCGGTGGCA-CCCTTTCAA
* *
1079451 AAGCCCACAAGTCAGTGGCAACC-TTCAA
1 AAGCCCACAAGTCGGTGGCACCCTTTCAA
* * *
1079479 AAGCACACAAGTTGAT-GCAACCCTTTCAA
1 AAGCCCACAAGTCGGTGGC-ACCCTTTCAA
1079508 AAGCCC
1 AAGCCC
1079514 TGCACAAGTT
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
27 2 0.04
28 20 0.38
29 12 0.23
30 19 0.36
ACGTcount: A:0.33, C:0.33, G:0.17, T:0.16
Consensus pattern (29 bp):
AAGCCCACAAGTCGGTGGCACCCTTTCAA
Found at i:1079487 original size:28 final size:30
Alignment explanation
Indices: 1079421--1079490 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 30
1079411 TTTTTCCTGT
* *
1079421 AAGCCCACAAGTCGGTGGCACCCCTTTCAA
1 AAGCCCACAAGTCAGTGGCACACCTTTCAA
1079451 AAGCCCACAAGTCAGTGGCA-ACC-TTCAA
1 AAGCCCACAAGTCAGTGGCACACCTTTCAA
*
1079479 AAGCACACAAGT
1 AAGCCCACAAGT
1079491 TGATGCAACC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 16 0.43
29 2 0.05
30 19 0.51
ACGTcount: A:0.34, C:0.33, G:0.19, T:0.14
Consensus pattern (30 bp):
AAGCCCACAAGTCAGTGGCACACCTTTCAA
Found at i:1079646 original size:39 final size:39
Alignment explanation
Indices: 1079587--1079749 Score: 139
Period size: 39 Copynumber: 3.9 Consensus size: 39
1079577 ACCTTGTCTT
*
1079587 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
1 TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* * *
1079626 TAAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCTA
1 TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGC-A
* * *
1079666 CCTTGTCTTTAAGACCAATGTCGCTGACCTTAAATCAGCACATTGGCA
1 ---------TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* *
1079714 CAAG-CCAAGTATCGCTGGCCTTGAATCAGCATATTG
1 TAAGACCAA-TATCGCTGGCCTTGAATCAGCACATTG
1079750 ATGCCTTCAT
Statistics
Matches: 98, Mismatches: 15, Indels: 22
0.73 0.11 0.16
Matches are distributed among these distances:
38 4 0.04
39 60 0.61
40 1 0.01
48 1 0.01
49 32 0.33
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (39 bp):
TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
Found at i:1079702 original size:88 final size:87
Alignment explanation
Indices: 1079544--1079906 Score: 388
Period size: 88 Copynumber: 4.0 Consensus size: 87
1079534 TCTTCAAAGT
1079544 CCAATATCGCTGGCCTTGAATCAGCATATTGGC-ACCTTGTCTTTAAGACCAATGTCGCTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCTACCTTGTCTTTAAGACCAATGTCGCTGGCCT
*
1079608 TGAATCAGCACATTGGCATAAG
66 TGAATCAGCACATTGGCACAAG
* *
1079630 CCCAATATCGCTGGCCTTGAATCAACATATTGGCTACCTTGTCTTTAAGACCAATGTCGCTGACC
1 -CCAATATCGCTGGCCTTGAATCAGCATATTGGCTACCTTGTCTTTAAGACCAATGTCGCTGGCC
*
1079695 TTAAATCAGCACATTGGCACAAG
65 TTGAATCAGCACATTGGCACAAG
* * ** *
1079718 CCAAGTATCGCTGGCCTTGAATCAGCATATTGATGCCTTCATCATCTTTAAGTCCAATGTCGCTG
1 CCAA-TATCGCTGGCCTTGAATCAGCATATTG--G-CTACCTTGTCTTTAAGACCAATGTCGCTG
* *
1079783 GCCATGAATCAGTACATTGGCACCTTCAGCTTTAAG
62 GCCTTGAATCAGCACATTGG------CA-C---AAG
* * * *
1079819 TCCAATATCGTTGGCCTTGAATCAGCATATTGGC-GCCTTCGTCATCTTTAAAACCAATATCGCT
1 -CCAATATCGCTGGCCTTGAATCAGCATATTGGCTACCTT-G---TCTTTAAGACCAATGTCGCT
*
1079883 GGCCTTGAATCAGCATATTGGCAC
61 GGCCTTGAATCAGCACATTGGCAC
1079907 TTTGCCTTTA
Statistics
Matches: 231, Mismatches: 25, Indels: 33
0.80 0.09 0.11
Matches are distributed among these distances:
87 36 0.16
88 76 0.33
90 1 0.00
91 40 0.17
94 1 0.00
95 2 0.01
97 4 0.02
98 2 0.01
99 1 0.00
101 64 0.28
102 4 0.02
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (87 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCTACCTTGTCTTTAAGACCAATGTCGCTGGCCT
TGAATCAGCACATTGGCACAAG
Found at i:1079711 original size:49 final size:48
Alignment explanation
Indices: 1079626--1080000 Score: 288
Period size: 49 Copynumber: 7.8 Consensus size: 48
1079616 CACATTGGCA
* *
1079626 TAAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCTACCTTGTCTT
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGC-ACCTTGTCTT
* * * *
1079675 TAAGACCAATGTCGCTGACCTTAAATCAGCACATTGGCA------C--
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTT
**
1079715 -AAG-CCAAGTATCGCTGGCCTTGAATCAGCATATTGATGC-CTTCATCATCTT
1 TAAGACCAA-TATCGCTGGCCTTGAATCAGCATATTG--GCAC--C-TTGTCTT
* * * * *
1079766 TAAGTCCAATGTCGCTGGCCATGAATCAGTACATTGGCACCTTCAG-CTT
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT--GTCTT
* * *
1079815 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTT
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-G---TCTT
* * *
1079867 TAAAACCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTGCCTT
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTT
* * * * * *
1079915 TAAAACCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCCT
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GTCTT
* * *
1079964 TAAGTCCAATATCGTTGGCCTTGAATCAACATATTGG
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGG
1080001 TATCTTTAAT
Statistics
Matches: 261, Mismatches: 41, Indels: 48
0.75 0.12 0.14
Matches are distributed among these distances:
38 4 0.02
39 26 0.10
41 2 0.01
42 1 0.00
48 45 0.17
49 108 0.41
50 2 0.01
51 2 0.01
52 67 0.26
53 4 0.02
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (48 bp):
TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTT
Found at i:1079903 original size:101 final size:99
Alignment explanation
Indices: 1079718--1080000 Score: 338
Period size: 101 Copynumber: 2.8 Consensus size: 99
1079708 TTGGCACAAG
* ** *
1079718 CCAAGTATCGCTGGCCTTGAATCAGCATATTGATGCCTTCATCATCTTTAAGTCCAATGTCGCTG
1 CCAA-TATCGTTGGCCTTGAATCAGCATATTGGCGCCTTC-TCATCTTTAAGTCCAATATCGCTG
* * * **
1079783 GCCATGAATCAGTACATTGGCACCTTCAG-CTTTAAGT
64 GCCTTGAATCAGCATATTGGCA-CTT-AGCCTTTAAAA
**
1079820 CCAATATCGTTGGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTTAAAACCAATATCGCTGG
1 CCAATATCGTTGGCCTTGAATCAGCATATTGGCGCCTTC-TCATCTTTAAGTCCAATATCGCTGG
*
1079885 CCTTGAATCAGCATATTGGCACTTTGCCTTTAAAA
65 CCTTGAATCAGCATATTGGCACTTAGCCTTTAAAA
* * * * *
1079920 CCAATGTCGTTGGCCTTGAATCAGCACATTGGCACC-T-TCATCCTTAAGTCCAATATCGTTGGC
1 CCAATATCGTTGGCCTTGAATCAGCATATTGGCGCCTTCTCATCTTTAAGTCCAATATCGCTGGC
*
1079983 CTTGAATCAACATATTGG
66 CTTGAATCAGCATATTGG
1080001 TATCTTTAAT
Statistics
Matches: 159, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
97 39 0.25
99 2 0.01
100 42 0.26
101 72 0.45
102 4 0.03
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.31
Consensus pattern (99 bp):
CCAATATCGTTGGCCTTGAATCAGCATATTGGCGCCTTCTCATCTTTAAGTCCAATATCGCTGGC
CTTGAATCAGCATATTGGCACTTAGCCTTTAAAA
Found at i:1079997 original size:149 final size:151
Alignment explanation
Indices: 1079718--1080000 Score: 421
Period size: 149 Copynumber: 1.9 Consensus size: 151
1079708 TTGGCACAAG
**
1079718 CCAAGTATCGCTGGCCTTGAATCAGCATATTGATGCCTTCATCATCTTTAAGTCCAATGTCGCTG
1 CCAAGTATCGCTGGCCTTGAATCAGCATATTGA-GCCTT-ATCA-CTTTAAAACCAATGTCGCTG
* * *
1079783 GCCATGAATCAGTACATTGGCACCTTCAGCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATA
63 GCCATGAATCAGCACATTGGCACCTTCAGCCTTAAGTCCAATATCGTTGGCCTTGAATCAACATA
1079848 TTGGCGCCTTCGTCATCTTTAAAA
128 TTGGCGCCTTCGTCATCTTTAAAA
*
1079872 CCAA-TATCGCTGGCCTTGAATCAGCATATTG-GCACTT-TGC-CTTTAAAACCAATGTCGTTGG
1 CCAAGTATCGCTGGCCTTGAATCAGCATATTGAGC-CTTAT-CACTTTAAAACCAATGTCGCTGG
* *
1079933 CCTTGAATCAGCACATTGGCACCTTCATCCTTAAGTCCAATATCGTTGGCCTTGAATCAACATAT
64 CCATGAATCAGCACATTGGCACCTTCAGCCTTAAGTCCAATATCGTTGGCCTTGAATCAACATAT
1079998 TGG
129 TGG
1080001 TATCTTTAAT
Statistics
Matches: 119, Mismatches: 8, Indels: 9
0.88 0.06 0.07
Matches are distributed among these distances:
149 81 0.68
150 1 0.01
151 3 0.03
152 3 0.03
153 27 0.23
154 4 0.03
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.31
Consensus pattern (151 bp):
CCAAGTATCGCTGGCCTTGAATCAGCATATTGAGCCTTATCACTTTAAAACCAATGTCGCTGGCC
ATGAATCAGCACATTGGCACCTTCAGCCTTAAGTCCAATATCGTTGGCCTTGAATCAACATATTG
GCGCCTTCGTCATCTTTAAAA
Found at i:1080053 original size:149 final size:148
Alignment explanation
Indices: 1079771--1080097 Score: 358
Period size: 149 Copynumber: 2.2 Consensus size: 148
1079761 ATCTTTAAGT
* *
1079771 CCAATGTCGCTGGCCATGAATCAGTACATTGGCACCTTCAGCTTTAAGTCCAATATCGTTGGCCT
1 CCAATGTCGCTGGCCATGAATCAGCACATTGGCACCTTCAGCCTTAAGTCCAATATCGTTGGCCT
* * * * * *
1079836 TGAATCAGCATATTGGCGCCTTCGTCATCTTTAAAACCAATATCGCTGGCCTTGAATCAGCATAT
66 TGAATCAACATATTGGCACCTTC-TAATATTTAAAACCAATATCGCTGGCCTTGAATCACCACAT
1079901 TGGCACTTTGCCTTTAAAA
130 TGGCACTTTGCCTTTAAAA
* * *
1079920 CCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCCTTAAGTCCAATATCGTTGGCCT
1 CCAATGTCGCTGGCCATGAATCAGCACATTGGCACCTTCAGCCTTAAGTCCAATATCGTTGGCCT
* * ** * * ** *
1079985 TGAATCAACATATTGGTATCTT-TAATATTCCTAAGCCCAATGTCGTTGGCCTTGTCTCACCACG
66 TGAATCAACATATTGGCACCTTCTAATATT--TAAAACCAATATCGCTGGCCTTGAATCACCACA
*
1080049 TTGGCA--TT--CTTCTACAAGT
129 TTGGCACTTTGCCTT-TA-AA-A
* *
1080068 CTAATGTCGCCGGCCATGAATCAGCACATT
1 CCAATGTCGCTGGCCATGAATCAGCACATT
1080098 ATCATTCTTC
Statistics
Matches: 148, Mismatches: 25, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
145 3 0.02
146 2 0.01
147 9 0.06
148 26 0.18
149 108 0.73
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.31
Consensus pattern (148 bp):
CCAATGTCGCTGGCCATGAATCAGCACATTGGCACCTTCAGCCTTAAGTCCAATATCGTTGGCCT
TGAATCAACATATTGGCACCTTCTAATATTTAAAACCAATATCGCTGGCCTTGAATCACCACATT
GGCACTTTGCCTTTAAAA
Found at i:1094810 original size:10 final size:10
Alignment explanation
Indices: 1094795--1094865 Score: 83
Period size: 10 Copynumber: 7.0 Consensus size: 10
1094785 CCCCCCCCCC
1094795 CAAAAAAAAA
1 CAAAAAAAAA
1094805 CAAAAACAAAA
1 CAAAAA-AAAA
*
1094816 C-AAAACAAA
1 CAAAAAAAAA
1094825 CAAAAAAAAA
1 CAAAAAAAAA
1094835 CAAAAACAAAA
1 CAAAAA-AAAA
*
1094846 C-AAAACAAA
1 CAAAAAAAAA
1094855 CTAAAAAAAAA
1 C-AAAAAAAAA
1094866 ACAACAACAA
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
9 8 0.15
10 27 0.52
11 17 0.33
ACGTcount: A:0.83, C:0.15, G:0.00, T:0.01
Consensus pattern (10 bp):
CAAAAAAAAA
Found at i:1094831 original size:30 final size:30
Alignment explanation
Indices: 1094795--1094880 Score: 138
Period size: 30 Copynumber: 2.9 Consensus size: 30
1094785 CCCCCCCCCC
1094795 CAAAAAAAAACAAAAACAAAACAAAACAAA
1 CAAAAAAAAACAAAAACAAAACAAAACAAA
1094825 CAAAAAAAAACAAAAACAAAACAAAACAAA
1 CAAAAAAAAACAAAAACAAAACAAAACAAA
* *
1094855 CTAAAAAAAA-AACAACAACAACAAAA
1 CAAAAAAAAACAAAAACAA-AACAAAA
1094881 AGGGTCCGGA
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
29 7 0.13
30 46 0.87
ACGTcount: A:0.81, C:0.17, G:0.00, T:0.01
Consensus pattern (30 bp):
CAAAAAAAAACAAAAACAAAACAAAACAAA
Found at i:1094880 original size:16 final size:16
Alignment explanation
Indices: 1094795--1094881 Score: 65
Period size: 16 Copynumber: 5.4 Consensus size: 16
1094785 CCCCCCCCCC
* *
1094795 CAAAAAAAAACAAAAA
1 CAAAAAACAACAACAA
1094811 CAAAACAA-AACAAACAA
1 CAAAA-AACAAC-AACAA
* *
1094828 AAAAAAACAAAAACAA
1 CAAAAAACAACAACAA
1094844 -AACAAAACAAACTAA-AA
1 CAA-AAAAC-AAC-AACAA
1094861 -AAAAAACAACAACAA
1 CAAAAAACAACAACAA
1094876 CAAAAA
1 CAAAAA
1094882 GGGTCCGGAT
Statistics
Matches: 59, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
14 2 0.03
15 7 0.12
16 30 0.51
17 18 0.31
18 2 0.03
ACGTcount: A:0.82, C:0.17, G:0.00, T:0.01
Consensus pattern (16 bp):
CAAAAAACAACAACAA
Found at i:1096377 original size:34 final size:34
Alignment explanation
Indices: 1096323--1096539 Score: 188
Period size: 34 Copynumber: 6.7 Consensus size: 34
1096313 CTTCAAAAGC
*
1096323 CCACAAGTCCGTGGCA-TCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGT
* * *
1096356 CCATAACTCCGTAGCACTCTTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGT
1096390 CCACAACTCCAGTGGCACTC-TTTTCCTTTTAAGT
1 CCACAACTCC-GTGGCACTCTTTTTCCTTTTAAGT
1096424 CCACAACTCCGTGGCA--C-----CCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGT
* * *
1096451 CCACAACTCTGTGGCAC-C-TTTTCTTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGT
* ** * * *
1096483 CCACACCTCTATGGCATCCCTTTTTCC-TGTAAGC
1 CCACAACTCCGTGGCA-CTCTTTTTCCTTTTAAGT
* * *
1096517 CCACAAGTCAGTGGCACCCTTTT
1 CCACAACTCCGTGGCACTCTTTT
1096540 CAAAAGCCCA
Statistics
Matches: 156, Mismatches: 18, Indels: 20
0.80 0.09 0.10
Matches are distributed among these distances:
27 25 0.16
28 1 0.01
31 1 0.01
32 22 0.14
33 27 0.17
34 67 0.43
35 13 0.08
ACGTcount: A:0.20, C:0.33, G:0.13, T:0.34
Consensus pattern (34 bp):
CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGT
Found at i:1096444 original size:27 final size:26
Alignment explanation
Indices: 1096414--1096472 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 26
1096404 GCACTCTTTT
1096414 CCTTTTAAGTCCACAACTCCGTGGCA
1 CCTTTTAAGTCCACAACTCCGTGGCA
*
1096440 CCCTTTTAAGTCCACAACTCTGTGGCA
1 -CCTTTTAAGTCCACAACTCCGTGGCA
1096467 CCTTTT
1 CCTTTT
1096473 CTTTTTAAGC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 6 0.19
27 25 0.81
ACGTcount: A:0.20, C:0.34, G:0.14, T:0.32
Consensus pattern (26 bp):
CCTTTTAAGTCCACAACTCCGTGGCA
Found at i:1096506 original size:93 final size:95
Alignment explanation
Indices: 1096346--1096539 Score: 243
Period size: 93 Copynumber: 2.1 Consensus size: 95
1096336 GCATCTTTTT
* *
1096346 CCTTTTAAGTCCATAACTCCGTAGCACTCTTTTTCCTTTTAAGCCCACAACTCCAGTGGCACTC-
1 CCTTTTAAGTCCACAACTCCGTAGCACTCTTTTTCCTTTTAAGCCCACAACTCCAGTGGCACCCT
* * *
1096410 TTTTCCTTTTAAGTCCACAACTCCGTGGCAC
66 TTTTCC-TGTAAGCCCACAACTCAGTGGCAC
* * * * *
1096441 CCTTTTAAGTCCACAACTCTGTGGCAC-C-TTTTCTTTTTAAGCCCACACCTCTA-TGGCATCCC
1 CCTTTTAAGTCCACAACTCCGTAGCACTCTTTTTCCTTTTAAGCCCACAACTCCAGTGGCA-CCC
*
1096503 TTTTTCCTGTAAGCCCACAAGTCAGTGGCAC
65 TTTTTCCTGTAAGCCCACAACTCAGTGGCAC
1096534 CCTTTT
1 CCTTTT
1096540 CAAAAGCCCA
Statistics
Matches: 86, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
92 5 0.06
93 50 0.58
94 7 0.08
95 24 0.28
ACGTcount: A:0.20, C:0.34, G:0.12, T:0.34
Consensus pattern (95 bp):
CCTTTTAAGTCCACAACTCCGTAGCACTCTTTTTCCTTTTAAGCCCACAACTCCAGTGGCACCCT
TTTTCCTGTAAGCCCACAACTCAGTGGCAC
Found at i:1096579 original size:28 final size:29
Alignment explanation
Indices: 1096513--1096582 Score: 106
Period size: 30 Copynumber: 2.4 Consensus size: 29
1096503 TTTTTCCTGT
*
1096513 AAGCCCACAAGTCAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTCAGTGGCAACC-TTTCAA
1096543 AAGCCCACAAGTCAGTGGCAACC-TTCAA
1 AAGCCCACAAGTCAGTGGCAACCTTTCAA
*
1096571 AAGCACACAAGT
1 AAGCCCACAAGT
1096583 TGATGCAACC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 16 0.42
30 22 0.58
ACGTcount: A:0.36, C:0.31, G:0.17, T:0.16
Consensus pattern (29 bp):
AAGCCCACAAGTCAGTGGCAACCTTTCAA
Found at i:1096738 original size:39 final size:39
Alignment explanation
Indices: 1096679--1096756 Score: 120
Period size: 39 Copynumber: 2.0 Consensus size: 39
1096669 ACCTTGTCTT
* *
1096679 TAAGACCAATGTCGTTGGCCTTGAATTATCACATTGGCA
1 TAAGACCAATATCGTTGGCCTTGAATTAGCACATTGGCA
* *
1096718 TAAGCCCAATATCGTTGGCCTTGAATTAGCATATTGGCA
1 TAAGACCAATATCGTTGGCCTTGAATTAGCACATTGGCA
1096757 CCTTGTCTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (39 bp):
TAAGACCAATATCGTTGGCCTTGAATTAGCACATTGGCA
Found at i:1096788 original size:87 final size:87
Alignment explanation
Indices: 1096636--1096892 Score: 325
Period size: 87 Copynumber: 2.9 Consensus size: 87
1096626 TCTTCAAAGT
* * *
1096636 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGTTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTATAAGACCAATGTCGCTGACCTT
* *
1096701 GAATTATCACATTGGCATAAGC
66 GAATTAGCACATTGGCAGAAGC
* *
1096723 CCAATATCGTTGGCCTTGAATTAGCATATTGGCACCTTGTCTATAAGACCAATGTCGCTGACCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTATAAGACCAATGTCGCTGACCTT
1096788 GAATTAGCACATTGGCAGAAGC
66 GAATTAGCACATTGGCAGAAGC
* * * * * * * *
1096810 CTAGTATCACTGGCCTTGAATCAGCATATTGACACCTTCGTCATCTTTAAGTCCAATGTTGCTGG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-G---TCTATAAGACCAATGTCGCTGA
* *
1096875 CCATGAATCAGCACATTG
62 CCTTGAATTAGCACATTG
1096893 ACACCTTCAT
Statistics
Matches: 147, Mismatches: 19, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
87 112 0.76
88 1 0.01
91 34 0.23
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.30
Consensus pattern (87 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTATAAGACCAATGTCGCTGACCTT
GAATTAGCACATTGGCAGAAGC
Found at i:1096897 original size:52 final size:51
Alignment explanation
Indices: 1096814--1097093 Score: 277
Period size: 49 Copynumber: 5.6 Consensus size: 51
1096804 AGAAGCCTAG
* *
1096814 TATCACTGGCCTTGAATCAGCATATTGACACCTTCGTCATCTTTAAGTCCAA
1 TATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GTCATCTTTAAGTCCAA
* * * * *
1096866 TGTTGCTGGCCATGAATCAGCACATTGACACC-T-TCATCTTTAAGTCCAA
1 TATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCATCTTTAAGTCCAA
* * * * **
1096915 TATCGTTAGCCTTCAATCAGCATATTGGCGCCTTCGTCATCTTTAAAACCAA
1 TATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GTCATCTTTAAGTCCAA
* * * **
1096967 TATCGCTAGCCTTGAATCCGCATATTGGCACTTTG-C--CTTTAAAACCAA
1 TATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCATCTTTAAGTCCAA
* * * *
1097015 TGTCGTTGGCCTTGAATCAGCACATTGGCACC-T-TCATCCTTAAGTCCAA
1 TATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCATCTTTAAGTCCAA
* *
1097064 TATCGTTGGCCTTGAATCAGCGTATTGGCA
1 TATCGCTGGCCTTGAATCAGCATATTGGCA
1097094 TCTTTAATAT
Statistics
Matches: 189, Mismatches: 33, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
47 2 0.01
48 38 0.20
49 75 0.40
50 2 0.01
51 2 0.01
52 70 0.37
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.32
Consensus pattern (51 bp):
TATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCATCTTTAAGTCCAA
Found at i:1096933 original size:49 final size:49
Alignment explanation
Indices: 1096820--1097129 Score: 273
Period size: 52 Copynumber: 6.2 Consensus size: 49
1096810 CTAGTATCAC
* * * *
1096820 TGGCCTTGAATCAGCATATTGACACCTTCGTCATCTTTAAGTCCAATGTTGC
1 TGGCCTTGAATCAGCATATTGGCACC-T--TCATCTTTAAGTCCAATATCGT
* * *
1096872 TGGCCATGAATCAGCACATTGACACCTTCATCTTTAAGTCCAATATCGT
1 TGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATCGT
* * * ** *
1096921 TAGCCTTCAATCAGCATATTGGCGCCTTCGTCATCTTTAAAACCAATATCGC
1 TGGCCTTGAATCAGCATATTGGCACC-T--TCATCTTTAAGTCCAATATCGT
* * * ** *
1096973 TAGCCTTGAATCCGCATATTGGCACTTTGC--CTTTAAAACCAATGTCGT
1 TGGCCTTGAATCAGCATATTGGCACCTT-CATCTTTAAGTCCAATATCGT
* *
1097021 TGGCCTTGAATCAGCACATTGGCACCTTCATCCTTAAGTCCAATATCGT
1 TGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATCGT
* * * * * *
1097070 TGGCCTTGAATCAGCGTATTGGCATCTTTAATATTCCTAAGCCCAATGTCGT
1 TGGCCTTGAATCAGCATATTGGCA-CCTTCATCTT--TAAGTCCAATATCGT
1097122 TGGCCTTG
1 TGGCCTTG
1097130 TCTCAGCACG
Statistics
Matches: 213, Mismatches: 36, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
47 1 0.00
48 40 0.19
49 76 0.36
50 8 0.04
51 2 0.01
52 86 0.40
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.33
Consensus pattern (49 bp):
TGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATCGT
Found at i:1097129 original size:149 final size:151
Alignment explanation
Indices: 1096814--1097104 Score: 365
Period size: 149 Copynumber: 1.9 Consensus size: 151
1096804 AGAAGCCTAG
* ** *
1096814 TATCACTGGCCTTGAATCAGCATATTGACACCTTCGTCATCTTTAAGTCCAATGTTGCTGGCCAT
1 TATCGCTGGCCTTGAATCAGCATATTGACACCTTCGTCA-CTTTAAAACCAATGTCGCTGGCCAT
*
1096879 GAATCAGCACATTGACACCTTCATCTTTAAGTCCAATATCGTTAGCCTTCAATCAGCATATTGGC
65 GAATCAGCACATTGACACCTTCATCCTTAAGTCCAATATCGTTAGCCTTCAATCAGCATATTGGC
* * *
1096944 GCCTTCGTCATCTTTAAAACCAA
130 ACCTTC-TAATATTTAAAACCAA
* * * * * *
1096967 TATCGCTAGCCTTGAATCCGCATATTGGCA-CTTTG-C-CTTTAAAACCAATGTCGTTGGCCTTG
1 TATCGCTGGCCTTGAATCAGCATATTGACACCTTCGTCACTTTAAAACCAATGTCGCTGGCCATG
* * * *
1097029 AATCAGCACATTGGCACCTTCATCCTTAAGTCCAATATCGTTGGCCTTGAATCAGCGTATTGGCA
66 AATCAGCACATTGACACCTTCATCCTTAAGTCCAATATCGTTAGCCTTCAATCAGCATATTGGCA
*
1097094 TCTT-TAATATT
131 CCTTCTAATATT
1097105 CCTAAGCCCA
Statistics
Matches: 119, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
147 5 0.04
149 83 0.70
151 1 0.01
152 4 0.03
153 26 0.22
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (151 bp):
TATCGCTGGCCTTGAATCAGCATATTGACACCTTCGTCACTTTAAAACCAATGTCGCTGGCCATG
AATCAGCACATTGACACCTTCATCCTTAAGTCCAATATCGTTAGCCTTCAATCAGCATATTGGCA
CCTTCTAATATTTAAAACCAA
Found at i:1110425 original size:6 final size:6
Alignment explanation
Indices: 1110409--1110471 Score: 62
Period size: 6 Copynumber: 11.2 Consensus size: 6
1110399 GGCATCCTCC
* *
1110409 ACAAAA A-AAAA ACAAAA AC-AAA AC-AAA AC-AAA CCAAAA AAAAAA
1 ACAAAA ACAAAA ACAAAA ACAAAA ACAAAA ACAAAA ACAAAA ACAAAA
* *
1110453 ACAACA ACAACA ACAAAA A
1 ACAAAA ACAAAA ACAAAA A
1110472 GGGTCCGGAT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
5 19 0.39
6 30 0.61
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (6 bp):
ACAAAA
Found at i:1110434 original size:22 final size:21
Alignment explanation
Indices: 1110409--1110471 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 21
1110399 GGCATCCTCC
*
1110409 ACAAAAAAAAAACAAAAACAAA
1 ACAAAAAAACAACAAAAA-AAA
1110431 ACAAAACAAACCAA-AAAAAAAA
1 ACAAAA-AAA-CAACAAAAAAAA
*
1110453 ACAACAACAACAACAAAAA
1 ACAA-AAAAACAACAAAAA
1110472 GGGTCCGGAT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
21 3 0.09
22 20 0.57
23 10 0.29
24 2 0.06
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (21 bp):
ACAAAAAAACAACAAAAAAAA
Found at i:1111980 original size:34 final size:34
Alignment explanation
Indices: 1111926--1112086 Score: 202
Period size: 34 Copynumber: 4.8 Consensus size: 34
1111916 CTTCAAAAGC
*
1111926 CCACAAGTCCGTGGCA-TCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGT
* * *
1111959 CCATAACTCCGTAGCACTCTTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGT
1111993 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGT
* *
1112027 CCACAACTCCGTGGCAC-C-TTTTCTTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGT
* ** *
1112059 CCACACCTCTATGGCATCCCTTTTTCCT
1 CCACAACTCCGTGGCA-CTCTTTTTCCT
1112087 GTAAGCCCAC
Statistics
Matches: 111, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
32 25 0.23
33 15 0.14
34 65 0.59
35 6 0.05
ACGTcount: A:0.18, C:0.34, G:0.11, T:0.37
Consensus pattern (34 bp):
CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGT
Found at i:1112035 original size:68 final size:66
Alignment explanation
Indices: 1111922--1112086 Score: 224
Period size: 68 Copynumber: 2.5 Consensus size: 66
1111912 CAACCTTCAA
* *
1111922 AAGCCCACAAGTCCGTGGCA-TCTTTTTCCTTTTAAGTCCATAACTCCGTAGCACTCTTTTTCCT
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTAGCAC-C-TTTTCCT
1111986 TTT
64 TTT
* *
1111989 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTCTTTT
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTAGCACCTTTTCCTTT
1112054 T
66 T
* ** *
1112055 AAGCCCACACCTCTATGGCATCCCTTTTTCCT
1 AAGCCCACAACTCCGTGGCA-CTCTTTTTCCT
1112087 GTAAGCCCAC
Statistics
Matches: 88, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
66 26 0.30
67 30 0.34
68 32 0.36
ACGTcount: A:0.19, C:0.33, G:0.12, T:0.36
Consensus pattern (66 bp):
AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTAGCACCTTTTCCTTT
T
Found at i:1112092 original size:34 final size:32
Alignment explanation
Indices: 1111979--1112191 Score: 134
Period size: 34 Copynumber: 6.6 Consensus size: 32
1111969 GTAGCACTCT
* ** *
1111979 TTTTCCTTTTAAGCCCACAACTCCGTGGCACTCT
1 TTTTCC-TGTAAGCCCACAACTCTATGGCAC-CC
* * **
1112013 TTTTCCTTTTAAGTCCACAACTCCGTGGCA-CC
1 TTTTCC-TGTAAGCCCACAACTCTATGGCACCC
* * *
1112045 TTTTCTTTTTAAGCCCACACCTCTATGGCATCCC
1 TTTTC-CTGTAAGCCCACAACTCTATGGCA-CCC
* *
1112079 TTTTTCCTGTAAGCCCACAAGTCGATGGCACCC
1 -TTTTCCTGTAAGCCCACAACTCTATGGCACCC
*
1112112 --TT--T-TAAGTCCACAACTCTATGGCA-CC
1 TTTTCCTGTAAGCCCACAACTCTATGGCACCC
* * *
1112138 TTTTCTCTTTAAGCCCACACCTCTGTGGCATCCC
1 TTTTC-CTGTAAGCCCACAACTCTATGGCA-CCC
*
1112172 TTTTTCCTGTAACCCCACAA
1 -TTTTCCTGTAAGCCCACAA
1112192 GTCGGTGGCA
Statistics
Matches: 145, Mismatches: 21, Indels: 26
0.76 0.11 0.14
Matches are distributed among these distances:
26 2 0.01
27 18 0.12
28 3 0.02
30 2 0.01
31 1 0.01
32 43 0.30
33 3 0.02
34 63 0.43
35 10 0.07
ACGTcount: A:0.20, C:0.35, G:0.12, T:0.34
Consensus pattern (32 bp):
TTTTCCTGTAAGCCCACAACTCTATGGCACCC
Found at i:1112133 original size:27 final size:26
Alignment explanation
Indices: 1112088--1112141 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
1112078 CTTTTTCCTG
*
1112088 TAAGCCCACAAGTCGATGGCACCCTTT
1 TAAGCCCACAACTCGATGGCA-CCTTT
* *
1112115 TAAGTCCACAACTCTATGGCACCTTT
1 TAAGCCCACAACTCGATGGCACCTTT
1112141 T
1 T
1112142 CTCTTTAAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 6 0.25
27 18 0.75
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (26 bp):
TAAGCCCACAACTCGATGGCACCTTT
Found at i:1112149 original size:93 final size:93
Alignment explanation
Indices: 1112017--1112204 Score: 322
Period size: 93 Copynumber: 2.0 Consensus size: 93
1112007 CACTCTTTTT
* *
1112017 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTCTTTTTAAGCCCACACCTCTATGGCATCCCTTT
1 CCTTTTAAGTCCACAACTCCATGGCACCTTTTCTCTTTAAGCCCACACCTCTATGGCATCCCTTT
*
1112082 TTCCTGTAAGCCCACAAGTCGATGGCAC
66 TTCCTGTAACCCCACAAGTCGATGGCAC
* *
1112110 CCTTTTAAGTCCACAACTCTATGGCACCTTTTCTCTTTAAGCCCACACCTCTGTGGCATCCCTTT
1 CCTTTTAAGTCCACAACTCCATGGCACCTTTTCTCTTTAAGCCCACACCTCTATGGCATCCCTTT
*
1112175 TTCCTGTAACCCCACAAGTCGGTGGCAC
66 TTCCTGTAACCCCACAAGTCGATGGCAC
1112203 CC
1 CC
1112205 CTTCCAAAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 89 1.00
ACGTcount: A:0.20, C:0.36, G:0.14, T:0.31
Consensus pattern (93 bp):
CCTTTTAAGTCCACAACTCCATGGCACCTTTTCTCTTTAAGCCCACACCTCTATGGCATCCCTTT
TTCCTGTAACCCCACAAGTCGATGGCAC
Found at i:1112221 original size:30 final size:29
Alignment explanation
Indices: 1112185--1112277 Score: 100
Period size: 28 Copynumber: 3.2 Consensus size: 29
1112175 TTCCTGTAAC
1112185 CCCACAAGTCGGTGGCACCCCTTCCAAAAG
1 CCCACAAGTCGGTGGCA-CCCTTCCAAAAG
* * *
1112215 CCCACAAGTCAGTGACAACCTT-CAAAAG
1 CCCACAAGTCGGTGGCACCCTTCCAAAAG
* * *
1112243 CACACAAGTTGAT-GCAACCCTTCCAAAAG
1 CCCACAAGTCGGTGGC-ACCCTTCCAAAAG
1112272 CCCACA
1 CCCACA
1112278 CAAGTTGGTG
Statistics
Matches: 51, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
27 1 0.02
28 20 0.39
29 15 0.29
30 15 0.29
ACGTcount: A:0.34, C:0.37, G:0.15, T:0.14
Consensus pattern (29 bp):
CCCACAAGTCGGTGGCACCCTTCCAAAAG
Found at i:1112369 original size:48 final size:48
Alignment explanation
Indices: 1112304--1112761 Score: 378
Period size: 48 Copynumber: 9.7 Consensus size: 48
1112294 TCTTCAAAGT
* *
1112304 CCAATATCACTGTCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGA
* * *
1112352 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCA---------TAAGC
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGA
1112391 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGA
* * * * * *
1112439 CCAATGTCGCTGACCTTGAATCAACACATT-G-A-C---AC---AAGC
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGA
* *
1112478 CCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-G---TCTTTAAGA
* * * * * * *
1112530 CCAATGTCGCTGCCCATGAGTCAGCACATTGGCACCTTCTTCTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GTCTTTAAGA
* * *
1112579 CCAATATCGTTGGCCTTGAATCAGCATATTAGCGCCTTTGTCATCTTTGAA-A
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTG---TCTTT-AAGA
* * * *
1112631 CCAATATGGCTGGCCTTGAATCAGCATATTGGCACTTTGCCTTTAAAA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGA
* * * * *
1112679 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCCTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GTCTTTAAGA
* *
1112728 CTAATATCGTTGGCCTTGAATCAGCATATTGGCA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCA
1112762 TCTTTAATAT
Statistics
Matches: 324, Mismatches: 57, Indels: 57
0.74 0.13 0.13
Matches are distributed among these distances:
39 65 0.20
40 1 0.00
42 2 0.01
45 1 0.00
46 1 0.00
47 3 0.01
48 99 0.31
49 73 0.23
50 2 0.01
51 3 0.01
52 72 0.22
53 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.30
Consensus pattern (48 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGA
Found at i:1112406 original size:39 final size:39
Alignment explanation
Indices: 1112347--1112510 Score: 157
Period size: 39 Copynumber: 4.0 Consensus size: 39
1112337 ACCTTGTCTT
*
1112347 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
1 TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* *
1112386 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
1 TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* * * *
1112425 CCTTGTCTTTAAGACCAATGTCGCTGACCTTGAATCAACACATTGACA
1 ---------TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* * *
1112473 CAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGC
1 TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGC
1112511 GCCTTCGTCA
Statistics
Matches: 100, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
39 67 0.67
48 33 0.33
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.26
Consensus pattern (39 bp):
TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
Found at i:1112450 original size:87 final size:87
Alignment explanation
Indices: 1112304--1112762 Score: 389
Period size: 87 Copynumber: 5.0 Consensus size: 87
1112294 TCTTCAAAGT
* *
1112304 CCAATATCACTGTCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
1112369 GAATCAGCACATTGGCATAAGC
66 GAATCAGCACATTGGCATAAGC
*
1112391 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGACCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
* * *
1112456 GAATCAACACATTGACACAAGC
66 GAATCAGCACATTGGCATAAGC
* * *
1112478 CCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTTAAGTCCAATGTCGCTGC
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-G---TCTTTAAGACCAATGTCGCTGG
* * *
1112543 CCATGAGTCAGCACATTGGCACCTTCTTCTTTAAGT
62 CCTTGAATCAGCACATTGGCA----------TAAGC
* * * * *
1112579 CCAATATCGTTGGCCTTGAATCAGCATATTAGCGCCTTTGTCATCTTTGAA-ACCAATATGGCTG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTG---TCTTT-AAGACCAATGTCGCTG
* **
1112643 GCCTTGAATCAGCATATTGGCACTTTGCCTTTAAAA
61 GCCTTGAATCAGCACATTGGCA---------TAAGC
* * * * * * * *
1112679 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCCTTAAGTCTAATATCGTTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GTCTTTAAGACCAATGTCGCTGGCCT
*
1112744 TGAATCAGCATATTGGCAT
65 TGAATCAGCACATTGGCAT
1112763 CTTTAATATT
Statistics
Matches: 314, Mismatches: 40, Indels: 35
0.81 0.10 0.09
Matches are distributed among these distances:
87 118 0.38
88 2 0.01
91 37 0.12
96 2 0.01
97 35 0.11
99 2 0.01
100 40 0.13
101 74 0.24
102 4 0.01
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.30
Consensus pattern (87 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
GAATCAGCACATTGGCATAAGC
Found at i:1112561 original size:52 final size:51
Alignment explanation
Indices: 1112478--1112761 Score: 296
Period size: 49 Copynumber: 5.7 Consensus size: 51
1112468 TGACACAAGC
* *
1112478 CCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTC-TCTTTAAGA
* * * * * *
1112530 CCAATGTCGCTGCCCATGAGTCAGCACATTGGCACCTTC-T-TCTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCTCTTTAAGA
* * * *
1112579 CCAATATCGTTGGCCTTGAATCAGCATATTAGCGCCTTTGTCATCTTTGAA-A
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTC-TCTTT-AAGA
* * *
1112631 CCAATATGGCTGGCCTTGAATCAGCATATTGGCA-CTTTG-C-CTTTAAAA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCTCTTTAAGA
* * * *
1112679 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC-C-TTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCTCTTTAAGA
* *
1112728 CTAATATCGTTGGCCTTGAATCAGCATATTGGCA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCA
1112762 TCTTTAATAT
Statistics
Matches: 194, Mismatches: 31, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
47 2 0.01
48 36 0.19
49 76 0.39
50 4 0.02
51 6 0.03
52 68 0.35
53 2 0.01
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.32
Consensus pattern (51 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCTCTTTAAGA
Found at i:1112655 original size:101 final size:100
Alignment explanation
Indices: 1112478--1112766 Score: 291
Period size: 101 Copynumber: 2.9 Consensus size: 100
1112468 TGACACAAGC
* * *
1112478 CCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTTAAGTCCAATGTCGCTGC
1 CCAATATCGCTGGCCTTGAATCAGCATATTAGCGCCTTCGTCATCTTTAAGACCAATATCGCTGC
* * **
1112543 CCATGAGTCAGCACATTGGCACCTTCT-TCTTTAAGT
66 CCATGAATCAGCACATTGGCA-CTT-TGCCTTTAAAA
* * *
1112579 CCAATATCGTTGGCCTTGAATCAGCATATTAGCGCCTTTGTCATCTTTGAA-ACCAATATGGCTG
1 CCAATATCGCTGGCCTTGAATCAGCATATTAGCGCCTTCGTCATCTTT-AAGACCAATATCGCTG
* * *
1112643 GCCTTGAATCAGCATATTGGCACTTTGCCTTTAAAA
65 CCCATGAATCAGCACATTGGCACTTTGCCTTTAAAA
* * * * * * * * *
1112679 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-T--TCATCCTTAAGTCTAATATCGTTGG
1 CCAATATCGCTGGCCTTGAATCAGCATATTAGCGCCTTCGTCATCTTTAAGACCAATATCGCTGC
* *
1112741 CCTTGAATCAGCATATTGGCATCTTT
66 CCATGAATCAGCACATTGGCA-CTTT
1112767 AATATTCCTA
Statistics
Matches: 161, Mismatches: 23, Indels: 11
0.83 0.12 0.06
Matches are distributed among these distances:
96 2 0.01
97 38 0.24
98 4 0.02
99 2 0.01
100 40 0.25
101 73 0.45
102 2 0.01
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (100 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTAGCGCCTTCGTCATCTTTAAGACCAATATCGCTGC
CCATGAATCAGCACATTGGCACTTTGCCTTTAAAA
Found at i:1112752 original size:149 final size:152
Alignment explanation
Indices: 1112478--1112757 Score: 431
Period size: 149 Copynumber: 1.9 Consensus size: 152
1112468 TGACACAAGC
* **
1112478 CCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTTAAGTCCAATGTCGCTGC
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCGACTTCGTCA-CTTTAAAACCAATGTCGCTGC
* * *
1112543 CCATGAGTCAGCACATTGGCACCTTCTTCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATAT
65 CCATGAATCAGCACATTGGCACCTTCATCCTTAAGTCCAATATCGTTGGCCTTGAATCAGCATAT
1112608 TAGCGCCTTTGTCATCTTTGAAA
130 TAGCGCCTTTGTCATCTTTGAAA
* * *
1112631 CCAATATGGCTGGCCTTGAATCAGCATATTGGC-ACTTTG-C-CTTTAAAACCAATGTCGCTGGC
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCGACTTCGTCACTTTAAAACCAATGTCGCTGCC
* *
1112693 CTTGAATCAGCACATTGGCACCTTCATCCTTAAGTCTAATATCGTTGGCCTTGAATCAGCATATT
66 CATGAATCAGCACATTGGCACCTTCATCCTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATT
1112758 GGCATCTTTA
Statistics
Matches: 116, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
149 79 0.68
151 1 0.01
152 4 0.03
153 32 0.28
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (152 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCGACTTCGTCACTTTAAAACCAATGTCGCTGCC
CATGAATCAGCACATTGGCACCTTCATCCTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATT
AGCGCCTTTGTCATCTTTGAAA
Found at i:1112805 original size:149 final size:153
Alignment explanation
Indices: 1112474--1112797 Score: 403
Period size: 149 Copynumber: 2.1 Consensus size: 153
1112464 ACATTGACAC
* **
1112474 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTTAAGTCCAATGTCG
1 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCGACTTCGTCA-CTTTAAAACCAATGTCG
* * *
1112539 CTGCCCATGAGTCAGCACATTGGCACCTTCTTCTTTAAGTCCAATATCGTTGGCCTTGAATCAGC
65 CTGCCCATGAATCAGCACATTGGCACCTTCATCCTTAAGTCCAATATCGTTGGCCTTGAATCAGC
* * *
1112604 ATATTAGCGCCTTTGTCATCTTTG
130 ATATTAGCGCATTTGTAATATTTG
* * *
1112628 AA-ACCAATATGGCTGGCCTTGAATCAGCATATTGGC-ACTTTG-C-CTTTAAAACCAATGTCGC
1 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCGACTTCGTCACTTTAAAACCAATGTCGC
* * *
1112689 TGGCCTTGAATCAGCACATTGGCACCTTCATCCTTAAGTCTAATATCGTTGGCCTTGAATCAGCA
66 TGCCCATGAATCAGCACATTGGCACCTTCATCCTTAAGTCCAATATCGTTGGCCTTGAATCAGCA
1112754 TATT-G-GCATCTT-TAATATTCCT-
131 TATTAGCGCAT-TTGTAATATT--TG
* *
1112776 AAGCCCAATGTCGTTGGCCTTG
1 AAGCCCAATATCGCTGGCCTTG
1112798 TCTCAGCACG
Statistics
Matches: 147, Mismatches: 19, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
147 8 0.05
148 5 0.03
149 95 0.65
151 1 0.01
152 4 0.03
153 32 0.22
154 2 0.01
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (153 bp):
AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCGACTTCGTCACTTTAAAACCAATGTCGC
TGCCCATGAATCAGCACATTGGCACCTTCATCCTTAAGTCCAATATCGTTGGCCTTGAATCAGCA
TATTAGCGCATTTGTAATATTTG
Found at i:1127518 original size:24 final size:22
Alignment explanation
Indices: 1127491--1127582 Score: 91
Period size: 22 Copynumber: 4.2 Consensus size: 22
1127481 CGTCCTCCGC
*
1127491 AAAAAAAGAAAAACAACAACAA
1 AAAAAAAAAAAAACAACAACAA
* * *
1127513 TAAAAAAAACAAACACACAAAAA
1 AAAAAAAAAAAAACA-ACAACAA
1127536 AAAAAGAAAAAAAACAA-AACAA
1 AAAAA-AAAAAAAACAACAACAA
* *
1127558 AACAAAAAACAAAC-A-AACAA
1 AAAAAAAAAAAAACAACAACAA
1127578 AAAAA
1 AAAAA
1127583 CAACAACAAA
Statistics
Matches: 58, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
20 10 0.17
21 8 0.14
22 20 0.34
23 11 0.19
24 9 0.16
ACGTcount: A:0.83, C:0.14, G:0.02, T:0.01
Consensus pattern (22 bp):
AAAAAAAAAAAAACAACAACAA
Found at i:1127523 original size:15 final size:14
Alignment explanation
Indices: 1127499--1127595 Score: 81
Period size: 15 Copynumber: 6.4 Consensus size: 14
1127489 GCAAAAAAAG
*
1127499 AAAAACAACAACAA
1 AAAAAAAACAACAA
1127513 TAAAAAAAACAAACACA
1 -AAAAAAAAC-AACA-A
*
1127530 CAAAAAAAA-AAGAA
1 -AAAAAAAACAACAA
1127544 AAAAAACAA-AACAA
1 AAAAAA-AACAACAA
1127558 AACAAAAAACAAACAA
1 AA-AAAAAAC-AACAA
1127574 ACAAAAAAACAACAA
1 A-AAAAAAACAACAA
1127589 CAAAAAA
1 -AAAAAA
1127596 GGTCCAAATG
Statistics
Matches: 70, Mismatches: 4, Indels: 16
0.78 0.04 0.18
Matches are distributed among these distances:
13 6 0.09
14 11 0.16
15 25 0.36
16 18 0.26
17 10 0.14
ACGTcount: A:0.81, C:0.16, G:0.01, T:0.01
Consensus pattern (14 bp):
AAAAAAAACAACAA
Found at i:1127545 original size:5 final size:5
Alignment explanation
Indices: 1127514--1127593 Score: 57
Period size: 5 Copynumber: 16.8 Consensus size: 5
1127504 CAACAACAAT
* *
1127514 AAAA- AAAAC AAACAC ACAA- AAAA- AAAAG AAAA- AAAAC AAAAC AAAAC
1 AAAAC AAAAC AAA-AC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC
*
1127561 AAAAA ACAAAC -AAAC -AAA- AAAAC AACAAC AAAA
1 AAAAC A-AAAC AAAAC AAAAC AAAAC AA-AAC AAAA
1127594 AAGGTCCAAA
Statistics
Matches: 64, Mismatches: 4, Indels: 15
0.77 0.05 0.18
Matches are distributed among these distances:
4 25 0.39
5 27 0.42
6 12 0.19
ACGTcount: A:0.82, C:0.16, G:0.01, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:1127552 original size:20 final size:19
Alignment explanation
Indices: 1127490--1127595 Score: 79
Period size: 20 Copynumber: 5.4 Consensus size: 19
1127480 ACGTCCTCCG
* *
1127490 CAAAAAAAGAAAAACAACAA
1 CAAAAAAA-AAAAAAAAAAA
* * *
1127510 CAATAAAAAAAACAAACACA
1 CAA-AAAAAAAAAAAAAAAA
1127530 CAAAAAAAAAAGAAAAAAAA
1 CAAAAAAAAAA-AAAAAAAA
*
1127550 CAAAACAAAACAAAAAACAAA
1 CAAAA-AAAA-AAAAAAAAAA
* * *
1127571 C-AAACAAAAAAACAACAA
1 CAAAAAAAAAAAAAAAAAA
1127589 CAAAAAA
1 CAAAAAA
1127596 GGTCCAAATG
Statistics
Matches: 67, Mismatches: 14, Indels: 11
0.73 0.15 0.12
Matches are distributed among these distances:
18 8 0.12
19 15 0.22
20 25 0.37
21 17 0.25
22 2 0.03
ACGTcount: A:0.81, C:0.16, G:0.02, T:0.01
Consensus pattern (19 bp):
CAAAAAAAAAAAAAAAAAA
Found at i:1127594 original size:45 final size:46
Alignment explanation
Indices: 1127491--1127595 Score: 135
Period size: 45 Copynumber: 2.3 Consensus size: 46
1127481 CGTCCTCCGC
* *
1127491 AAAAA-AAGAAAAACAACAACAATAAAAAAAACAAACACACAAAAA
1 AAAAACAAAAAAAACAACAACAATAAAAAAAACAAACAAACAAAAA
*
1127536 AAAAAGAAAAAAAACAA-AACAA-AACAAAAAACAAACAAACAAAAA
1 AAAAACAAAAAAAACAACAACAATAA-AAAAAACAAACAAACAAAAA
*
1127581 AACAACAACAAAAAA
1 AAAAACAA-AAAAAA
1127596 GGTCCAAATG
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
44 2 0.04
45 35 0.66
46 16 0.30
ACGTcount: A:0.82, C:0.15, G:0.02, T:0.01
Consensus pattern (46 bp):
AAAAACAAAAAAAACAACAACAATAAAAAAAACAAACAAACAAAAA
Found at i:1129100 original size:33 final size:33
Alignment explanation
Indices: 1129053--1129579 Score: 368
Period size: 33 Copynumber: 16.2 Consensus size: 33
1129043 CTCCAAAAGC
* *
1129053 CCACAAGTCCGTGGCATCTTTTTCTTTTTAAGT
1 CCACAACTCCGTGGCATCTTTTTCCTTTTAAGT
* *
1129086 CCACAACTCTGTGGCACTCTTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCA-TCTTTTTCCTTTTAAGT
**
1129120 CCACAACTCCGTAGCGC-TC-TTTT-CTTCAAAGT
1 CCACAACTCCGT-G-GCATCTTTTTCCTTTTAAGT
* * * * *
1129152 CCACGACTCAGTGGCATCTCTTTCC---AAAGC
1 CCACAACTCCGTGGCATCTTTTTCCTTTTAAGT
* ** ** *
1129182 CCACGACTTAGTGGCATC-TTTT-CTTCAAAGC
1 CCACAACTCCGTGGCATCTTTTTCCTTTTAAGT
* *
1129213 CCACAACTACGTGGCACCTTTTT-CTTTTCAAAG-
1 CCACAACTCCGTGGCATCTTTTTCCTTTT--AAGT
* * * *
1129246 CTCACCACTCCATGGCA-CCTTTTCCTTTTAATT
1 C-CACAACTCCGTGGCATCTTTTTCCTTTTAAGT
* * *
1129279 CCACAACTCTGTGGCACCTTGTTCCTTTTAAGT
1 CCACAACTCCGTGGCATCTTTTTCCTTTTAAGT
*
1129312 CCACAACTCCGTGGCATCTTTTTCCTTTTACGT
1 CCACAACTCCGTGGCATCTTTTTCCTTTTAAGT
** ** * ** *
1129345 CCATGACTTTGTGGCACCCTTTCCCCTTTTAAAGC
1 CCACAACTCCGTGGCA-TCTTTTTCCTTTT-AAGT
* * *
1129380 CCACAACTCCGTGGCACCTTATTCCTTTTCAGT
1 CCACAACTCCGTGGCATCTTTTTCCTTTTAAGT
*
1129413 CCACAACTCCATGGCA-C-----CCTTTTAAGT
1 CCACAACTCCGTGGCATCTTTTTCCTTTTAAGT
*
1129440 CCACAACTCCGTGGCATCTTTTTCCTTTTAAAT
1 CCACAACTCCGTGGCATCTTTTTCCTTTTAAGT
* * * ** *
1129473 CCACGACTCTGTGGCACCCTTTCCCCTTTTAAAGC
1 CCACAACTCCGTGGCA-TCTTTTTCCTTTT-AAGT
* * * *
1129508 CCACAACTTCGTAGCACCTTGTTCCTTTTAAGT
1 CCACAACTCCGTGGCATCTTTTTCCTTTTAAGT
** *
1129541 CCACAACTCCGTGGCATCTTTCCCCTTTTAAGC
1 CCACAACTCCGTGGCATCTTTTTCCTTTTAAGT
1129574 CCACAA
1 CCACAA
1129580 GTCAATGGCA
Statistics
Matches: 389, Mismatches: 79, Indels: 52
0.75 0.15 0.10
Matches are distributed among these distances:
27 24 0.06
28 2 0.01
29 3 0.01
30 23 0.06
31 22 0.06
32 41 0.11
33 155 0.40
34 88 0.23
35 29 0.07
36 2 0.01
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.34
Consensus pattern (33 bp):
CCACAACTCCGTGGCATCTTTTTCCTTTTAAGT
Found at i:1129214 original size:31 final size:31
Alignment explanation
Indices: 1129137--1129234 Score: 121
Period size: 31 Copynumber: 3.2 Consensus size: 31
1129127 TCCGTAGCGC
* *
1129137 TCTTTTCTTCAAAGTCCACGACTCAGTGGCA
1 TCTTTTCTTCAAAGCCCACGACTTAGTGGCA
1129168 TCTCTTTC--CAAAGCCCACGACTTAGTGGCA
1 TCT-TTTCTTCAAAGCCCACGACTTAGTGGCA
*
1129198 TCTTTTCTTCAAAGCCCACAAC-TACGTGGCA
1 TCTTTTCTTCAAAGCCCACGACTTA-GTGGCA
*
1129229 CCTTTT
1 TCTTTT
1129235 TCTTTTCAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
29 4 0.07
30 25 0.42
31 26 0.44
32 4 0.07
ACGTcount: A:0.22, C:0.32, G:0.14, T:0.32
Consensus pattern (31 bp):
TCTTTTCTTCAAAGCCCACGACTTAGTGGCA
Found at i:1129405 original size:68 final size:66
Alignment explanation
Indices: 1129049--1129579 Score: 416
Period size: 68 Copynumber: 8.2 Consensus size: 66
1129039 CAACCTCCAA
* * * **
1129049 AAGCCCACAAGTCCGTGGCATCTTTTTCTTTTTAAGTCCACAACTCTGTGGCACTCTTTTTCCTT
1 AAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAGTCCACAACTCTGTGGCAC-CTTTCCCCTT
1129114 TT
65 TT
* * ** * *
1129116 AAGCCCACAACTCCGTAGC-GCTCTTTT-CTTCAAAGTCCACGACTCAGTGGCATCTCTTT--CC
1 AAGCCCACAACTCCGTGGCACCT-TTTTCCTTTTAAGTCCACAACTCTGTGGCA-C-CTTTCCCC
*
1129177 ---A
63 TTTT
* ** * ** * **
1129178 AAGCCCACGACTTAGTGGCATC-TTTT-CTTCAAAGCCCACAACTAC-GTGGCACCTTT-TTCTT
1 AAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAGTCCACAACT-CTGTGGCACCTTTCCCCTT
1129239 TT
65 TT
* * * * *
1129241 CAAAGCTCACCACTCCATGGCACC-TTTTCCTTTTAATTCCACAACTCTGTGGCACCTTGT-TCC
1 --AAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACCTT-TCCCC
1129304 TTTT
63 TTTT
* * * ** *
1129308 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTTACGTCCATGACTTTGTGGCACCCTTTCCCCTT
1 AAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAGTCCACAACTCTGTGGCA-CCTTTCCCCTT
1129373 TT
65 TT
* * **
1129375 AAAGCCCACAACTCCGTGGCACCTTATTCCTTTTCAGTCCACAACTCCATGGCA------CCCTT
1 -AAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACCTTTCCCCTT
1129434 TT
65 TT
* * * *
1129436 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAATCCACGACTCTGTGGCACCCTTTCCCCTT
1 AAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAGTCCACAACTCTGTGGCA-CCTTTCCCCTT
1129501 TT
65 TT
* * * * *
1129503 AAAGCCCACAACTTCGTAGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCATCTTTCCCCTT
1 -AAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACCTTTCCCCTT
1129568 TT
65 TT
1129570 AAGCCCACAA
1 AAGCCCACAA
1129580 GTCAATGGCA
Statistics
Matches: 372, Mismatches: 67, Indels: 51
0.76 0.14 0.10
Matches are distributed among these distances:
59 4 0.01
60 47 0.13
61 32 0.09
62 16 0.04
63 1 0.00
65 40 0.11
66 81 0.22
67 63 0.17
68 88 0.24
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.34
Consensus pattern (66 bp):
AAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACCTTTCCCCTTT
T
Found at i:1129459 original size:128 final size:128
Alignment explanation
Indices: 1129053--1129556 Score: 463
Period size: 128 Copynumber: 3.9 Consensus size: 128
1129043 CTCCAAAAGC
* * * * * **
1129053 CCACAAGTCCGTGGCATCTTTTTCTTTTTAAGTCCACAACTCTGTGGCACTCTTTTTCCTTTT-A
1 CCACAACTCCGTGGCATCTTTTTCCTTTTAAATCCACGACTCTGTGGCACCCTTTCCCCTTTTAA
* ** * * *
1129117 AGCCCACAACTCCGTAGCGCTCTT-TT-CTTCAAAGTCCACGACT-CAGTGGCATCTCTTTCCAA
66 AGCCCACAACTCCGTAGCAC-CTTATTCCTTTTAAGTCCACAACTCCA-TGGCA-CCCTTT--TA
*
1129179 AGC
126 AGT
* ** * * * **
1129182 CCACGACTTAGTGGCATC-TTTT-C-TTCAAAGCCCACAACTAC-GTGGCA-CCTTT-TTCTTTT
1 CCACAACTCCGTGGCATCTTTTTCCTTTTAAA-TCCACGACT-CTGTGGCACCCTTTCCCCTTTT
* * * * * **
1129241 CAAAGCTCACCACTCCATGGCACCTT-TTCCTTTTAATTCCACAACTCTGTGGCACCTTGTTCCT
64 -AAAGCCCACAACTCCGTAGCACCTTATTCCTTTTAAGTCCACAACTCCATGGCA-C-----CCT
1129305 TTTAAGT
122 TTTAAGT
** * *
1129312 CCACAACTCCGTGGCATCTTTTTCCTTTTACGTCCATGACTTTGTGGCACCCTTTCCCCTTTTAA
1 CCACAACTCCGTGGCATCTTTTTCCTTTTAAATCCACGACTCTGTGGCACCCTTTCCCCTTTTAA
* *
1129377 AGCCCACAACTCCGTGGCACCTTATTCCTTTTCAGTCCACAACTCCATGGCACCCTTTTAAGT
66 AGCCCACAACTCCGTAGCACCTTATTCCTTTTAAGTCCACAACTCCATGGCACCCTTTTAAGT
1129440 CCACAACTCCGTGGCATCTTTTTCCTTTTAAATCCACGACTCTGTGGCACCCTTTCCCCTTTTAA
1 CCACAACTCCGTGGCATCTTTTTCCTTTTAAATCCACGACTCTGTGGCACCCTTTCCCCTTTTAA
* * *
1129505 AGCCCACAACTTCGTAGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCA
66 AGCCCACAACTCCGTAGCACCTTATTCCTTTTAAGTCCACAACTCCATGGCA
1129557 TCTTTCCCCT
Statistics
Matches: 304, Mismatches: 53, Indels: 37
0.77 0.13 0.09
Matches are distributed among these distances:
125 6 0.02
126 13 0.04
127 49 0.16
128 123 0.40
129 14 0.05
130 18 0.06
131 4 0.01
132 17 0.06
133 31 0.10
134 29 0.10
ACGTcount: A:0.20, C:0.33, G:0.13, T:0.34
Consensus pattern (128 bp):
CCACAACTCCGTGGCATCTTTTTCCTTTTAAATCCACGACTCTGTGGCACCCTTTCCCCTTTTAA
AGCCCACAACTCCGTAGCACCTTATTCCTTTTAAGTCCACAACTCCATGGCACCCTTTTAAGT
Found at i:1129462 original size:27 final size:27
Alignment explanation
Indices: 1129403--1129455 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
1129393 GCACCTTATT
*
1129403 CCTTTTCAGTCCACAACTCCATGGCAC
1 CCTTTTAAGTCCACAACTCCATGGCAC
*
1129430 CCTTTTAAGTCCACAACTCCGTGGCA
1 CCTTTTAAGTCCACAACTCCATGGCA
1129456 TCTTTTTCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.23, C:0.38, G:0.13, T:0.26
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTCCATGGCAC
Found at i:1129465 original size:60 final size:61
Alignment explanation
Indices: 1129368--1129556 Score: 191
Period size: 60 Copynumber: 3.0 Consensus size: 61
1129358 GCACCCTTTC
* *
1129368 CCCTTTTAAAGCCCACAACTCCGTGGCACCTTATTCCTTTTCAGTCCACAACTCCATGGCA
1 CCCTTTTAAAGCCCACAACTCCGTGGCACCTTATTCCTTTTAAATCCACAACTCCATGGCA
* * * * **
1129429 CCCTTTT-AAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAATCCACGACTCTGTGGCA
1 CCCTTTTAAAGCCCACAACTCCGTGGCACCTTATTCCTTTTAAATCCACAACTCCATGGCA
* * * * *
1129489 CCCTTTCCCCTTTTAAAGCCCACAACTTCGTAGCACCTTGTTCCTTTTAAGTCCACAACTCCGTG
1 -------CCCTTTTAAAGCCCACAACTCCGTGGCACCTTATTCCTTTTAAATCCACAACTCCATG
1129554 GCA
59 GCA
1129557 TCTTTCCCCT
Statistics
Matches: 104, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
60 45 0.43
61 7 0.07
67 7 0.07
68 45 0.43
ACGTcount: A:0.21, C:0.35, G:0.12, T:0.31
Consensus pattern (61 bp):
CCCTTTTAAAGCCCACAACTCCGTGGCACCTTATTCCTTTTAAATCCACAACTCCATGGCA
Found at i:1129934 original size:20 final size:20
Alignment explanation
Indices: 1129911--1129983 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1129901 ACAATTCAAA
1129911 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
1129931 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
1129952 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
1129972 GTATCGATACAT
1 GTATCGATACAT
1129984 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:1129955 original size:21 final size:21
Alignment explanation
Indices: 1129929--1130004 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
1129919 ACATGTTGCA
1129929 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
1129950 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
1129970 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
1129991 ATGTATCGATACAT
1 ATGTATCGATACAT
1130005 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:1129962 original size:41 final size:41
Alignment explanation
Indices: 1129911--1130004 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
1129901 ACAATTCAAA
*
1129911 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1129952 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1129993 GTATCGATACAT
1 GTATCGATACAT
1130005 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:1130061 original size:13 final size:13
Alignment explanation
Indices: 1130043--1130068 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1130033 TACAGCAAGT
1130043 ATGTATCGATACA
1 ATGTATCGATACA
1130056 ATGTATCGATACA
1 ATGTATCGATACA
1130069 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1132313 original size:21 final size:21
Alignment explanation
Indices: 1132280--1132324 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1132270 TTGCAAGTTG
*
1132280 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
1132302 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
1132322 AAA
1 AAA
1132325 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:1134148 original size:15 final size:15
Alignment explanation
Indices: 1134128--1134158 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1134118 TAAAAATGTC
*
1134128 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1134143 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1134158 C
1 C
1134159 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1136248 original size:13 final size:13
Alignment explanation
Indices: 1136230--1136267 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1136220 CATTTTTATT
1136230 TGTATCGATACAA
1 TGTATCGATACAA
*
1136243 TGTATCGATACAC
1 TGTATCGATACAA
1136256 TGTATCGATACA
1 TGTATCGATACA
1136268 GGGTGTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1138718 original size:20 final size:20
Alignment explanation
Indices: 1138695--1138767 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1138685 ACAATTCAAA
1138695 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
1138715 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
1138736 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
1138756 GTATCGATACAT
1 GTATCGATACAT
1138768 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:1138739 original size:21 final size:21
Alignment explanation
Indices: 1138713--1138788 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
1138703 ACATGTTGCA
1138713 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
1138734 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
1138754 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
1138775 ATGTATCGATACAT
1 ATGTATCGATACAT
1138789 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:1138746 original size:41 final size:41
Alignment explanation
Indices: 1138695--1138788 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
1138685 ACAATTCAAA
*
1138695 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1138736 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1138777 GTATCGATACAT
1 GTATCGATACAT
1138789 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:1138845 original size:13 final size:13
Alignment explanation
Indices: 1138827--1138852 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1138817 TACAGCAAGT
1138827 ATGTATCGATACA
1 ATGTATCGATACA
1138840 ATGTATCGATACA
1 ATGTATCGATACA
1138853 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1139698 original size:49 final size:49
Alignment explanation
Indices: 1139645--1140218 Score: 673
Period size: 49 Copynumber: 11.7 Consensus size: 49
1139635 TCTTTTAAAT
* * **
1139645 CCAATATCGCTCGCCTTGAATCAGCATATTGGCGCCTTTGTCTTTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGA
* * * *
1139694 CCAATGTCGCTGGCCTTGAATCAGCACATT-G-A----CACCTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGA
* *
1139737 CCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--T-TCATCTTTAAGA
* * * *
1139789 CCAAT-GCTGCTAGCCTTGAATCAGCACATTAGCACCTTCATCTTTAAGA
1 CCAATATC-GCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGA
*
1139838 CTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGA
*
1139887 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGA
*
1139936 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTT-AGTA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAG-A
* * * *
1139985 CCAATGTCGCTGTCCTTAAATCAGCACATTGGCACCTTCATCTTT-AGTA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAG-A
* * *
1140034 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGA
* * *
1140083 CCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGA
* * * *
1140132 CCAAAATCGTTAGCCTTGAATCAGCATATTGGCGCCTTCATCATCTTTGAA-A
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-T--TCATCTTT-AAGA
* * *
1140184 CCCAATGTCGTTGGCCTTGAATCAGCACATTGGCA
1 -CCAATATCGCTGGCCTTGAATCAGCATATTGGCA
1140219 TTCTTCTCGT
Statistics
Matches: 460, Mismatches: 47, Indels: 32
0.85 0.09 0.06
Matches are distributed among these distances:
43 34 0.07
44 1 0.00
45 1 0.00
48 3 0.01
49 337 0.73
50 5 0.01
51 1 0.00
52 47 0.10
53 31 0.07
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (49 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGA
Found at i:1140303 original size:52 final size:51
Alignment explanation
Indices: 1139729--1140327 Score: 283
Period size: 49 Copynumber: 11.9 Consensus size: 51
1139719 ACATTGACAC
* * *
1139729 CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCAC-CTTTGTCAT
1 CTTTAAG-CCAATATCGTTGGCCTTGAATCAGCACATTGGC-CTTTTTCTCAT
* * * * *
1139781 CTTTAAGTCCAAT-GCTGCTAGCCTTGAATCAGCACATTAGCAC---CT-TCAT
1 CTTTAAG-CCAATATC-GTTGGCCTTGAATCAGCACATTGGC-CTTTTTCTCAT
* * * *
1139830 CTTTAAGACTAATATCGCTGGCCTTGAATCAGCATATTGGCAC---CT-TCAT
1 CTTTAAG-CCAATATCGTTGGCCTTGAATCAGCACATTGGC-CTTTTTCTCAT
* * *
1139879 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCAC--CTT-T-AT
1 CTTTAAG-CCAATATCGTTGGCCTTGAATCAGCACATTGGC-CTTTTTCTCAT
* * *
1139928 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCAC--CTT-T-AT
1 CTTTAAG-CCAATATCGTTGGCCTTGAATCAGCACATTGGC-CTTTTTCTCAT
* * * * *
1139977 CTTT-AGTACCAATGTCGCTGTCCTTAAATCAGCACATTGGCAC---CT-TCAT
1 CTTTAAG--CCAATATCGTTGGCCTTGAATCAGCACATTGGC-CTTTTTCTCAT
* * *
1140026 CTTT-AGTACCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC---CT-TCAT
1 CTTTAAG--CCAATATCGTTGGCCTTGAATCAGCACATTGGC-CTTTTTCTCAT
* * *
1140075 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGG-C-ATCT-TCAT
1 CTTTAAG-CCAATATCGTTGGCCTTGAATCAGCACATTGGCCTTTTTCTCAT
* * * *
1140124 CTTTAAGTCCAAAATCGTTAGCCTTGAATCAGCATATTGGCGC--CTTCATCAT
1 CTTTAAG-CCAATATCGTTGGCCTTGAATCAGCACATTGGC-CTTTTTC-TCAT
* * * * *
1140176 CTTTGAAACCCAATGTCGTTGGCCTTGAATCAGCACATTGGCATTCTTCTCGT
1 CTTT--AAGCCAATATCGTTGGCCTTGAATCAGCACATTGGCCTTTTTCTCAT
* *** * * * * *
1140229 CTTCAAGTTTGATGTTGCTGGCCATGAATCAGCACATTGTCCTTTTTCTCAT
1 CTTTAAG-CCAATATCGTTGGCCTTGAATCAGCACATTGGCCTTTTTCTCAT
* **
1140281 CTTTAAGCCTAATATCGTTGGCCGTGAATCAGCGTATTGGTCCTTTT
1 CTTTAAGCC-AATATCGTTGGCCTTGAATCAGCACATTGG-CCTTTT
1140328 ATCACTCCTC
Statistics
Matches: 469, Mismatches: 59, Indels: 37
0.83 0.10 0.07
Matches are distributed among these distances:
47 1 0.00
48 4 0.01
49 300 0.64
50 7 0.01
51 4 0.01
52 106 0.23
53 41 0.09
54 6 0.01
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (51 bp):
CTTTAAGCCAATATCGTTGGCCTTGAATCAGCACATTGGCCTTTTTCTCAT
Done.