Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold289
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: 700734
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 5
Found at i:1709 original size:1 final size:1
Alignment explanation
Indices: 1703--1727 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
1693 GAATGGGTTT
1703 GGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGG
1728 AATTTCATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:7748 original size:21 final size:21
Alignment explanation
Indices: 7722--7776 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
7712 ATGCATTTAA
7722 ATGAAAAAATACA-TTAGTTAG
1 ATGAAAAAATACACTT-GTTAG
* *
7743 ATGAAATAATGCACTTGTTAG
1 ATGAAAAAATACACTTGTTAG
*
7764 ATGAAAAGATACA
1 ATGAAAAAATACA
7777 ATTTTTATAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
21 26 0.93
22 2 0.07
ACGTcount: A:0.49, C:0.07, G:0.16, T:0.27
Consensus pattern (21 bp):
ATGAAAAAATACACTTGTTAG
Found at i:9746 original size:155 final size:156
Alignment explanation
Indices: 9221--9944 Score: 739
Period size: 155 Copynumber: 4.7 Consensus size: 156
9211 TCGATATGAG
* * * * *
9221 GTAACCCTAAAGGACTTAAAAAAGA-T-ATAGAAGTGG-TTAACCTATCCTAAATACCCATCTTC
1 GTAACCCTAAAGGACTTAAAAAA-ACTCATAAAAG-GGATGAACCTATCCTAAATGCCCACCTTT
* ** ** * * * * * *
9283 GGCATGAAAGCGGACCTAGTGACAACCTAAGATTTGGTTCTAAAAAATTACGAAAATTCCTTTAA
64 GGCATAAAAATGGACCCGGTGACGACCTAGGAGTTGGTTCT-AAAAATTATGAAAATGCCCTTAA
* *
9348 GGGTATACCTTCGACGTGAAAGTATCCCA
128 GGGGATACCTTCGACGTGAAAGTATCTCA
* * * * * *
9377 GTAACCCTAAAGTACGTAAAAAGACTCATAAAAGGGATGAACCTAACTTAAATGCCCACCTTGGG
1 GTAACCCTAAAGGACTTAAAAAAACTCATAAAAGGGATGAACCTATCCTAAATGCCCACCTTTGG
* * *
9442 CATAAAAATGGACCCGGTGATGACCTAGGTGTTGGTTCTAAAAATTATGAAAATGCCTTTACAGG
66 CATAAAAATGGACCCGGTGACGACCTAGGAGTTGGTTCTAAAAATTATGAAAATGCCCTTA-AGG
* * * * *
9507 TG-TACTTTCGACATAAAAATATCTC-
130 GGATACCTTCGACGTGAAAGTATCTCA
* * * *
9532 GATAACCCTAAAAGACTTAAAAAAACTCATAAAAGGGATGAACTTATCCTAAATGCCCACTTTTA
1 G-TAACCCTAAAGGACTTAAAAAAACTCATAAAAGGGATGAACCTATCCTAAATGCCCACCTTTG
* * ** * * *
9597 GCATAAAAGTAGACCCAATGACGACCCAGGAGTTGATTCTAAAAATTATGAAAATGCCCCT-AGG
65 GCATAAAAATGGACCCGGTGACGACCTAGGAGTTGGTTCTAAAAATTATGAAAATGCCCTTAAGG
*
9661 GGATACCTGCGACGTGAAAGTATCTCA
130 GGATACCTTCGACGTGAAAGTATCTCA
9688 GT-ACCCATAAAGGACTTAAAAAAACTCATAAAAGGGATGAACCTATCCTAAATGCCCACCTTTG
1 GTAACCC-TAAAGGACTTAAAAAAACTCATAAAAGGGATGAACCTATCCTAAATGCCCACCTTTG
* * * *
9752 GCATAAAAACGGACTCGGTGACGACTTAGGAGTTGGTTCTAAAAATTATGAAAATACCCTTAA-G
65 GCATAAAAATGGACCCGGTGACGACCTAGGAGTTGGTTCTAAAAATTATGAAAATGCCCTTAAGG
* *
9816 GGATACCTTCGATGTGAAAGTATCTCC
130 GGATACCTTCGACGTGAAAGTATCTCA
* * * * * * *
9843 GT-GCCCATAACGGACTTAAAAAGAACT-ATAAAAGGAATGAACCTATCCTAGATACCCACATTC
1 GTAACCC-TAAAGGACTTAAAAA-AACTCATAAAAGGGATGAACCTATCCTAAATGCCCACCTTT
* * * ***
9906 GGCATAAAAACGAATCCGGTGGTTACCTAGGAGTTGGTT
64 GGCATAAAAATGGACCCGGTGACGACCTAGGAGTTGGTT
9945 TCATAAGAAA
Statistics
Matches: 471, Mismatches: 87, Indels: 21
0.81 0.15 0.04
Matches are distributed among these distances:
154 8 0.02
155 232 0.49
156 171 0.36
157 60 0.13
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.24
Consensus pattern (156 bp):
GTAACCCTAAAGGACTTAAAAAAACTCATAAAAGGGATGAACCTATCCTAAATGCCCACCTTTGG
CATAAAAATGGACCCGGTGACGACCTAGGAGTTGGTTCTAAAAATTATGAAAATGCCCTTAAGGG
GATACCTTCGACGTGAAAGTATCTCA
Found at i:14523 original size:84 final size:85
Alignment explanation
Indices: 14413--14665 Score: 235
Period size: 84 Copynumber: 3.0 Consensus size: 85
14403 TGGGCCAACG
* *
14413 GGTAAACAAAGGATAAAGAAATTGATCGGGATTGGACTGACAAGTCAACAAAAGATAAAAAGAAG
1 GGTAAACAAAGGATAAAGAAGTTGATCGGGATTGGACCGACAAGTCAACAAAAGATAAAAAGAAG
14478 TACCT-GAGACCAAGCCGACA
66 TACCTCG-GACCAAGCCGACA
* * ** * ** ** * *
14498 GTTGAATGAAGGATAAA-AAGTTGATCGAGATTAAACCGACAAGTCAA-TGAAG-TATAAAGGAT
1 GGTAAACAAAGGATAAAGAAGTTGATCGGGATTGGACCGACAAGTCAACAAAAGATA-AAAAGAA
* * *** * *
14560 TTACCTCGGGCTGGGCTGACG
65 GTACCTCGGACCAAGCCGACA
* *
14581 GGTAAACAAAGGATAAAGAAGTTGATCAGGATTGGACCGACATGTCAACAAAAGATAAAAAGAAG
1 GGTAAACAAAGGATAAAGAAGTTGATCGGGATTGGACCGACAAGTCAACAAAAGATAAAAAGAAG
** *
14646 TACCAAGGACCAAGCTGACA
66 TACCTCGGACCAAGCCGACA
14666 AGTGAAATAA
Statistics
Matches: 122, Mismatches: 41, Indels: 10
0.71 0.24 0.06
Matches are distributed among these distances:
82 2 0.02
83 33 0.27
84 51 0.42
85 34 0.28
86 2 0.02
ACGTcount: A:0.43, C:0.15, G:0.25, T:0.17
Consensus pattern (85 bp):
GGTAAACAAAGGATAAAGAAGTTGATCGGGATTGGACCGACAAGTCAACAAAAGATAAAAAGAAG
TACCTCGGACCAAGCCGACA
Found at i:14532 original size:168 final size:168
Alignment explanation
Indices: 14246--14671 Score: 525
Period size: 168 Copynumber: 2.5 Consensus size: 168
14236 AAGCCAATAA
* * * * * * * * *
14246 GTAAACAAGGGATAAAGAAGTTGACCGGAATTGGATTGACAAGTTAATAAAATATACAAGGAAGT
1 GTAAACAAAGGATAAAGAAGTTGATCGGGATTGGACTGACAAGTCAACAAAAGATAAAAAGAAGT
* * ** * ** *
14311 ACTTGGGACCAAGTTGACAGGTGAATGAAGGATAAAAAGTTGACCAGGATTAAACTGATGAGTTA
66 ACCTGAGACCAAGCCGACAGGTGAATGAAGGATAAAAAGTTGACCAGGATTAAACCGACAAGTCA
*
14376 ATGAGGGATAAAGGATTTACC-CAGGACTGGGCCAACGG
131 ATGAAGGATAAAGGATTTACCTC-GGACTGGGCCAACGG
*
14414 GTAAACAAAGGATAAAGAAATTGATCGGGATTGGACTGACAAGTCAACAAAAGATAAAAAGAAGT
1 GTAAACAAAGGATAAAGAAGTTGATCGGGATTGGACTGACAAGTCAACAAAAGATAAAAAGAAGT
* *
14479 ACCTGAGACCAAGCCGACAGTTGAATGAAGGATAAAAAGTTGATC-GAGATTAAACCGACAAGTC
66 ACCTGAGACCAAGCCGACAGGTGAATGAAGGATAAAAAGTTGACCAG-GATTAAACCGACAAGTC
* * **
14543 AATGAAGTATAAAGGATTTACCTCGGGCTGGGCTGACGG
130 AATGAAGGATAAAGGATTTACCTCGGACTGGGCCAACGG
* * *
14582 GTAAACAAAGGATAAAGAAGTTGATCAGGATTGGACCGACATGTCAACAAAAGATAAAAAGAAGT
1 GTAAACAAAGGATAAAGAAGTTGATCGGGATTGGACTGACAAGTCAACAAAAGATAAAAAGAAGT
* * *
14647 ACC-AAGGACCAAGCTGACAAGTGAA
66 ACCTGA-GACCAAGCCGACAGGTGAA
14672 ATAATAGATG
Statistics
Matches: 222, Mismatches: 33, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
167 2 0.01
168 219 0.99
169 1 0.00
ACGTcount: A:0.42, C:0.13, G:0.26, T:0.19
Consensus pattern (168 bp):
GTAAACAAAGGATAAAGAAGTTGATCGGGATTGGACTGACAAGTCAACAAAAGATAAAAAGAAGT
ACCTGAGACCAAGCCGACAGGTGAATGAAGGATAAAAAGTTGACCAGGATTAAACCGACAAGTCA
ATGAAGGATAAAGGATTTACCTCGGACTGGGCCAACGG
Found at i:14870 original size:42 final size:42
Alignment explanation
Indices: 14811--14896 Score: 111
Period size: 42 Copynumber: 2.0 Consensus size: 42
14801 TAAAGAGATG
* * **
14811 AAGAAGTCTTTCAGGTTTAAGTCGACAGGCGGATGATTGATA
1 AAGAAGTCTCTCAGGTTTAAGTCGACAGGCAGACAATTGATA
*
14853 AAGAAGTCTCT-AGGGTTTGAGTCGACAGGCAGACAATTGATA
1 AAGAAGTCTCTCA-GGTTTAAGTCGACAGGCAGACAATTGATA
14895 AA
1 AA
14897 AAAAGTCTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
41 1 0.03
42 37 0.97
ACGTcount: A:0.34, C:0.13, G:0.28, T:0.26
Consensus pattern (42 bp):
AAGAAGTCTCTCAGGTTTAAGTCGACAGGCAGACAATTGATA
Found at i:15292 original size:84 final size:84
Alignment explanation
Indices: 15081--15421 Score: 258
Period size: 84 Copynumber: 4.0 Consensus size: 84
15071 GAAGTTTTTT
* * * * * * **
15081 GGGTCTGAGTCGATGGGTAGACAAAAGATGAAGAAGTCTCTGGGGTCTAAGCTAATGGGCAGAA-
1 GGGTCTAAGCCGATGGGCAGACAAAAGATGAAAAAGTCTCTTGGGTCTGAGCTAACAGGCA-AAT
15145 GAAAGATGAAAGAAGTCTCCC
65 GAAAGATGAAA-AAGTCTCCC
* * ** * * * * *
15166 AGGTCAAAGCCGACAGCCAGAAAAAAGATG-AAGAGTTTTCTTGGGTTTGAGCTAACAGGCAAAT
1 GGGTCTAAGCCGATGGGCAGACAAAAGATGAAAAAG-TCTCTTGGGTCTGAGCTAACAGGCAAAT
15230 GAAAGATGAAAAAGTCTCCC
65 GAAAGATGAAAAAGTCTCCC
* ** * *
15250 GGGTCTAAGCTGATGGGCAGACAATGGATGAAAAAGTCTCTTGGGTCTGAG-TCAACTGGCAGAT
1 GGGTCTAAGCCGATGGGCAGACAAAAGATGAAAAAGTCTCTTGGGTCTGAGCT-AACAGGCAAAT
* * *
15314 GAAAAATGAAAAAGTTTCTC
65 GAAAGATGAAAAAGTCTCCC
* * * ** * ** * * *
15334 GAGTCTAAGTCGACT-GGCAAATGAAAGATGAAGAAGTCTCCCGGGTCTGAGCCAACGGGCAGAT
1 GGGTCTAAGCCGA-TGGGCAGACAAAAGATGAAAAAGTCTCTTGGGTCTGAGCTAACAGGCAAAT
* * *
15398 GAAAGATGAAGAAGTTTCCT
65 GAAAGATGAAAAAGTCTCCC
15418 GGGT
1 GGGT
15422 TTGAGTTGAC
Statistics
Matches: 198, Mismatches: 52, Indels: 13
0.75 0.20 0.05
Matches are distributed among these distances:
83 1 0.01
84 141 0.71
85 56 0.28
ACGTcount: A:0.35, C:0.16, G:0.30, T:0.20
Consensus pattern (84 bp):
GGGTCTAAGCCGATGGGCAGACAAAAGATGAAAAAGTCTCTTGGGTCTGAGCTAACAGGCAAATG
AAAGATGAAAAAGTCTCCC
Found at i:15437 original size:42 final size:42
Alignment explanation
Indices: 15104--15465 Score: 192
Period size: 42 Copynumber: 8.6 Consensus size: 42
15094 TGGGTAGACA
* * ** *
15104 AAAGATGAAGAAGTCT-CTGGGGTCTAAGCTAATGGGCAGAAG
1 AAAGATGAAGAAGTCTCCT-GGGTCTGAGCCAACAGGCAGATG
** ** * * **
15146 AAAGATGAAAGAAGTCTCCCAGGTCAAAGCCGACAGCCAGAAA
1 AAAGATG-AAGAAGTCTCCTGGGTCTGAGCCAACAGGCAGATG
* * * * *
15189 AAAGATGAAG-AGTTTTCTTGGGTTTGAGCTAACAGGCAAATG
1 AAAGATGAAGAAG-TCTCCTGGGTCTGAGCCAACAGGCAGATG
* * * ** ** *
15231 AAAGATGAAAAAGTCTCCCGGGTCTAAGCTGATGGGCAGA-C
1 AAAGATGAAGAAGTCTCCTGGGTCTGAGCCAACAGGCAGATG
* * * * *
15272 AATGGATGAAAAAGTCTCTTGGGTCTGAGTCAACTGGCAGATG
1 AA-AGATGAAGAAGTCTCCTGGGTCTGAGCCAACAGGCAGATG
* * * * * * * * *
15315 AAAAATGAAAAAGT-TTCTCGAGTCTAAGTCGACTGGCAAATG
1 AAAGATGAAGAAGTCTCCT-GGGTCTGAGCCAACAGGCAGATG
* *
15357 AAAGATGAAGAAGTCTCCCGGGTCTGAGCCAACGGGCAGATG
1 AAAGATGAAGAAGTCTCCTGGGTCTGAGCCAACAGGCAGATG
* * ***
15399 AAAGATGAAGAAGTTTCCTGGGTTTGAGTTGACAGGCAGATG
1 AAAGATGAAGAAGTCTCCTGGGTCTGAGCCAACAGGCAGATG
*** *
15441 GTGGATGAAGAAGTCTCATGGGTCT
1 AAAGATGAAGAAGTCTCCTGGGTCT
15466 ACGACGAGAG
Statistics
Matches: 238, Mismatches: 74, Indels: 16
0.73 0.23 0.05
Matches are distributed among these distances:
41 6 0.03
42 194 0.82
43 37 0.16
44 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.30, T:0.21
Consensus pattern (42 bp):
AAAGATGAAGAAGTCTCCTGGGTCTGAGCCAACAGGCAGATG
Found at i:15464 original size:84 final size:84
Alignment explanation
Indices: 15273--15465 Score: 217
Period size: 84 Copynumber: 2.3 Consensus size: 84
15263 TGGGCAGACA
* * * *
15273 ATGGATGAAAAAGTCTCTTGGGTCTGAGTCAACTGGCAGATGAAAAATGAAAAAGTTTCTCGAGT
1 ATGGATGAAGAAGTCTCATGGGTCTGAGCCAACGGGCAGATGAAAAATGAAAAAGTTTCTCGAGT
*
15338 CTAAGTCGACTGGCAAATG
66 CTAAGTCGACAGGCAAATG
** ** * * *
15357 AAAGATGAAGAAGTCTCCCGGGTCTGAGCCAACGGGCAGATGAAAGATGAAGAAGTTTC-CTGGG
1 ATGGATGAAGAAGTCTCATGGGTCTGAGCCAACGGGCAGATGAAAAATGAAAAAGTTTCTC-GAG
* * * *
15421 TTTGAGTTGACAGGCAGATG
65 TCTAAGTCGACAGGCAAATG
*
15441 GTGGATGAAGAAGTCTCATGGGTCT
1 ATGGATGAAGAAGTCTCATGGGTCT
15466 ACGACGAGAG
Statistics
Matches: 88, Mismatches: 20, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
83 1 0.01
84 87 0.99
ACGTcount: A:0.32, C:0.15, G:0.31, T:0.23
Consensus pattern (84 bp):
ATGGATGAAGAAGTCTCATGGGTCTGAGCCAACGGGCAGATGAAAAATGAAAAAGTTTCTCGAGT
CTAAGTCGACAGGCAAATG
Found at i:15656 original size:43 final size:43
Alignment explanation
Indices: 15609--15693 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
15599 ACGAGTAGAC
*
15609 GGTTGATAAAGGAAGTCTCCTAG-GTCTAAACCGACGGGCAGAT
1 GGTTGATAAAGGAAGTATCC-AGAGTCTAAACCGACGGGCAGAT
* *
15652 GGTTGATAAAGGAAGTATCCCGAGTCTAAACTGACGGGCAGA
1 GGTTGATAAAGGAAGTATCCAGAGTCTAAACCGACGGGCAGA
15694 CAGTGGATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 1 0.03
43 37 0.97
ACGTcount: A:0.32, C:0.18, G:0.31, T:0.20
Consensus pattern (43 bp):
GGTTGATAAAGGAAGTATCCAGAGTCTAAACCGACGGGCAGAT
Found at i:15703 original size:43 final size:43
Alignment explanation
Indices: 15613--15704 Score: 114
Period size: 43 Copynumber: 2.1 Consensus size: 43
15603 GTAGACGGTT
* * ** *
15613 GATAAAGGAAGTCTCCTAGGTCTAAACCGACGGGCAGATGGTT
1 GATAAAGGAAGTATCCGAGGTCTAAACCGACGGGCAGACAGTG
*
15656 GATAAAGGAAGTATCCCGA-GTCTAAACTGACGGGCAGACAGTG
1 GATAAAGGAAGTAT-CCGAGGTCTAAACCGACGGGCAGACAGTG
15699 GATAAA
1 GATAAA
15705 AAAGTCTCCA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
43 39 0.93
44 3 0.07
ACGTcount: A:0.35, C:0.17, G:0.29, T:0.18
Consensus pattern (43 bp):
GATAAAGGAAGTATCCGAGGTCTAAACCGACGGGCAGACAGTG
Found at i:15808 original size:43 final size:42
Alignment explanation
Indices: 15744--15892 Score: 149
Period size: 42 Copynumber: 3.5 Consensus size: 42
15734 AATTTAATGG
** *
15744 TGAAGAAGTCT-CTAGGATCAAAACTAACAAGCAGACGAAAGA
1 TGAAGAAGTCTCCTAGG-TCAAAACCGACAAGCAGACAAAAGA
* * * *
15786 TGAAGGAAGTCTCCCAGGTCAAATCCGACAGGCAGACAAAAAA
1 TGAA-GAAGTCTCCTAGGTCAAAACCGACAAGCAGACAAAAGA
* * * * *
15829 TGAAGAAGACTCATAGGTCAAAGCCGACGAGCAAACAAAAGA
1 TGAAGAAGTCTCCTAGGTCAAAACCGACAAGCAGACAAAAGA
15871 TGAAGAAGTCTCCT-GAGTCAAA
1 TGAAGAAGTCTCCTAG-GTCAAA
15893 GTCGATGGGC
Statistics
Matches: 87, Mismatches: 17, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
41 1 0.01
42 52 0.60
43 30 0.34
44 4 0.05
ACGTcount: A:0.44, C:0.19, G:0.23, T:0.13
Consensus pattern (42 bp):
TGAAGAAGTCTCCTAGGTCAAAACCGACAAGCAGACAAAAGA
Found at i:16049 original size:43 final size:42
Alignment explanation
Indices: 15915--16052 Score: 143
Period size: 43 Copynumber: 3.2 Consensus size: 42
15905 GTGAAAGATG
* * ** * *
15915 AAGAAGTCTCTC-GATCTAAGCCGAGGAGTAGACGGTTGATA
1 AAGAAGTCTCCCGGGTCTAAGCCGACAAGCAGATGGTTGATA
* * * *
15956 AAGAAATCCTCCCGGGTCTAAGCTGACAGGTAGATGGTTGATAA
1 AAGAAGT-CTCCCGGGTCTAAGCCGACAAGCAGATGGTTGAT-A
*
16000 AAGAAGTCTCCCGGGTCTGAGCCGACAAGCAGATGGTTGATA
1 AAGAAGTCTCCCGGGTCTAAGCCGACAAGCAGATGGTTGATA
16042 AAGGAAGTCTC
1 AA-GAAGTCTC
16053 TTAGGTCTAA
Statistics
Matches: 80, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
41 6 0.08
42 7 0.09
43 60 0.75
44 7 0.09
ACGTcount: A:0.31, C:0.19, G:0.29, T:0.21
Consensus pattern (42 bp):
AAGAAGTCTCCCGGGTCTAAGCCGACAAGCAGATGGTTGATA
Found at i:16332 original size:676 final size:679
Alignment explanation
Indices: 15394--16773 Score: 1650
Period size: 676 Copynumber: 2.0 Consensus size: 679
15384 GCCAACGGGC
* *
15394 AGATGAAAGATGAAGAAGTTTCCTGGGTTTGAGTTGACAGGCAGATGGTGGATGAAGAAGTCTCA
1 AGATGAAAGATGAAGAAGTTTCCTGGGTTTGAGTTGACAGGCAGA--GTGAAAGAAGAAGTCTCA
* * * ** *
15459 TGGGTCTACGACGAGAGGCAAATGGTTGATAAAGGAAGTCTCCCAAGTTTAAGCTAATGGGTAGA
64 TGGGTCTACGACAACAAGCAAACAGTTGATAAAGGAAGTCTCCCAAGTTTAAGCCAATGGGTAGA
* * ** * *
15524 CAAAAGATGAAGAAGTCTCTTGAGTCAAAATCGATGGGCAGATAAAAGATAAAGAAGTCTCTCGG
129 CAAAAGATGAAGAAGTCTCTCGAGTCAAAACCGACAGGCAGATAAAAGATAAAGAAGTCTCCCAG
* * * * * *
15589 GTCCTAGCTGACGAGTAGACGGTTGATAAAGGAAGTCTCCTAGGTCTAAACCGACGGGCAGATGG
194 GTCCTAGCCGACGAGCAAACAGTTGATAAAAGAAATCTCCTAGGTCTAAACCGACGGGCAGATGG
* * *
15654 TTGATAAAGGAAGTATCC-CGAGTCTAAACTGACGGGCAGACAGTGGATAAAAAAGTCTCCAAGG
259 TTGATAAAGAAAGTATCCTCG-GTCTAAACTGACGGGCAAAAAGTGGATAAAAAAGTCTCCAAGG
* * * *
15718 TTAAAGCCAATAGACAAATTTAATGGTGAAGAAGTCTCTAGGATCAAAACTAACAAGCAGACGAA
323 TTAAAGCCAACAGACAAACTTAAGGGTGAAGAAGTCGCTAGGATCAAAACTAACAAGCAGACGAA
*
15783 AGATGAAGGAAGTCTCCCAGGTC-AAATCCGACAGGCAGACAAAAAATGAAGAAGACTCATAGGT
388 AGATGAAGGAAATCTCCCAGGTCTAAAT-CGACAGGCAGACAAAAAATGAAGAAGACTCATAGGT
* * ** * ***
15847 CAAAGCCGAC-GAGCAAACAAAAGATGAAGAAGTCTCCTGAGTCAAAGTCGATGGGCAGGTGAAA
452 CAAAGCCGACGGA-CAAACAAAAGATGAAGAAGTCTCCTGAGTCAAAGCCAACAGCCAGAAAAAA
* * * * *
15911 GATGAAGAAGTCTCTC-GATCTAAGCCGAGGAGTAGACGGTTGATAAAGAAA-TCCTCCCGGGTC
516 GATGAAGAAGTCTCCCAGATCTAAGCCAACGAGGAGACGGTTGATAAAGAAAGT-CTCCCAGGTC
* ** *
15974 TAAG-CTGACAGGTAGATGGTTGATAAAAG-AAGTCTCCCGGGTCTGAGCCGACAAGCAGATGGT
580 TAAGTC-GACAGGCAGACAGTTGATAAAAGAAAGTCTCCCGGGTCTGAGCCGACAAGCAGATGAT
*
16037 TGATAAAGGAAGTCTCTTAG-GTCTAAATCGATAGGA
644 TGATAAAGAAAGTCTC-TAGAGTCTAAATCGATAGGA
* * *
16073 AGATGAAAGATGAAGAAGTCTTCC-GGGTTTGAGTTGAC-GGACAGA-TGAAAGATGAAGTTTCT
1 AGATGAAAGATGAAGAAGT-TTCCTGGGTTTGAGTTGACAGG-CAGAGTGAAAGAAGAAGTCTCA
* *
16135 TGGGTCTAGGACAACAAGCAAACAGTTGATAAAGGAAGTCTCCGAAGTTTAAGCCAATGGGTAGA
64 TGGGTCTACGACAACAAGCAAACAGTTGATAAAGGAAGTCTCCCAAGTTTAAGCCAATGGGTAGA
* * * * * *
16200 TAAAAGATGAAGAAGTGT-TCCGGGTTAAAGCCGACAGGCAGATAAAAGATAAATAAGTCTCCCA
129 CAAAAGATGAAGAAGTCTCT-CGAGTCAAAACCGACAGGCAGATAAAAGATAAAGAAGTCTCCCA
* * * * *
16264 GGTCCTAGCCGACGAGCAAACAGTTGATAAAAGAAATCTTCTAGGTCTAAGCCGATGGGTATATG
193 GGTCCTAGCCGACGAGCAAACAGTTGATAAAAGAAATCTCCTAGGTCTAAACCGACGGGCAGATG
* * * * *
16329 GTTGATAAAGAAAGTATCCTTGGTCTAAACTGATGGGCAAAAAGTGGATGAAGAAGTCTCCAGGG
258 GTTGATAAAGAAAGTATCCTCGGTCTAAACTGACGGGCAAAAAGTGGATAAAAAAGTCTCCAAGG
** * * * * *
16394 TTAAAGCTGACAGACAAACTTAAGGGTGAAGAAGTCGCTAGGGTTAAAGCTGATAAGCAGACGAA
323 TTAAAGCCAACAGACAAACTTAAGGGTGAAGAAGTCGCTAGGATCAAAACTAACAAGCAGACGAA
* * * ** * * *
16459 AGATGAAGGAAATCTCTCGGGTCTAAGTCGATGGGTAGACAAAAAATGAAGAAGCCTCCTAGGTC
388 AGATGAAGGAAATCTCCCAGGTCTAAATCGACAGGCAGACAAAAAATGAAGAAGACTCATAGGTC
* * * *
16524 AAAGCCGATGGACAGACAAAAGATGAAGAAGTCTCTTGAGTCAAAGCCAACAGCCATAAAAAAGA
453 AAAGCCGACGGACAAACAAAAGATGAAGAAGTCTCCTGAGTCAAAGCCAACAGCCAGAAAAAAGA
* *
16589 TGAAGAAGTCTCCCAGGTCTAAGCCAACGAGGAGACGGTTGATAAAGAAAGTCTCCTAGGTCTAA
518 TGAAGAAGTCTCCCAGATCTAAGCCAACGAGGAGACGGTTGATAAAGAAAGTCTCCCAGGTCTAA
** * * * * ***
16654 GTCGATGGGCAGGCAGTTGATAAAAGAAAGTGTCTCGGGTCTGAGCTGATGGGCAGATGATTGAT
583 GTCGACAGGCAGACAGTTGATAAAAGAAAGTCTCCCGGGTCTGAGCCGACAAGCAGATGATTGAT
* * *
16719 AAAGAAAGTCTCTCGAGTCTAAATCGATGGGT
648 AAAGAAAGTCTCTAGAGTCTAAATCGATAGGA
***
16751 AGATGGTGGATGAAGAAGTTTCC
1 AGATGAAAGATGAAGAAGTTTCC
16774 AAGGTCAAAA
Statistics
Matches: 587, Mismatches: 103, Indels: 24
0.82 0.14 0.03
Matches are distributed among these distances:
675 1 0.00
676 397 0.68
677 72 0.12
678 76 0.13
679 37 0.06
680 4 0.01
ACGTcount: A:0.36, C:0.16, G:0.28, T:0.20
Consensus pattern (679 bp):
AGATGAAAGATGAAGAAGTTTCCTGGGTTTGAGTTGACAGGCAGAGTGAAAGAAGAAGTCTCATG
GGTCTACGACAACAAGCAAACAGTTGATAAAGGAAGTCTCCCAAGTTTAAGCCAATGGGTAGACA
AAAGATGAAGAAGTCTCTCGAGTCAAAACCGACAGGCAGATAAAAGATAAAGAAGTCTCCCAGGT
CCTAGCCGACGAGCAAACAGTTGATAAAAGAAATCTCCTAGGTCTAAACCGACGGGCAGATGGTT
GATAAAGAAAGTATCCTCGGTCTAAACTGACGGGCAAAAAGTGGATAAAAAAGTCTCCAAGGTTA
AAGCCAACAGACAAACTTAAGGGTGAAGAAGTCGCTAGGATCAAAACTAACAAGCAGACGAAAGA
TGAAGGAAATCTCCCAGGTCTAAATCGACAGGCAGACAAAAAATGAAGAAGACTCATAGGTCAAA
GCCGACGGACAAACAAAAGATGAAGAAGTCTCCTGAGTCAAAGCCAACAGCCAGAAAAAAGATGA
AGAAGTCTCCCAGATCTAAGCCAACGAGGAGACGGTTGATAAAGAAAGTCTCCCAGGTCTAAGTC
GACAGGCAGACAGTTGATAAAAGAAAGTCTCCCGGGTCTGAGCCGACAAGCAGATGATTGATAAA
GAAAGTCTCTAGAGTCTAAATCGATAGGA
Found at i:16695 original size:44 final size:42
Alignment explanation
Indices: 16626--16755 Score: 131
Period size: 43 Copynumber: 3.0 Consensus size: 42
16616 CGAGGAGACG
*
16626 GTTGATAAAGAAAGTCTC-CTAGGTCTAAGTCGATGGGCAGGCA-
1 GTTGATAAAGAAAGTCTCTC-GGGTCTAAGTCGATGGGCA-G-AT
* *
16669 GTTGATAAAAGAAAGTGTCTCGGGTCTGAG-CTGATGGGCAGAT
1 GTTGAT-AAAGAAAGTCTCTCGGGTCTAAGTC-GATGGGCAGAT
* * *
16712 GATTGATAAAGAAAGTCTCTCGAGTCTAAATCGATGGGTAGAT
1 G-TTGATAAAGAAAGTCTCTCGGGTCTAAGTCGATGGGCAGAT
16755 G
1 G
16756 GTGGATGAAG
Statistics
Matches: 73, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
42 1 0.01
43 39 0.53
44 32 0.44
45 1 0.01
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.25
Consensus pattern (42 bp):
GTTGATAAAGAAAGTCTCTCGGGTCTAAGTCGATGGGCAGAT
Found at i:16873 original size:43 final size:42
Alignment explanation
Indices: 16826--16907 Score: 101
Period size: 43 Copynumber: 1.9 Consensus size: 42
16816 TAAAGTCAAA
* * *
16826 GCCGACAAGCAGATAAAAGATGAAGGAAGTCTCCTAGGTCTAG
1 GCCGACAAGCAGACAAAAAATGAA-GAAGCCTCCTAGGTCTAG
** *
16869 GCCGACGGGCAGGCAAAAAATGAAGAAGCCTCCTAGGTC
1 GCCGACAAGCAGACAAAAAATGAAGAAGCCTCCTAGGTC
16908 AAAGTCGATG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
42 14 0.42
43 19 0.58
ACGTcount: A:0.35, C:0.22, G:0.29, T:0.13
Consensus pattern (42 bp):
GCCGACAAGCAGACAAAAAATGAAGAAGCCTCCTAGGTCTAG
Found at i:16888 original size:384 final size:383
Alignment explanation
Indices: 16273--17135 Score: 997
Period size: 384 Copynumber: 2.3 Consensus size: 383
16263 AGGTCCTAGC
* * * * *
16273 CGACGAGCAAACAGTTGATAAAAGAAA-TCT-TCTAGGTCTAAGCCGATGGGTATATGGTTGATA
1 CGACGGGCAGACAGTTGATAAAAGAAAGTCTCTC-GGGTCTAAGCCGATGGGTAGATGATTGATA
* * * * * *
16336 AAGAAAGTATCCTTG-GTCTAAA-CTGATGGGCAAAAAGTGGATGAAGAAGTCTCCAGGGTTAAA
65 AAGAAAGTCT-CTCGAGTCTAAATC-GATGGGTAGAAAGTGGATGAAGAAGTCTCCAAGGTCAAA
* ** * * * *
16399 GCTGACAGACAAACTTAAGGGTGAAGAAGTCGCTAGGGTTAAAGCTGATAAGCAGACGAAAGATG
128 ACTGACAGACAAACTTAAGGGTGAAGAAGTCGCTAAAGTCAAAGCCGACAAGCAGACAAAAGATG
* * * *
16464 AAGGAAATCTCTCGGGTCTAAGTCGATGGGTAGACAAAAAATGAAGAAGCCTCCTAGGTCAAAGC
193 AAGGAAATCTCTCAGGTCTAAGCCGACGGGCAGACAAAAAATGAAGAAGCCTCCTAGGTCAAAGC
* * * *
16529 CGATGGACAGACAAAAGATGAAGAAGTCTCTTGAGTCAAAGCCAAC-AGCCATAAAAAAGATGAA
258 CGATGGACAGACAAAAGATAAAGAAGTCTCTCGAGTCAAAGCCAACAAG-CAGAAAAAAGATAAA
** *
16593 GAAGTCTCCCAGGTCTAAGCCAACGAGGAGACGGTTGATAAAGAAAGTCTCCTAGGTCTAAGT
322 GAAGTCTCCC-GGTCTAAGCCAACGAGGAGACAATTGATAAAGAAAGTCTCCTAGGTCTAAAT
* * * * * *
16656 CGATGGGCAGGCAGTTGATAAAAGAAAGTGTCTCGGGTCTGAGCTGATGGGCAGATGATTGATAA
1 CGACGGGCAGACAGTTGATAAAAGAAAGTCTCTCGGGTCTAAGCCGATGGGTAGATGATTGATAA
** *
16721 AGAAAGTCTCTCGAGTCTAAATCGATGGGTAGATGGTGGATGAAGAAGTTTCCAAGGTCAAAACT
66 AGAAAGTCTCTCGAGTCTAAATCGATGGGTAGAAAGTGGATGAAGAAGTCTCCAAGGTCAAAACT
** * * *
16786 GATGGACAGACTTAAGGGTGAAGAAGTCTCTAAAGTCAAAGCCGACAAGCAGATAAAAGATGAAG
131 GACAGACAAACTTAAGGGTGAAGAAGTCGCTAAAGTCAAAGCCGACAAGCAGACAAAAGATGAAG
* * * *
16851 GAAGTCTC-CTAGGTCTAGGCCGACGGGCAGGCAAAAAATGAAGAAGCCTCCTAGGTCAAAGTCG
196 GAAATCTCTC-AGGTCTAAGCCGACGGGCAGACAAAAAATGAAGAAGCCTCCTAGGTCAAAGCCG
* * * * * * **
16915 ATGGGCAGACAAAAGATAAAGAAGTTTCTCGGGTTAAAGTCAACAAGTAGATGAAAGATAAAGAA
260 ATGGACAGACAAAAGATAAAGAAGTCTCTCGAGTCAAAGCCAACAAGCAGAAAAAAGATAAAGAA
* * * * * *
16980 GTCTCTCGGTCTAAGCCGAGGAGTAGATAATTGATAAAGGAAGTCTCCTAGGTCTAAAT
325 GTCTCCCGGTCTAAGCCAACGAGGAGACAATTGATAAAGAAAGTCTCCTAGGTCTAAAT
*
17039 CGACGGGCAGACAGTTGAT-AAAGAAAGTCTCTCGGGTCTAAGCCGATGGGTAGA-CAGTTGATA
1 CGACGGGCAGACAGTTGATAAAAGAAAGTCTCTCGGGTCTAAGCCGATGGGTAGATGA-TTGATA
* * * *
17102 AA-AGAAGTCTCCCAAGTCTAAGTCAATGGGTAGA
65 AAGA-AAGTCTCTCGAGTCTAAATCGATGGGTAGA
17136 CAAAAGATGA
Statistics
Matches: 400, Mismatches: 72, Indels: 17
0.82 0.15 0.03
Matches are distributed among these distances:
381 2 0.00
382 65 0.16
383 88 0.22
384 240 0.60
385 5 0.01
ACGTcount: A:0.37, C:0.16, G:0.28, T:0.20
Consensus pattern (383 bp):
CGACGGGCAGACAGTTGATAAAAGAAAGTCTCTCGGGTCTAAGCCGATGGGTAGATGATTGATAA
AGAAAGTCTCTCGAGTCTAAATCGATGGGTAGAAAGTGGATGAAGAAGTCTCCAAGGTCAAAACT
GACAGACAAACTTAAGGGTGAAGAAGTCGCTAAAGTCAAAGCCGACAAGCAGACAAAAGATGAAG
GAAATCTCTCAGGTCTAAGCCGACGGGCAGACAAAAAATGAAGAAGCCTCCTAGGTCAAAGCCGA
TGGACAGACAAAAGATAAAGAAGTCTCTCGAGTCAAAGCCAACAAGCAGAAAAAAGATAAAGAAG
TCTCCCGGTCTAAGCCAACGAGGAGACAATTGATAAAGAAAGTCTCCTAGGTCTAAAT
Found at i:16921 original size:42 final size:42
Alignment explanation
Indices: 16820--16938 Score: 130
Period size: 42 Copynumber: 2.8 Consensus size: 42
16810 AGTCTCTAAA
** * *
16820 GTCAAAGCCGACAAGCAGATAAAAGATGAAGGAAGTCTCCTAG
1 GTCAAAGCCGACGGGCAGACAAAAGATGAA-GAAGCCTCCTAG
* * * *
16863 GTCTAGGCCGACGGGCAGGCAAAAAATGAAGAAGCCTCCTAG
1 GTCAAAGCCGACGGGCAGACAAAAGATGAAGAAGCCTCCTAG
* * *
16905 GTCAAAGTCGATGGGCAGACAAAAGATAAAGAAG
1 GTCAAAGCCGACGGGCAGACAAAAGATGAAGAAG
16939 TTTCTCGGGT
Statistics
Matches: 61, Mismatches: 15, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
42 38 0.62
43 23 0.38
ACGTcount: A:0.40, C:0.18, G:0.29, T:0.13
Consensus pattern (42 bp):
GTCAAAGCCGACGGGCAGACAAAAGATGAAGAAGCCTCCTAG
Found at i:17123 original size:43 final size:43
Alignment explanation
Indices: 16974--17137 Score: 163
Period size: 43 Copynumber: 3.8 Consensus size: 43
16964 GATGAAAGAT
* * *
16974 AAAGAAGTCTCTC-GGTCTAAGCCGA-GGAGTAGATAATTGATA
1 AAAGAAGTCTCCCAGGTCTAAGCCGATGG-GTAGACAGTTGATA
* * ** * *
17016 AAGGAAGTCTCCTAGGTCTAAATCGACGGGCAGACAGTTGAT-
1 AAAGAAGTCTCCCAGGTCTAAGCCGATGGGTAGACAGTTGATA
* *
17058 AAAGAAAGTCTCTCGGGTCTAAGCCGATGGGTAGACAGTTGATA
1 AAAG-AAGTCTCCCAGGTCTAAGCCGATGGGTAGACAGTTGATA
* * *
17102 AAAGAAGTCTCCCAAGTCTAAGTCAATGGGTAGACA
1 AAAGAAGTCTCCCAGGTCTAAGCCGATGGGTAGACA
17138 AAAGATGAAG
Statistics
Matches: 97, Mismatches: 21, Indels: 7
0.78 0.17 0.06
Matches are distributed among these distances:
42 13 0.13
43 78 0.80
44 6 0.06
ACGTcount: A:0.34, C:0.17, G:0.27, T:0.22
Consensus pattern (43 bp):
AAAGAAGTCTCCCAGGTCTAAGCCGATGGGTAGACAGTTGATA
Found at i:17149 original size:86 final size:86
Alignment explanation
Indices: 16968--17158 Score: 221
Period size: 86 Copynumber: 2.3 Consensus size: 86
16958 CAAGTAGATG
* * * *
16968 AAAGATAAAG-AAGTCTCTC-GGTCTAAGCCGAGGAGTAGATAATTGATAAAGGAAGTCTCCTAG
1 AAAGATAAAGAAAGTCTCTCGGGTCTAAGCCGAGGAGTAGACAATTGATAAAAGAAGTCTCCCAA
*
17031 GTCTAAATCGACGGGCAGACA
66 GTCTAAATCAACGGGCAGACA
*** *
17052 GTTGATAAAGAAAGTCTCTCGGGTCTAAGCCGATGG-GTAGACAGTTGATAAAAGAAGTCTCCCA
1 AAAGATAAAGAAAGTCTCTCGGGTCTAAGCCGA-GGAGTAGACAATTGATAAAAGAAGTCTCCCA
* * *
17116 AGTCTAAGTCAATGGGTAGACA
65 AGTCTAAATCAACGGGCAGACA
*
17138 AAAGATGAAGAAA-TCTC-CGGG
1 AAAGATAAAGAAAGTCTCTCGGG
17159 GTTAAAACCG
Statistics
Matches: 88, Mismatches: 16, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
84 11 0.12
85 13 0.15
86 62 0.70
87 2 0.02
ACGTcount: A:0.36, C:0.16, G:0.27, T:0.21
Consensus pattern (86 bp):
AAAGATAAAGAAAGTCTCTCGGGTCTAAGCCGAGGAGTAGACAATTGATAAAAGAAGTCTCCCAA
GTCTAAATCAACGGGCAGACA
Found at i:17842 original size:90 final size:91
Alignment explanation
Indices: 17643--17855 Score: 269
Period size: 92 Copynumber: 2.4 Consensus size: 91
17633 TGGTCATGTA
* * *
17643 ATGCATCAGTACCATTTAGTGG-TGAAGAGAAAGGGATATGATTGGGAATGAGTGGTCGGGATAT
1 ATGCATCAATACCATCTAGTGGTTG-AGAGAAAGGGATATGATTGGGAATGAGTGGTC-GGACAT
*
17707 CCTTGCCCTAAAGATATCAGGCTTTGTG
64 CCTTGCCCTAAAGAAATCAGGCTTTGTG
* * *
17735 ATGCATCAATACTATCTAGTGGTTG-GATGAAAGGGATATGATTGGGAATGTGTAGGT-TG-CA-
1 ATGCATCAATACCATCTAGTGGTTGAGA-GAAAGGGATATGATTGGGAATGAGT-GGTCGGACAT
17796 CCTTGCCCTAAAGGAAATCAGGCTTTGTG
64 CCTTGCCCTAAA-GAAATCAGGCTTTGTG
17825 ATGCATCAATACCATCTAGTGGTT-A-AGAAAG
1 ATGCATCAATACCATCTAGTGGTTGAGAGAAAG
17856 AAGAAATTAA
Statistics
Matches: 108, Mismatches: 8, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
88 5 0.05
89 13 0.12
90 39 0.36
91 3 0.03
92 43 0.40
93 5 0.05
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.29
Consensus pattern (91 bp):
ATGCATCAATACCATCTAGTGGTTGAGAGAAAGGGATATGATTGGGAATGAGTGGTCGGACATCC
TTGCCCTAAAGAAATCAGGCTTTGTG
Found at i:17869 original size:90 final size:88
Alignment explanation
Indices: 17707--17872 Score: 235
Period size: 90 Copynumber: 1.9 Consensus size: 88
17697 GTCGGGATAT
* * * * *
17707 CCTTGCCCTAAAGATATCAGGCTTTGTGATGCATCAATACTATCTAGTGGTTGGATGAAAGGGAT
1 CCTTGCCCTAAAGAAATCAGGCTTTGTGATGCATCAATACCATCTAGTGGTT-GAAGAAAGAGAA
*
17772 ATGATTGGGAATGTGTAGGTTGCA
65 ATAATTGGGAATGTGTAGGTTGCA
17796 CCTTGCCCTAAAGGAAATCAGGCTTTGTGATGCATCAATACCATCTAGTGGTT-AAGAAAGAAGA
1 CCTTGCCCTAAA-GAAATCAGGCTTTGTGATGCATCAATACCATCTAGTGGTTGAAGAAAG-AGA
17860 AATTAATTGGGAA
64 AA-TAATTGGGAA
17873 ATATGTGCTT
Statistics
Matches: 68, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
88 6 0.09
89 15 0.22
90 47 0.69
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.29
Consensus pattern (88 bp):
CCTTGCCCTAAAGAAATCAGGCTTTGTGATGCATCAATACCATCTAGTGGTTGAAGAAAGAGAAA
TAATTGGGAATGTGTAGGTTGCA
Found at i:18719 original size:33 final size:33
Alignment explanation
Indices: 18682--18748 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
18672 TTCAACGATT
18682 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
18715 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
18748 T
1 T
18749 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:18720 original size:13 final size:13
Alignment explanation
Indices: 18702--18726 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18692 CATAAAATGT
18702 TGTATCGATACAA
1 TGTATCGATACAA
18715 TGTATCGATACA
1 TGTATCGATACA
18727 TATTTTTTTG
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:18809 original size:13 final size:13
Alignment explanation
Indices: 18791--18815 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18781 ATTACTCACA
18791 TGTATCGATACAT
1 TGTATCGATACAT
18804 TGTATCGATACA
1 TGTATCGATACA
18816 CTGATCTTTG
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:18880 original size:52 final size:52
Alignment explanation
Indices: 18824--18952 Score: 206
Period size: 52 Copynumber: 2.5 Consensus size: 52
18814 CACTGATCTT
* *
18824 TGTATCGATACATGCAGGAAAATTTGCCTAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
18876 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATAAAA
18928 TGTATCGATACATGCA-GATAAATTT
1 TGTATCGATACATGCAGGA-AAATTT
18953 TCATATTTCG
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
51 1 0.01
52 70 0.99
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (52 bp):
TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:25914 original size:9 final size:9
Alignment explanation
Indices: 25896--25925 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
25886 AAAGAGAGTC
25896 AAAA-AAAA
1 AAAACAAAA
25904 AAAACAAAA
1 AAAACAAAA
25913 AAAACAAAA
1 AAAACAAAA
25922 AAAA
1 AAAA
25926 GGGTGCAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 4 0.19
9 17 0.81
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAACAAAA
Found at i:26192 original size:15 final size:15
Alignment explanation
Indices: 26172--26213 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
26162 TCCAAACACC
26172 AAAAAAAAGCAAAAA
1 AAAAAAAAGCAAAAA
*
26187 AAAAAAAAG-AAGAA
1 AAAAAAAAGCAAAAA
*
26201 GAAAAAAA-CAAAA
1 AAAAAAAAGCAAAA
26214 TAGAAAATCT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 14 0.61
15 9 0.39
ACGTcount: A:0.86, C:0.05, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAAAAAGCAAAAA
Found at i:26218 original size:15 final size:14
Alignment explanation
Indices: 26173--26220 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
26163 CCAAACACCA
*
26173 AAAAAAAGCAAAAAA
1 AAAAAAA-CAAAAAG
* *
26188 AAAAAAAGAAGAAG
1 AAAAAAACAAAAAG
26202 AAAAAAACAAAATAG
1 AAAAAAACAAAA-AG
26217 AAAA
1 AAAA
26221 TCTCGATAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 14 0.52
15 13 0.48
ACGTcount: A:0.83, C:0.04, G:0.10, T:0.02
Consensus pattern (14 bp):
AAAAAAACAAAAAG
Found at i:26295 original size:1 final size:1
Alignment explanation
Indices: 26262--26286 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
26252 TAATCTTCAC
26262 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
26287 GAAGAAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:27261 original size:31 final size:30
Alignment explanation
Indices: 27223--27430 Score: 236
Period size: 31 Copynumber: 6.7 Consensus size: 30
27213 ATACCTTTTT
*
27223 AAAGTCCACGACTAAGTGGCAATCTCTTCTC
1 AAAGTCCACGACTCAGTGGC-ATCTCTTCTC
*
27254 AAAGTCCACGACTCAGTGGCAATCTCTGCTC
1 AAAGTCCACGACTCAGTGGC-ATCTCTTCTC
* *
27285 AAAGTCCACGACTCAGTGGCATCCTTTTCTTT
1 AAAGTCCACGACTCAGTGGCAT-CTCTTC-TC
* *
27317 AAAGTCCACGACTCAGTGGCATCCTTTTCTTT
1 AAAGTCCACGACTCAGTGGCAT-CTCTTC-TC
* *
27349 AAAGTCCACGACTCAGTGGCATTTCATCTC
1 AAAGTCCACGACTCAGTGGCATCTCTTCTC
* *
27379 AAAGTCCACGACTCAGTGGCATTTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATCTCTTC-TC
* * *
27410 AAAGCCCACAACTCCGTGGCA
1 AAAGTCCACGACTCAGTGGCA
27431 CCTTTTCCTT
Statistics
Matches: 160, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
30 29 0.18
31 76 0.47
32 55 0.34
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (30 bp):
AAAGTCCACGACTCAGTGGCATCTCTTCTC
Found at i:27326 original size:32 final size:32
Alignment explanation
Indices: 27220--27517 Score: 258
Period size: 32 Copynumber: 9.4 Consensus size: 32
27210 CAAATACCTT
* *
27220 TTTAAAGTCCACGACTAAGTGGCAAT-CTCTTC
1 TTTAAAGTCCACGACTCAGTGGC-ATCCTTTTC
* * *
27252 -TCAAAGTCCACGACTCAGTGGCAAT-CTCTGC
1 TTTAAAGTCCACGACTCAGTGGC-ATCCTTTTC
*
27283 -TCAAAGTCCACGACTCAGTGGCATCCTTTTC
1 TTTAAAGTCCACGACTCAGTGGCATCCTTTTC
27314 TTTAAAGTCCACGACTCAGTGGCATCCTTTTC
1 TTTAAAGTCCACGACTCAGTGGCATCCTTTTC
*
27346 TTTAAAGTCCACGACTCAGTGGCAT--TTCATC
1 TTTAAAGTCCACGACTCAGTGGCATCCTT-TTC
* *
27377 -TCAAAGTCCACGACTCAGTGGCAT-TTTTTC
1 TTTAAAGTCCACGACTCAGTGGCATCCTTTTC
* * * *
27407 TTCAAAGCCCACAACTCCGTGGCA-CCTTTTCC
1 TTTAAAGTCCACGACTCAGTGGCATCCTTTT-C
* * *
27439 TTTAAAGCCCACAACTCCGTGGCA-CCTTCTTC
1 TTTAAAGTCCACGACTCAGTGGCATCCTT-TTC
* * *
27471 TTTTCAAAGCCCACAACTCCGTGGCA-CCTTCTTC
1 -TTT-AAAGTCCACGACTCAGTGGCATCCTT-TTC
*
27505 TTTTAAAGCCCAC
1 -TTTAAAGTCCAC
27518 AACTTTGTGG
Statistics
Matches: 242, Mismatches: 14, Indels: 19
0.88 0.05 0.07
Matches are distributed among these distances:
30 29 0.12
31 82 0.34
32 84 0.35
33 14 0.06
34 33 0.14
ACGTcount: A:0.24, C:0.32, G:0.15, T:0.30
Consensus pattern (32 bp):
TTTAAAGTCCACGACTCAGTGGCATCCTTTTC
Found at i:27443 original size:125 final size:126
Alignment explanation
Indices: 27219--27777 Score: 437
Period size: 125 Copynumber: 4.2 Consensus size: 126
27209 TCAAATACCT
* * * * *
27219 TTTTAAAGTCCACGACTAAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCAATCTCTGC-
1 TTTTAAAGTCCACGACTCAGTGGC-ATTTCTTCTCAAAGTCCACGACTCAGTGGC-ATTTTTTCT
* * * * * *
27283 TCAAAGTCCACGACTCAGTGGCATCCTTTT-CTTTAAAGTCCACGACTCAGTGGCATCCTTTTC
64 TCAAAGCCCACAACTCCGTGGCA-CCTTTTCCTTTAAAGCCCACAACTCCGTGGCATCCTTTTC
*
27346 -TTTAAAGTCCACGACTCAGTGGCATTTCATCTCAAAGTCCACGACTCAGTGGCATTTTTTCTTC
1 TTTTAAAGTCCACGACTCAGTGGCATTTCTTCTCAAAGTCCACGACTCAGTGGCATTTTTTCTTC
27410 AAAGCCCACAACTCCGTGGCACCTTTTCCTTTAAAGCCCACAACTCCGTGGCA-CCTTCTTC
66 AAAGCCCACAACTCCGTGGCACCTTTTCCTTTAAAGCCCACAACTCCGTGGCATCCTT-TTC
* * * * * * * **
27471 TTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTTTGTGGCACTCTTT
1 TTTT-AAAGTCCACGACTCAGTGGCA-TTTCTTC--TCAAAGTCCACGACTCAGTGGCA---TTT
27536 TTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAACTCCGTGGCA
59 TTT-C--TTCAAAGCCCACAACTCCGTGGCACC-TTTTCC-TTTAAAGCCCACAACTCCGTGGCA
*
27601 CTCTTTTTCCC
119 -TCCTTTT--C
* * * * * * * *
27612 TTTTCAAAGCCCACAATTCCGTGGCACCTTT-TTCTGTTTAAAGCCCACAACTCCGTGGCACTCT
1 TTTT-AAAGTCCACGACTCAGTGGCA--TTTCTTC---TCAAAGTCCACGACTCAGTGGCA-T-T
* *
27676 TTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGC
58 TTTT--C--TTCAAAGCCCACAACTCCGTGGCAC-CTTTTCCTTTAAAGCCCACAACTCCGTGGC
*
27741 ACTCTTTTTCCC
118 A-TCCTTTT--C
** *
27753 TTTT-AAGTCCATAACTCCGTGGCAT
1 TTTTAAAGTCCACGACTCAGTGGCAT
27778 CTTTCTCCTT
Statistics
Matches: 374, Mismatches: 33, Indels: 40
0.84 0.07 0.09
Matches are distributed among these distances:
124 15 0.04
125 73 0.20
126 25 0.07
127 18 0.05
128 5 0.01
130 18 0.05
133 6 0.02
134 1 0.00
136 26 0.07
137 7 0.02
138 24 0.06
139 19 0.05
140 5 0.01
141 73 0.20
142 59 0.16
ACGTcount: A:0.22, C:0.32, G:0.14, T:0.32
Consensus pattern (126 bp):
TTTTAAAGTCCACGACTCAGTGGCATTTCTTCTCAAAGTCCACGACTCAGTGGCATTTTTTCTTC
AAAGCCCACAACTCCGTGGCACCTTTTCCTTTAAAGCCCACAACTCCGTGGCATCCTTTTC
Found at i:27485 original size:34 final size:33
Alignment explanation
Indices: 27285--27781 Score: 478
Period size: 34 Copynumber: 14.8 Consensus size: 33
27275 ATCTCTGCTC
* * *
27285 AAAGTCCACGACTCAGTGGCATCC-TTTTC-TTT
1 AAAGCCCACAACTCCGTGGCA-CCTTTTTCTTTT
* * *
27317 AAAGTCCACGACTCAGTGGCATCC-TTTTC-TTT
1 AAAGCCCACAACTCCGTGGCA-CCTTTTTCTTTT
* * * * *
27349 AAAGTCCACGACTCAGTGGCA----TTTCATCTC
1 AAAGCCCACAACTCCGTGGCACCTTTTTC-TTTT
* * * * *
27379 AAAGTCCACGACTCAGTGGCA-TTTTTTC-TTC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
*
27410 AAAGCCCACAACTCCGTGGCACC-TTTTCCTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
*
27442 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
*
27475 CAAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
**
27509 AAAGCCCACAACTTTGTGGCACTCTTTTTTCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-C-TTTTT-CTTTT
*
27545 CAAAGCCCACAACTCCGTGGCACCTTTTTCCGTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTT-CTTTT
27580 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTT
*
27616 CAAAGCCCACAATTCCGTGGCACCTTTTTCTGTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCT-TTT
27651 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTT
*
27687 CAAAGCCCACAACTCCGTGGCACTTTTTTCTTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
27721 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTT
* * *
27757 -AAGTCCATAACTCCGTGGCATCTTT
1 AAAGCCCACAACTCCGTGGCACCTTT
27782 CTCCTTTCCC
Statistics
Matches: 417, Mismatches: 24, Indels: 46
0.86 0.05 0.09
Matches are distributed among these distances:
28 4 0.01
30 22 0.05
31 25 0.06
32 78 0.19
33 53 0.13
34 93 0.22
35 47 0.11
36 30 0.07
37 65 0.16
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (33 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
Found at i:27566 original size:70 final size:70
Alignment explanation
Indices: 27407--27781 Score: 582
Period size: 71 Copynumber: 5.4 Consensus size: 70
27397 GCATTTTTTC
* *
27407 TTCAAAGCCCACAACTCCGTGGCACC-TTTTCCTTTAAAGCCCACAACTCCGTGGCAC-CTTCTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
27470 --CTT
66 CCCTT
* **
27473 TTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTTTGTGGCACTCTTTTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
*
27538 TCCTT
66 CCCTT
*
27543 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAACTCCGTGGCACTCTTTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTT-CTTTTAAAGCCCACAACTCCGTGGCACTCTTTT
27608 TCCCTT
65 TCCCTT
*
27614 TTCAAAGCCCACAATTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTAAAGCCCACAACTCCGTGGCACTCTTTT
27679 TCCCTT
65 TCCCTT
*
27685 TTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
27750 CCCTT
66 CCCTT
* * *
27755 TT--AAGTCCATAACTCCGTGGCATCTTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTT
27782 CTCCTTTCCC
Statistics
Matches: 285, Mismatches: 18, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
66 26 0.09
67 27 0.09
68 26 0.09
70 73 0.26
71 133 0.47
ACGTcount: A:0.20, C:0.34, G:0.12, T:0.33
Consensus pattern (70 bp):
TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
CCCTT
Found at i:27814 original size:38 final size:33
Alignment explanation
Indices: 27790--27854 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
27780 TTCTCCTTTC
*
27790 CCAAAGCCCACACAAGTCGGTGGCAACCTTCTT
1 CCAAAGCCCACACAAGTCGGTGGCAACCTCCTT
27823 CCAAAGCCCACACAAGTCGGTGGCAACC-CCTT
1 CCAAAGCCCACACAAGTCGGTGGCAACCTCCTT
27855 TAAGCCCAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 3 0.10
33 28 0.90
ACGTcount: A:0.28, C:0.38, G:0.18, T:0.15
Consensus pattern (33 bp):
CCAAAGCCCACACAAGTCGGTGGCAACCTCCTT
Found at i:27822 original size:104 final size:100
Alignment explanation
Indices: 27410--27801 Score: 450
Period size: 104 Copynumber: 3.8 Consensus size: 100
27400 TTTTTTCTTC
* *
27410 AAAGCCCACAACTCCGTGGCACC-TTTT-CCTTTAAAGCCCACAACTCCGTGGCA-CCTTCTTCT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCCCTTTAAAGCCCACAACTCCGTGGCATCTTTCTCCT
27472 TTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
66 TTTCAAAGCCCACAACTCCGTGGCA-C-TCTTCTTTT
** * * *
27509 AAAGCCCACAACTTTGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT
1 AAAGCCCACAACTCCGTGGCAC-C-TTTTTCCCTTT-AAAGCCCACAACTCCGTGGCATCTTTCT
*
27574 CCGTTT-AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
63 CCTTTTCAAAGCCCACAACTCCGTGGCACTC---TT--CTTTT
* ** *
27616 CAAAGCCCACAATTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCCCTTTAAAGCCCACAACTCCGTGGCA-TCTTTCT-
*
27681 CCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTT
63 CCTTTTCAAAGCCCACAACTCCGTGGCAC--TCTTCTTTT
* * *
27721 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCATAACTCCGTGGCATCTTTCTCC
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCCCTTTAAAGCCCACAACTCCGTGGCATCTTTCTCC
*
27786 TTTCCCAAAGCCCACA
65 TTT-TCAAAGCCCACA
27802 CAAGTCGGTG
Statistics
Matches: 251, Mismatches: 23, Indels: 33
0.82 0.07 0.11
Matches are distributed among these distances:
99 20 0.08
100 1 0.00
102 6 0.02
103 10 0.04
104 80 0.32
105 64 0.25
106 15 0.06
107 13 0.05
108 41 0.16
110 1 0.00
ACGTcount: A:0.21, C:0.35, G:0.12, T:0.32
Consensus pattern (100 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCCCTTTAAAGCCCACAACTCCGTGGCATCTTTCTCCT
TTTCAAAGCCCACAACTCCGTGGCACTCTTCTTTT
Found at i:27829 original size:104 final size:100
Alignment explanation
Indices: 27377--27834 Score: 424
Period size: 104 Copynumber: 4.4 Consensus size: 100
27367 GCATTTCATC
* * * * *
27377 TCAAAGTCCACGACTCAGTGGCATTTTTTCTT-CAAAGCCCACAACTCCGTGGCACC-TTTT-CC
1 TCAAAGCCCACAACTCCGTGGCA-CTCTTCTTCCAAAGCCCACAACTCCGTGGCACCTTTTTCCC
* *
27439 TTTAAAGCCCACAACTCCGTGGCA-CCTTCTTCTTT
65 TTTAAAGCCCACAACTCCGTGGCATCTTTCTCCTTT
** **
27474 TCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTTTGTGGCACTCTTTTTT
1 TCAAAGCCCACAACTCCGTGGCA-C-TCTTCTTCCAAAGCCCACAACTCCGTGGCAC-C-TTTTT
* * * *
27539 CCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCCGTT
62 CCCTTT-AAAGCCCACAACTCCGTGGCATCTTTCTCCTTT
* *
27579 T-AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAATTCCGTGGCACCTTT
1 TCAAAGCCCACAACTCCGTGGCACTC---TT--C-TTCCAAAGCCCACAACTCCGTGGCACCTTT
** *
27643 TTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT
60 TTCCCTTTAAAGCCCACAACTCCGTGGCA-TCTTTCT-CCTTT
* **
27686 TCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
1 TCAAAGCCCACAACTCCGTGGCAC--TCTTCTTCCAAAGCCCACAACTCCGTGGCAC-CTTTTTC
* * *
27751 CCTTTTAAGTCCATAACTCCGTGGCATCTTTCTCCTTT
63 CCTTTAAAGCCCACAACTCCGTGGCATCTTTCTCCTTT
* * *
27789 CCCAAAGCCCACACAAGTCGGTGGCAAC-CTTCTTCCAAAGCCCACA
1 -TCAAAG-CC-CACAACTCCGTGGC-ACTCTTCTTCCAAAGCCCACA
27835 CAAGTCGGTG
Statistics
Matches: 300, Mismatches: 37, Indels: 41
0.79 0.10 0.11
Matches are distributed among these distances:
97 20 0.07
98 6 0.02
99 20 0.07
100 1 0.00
102 6 0.02
103 10 0.03
104 92 0.31
105 62 0.21
106 27 0.09
107 11 0.04
108 44 0.15
110 1 0.00
ACGTcount: A:0.21, C:0.35, G:0.13, T:0.31
Consensus pattern (100 bp):
TCAAAGCCCACAACTCCGTGGCACTCTTCTTCCAAAGCCCACAACTCCGTGGCACCTTTTTCCCT
TTAAAGCCCACAACTCCGTGGCATCTTTCTCCTTT
Found at i:27973 original size:49 final size:49
Alignment explanation
Indices: 27852--28223 Score: 444
Period size: 49 Copynumber: 7.7 Consensus size: 49
27842 GTGGCAACCC
* *
27852 CTTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CAT
* *
27904 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
* * *
27953 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
* *
28002 CTTTAAGTCCAATGTAGCTGGCCTTGATTCAGCACATTGGCA----C--
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
* * *
28045 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
* *
28094 CTTTAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGGCA----C--
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
* *
28137 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC--CTT-CAT
* *
28189 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAC
28224 GTTGACATCC
Statistics
Matches: 278, Mismatches: 27, Indels: 30
0.83 0.08 0.09
Matches are distributed among these distances:
43 77 0.28
45 2 0.01
47 1 0.00
49 123 0.44
50 3 0.01
52 72 0.26
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.32
Consensus pattern (49 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
Found at i:28073 original size:92 final size:92
Alignment explanation
Indices: 27953--28223 Score: 470
Period size: 92 Copynumber: 2.9 Consensus size: 92
27943 GCACCTTCAT
27953 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
*
28018 GCTGGCCTTGATTCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
28045 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
*
28110 GCTAGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* * *
28137 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTCCAAT
28202 GTAGCTGGCCTTGAATCAGCAC
63 GTAGCTGGCCTTGAATCAGCAC
28224 GTTGACATCC
Statistics
Matches: 170, Mismatches: 6, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
92 129 0.76
94 5 0.03
95 36 0.21
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.32
Consensus pattern (92 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCAC
Found at i:28390 original size:52 final size:52
Alignment explanation
Indices: 28307--28472 Score: 183
Period size: 52 Copynumber: 3.2 Consensus size: 52
28297 TTTCTCATCA
*
28307 TCATTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTT
1 TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTT
* * * * *
28359 TCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTT
1 TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTT
* * * * *
28413 CTCATCTTTAAG-CCTAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTA
1 -TCATCTTTAAGTCC-AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTT
28466 TCA-CTTT
1 TCATCTTT
28473 TCTCATCATC
Statistics
Matches: 94, Mismatches: 16, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
51 4 0.04
52 43 0.46
53 5 0.05
54 6 0.06
55 36 0.38
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.39
Consensus pattern (52 bp):
TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTT
Found at i:28434 original size:174 final size:174
Alignment explanation
Indices: 28137--28530 Score: 716
Period size: 174 Copynumber: 2.3 Consensus size: 174
28127 ACATTGGCAC
*
28137 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAAT
*
28202 GTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCC
66 GTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCC
28267 ATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCATCAT
131 ATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCATCAT
* * *
28311 TTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAAT
*
28376 GTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGCCTAATATCGTTGGCC
66 GTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCC
*
28441 GTGAATCAACATATTGGCATCTTTATCACTTTTCTCATCATCAT
131 ATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCATCAT
*
28485 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT
28531 CATCATCTCT
Statistics
Matches: 211, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 211 1.00
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (174 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAAT
GTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCC
ATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCATCAT
Found at i:29367 original size:33 final size:33
Alignment explanation
Indices: 29330--29396 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
29320 TTCAACGATT
29330 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
29363 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
29396 T
1 T
29397 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:29368 original size:13 final size:13
Alignment explanation
Indices: 29350--29374 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29340 CATAAAATGT
29350 TGTATCGATACAA
1 TGTATCGATACAA
29363 TGTATCGATACA
1 TGTATCGATACA
29375 TATTTTTTTG
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:29457 original size:13 final size:13
Alignment explanation
Indices: 29439--29463 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29429 ATTACTCACA
29439 TGTATCGATACAT
1 TGTATCGATACAT
29452 TGTATCGATACA
1 TGTATCGATACA
29464 CTGATCTTTG
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:29600 original size:52 final size:52
Alignment explanation
Indices: 29472--29592 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
29462 CACTGATCTT
* *
29472 TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
29524 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
29576 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
29593 ATAAATTTTC
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:33925 original size:20 final size:20
Alignment explanation
Indices: 33900--33937 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
33890 TTTCATGCTT
*
33900 TTTCTTTTTTTCTTTTTTGA
1 TTTCTTTTTCTCTTTTTTGA
33920 TTTCTTTTTCTCTTTTTT
1 TTTCTTTTTCTCTTTTTT
33938 TTTTTTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.03, C:0.13, G:0.03, T:0.82
Consensus pattern (20 bp):
TTTCTTTTTCTCTTTTTTGA
Found at i:33926 original size:26 final size:27
Alignment explanation
Indices: 33867--33948 Score: 89
Period size: 26 Copynumber: 3.1 Consensus size: 27
33857 ATATTTTTTT
* * *
33867 TTTCATTTTCTCATTTTTTCTCTTTTCA
1 TTTCTTTTTCTC-TTTTTTCTTTTTTAA
* *
33895 -TGCTTTTTCT-TTTTTTCTTTTTTGA
1 TTTCTTTTTCTCTTTTTTCTTTTTTAA
33920 TTTCTTTTTCTCTTTTTT-TTTTTTAA
1 TTTCTTTTTCTCTTTTTTCTTTTTTAA
33946 TTT
1 TTT
33949 TGCTTTTCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
25 13 0.28
26 19 0.41
27 14 0.30
ACGTcount: A:0.07, C:0.15, G:0.02, T:0.76
Consensus pattern (27 bp):
TTTCTTTTTCTCTTTTTTCTTTTTTAA
Found at i:39827 original size:157 final size:154
Alignment explanation
Indices: 39608--40288 Score: 573
Period size: 156 Copynumber: 4.4 Consensus size: 154
39598 GGGGGGGGGG
* * * ** *
39608 GAACCTATCCTAAATACCCACCTTCGGCATGAAAGC-GAACCCAGTGACAACCTAGGATTTGGTT
1 GAACCTATCCTAAATACCCACCTTCGACATAAAAGCAG-ACCCGGTGATGACCTAGGAGTTGGTT
* ** * *
39672 CTAAAAAATTACGAAAATACGTCTATGGGTATACCTCCGATGTAAAAGTATCCCAGTAACCCTAA
65 CT-AAAAATTACAAAAATACCCCTATAGG-ATACCTCCGACGTAAAA-TATCCCAGTAACCCTAA
*
39737 AGGA-TGTAAAAAGACTCATAAAAGGGAT
127 AGGACT-TAAAAAAACTCATAAAAGGGAT
39765 GAACCTATCCTAAATACCCACCTTCGACATAAAAGCAGACCCAGG-GATGACCTAGGAGTTGGTT
1 GAACCTATCCTAAATACCCACCTTCGACATAAAAGCAGACCC-GGTGATGACCTAGGAGTTGGTT
* *
39829 CTAAAAATTACAAAAATACCCCTATAGTTG-TACCTTCC-ACAT-AAA-A----A-TACCCCTAA
65 CTAAAAATTACAAAAATACCCCTATAG--GATACC-TCCGACGTAAAATATCCCAGTAACCCTAA
39885 AGGACTTAAAAAAACTCATAAAAGGGAT
127 AGGACTTAAAAAAACTCATAAAAGGGAT
* * ** * * *
39913 GAACCTATCCTAAATATCCTACGTTTAACATAAAAACAGACCCGGTGATGACTTAAGAGTTGGTT
1 GAACCTATCCTAAATA-CCCACCTTCGACATAAAAGCAGACCCGGTGATGACCTAGGAGTTGGTT
** * * * * * * * * * * *
39978 CTAAAAATTATGAAAATGCCTCTAGAGGAAACTTACGACGTGAAAGTATCCCGGTATCCTTAGAG
65 CTAAAAATTACAAAAATACCCCTATAGGATACCTCCGACGT-AAAATATCCCAGTAACCCTAAAG
40043 GACTTAAAAAAACTCATAAAAGGGAT
129 GACTTAAAAAAACTCATAAAAGGGAT
** * ** * * *
40069 GAACCTATCCTAAATGTCCACTTTCGGTATAAAAGCAGACTCGGTGATGACTTAGGAGTTTGTTC
1 GAACCTATCCTAAATACCCACCTTCGACATAAAAGCAGACCCGGTGATGACCTAGGAGTTGGTTC
* ** * * * * *
40134 TAAAAATTACAAAAATACCCCTAAAGGATACCTTAGATGTGAAAATATCACGGCAACCCTTAATG
66 TAAAAATTACAAAAATACCCCTATAGGATACCTCCGACGT-AAAATATCCCAGTAACCC-TAAAG
* *
40199 GACGTAAAAAGAACT-ATAAAAGGAAT
129 GACTTAAAAA-AACTCATAAAAGGGAT
* * ** * * * *
40225 GAACATATCTTAAATACCTGCCTTC-AGCATAAAAACAAACCCGAT-AGTTACCTAGGAGTTGGT
1 GAACCTATCCTAAATACCCACCTTCGA-CATAAAAGCAGACCCGGTGA-TGACCTAGGAGTTGGT
40288 T
64 T
40289 TCATAACAAA
Statistics
Matches: 420, Mismatches: 82, Indels: 45
0.77 0.15 0.08
Matches are distributed among these distances:
147 3 0.01
148 56 0.13
149 62 0.15
150 2 0.00
151 1 0.00
153 1 0.00
155 86 0.20
156 143 0.34
157 63 0.15
158 3 0.01
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (154 bp):
GAACCTATCCTAAATACCCACCTTCGACATAAAAGCAGACCCGGTGATGACCTAGGAGTTGGTTC
TAAAAATTACAAAAATACCCCTATAGGATACCTCCGACGTAAAATATCCCAGTAACCCTAAAGGA
CTTAAAAAAACTCATAAAAGGGAT
Found at i:39994 original size:149 final size:148
Alignment explanation
Indices: 39731--40161 Score: 476
Period size: 149 Copynumber: 2.9 Consensus size: 148
39721 ATCCCAGTAA
* * *
39731 CCCTAAAGGA-TGTAAAAAGACTCATAAAAGGGATGAACCTATCCTAAATACCCACCTTCGACAT
1 CCCTAAAGGACT-TAAAAAAACTCATAAAAGGGATGAACCTATCCTAAATATCCA-CTTTGACAT
* *
39795 AAAAGCAGACCCAGG-GATGACCTAGGAGTTGGTTCTAAAAATTACAAAAATACCCCTATAGTTG
64 AAAAGCAGACCC-GGTGATGACTTAGGAGTTGGTTCTAAAAATTACAAAAATACCCCTAGAG--G
* *
39859 TACCTT-CCACAT-AAA-AATAC
126 AAACTTACCACATGAAAGAATAC
*
39879 CCCTAAAGGACTTAAAAAAACTCATAAAAGGGATGAACCTATCCTAAATATCCTACGTTTAACAT
1 CCCTAAAGGACTTAAAAAAACTCATAAAAGGGATGAACCTATCCTAAATATCC-AC-TTTGACAT
* * ** * *
39944 AAAAACAGACCCGGTGATGACTTAAGAGTTGGTTCTAAAAATTATGAAAATGCCTCTAGAGGAAA
64 AAAAGCAGACCCGGTGATGACTTAGGAGTTGGTTCTAAAAATTACAAAAATACCCCTAGAGGAAA
* * * *
40009 CTTACGACGTGAAAGTATCC
129 CTTACCACATGAAAGAATAC
* *
40029 CGGTATCCTTAGAGGACTTAAAAAAACTCATAAAAGGGATGAACCTATCCTAAATGTCCACTTTC
1 C-----CC-TAAAGGACTTAAAAAAACTCATAAAAGGGATGAACCTATCCTAAATATCCACTTT-
** * * *
40094 GGTATAAAAGCAGACTCGGTGATGACTTAGGAGTTTGTTCTAAAAATTACAAAAATACCCCTAAA
59 GACATAAAAGCAGACCCGGTGATGACTTAGGAGTTGGTTCTAAAAATTACAAAAATACCCCTAGA
40159 GGA
124 GGA
40162 TACCTTAGAT
Statistics
Matches: 237, Mismatches: 32, Indels: 21
0.82 0.11 0.07
Matches are distributed among these distances:
147 5 0.02
148 56 0.24
149 61 0.26
150 4 0.02
154 3 0.01
155 60 0.25
156 48 0.20
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (148 bp):
CCCTAAAGGACTTAAAAAAACTCATAAAAGGGATGAACCTATCCTAAATATCCACTTTGACATAA
AAGCAGACCCGGTGATGACTTAGGAGTTGGTTCTAAAAATTACAAAAATACCCCTAGAGGAAACT
TACCACATGAAAGAATAC
Found at i:52442 original size:15 final size:15
Alignment explanation
Indices: 52422--52452 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
52412 GTGATGCTCA
52422 TACCACTCTTTTTTT
1 TACCACTCTTTTTTT
52437 TACCACTCTTTTTTT
1 TACCACTCTTTTTTT
52452 T
1 T
52453 TGGTCACGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.26, G:0.00, T:0.61
Consensus pattern (15 bp):
TACCACTCTTTTTTT
Found at i:58194 original size:23 final size:23
Alignment explanation
Indices: 58127--58197 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
58117 CAAAATGACG
* *
58127 AAAAAGTCAAAAGCAAAAGCACA
1 AAAAAGTGAAAAGCAAAAGCAAA
58150 AAAAA-TGAAAAG-AAAAGCAAA
1 AAAAAGTGAAAAGCAAAAGCAAA
*
58171 AAAAAGTGTAAAAGCAAAA-TAAA
1 AAAAAGTG-AAAAGCAAAAGCAAA
58194 AAAA
1 AAAA
58198 GGGAACAACA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
21 13 0.31
22 8 0.19
23 17 0.40
24 4 0.10
ACGTcount: A:0.72, C:0.08, G:0.13, T:0.07
Consensus pattern (23 bp):
AAAAAGTGAAAAGCAAAAGCAAA
Found at i:59555 original size:27 final size:27
Alignment explanation
Indices: 59522--60442 Score: 828
Period size: 28 Copynumber: 33.4 Consensus size: 27
59512 CCATGATTCA
59522 GTGGCATCCTTTTAAGTCCACAACTCC
1 GTGGCATCCTTTTAAGTCCACAACTCC
* * *
59549 ATAGCATCCTTTTAAGCCCACAACTCC
1 GTGGCATCCTTTTAAGTCCACAACTCC
*
59576 GTGGCATCCTTTTAAGTCCACAACTCT
1 GTGGCATCCTTTTAAGTCCACAACTCC
* *
59603 GTGACATCCTTTTTAAGTTCACAACTCC
1 GTGGCATCC-TTTTAAGTCCACAACTCC
* *
59631 ATGACATCCTTTTAAAGTCCACAACTCC
1 GTGGCATCCTTTT-AAGTCCACAACTCC
59659 GTGGCATCCTTTTAAGTCCACAACTCC
1 GTGGCATCCTTTTAAGTCCACAACTCC
*
59686 GTGGCATCCTTTTAAAGTCCACGACTCC
1 GTGGCATCCTTTT-AAGTCCACAACTCC
* * *
59714 ATGGCATCCTTTTTAAG-CCTACAAGTCA
1 GTGGCATCC-TTTTAAGTCC-ACAACTCC
* * * * * *
59742 ATAGCATCCCTTTTTAAGCCCATAAGTCA
1 GTGGCAT-CC-TTTTAAGTCCACAACTCC
* * * *
59771 GTGGCACCCCTTTTTAAGCCCACAAGTCA
1 GTGGCA-TCC-TTTTAAGTCCACAACTCC
* * * **
59800 GTGGCACCCTTTTTAAG-CACATAAGTTA
1 GTGGCATCC-TTTTAAGTC-CACAACTCC
* *
59828 GTGGCACCCCTTTTTAAG-CCTATAACTCC
1 GTGGCA-TCC-TTTTAAGTCC-ACAACTCC
* * * *
59857 GTGGCACCCTTTAAAGTCCATAACTCT
1 GTGGCATCCTTTTAAGTCCACAACTCC
* * *
59884 GTGGCACCCTTTAAAGTCCACAACTCT
1 GTGGCATCCTTTTAAGTCCACAACTCC
*
59911 GTGGCACCCTTTTAAAGTCCACAACTCC
1 GTGGCATCCTTTT-AAGTCCACAACTCC
* * *
59939 GTGGCACCCTTTTAAAGTCTACCACTCC
1 GTGGCATCCTTTT-AAGTCCACAACTCC
* * *
59967 GTGG-AACTCTTTTAGGTCCACAACTTC
1 GTGGCATC-CTTTTAAGTCCACAACTCC
* * *
59994 GTGGCA-CATATTTAAGTCCACAATTCT
1 GTGGCATCCT-TTTAAGTCCACAACTCC
* *
60021 GTGACACCCTTTTAAGTCCACAACTCC
1 GTGGCATCCTTTTAAGTCCACAACTCC
* * * **
60048 GTGGCACCCTTTAAAGTCCACAAGTTT
1 GTGGCATCCTTTTAAGTCCACAACTCC
* * * * *
60075 GTGGCATCATTTCAAAGCCCACAAGTCA
1 GTGGCATCCTTT-TAAGTCCACAACTCC
60103 GTGGCATCCTTTTAAAGTCCACAACTCC
1 GTGGCATCCTTTT-AAGTCCACAACTCC
* * *
60131 ATGGCATCCTTTTAAAGTTCATAACTCC
1 GTGGCATCCTTTT-AAGTCCACAACTCC
60159 GTGGCATCCTTTTAAAGTCCACAACTCC
1 GTGGCATCCTTTT-AAGTCCACAACTCC
*
60187 GTGGCATCCTTTTAAGTCCACAACTCT
1 GTGGCATCCTTTTAAGTCCACAACTCC
* * *
60214 GTAGCATCCTTTTAAGCCCATAACTCC
1 GTGGCATCCTTTTAAGTCCACAACTCC
** *
60241 AAGGCATCCTTTTAAAGTCCATAACTCC
1 GTGGCATCCTTTT-AAGTCCACAACTCC
**
60269 AAGGCATCCTTTTAAAGTCCACAACTCC
1 GTGGCATCCTTTT-AAGTCCACAACTCC
* * *
60297 ATAGCATCCTTTTAAAGTCCACAACTCT
1 GTGGCATCCTTTT-AAGTCCACAACTCC
*
60325 ATGGCATCCTTTTAAAGTCCACAACTCC
1 GTGGCATCCTTTT-AAGTCCACAACTCC
* * * *
60353 AT-GCATCTTTTTAAGTCCAAAACTTC
1 GTGGCATCCTTTTAAGTCCACAACTCC
*
60379 GTGGCATCCTTTTAAGTCTACAACTCC
1 GTGGCATCCTTTTAAGTCCACAACTCC
*
60406 GTGGCATCCTTTTAAATCCACAACTCC
1 GTGGCATCCTTTTAAGTCCACAACTCC
* *
60433 ATGACATCCT
1 GTGGCATCCT
60443 GTTAGGATCC
Statistics
Matches: 774, Mismatches: 99, Indels: 42
0.85 0.11 0.05
Matches are distributed among these distances:
26 14 0.02
27 330 0.43
28 354 0.46
29 74 0.10
30 2 0.00
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.30
Consensus pattern (27 bp):
GTGGCATCCTTTTAAGTCCACAACTCC
Found at i:59669 original size:110 final size:111
Alignment explanation
Indices: 59526--60442 Score: 787
Period size: 110 Copynumber: 8.3 Consensus size: 111
59516 GATTCAGTGG
* * *
59526 CATCCTTTT-AAGTCCACAACTCCATAGCATCCTTTTAAGCCCACAACTCCGTGGCATCCTTTT-
1 CATCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTA
* * * * *
59589 AAGTCCACAACTCTGTGACATCCTTTTTAAG-TTCACAACTCCATGA
66 AAGTCCACAACTCCGTGGCATCCTTTTAAAGCCT-ACAACTCCGTGA
59635 CATCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTA
1 CATCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTA
* * * * **
59700 AAGTCCACGACTCCATGGCATCCTTTTTAAGCCTACAAGTCAAT-A
66 AAGTCCACAACTCCGTGGCATCCTTTTAAAGCCTACAACTCCGTGA
* * * * * * * * * *
59745 GCATCCCTTTTTAAGCCCATAAGTCAGTGGCACCCCTTTTTAAGCCCACAAGTCAGTGGCACCCT
1 -CAT-CCTTTTAAAGTCCACAACTCCGTGGCA-TCC-TTTTAAGTCCACAACTCCGTGGCATCCT
* * * ** * * * *
59810 TTTTAAG-CACATAAGTTAGTGGCACCCCTTTTTAAGCCTATAACTCCGTGG
62 TTTAAAGTC-CACAACTCCGTGGCA-TCCTTTTAAAGCCTACAACTCCGTGA
* * * * * * *
59861 CA-CCCTTTAAAGTCCATAACTCTGTGGCACCCTTTAAAGTCCACAACTCTGTGGCACCCTTTTA
1 CATCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTA
* * *
59925 AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCTACCACTCCGTGGA
66 AAGTCCACAACTCCGTGGCATCCTTTTAAAGCCTACAACTCCGT-GA
* * * * * * *
59972 -A-CTCTTTT-AGGTCCACAACTTCGTGGCA-CATATTTAAGTCCACAATTCTGTGACACCCTTT
1 CATC-CTTTTAAAGTCCACAACTCCGTGGCATCCT-TTTAAGTCCACAACTCCGTGGCATCCTTT
* * ** *
60033 T-AAGTCCACAACTCCGTGGCA-CCCTTTAAAGTCC-ACAAGTTTGTGG
64 TAAAGTCCACAACTCCGTGGCATCCTTTTAAAG-CCTACAACTCCGTGA
* * * * * *
60079 CATCATTTCAAAGCCCACAAGTCAGTGGCATCCTTTTAAAGTCCACAACTCCATGGCATCCTTTT
1 CATCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCATCCTTTT
* * *
60144 AAAGTTCATAACTCCGTGGCATCCTTTTAAAGTCC-ACAACTCCGTGG
65 AAAGTCCACAACTCCGTGGCATCCTTTTAAAG-CCTACAACTCCGTGA
* * * * **
60191 CATCCTTTT-AAGTCCACAACTCTGTAGCATCCTTTTAAGCCCATAACTCCAAGGCATCCTTTTA
1 CATCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTA
* ** *
60255 AAGTCCATAACTCCAAGGCATCCTTTTAAAGTCC-ACAACTCCAT-A
66 AAGTCCACAACTCCGTGGCATCCTTTTAAAG-CCTACAACTCCGTGA
** *
60300 GCATCCTTTTAAAGTCCACAACTCTATGGCATCCTTTTAAAGTCCACAACTCCAT-GCAT-CTTT
1 -CATCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCATCCTTT
* * * * *
60363 TTAAGTCCAAAACTTCGTGGCATCCTTTT-AAGTCTACAACTCCGTGG
64 TAAAGTCCACAACTCCGTGGCATCCTTTTAAAGCCTACAACTCCGTGA
* *
60410 CATCCTTTTAAA-TCCACAACTCCATGACATCCT
1 CATCCTTTTAAAGTCCACAACTCCGTGGCATCCT
60443 GTTAGGATCC
Statistics
Matches: 665, Mismatches: 116, Indels: 55
0.80 0.14 0.07
Matches are distributed among these distances:
107 1 0.00
108 39 0.06
109 75 0.11
110 243 0.37
111 154 0.23
112 68 0.10
113 25 0.04
114 39 0.06
115 21 0.03
ACGTcount: A:0.27, C:0.31, G:0.13, T:0.30
Consensus pattern (111 bp):
CATCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTA
AAGTCCACAACTCCGTGGCATCCTTTTAAAGCCTACAACTCCGTGA
Found at i:59753 original size:29 final size:29
Alignment explanation
Indices: 59721--59951 Score: 188
Period size: 29 Copynumber: 8.2 Consensus size: 29
59711 TCCATGGCAT
* * * *
59721 CCTTTTTAAGCCTACAAGTCAATAGCATC
1 CCTTTTTAAGCCCACAAGTCAGTGGCACC
*
59750 CCTTTTTAAGCCCATAAGTCAGTGGCACC
1 CCTTTTTAAGCCCACAAGTCAGTGGCACC
59779 CCTTTTTAAGCCCACAAGTCAGTGGCA-C
1 CCTTTTTAAGCCCACAAGTCAGTGGCACC
* * *
59807 CCTTTTTAAGCACATAAGTTAGTGGCACC
1 CCTTTTTAAGCCCACAAGTCAGTGGCACC
* * * *
59836 CCTTTTTAAGCCTATAACTCCGTGGCA-C
1 CCTTTTTAAGCCCACAAGTCAGTGGCACC
* * * * *
59864 CC-TTTAAAGTCCATAACTCTGTGGCA-C
1 CCTTTTTAAGCCCACAAGTCAGTGGCACC
* * * *
59891 CC-TTTAAAGTCCACAACTCTGTGGCA-C
1 CCTTTTTAAGCCCACAAGTCAGTGGCACC
* * * *
59918 CCTTTTAAAGTCCACAACTCCGTGGCA-C
1 CCTTTTTAAGCCCACAAGTCAGTGGCACC
59946 CCTTTT
1 CCTTTT
59952 AAAGTCTACC
Statistics
Matches: 180, Mismatches: 20, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
27 49 0.27
28 58 0.32
29 73 0.41
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (29 bp):
CCTTTTTAAGCCCACAAGTCAGTGGCACC
Found at i:59823 original size:57 final size:56
Alignment explanation
Indices: 59558--59951 Score: 234
Period size: 55 Copynumber: 7.1 Consensus size: 56
59548 CATAGCATCC
* * * * * * *
59558 TTTTAAGCCCACAACTCCGTGGCATCC-TTTTAAGTCCACAACTCTGTGACA-TCCT
1 TTTTAAGCCCACAACTCAGTGGCACCCTTTTTAAG-CCATAAGTCAGTGGCACCCCT
** * * * * * * *
59613 TTTTAAGTTCACAACTCCA-TGACATCCTTTTAAAGTCCACAACTCCGTGGCA-TCC-
1 TTTTAAGCCCACAACT-CAGTGGCACCCTTTTTAAG-CCATAAGTCAGTGGCACCCCT
* * * * ** * *
59668 TTTTAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACGACTCCA-TGGCA-TCCT
1 TTTTAAGCCCACAACTCAGTGGCACCCTTTTTAAG-CCATAAGT-CAGTGGCACCCCT
* * * *
59724 TTTTAAGCCTACAAGTCAATAGCATCCCTTTTTAAGCCCATAAGTCAGTGGCACCCCT
1 TTTTAAGCCCACAACTCAGTGGCA-CCCTTTTTAAG-CCATAAGTCAGTGGCACCCCT
* *
59782 TTTTAAGCCCACAAGTCAGTGGCACCCTTTTTAAGCACATAAGTTAGTGGCACCCCT
1 TTTTAAGCCCACAACTCAGTGGCACCCTTTTTAAGC-CATAAGTCAGTGGCACCCCT
* * * * * *
59839 TTTTAAGCCTATAACTCCGTGGCACCC-TTTAAAGTCCATAACTCTGTGGCA-CCC-
1 TTTTAAGCCCACAACTCAGTGGCACCCTTTTTAAG-CCATAAGTCAGTGGCACCCCT
* * * * * * *
59893 TTTAAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCA-CCCT
1 TTTTAAGCCCACAACTCAGTGGCACCCTTTTTAAG-CCATAAGTCAGTGGCACCCCT
59949 TTT
1 TTT
59952 AAAGTCTACC
Statistics
Matches: 283, Mismatches: 44, Indels: 23
0.81 0.13 0.07
Matches are distributed among these distances:
54 23 0.08
55 95 0.34
56 68 0.24
57 73 0.26
58 24 0.08
ACGTcount: A:0.25, C:0.31, G:0.14, T:0.30
Consensus pattern (56 bp):
TTTTAAGCCCACAACTCAGTGGCACCCTTTTTAAGCCATAAGTCAGTGGCACCCCT
Found at i:60770 original size:13 final size:13
Alignment explanation
Indices: 60752--60807 Score: 58
Period size: 13 Copynumber: 3.8 Consensus size: 13
60742 TAATGCACAA
60752 TATCGATACATTG
1 TATCGATACATTG
60765 TATCGATACATGACCACTG
1 TATCGATACAT------TG
60784 TATCGATACATTG
1 TATCGATACATTG
60797 TATCGATACAT
1 TATCGATACAT
60808 GACCACTGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 24 0.65
19 13 0.35
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (13 bp):
TATCGATACATTG
Found at i:60787 original size:19 final size:19
Alignment explanation
Indices: 60763--60824 Score: 82
Period size: 19 Copynumber: 3.6 Consensus size: 19
60753 ATCGATACAT
60763 TGTATCGATACATGACCAC
1 TGTATCGATACATGACCAC
60782 TGTATCGATACAT------
1 TGTATCGATACATGACCAC
60795 TGTATCGATACATGACCAC
1 TGTATCGATACATGACCAC
60814 TGTATCGATAC
1 TGTATCGATAC
60825 TTGCAAAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 13 0.35
19 24 0.65
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.31
Consensus pattern (19 bp):
TGTATCGATACATGACCAC
Found at i:60792 original size:32 final size:32
Alignment explanation
Indices: 60752--60824 Score: 146
Period size: 32 Copynumber: 2.3 Consensus size: 32
60742 TAATGCACAA
60752 TATCGATACATTGTATCGATACATGACCACTG
1 TATCGATACATTGTATCGATACATGACCACTG
60784 TATCGATACATTGTATCGATACATGACCACTG
1 TATCGATACATTGTATCGATACATGACCACTG
60816 TATCGATAC
1 TATCGATAC
60825 TTGCAAAAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.32
Consensus pattern (32 bp):
TATCGATACATTGTATCGATACATGACCACTG
Found at i:61685 original size:27 final size:27
Alignment explanation
Indices: 61653--61858 Score: 96
Period size: 27 Copynumber: 7.5 Consensus size: 27
61643 TTCACATCCT
* *
61653 TTTTAAGCCCACAAATTAGTGGCGCCC
1 TTTTAAGTCCACAAATTAGTGGCACCC
* * *
61680 TTTTAAGTCCACAACTTCGTGGCACCT
1 TTTTAAGTCCACAAATTAGTGGCACCC
* ** *
61707 TTTTAAAGTCCACAACTCCGTAGCA-CC
1 TTTT-AAGTCCACAAATTAGTGGCACCC
* * * *
61734 TTCTTAAGTTCACAACTCCA-TGTCACCC
1 TT-TTAAGTCCACAAAT-TAGTGGCACCC
* * * *
61762 TTTTAAAATCCACCACTCT-GTGGTACCC
1 TTTT-AAGTCCACAAAT-TAGTGGCACCC
* * *
61790 TTTTAAGTCCTCAACTTCGTGGGCA-CC
1 TTTTAAGTCCACAAATTAGT-GGCACCC
* ** *
61817 TATTTAAGTCCACAACTCCGTGGTACCC
1 T-TTTAAGTCCACAAATTAGTGGCACCC
*
61845 TTTAAAGTCCACAA
1 TTTTAAGTCCACAA
61859 GTCTGTGGTA
Statistics
Matches: 143, Mismatches: 26, Indels: 20
0.76 0.14 0.11
Matches are distributed among these distances:
26 1 0.01
27 74 0.52
28 68 0.48
ACGTcount: A:0.26, C:0.31, G:0.13, T:0.30
Consensus pattern (27 bp):
TTTTAAGTCCACAAATTAGTGGCACCC
Found at i:61741 original size:55 final size:55
Alignment explanation
Indices: 61677--61858 Score: 197
Period size: 55 Copynumber: 3.3 Consensus size: 55
61667 ATTAGTGGCG
61677 CCCTTTTAAGTCCACAACTTCGTGGCACCTTTTTAAAGTCCACAACTCCGTAGCA
1 CCCTTTTAAGTCCACAACTTCGTGGCACCTTTTTAAAGTCCACAACTCCGTAGCA
* * * * * * * * * *
61732 -CCTTCTTAAGTTCACAACTCCATGTCACCCTTTTAAAATCCACCACTCTGTGGTA
1 CCCTT-TTAAGTCCACAACTTCGTGGCACCTTTTTAAAGTCCACAACTCCGTAGCA
* * * *
61787 CCCTTTTAAGTCCTCAACTTCGTGGGCACCTATTT-AAGTCCACAACTCCGTGGTA
1 CCCTTTTAAGTCCACAACTTCGT-GGCACCTTTTTAAAGTCCACAACTCCGTAGCA
*
61842 CCCTTTAAAGTCCACAA
1 CCCTTTTAAGTCCACAA
61859 GTCTGTGGTA
Statistics
Matches: 102, Mismatches: 22, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
54 4 0.04
55 86 0.84
56 12 0.12
ACGTcount: A:0.25, C:0.32, G:0.12, T:0.30
Consensus pattern (55 bp):
CCCTTTTAAGTCCACAACTTCGTGGCACCTTTTTAAAGTCCACAACTCCGTAGCA
Found at i:61866 original size:27 final size:27
Alignment explanation
Indices: 61677--61868 Score: 115
Period size: 28 Copynumber: 7.0 Consensus size: 27
61667 ATTAGTGGCG
* *
61677 CCCTTTTAAGTCCACAACT-TCGTGGCA
1 CCCTTTAAAGTCCACAACTCT-GTGGTA
* * * *
61704 CCTTTTTAAAGTCCACAACTCCGTAGCA
1 CC-CTTTAAAGTCCACAACTCTGTGGTA
* * **
61732 -CCTTCTTAAGTTCACAACTCCAT-GTCA
1 CCCTT-TAAAGTCCACAACTCTGTGGT-A
* *
61759 CCCTTTTAAAATCCACCACTCTGTGGTA
1 CCC-TTTAAAGTCCACAACTCTGTGGTA
* * *
61787 CCCTTTTAAGTCCTCAACT-TCGTGG-G
1 CCCTTTAAAGTCCACAACTCT-GTGGTA
* *
61813 CACCTATTTAAGTCCACAACTCCGTGGTA
1 C-CCT-TTAAAGTCCACAACTCTGTGGTA
*
61842 CCCTTTAAAGTCCACAAGTCTGTGGTA
1 CCCTTTAAAGTCCACAACTCTGTGGTA
61869 TCATTTTAAA
Statistics
Matches: 127, Mismatches: 26, Indels: 24
0.72 0.15 0.14
Matches are distributed among these distances:
26 5 0.04
27 58 0.46
28 59 0.46
29 5 0.04
ACGTcount: A:0.24, C:0.31, G:0.14, T:0.31
Consensus pattern (27 bp):
CCCTTTAAAGTCCACAACTCTGTGGTA
Found at i:61925 original size:28 final size:28
Alignment explanation
Indices: 61885--62239 Score: 360
Period size: 28 Copynumber: 12.2 Consensus size: 28
61875 TAAAGCCAAC
*
61885 CCCACAAGTCAGTTGCACCATTTCAAAG
1 CCCACAAGTCAGTGGCACCATTTCAAAG
*
61913 CCCACAAGTCAGTGGCATCATTTCAAAG
1 CCCACAAGTCAGTGGCACCATTTCAAAG
*
61941 CCCACGAGTCAGTGGCACCATTTCAAAG
1 CCCACAAGTCAGTGGCACCATTTCAAAG
*
61969 GCCACAAGTCAGTGGCACCATTTCAAAG
1 CCCACAAGTCAGTGGCACCATTTCAAAG
* *
61997 GCCACAAGTCAGTGGCATTC-TTTCAGAA-
1 CCCACAAGTCAGTGGCA-CCATTTCA-AAG
*
62025 CCCACAAGTCAGTGGCATCATTTCAAAG
1 CCCACAAGTCAGTGGCACCATTTCAAAG
* * *
62053 CCCATAAGTTAGTGGCATTC-TTTCAAAG
1 CCCACAAGTCAGTGGCA-CCATTTCAAAG
* *
62081 CCCACAAGTCCGTGGCATCATTTCAAAG
1 CCCACAAGTCAGTGGCACCATTTCAAAG
* *
62109 CCTACAAGTCGGTGGCAACTCATTTCAAAG
1 CCCACAAGTCAGTGGC-AC-CATTTCAAAG
62139 CCCACACAAGTCAGTGGCAACTCA-TTCGAAAG
1 -CC-CACAAGTCAGTGGC-AC-CATTTC-AAAG
* *
62171 CTACACAAGTC-GATGGTAACCCATTTCAAAG
1 C-CCACAAGTCAG-TGG-CA-CCATTTCAAAG
*
62202 CCCACACAAGTCAGTGGCAACCCTTTTCAAAG
1 -CC-CACAAGTCAGTGGC-A-CCATTTCAAAG
62234 CCCACA
1 CCCACA
62240 CAAGTCCGTG
Statistics
Matches: 284, Mismatches: 23, Indels: 38
0.82 0.07 0.11
Matches are distributed among these distances:
27 6 0.02
28 180 0.63
29 6 0.02
30 15 0.05
31 26 0.09
32 50 0.18
33 1 0.00
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (28 bp):
CCCACAAGTCAGTGGCACCATTTCAAAG
Found at i:62180 original size:31 final size:32
Alignment explanation
Indices: 61887--62307 Score: 315
Period size: 28 Copynumber: 14.2 Consensus size: 32
61877 AAGCCAACCC
*
61887 CACAAGTCAGTTGC-AC-CATTTCAAAG-CC-
1 CACAAGTCAGTGGCAACTCATTTCAAAGCCCA
61915 CACAAGTCAGTGGC-A-TCATTTCAAAG-CC-
1 CACAAGTCAGTGGCAACTCATTTCAAAGCCCA
* *
61943 CACGAGTCAGTGGC-AC-CATTTCAAAG-GC-
1 CACAAGTCAGTGGCAACTCATTTCAAAGCCCA
*
61971 CACAAGTCAGTGGC-AC-CATTTCAAAG-GC-
1 CACAAGTCAGTGGCAACTCATTTCAAAGCCCA
*
61999 CACAAGTCAGTGGC-ATTC-TTTCAGAA--CC-
1 CACAAGTCAGTGGCAACTCATTTCA-AAGCCCA
62027 CACAAGTCAGTGGC-A-TCATTTCAAAG-CC-
1 CACAAGTCAGTGGCAACTCATTTCAAAGCCCA
* * *
62055 CATAAGTTAGTGGC-ATTC-TTTCAAAG-CC-
1 CACAAGTCAGTGGCAACTCATTTCAAAGCCCA
*
62083 CACAAGTCCGTGGC-A-TCATTTCAAAG-CC-
1 CACAAGTCAGTGGCAACTCATTTCAAAGCCCA
* *
62111 TACAAGTCGGTGGCAACTCATTTCAAAGCCCA
1 CACAAGTCAGTGGCAACTCATTTCAAAGCCCA
*
62143 CACAAGTCAGTGGCAACTCA-TTCGAAAG-CTA
1 CACAAGTCAGTGGCAACTCATTTC-AAAGCCCA
* *
62174 CACAAGTC-GATGGTAACCCATTTCAAAGCCCA
1 CACAAGTCAG-TGGCAACTCATTTCAAAGCCCA
* *
62206 CACAAGTCAGTGGCAACCCTTTTCAAAGCCCA
1 CACAAGTCAGTGGCAACTCATTTCAAAGCCCA
* * * *
62238 CACAAGTCCGTGGGAACGTC-TCTCAAAGCTCA
1 CACAAGTCAGTGGCAAC-TCATTTCAAAGCCCA
* * * * *
62270 TACAAGTCGGTGGGAAC-CCTTTTAAAGCCCA
1 CACAAGTCAGTGGCAACTCATTTCAAAGCCCA
62301 CACAAGT
1 CACAAGT
62308 TGGTGGCATC
Statistics
Matches: 342, Mismatches: 32, Indels: 35
0.84 0.08 0.09
Matches are distributed among these distances:
27 6 0.02
28 178 0.52
29 6 0.02
30 13 0.04
31 42 0.12
32 95 0.28
33 2 0.01
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (32 bp):
CACAAGTCAGTGGCAACTCATTTCAAAGCCCA
Found at i:62314 original size:95 final size:95
Alignment explanation
Indices: 62099--62315 Score: 273
Period size: 95 Copynumber: 2.3 Consensus size: 95
62089 TCCGTGGCAT
* *
62099 CATTTCAAAG-CC-TACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTCAGTGGCAACTC
1 CATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCAGTGGCAACTC
*
62162 ATTCGAAAGCTACACAAGTCGATGGTAACC
66 ATTCGAAAGCTACACAAGTCGATGGGAACC
* * * *
62192 CATTTCAAAGCCCACACAAGTCAGTGGCAACCCTTTTCAAAGCCCACACAAGTCCGTGGGAACGT
1 CATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCAGTGGCAAC-T
* *
62257 C-TCTC-AAAGCTCATACAAGTCGGTGGGAACC
65 CAT-TCGAAAGCT-ACACAAGTCGATGGGAACC
* *
62288 C-TTTTAAAGCCCACACAAGTTGGTGGCA
1 CATTTCAAAGCCCACACAAGTCGGTGGCA
62316 TCGTTTTTCA
Statistics
Matches: 107, Mismatches: 12, Indels: 8
0.84 0.09 0.06
Matches are distributed among these distances:
93 10 0.09
94 2 0.02
95 74 0.69
96 21 0.20
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.20
Consensus pattern (95 bp):
CATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCAGTGGCAACTC
ATTCGAAAGCTACACAAGTCGATGGGAACC
Found at i:63112 original size:15 final size:15
Alignment explanation
Indices: 63075--63132 Score: 53
Period size: 15 Copynumber: 3.6 Consensus size: 15
63065 TAAAATGACA
63075 AAAACAAAAGAAAATTAT
1 AAAA-AAAAGAAAA--AT
*
63093 GAAAAAAAGAAAAAT
1 AAAAAAAAGAAAAAT
* *
63108 AAAAAAAATAATAAT
1 AAAAAAAAGAAAAAT
63123 AAAAACAAAG
1 AAAAA-AAAG
63133 CAACTTTCAG
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
15 19 0.56
16 3 0.09
17 9 0.26
18 3 0.09
ACGTcount: A:0.78, C:0.03, G:0.07, T:0.12
Consensus pattern (15 bp):
AAAAAAAAGAAAAAT
Found at i:63126 original size:27 final size:28
Alignment explanation
Indices: 63074--63127 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
63064 TTAAAATGAC
*
63074 AAAAACAAAAGAAAATTATGAAAAAAAG
1 AAAAACAAAAGAAAATAATGAAAAAAAG
*
63102 AAAAATAAAA-AAAATAAT-AATAAAAA
1 AAAAACAAAAGAAAATAATGAA-AAAAA
63128 CAAAGCAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 2 0.09
27 12 0.52
28 9 0.39
ACGTcount: A:0.80, C:0.02, G:0.06, T:0.13
Consensus pattern (28 bp):
AAAAACAAAAGAAAATAATGAAAAAAAG
Found at i:66245 original size:11 final size:11
Alignment explanation
Indices: 66229--66300 Score: 76
Period size: 11 Copynumber: 6.7 Consensus size: 11
66219 CGTTACGACA
66229 ATATTATATTT
1 ATATTATATTT
66240 ATATTATATTT
1 ATATTATATTT
*
66251 A-ATTATTTTT
1 ATATTATATTT
*
66261 ATATAATATTT
1 ATATTATATTT
* *
66272 ATATCATA-TA
1 ATATTATATTT
*
66282 ATATTATATCT
1 ATATTATATTT
*
66293 AAATTATA
1 ATATTATA
66301 AGGTCTGGAA
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
10 17 0.34
11 33 0.66
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (11 bp):
ATATTATATTT
Found at i:66261 original size:21 final size:21
Alignment explanation
Indices: 66231--66272 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
66221 TTACGACAAT
*
66231 ATTATATTTATATTATATTTA
1 ATTATATTTATATAATATTTA
*
66252 ATTATTTTTATATAATATTTA
1 ATTATATTTATATAATATTTA
66273 TATCATATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTATATTTATATAATATTTA
Found at i:66280 original size:16 final size:15
Alignment explanation
Indices: 66261--66291 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
66251 AATTATTTTT
66261 ATATAATATTTATATC
1 ATATAATA-TTATATC
66277 ATATAATATTATATC
1 ATATAATATTATATC
66292 TAAATTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (15 bp):
ATATAATATTATATC
Found at i:69130 original size:19 final size:19
Alignment explanation
Indices: 69106--69143 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
69096 AATTAAAAAT
69106 TTTAAATTAT-TATCGATTA
1 TTTAAATTATGTAT-GATTA
69125 TTTAAATTATGTATGATTA
1 TTTAAATTATGTATGATTA
69144 GATATTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.37, C:0.03, G:0.08, T:0.53
Consensus pattern (19 bp):
TTTAAATTATGTATGATTA
Found at i:71479 original size:16 final size:15
Alignment explanation
Indices: 71458--71488 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
71448 AAACCAAAGC
71458 TTTTCTTTTTCTTTTT
1 TTTTCTTTTT-TTTTT
71474 TTTTCTTTTTTTTTT
1 TTTTCTTTTTTTTTT
71489 GTTGGTGGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (15 bp):
TTTTCTTTTTTTTTT
Found at i:71482 original size:9 final size:10
Alignment explanation
Indices: 71457--71487 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
71447 TAAACCAAAG
71457 CTTTTCTTTTT
1 CTTTT-TTTTT
71468 CTTTTTTTTT
1 CTTTTTTTTT
71478 CTTTTTTTTT
1 CTTTTTTTTT
71488 TGTTGGTGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 15 0.75
11 5 0.25
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (10 bp):
CTTTTTTTTT
Found at i:79271 original size:172 final size:172
Alignment explanation
Indices: 78985--79321 Score: 577
Period size: 172 Copynumber: 2.0 Consensus size: 172
78975 GGTCATTTTC
*
78985 TTGAAATTTTGGATATCCGAGATTTCATAATTGACCGAATATTCATTTTTATCAGATAAGAGTAA
1 TTGAAATTTTGGATATCCGAGATTTCATAACTGACCGAATATTCATTTTTATCAGATAAGAGTAA
* *
79050 ATTGCATCAGTCGATGTTTTTTTCAAGCTTTTCTCGGAGGTCCGGAGAAGTCGCAATTAATCGAG
66 ATTGCATCAGTCAATGTTTTTTTCAAGCTTTTCTCGGAGGTCCGGAGAAGTCGCAATTAATCAAG
* * * *
79115 TTAATTTTCGGTTTGAAAATCAAGGAATAAAAAAATGAAGGT
131 TTAAGTTTCGATTTAAAAATCAAGAAATAAAAAAATGAAGGT
*
79157 TTGAAATTTTGGATATCCGAGATTTCATAACTGACCGAATATTCATTTTTATCGGATAAGAGTAA
1 TTGAAATTTTGGATATCCGAGATTTCATAACTGACCGAATATTCATTTTTATCAGATAAGAGTAA
*
79222 ATTGCATCAGTCAATGTTTTTTTTAAGCTTTTCTCGGAGG-CTCGGAGAAGTCGCAATTAATCAA
66 ATTGCATCAGTCAATGTTTTTTTCAAGCTTTTCTCGGAGGTC-CGGAGAAGTCGCAATTAATCAA
79286 GTTAAGTTTCGATTTAAAAATCAAGAAATAAAAAAA
130 GTTAAGTTTCGATTTAAAAATCAAGAAATAAAAAAA
79322 ACACGGGATG
Statistics
Matches: 155, Mismatches: 9, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
171 1 0.01
172 154 0.99
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.35
Consensus pattern (172 bp):
TTGAAATTTTGGATATCCGAGATTTCATAACTGACCGAATATTCATTTTTATCAGATAAGAGTAA
ATTGCATCAGTCAATGTTTTTTTCAAGCTTTTCTCGGAGGTCCGGAGAAGTCGCAATTAATCAAG
TTAAGTTTCGATTTAAAAATCAAGAAATAAAAAAATGAAGGT
Found at i:79382 original size:26 final size:27
Alignment explanation
Indices: 79332--79416 Score: 163
Period size: 27 Copynumber: 3.2 Consensus size: 27
79322 ACACGGGATG
79332 ATGGGCATGGAATAAAAAAATGAAGGC
1 ATGGGCATGGAATAAAAAAATGAAGGC
79359 ATGGGCATGGAAT-AAAAAATGAAGGC
1 ATGGGCATGGAATAAAAAAATGAAGGC
79385 ATGGGCATGGAATAAAAAAATGAAGGC
1 ATGGGCATGGAATAAAAAAATGAAGGC
79412 ATGGG
1 ATGGG
79417 ATGATGGAAA
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
26 26 0.46
27 31 0.54
ACGTcount: A:0.46, C:0.07, G:0.32, T:0.15
Consensus pattern (27 bp):
ATGGGCATGGAATAAAAAAATGAAGGC
Found at i:80845 original size:79 final size:79
Alignment explanation
Indices: 80637--81146 Score: 779
Period size: 79 Copynumber: 6.4 Consensus size: 79
80627 TAAGTTTCTT
* *
80637 AATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTT
1 AATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTT
* *
80702 ATTTCTAAAATATT
66 ATTTCTAAAACATC
* * * * *
80716 AATTTTTTTTTACAATCGGGGATACTCCAATCCCGTTATTTCCGAGGGGATACTCCAACCTCAGT
1 AA---TTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGT
*
80781 TTTATTTCTAAAACACC
63 TTTATTTCTAAAACATC
* *
80798 AATTTTTCATAATCGAGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTT
1 AATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTT
* *
80863 ATTTCTAAAATATT
66 ATTTCTAAAACATC
* * **
80877 AATTTTTTTACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTT
1 AA-TTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTT
80942 TATTTCTAAAACATC
65 TATTTCTAAAACATC
*
80957 AATTTTTCATAATCGGGGATACTCC-ACTCCCGTTATTTCCGAGGGGATACTCCGACCCCGGTTT
1 AATTTTTCATAATCGGGGATACTCCAAC-CCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTT
*
81021 TATTTCTAAAACACC
65 TATTTCTAAAACATC
81036 AATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTT
1 AATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTT
81101 ATTTCTAAAACATC
66 ATTTCTAAAACATC
*
81115 AATTTTTCATAATCGGGGATACTCTAACCCCG
1 AATTTTTCATAATCGGGGATACTCCAACCCCG
81147 ATTTTATTTT
Statistics
Matches: 390, Mismatches: 35, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
78 2 0.01
79 244 0.63
80 73 0.19
82 71 0.18
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (79 bp):
AATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTT
ATTTCTAAAACATC
Found at i:80966 original size:159 final size:159
Alignment explanation
Indices: 80637--81146 Score: 828
Period size: 159 Copynumber: 3.2 Consensus size: 159
80627 TAAGTTTCTT
*
80637 AATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTT
1 AATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTT
*
80702 ATTTCTAAAATATTAATTTTTTTTTACAATCGGGGATACTCCAATCCCGTTATTTCCGAGGGGAT
66 ATTTCTAAAATATTAA--TTTTTTTACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGAT
* *
80767 ACTCCAACCTC-AGTTTTATTTCTAAAACACC
129 ACTCCAACCCCGA-TTTTATTTCTAAAACATC
*
80798 AATTTTTCATAATCGAGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTT
1 AATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTT
80863 ATTTCTAAAATATTAATTTTTTTACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATAC
66 ATTTCTAAAATATTAATTTTTTTACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATAC
*
80928 TCCAACCCCGACTTTATTTCTAAAACATC
131 TCCAACCCCGATTTTATTTCTAAAACATC
* *
80957 AATTTTTCATAATCGGGGATACTCC-ACTCCCGTTATTTCCGAGGGGATACTCCGACCCCGGTTT
1 AATTTTTCATAATCGGGGATACTCCAAC-CCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTT
* ** * *
81021 TATTTCTAAAACACCAA-TTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATA
65 TATTTCTAAAATATTAATTTTTTTACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATA
*
81085 CTCCAACCCCGGTTTTATTTCTAAAACATC
130 CTCCAACCCCGATTTTATTTCTAAAACATC
*
81115 AATTTTTCATAATCGGGGATACTCTAACCCCG
1 AATTTTTCATAATCGGGGATACTCCAACCCCG
81147 ATTTTATTTT
Statistics
Matches: 329, Mismatches: 17, Indels: 9
0.93 0.05 0.03
Matches are distributed among these distances:
158 103 0.31
159 146 0.44
160 1 0.00
161 79 0.24
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (159 bp):
AATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTT
ATTTCTAAAATATTAATTTTTTTACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATAC
TCCAACCCCGATTTTATTTCTAAAACATC
Found at i:81066 original size:238 final size:238
Alignment explanation
Indices: 80635--81146 Score: 828
Period size: 238 Copynumber: 2.1 Consensus size: 238
80625 GTTAAGTTTC
* **
80635 TTAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
1 TTAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACT
* * *
80700 TTATTTCTAAAATATTAATTTTTTTTTACAATCGGGGATACTCCAATCCCGTTATTTCCGAGGGG
66 TTATTTCTAAAACATCAA--TTTTTTCACAATCGGGGATACTCCAATCCCGTTATTTCCGAGGGG
*
80765 ATACTCCAACCTCAGTTTTATTTCTAAAACACCAATTTTTCATAATCGAGGATACTCCAACCCCG
129 ATACTCCAACCCCAGTTTTATTTCTAAAACACCAATTTTTCATAATCGAGGATACTCCAACCCCG
* *
80830 TTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATA
194 TTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACA
*
80875 TTAATTTTTTTACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGAC
1 TTAA-TTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGAC
* *
80940 TTTATTTCTAAAACATCAA-TTTTTCATAATCGGGGATACTCCACTCCCGTTATTTCCGAGGGGA
65 TTTATTTCTAAAACATCAATTTTTTCACAATCGGGGATACTCCAATCCCGTTATTTCCGAGGGGA
* * *
81004 TACTCCGACCCCGGTTTTATTTCTAAAACACCAATTTTTCATAATCGGGGATACTCCAACCCCGT
130 TACTCCAACCCCAGTTTTATTTCTAAAACACCAATTTTTCATAATCGAGGATACTCCAACCCCGT
81069 TATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACA
195 TATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACA
* * *
81113 TCAATTTTTCATAATCGGGGATACTCTAACCCCG
1 TTAATTTTTCACAATCGGGGATACTCCAACCCCG
81147 ATTTTATTTT
Statistics
Matches: 252, Mismatches: 19, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
237 27 0.11
238 148 0.59
240 4 0.02
241 73 0.29
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (238 bp):
TTAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACT
TTATTTCTAAAACATCAATTTTTTCACAATCGGGGATACTCCAATCCCGTTATTTCCGAGGGGAT
ACTCCAACCCCAGTTTTATTTCTAAAACACCAATTTTTCATAATCGAGGATACTCCAACCCCGTT
ATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACA
Found at i:81154 original size:51 final size:52
Alignment explanation
Indices: 81078--81198 Score: 165
Period size: 52 Copynumber: 2.3 Consensus size: 52
81068 TTATTTCCGA
* *
81078 GGGGATACTCCAACCCCGGTTTTA-TTTCTAAAACATCAATTTTT-CATAATC
1 GGGGATACTCTAACCCCGATTTTATTTTCTAAAACA-CAATTTTTCCATAATC
* * **
81129 GGGGATACTCTAACCCCGATTTTATTTTTTAGAACACTGTTTTTCCATAATC
1 GGGGATACTCTAACCCCGATTTTATTTTCTAAAACACAATTTTTCCATAATC
81181 GGGGATACTCTAACCCCG
1 GGGGATACTCTAACCCCG
81199 TTATTATCTC
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
51 28 0.45
52 34 0.55
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (52 bp):
GGGGATACTCTAACCCCGATTTTATTTTCTAAAACACAATTTTTCCATAATC
Found at i:83534 original size:20 final size:19
Alignment explanation
Indices: 83511--83604 Score: 84
Period size: 20 Copynumber: 4.8 Consensus size: 19
83501 CACACCCAGA
* **
83511 TGTATCGATACATTATGCTT
1 TGTATCGATACATGAT-CAC
83531 TGTATCGATACATGATCAC
1 TGTATCGATACATGATCAC
*
83550 TGTATCGATACATGGA-CAAT
1 TGTATCGATACAT-GATC-AC
*
83570 TGTATCGATACATGGA-CAAT
1 TGTATCGATACAT-GATC-AC
83590 TGTATCGATACATGA
1 TGTATCGATACATGA
83605 AACTGGCAGT
Statistics
Matches: 68, Mismatches: 4, Indels: 5
0.88 0.05 0.06
Matches are distributed among these distances:
19 17 0.25
20 51 0.75
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (19 bp):
TGTATCGATACATGATCAC
Found at i:83668 original size:25 final size:25
Alignment explanation
Indices: 83634--83684 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
83624 ACCACTATTT
*
83634 GTATCGATACATGGT-ACATTATATC
1 GTATCGATACATGATGA-ATTATATC
83659 GTATCGATACATGATGAATTATATC
1 GTATCGATACATGATGAATTATATC
83684 G
1 G
83685 ATACATTGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 23 0.96
26 1 0.04
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (25 bp):
GTATCGATACATGATGAATTATATC
Found at i:90133 original size:27 final size:27
Alignment explanation
Indices: 90103--90189 Score: 66
Period size: 28 Copynumber: 3.1 Consensus size: 27
90093 CACCTTTTCT
90103 TTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTAAAGCCCACACAAGTTGGTGGCA
** * * * ** ** *
90130 TTTTTCAGTCCTCAAAGAGCAGGACGCC
1 TTTTAAAGCCCACACA-AGTTGGTGGCA
90158 TTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTAAAGCCCACACAAGTTGGTGGCA
90185 CTTTT
1 -TTTT
90190 CTAGTCCTCA
Statistics
Matches: 38, Mismatches: 20, Indels: 3
0.62 0.33 0.05
Matches are distributed among these distances:
27 17 0.45
28 21 0.55
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (27 bp):
TTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:90359 original size:61 final size:60
Alignment explanation
Indices: 90259--91160 Score: 1179
Period size: 61 Copynumber: 15.0 Consensus size: 60
90249 CTTTAGTCCT
*
90259 ACACCTCTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGG
1 ACACTTCTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGG
*
90319 ACAACTTCTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGG
1 AC-ACTTCTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGG
90380 ACAACTTCTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGG
1 AC-ACTTCTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGG
*
90441 ACACCTCTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGG
1 ACACTTCTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGG
* *
90501 ACAACTTCTTCCTTTTATAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAAG
1 AC-ACTTCTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGG
*
90562 ACACCTCTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGG
1 ACACTTCTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGG
* *
90622 ACAACTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGG
1 AC-ACTTCTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGG
* *
90683 ACACCTCTT-CTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCAGG
1 ACACTTCTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTT--TAGTCCTCAAAGAGCAGG
* * * *
90743 ACACTTTTTTTCTTTTTAAAGCCCACACGAGTTAGTGGCACCTTTAGTCCTCAAAGAGTAGG
1 ACAC--TTCTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGG
* * * * *
90805 ACGCCTT-TCCCATTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGG
1 AC-ACTTCTTCC-TTTTAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGG
** * * *
90866 ATGCTT-TT--TTTCCAAAGCCCACACAAGCTGGTGGCACCTTTCAGTCCTCAAAGAGCAGG
1 ACACTTCTTCCTTT-TAAAGCCCACACGAGTTGGTGGCACCTTT-AGTCCTCAAAGAGCAGG
* * * *
90925 ACGC--CTTCC----AAAGCCCACACAAGTTAGTGGCA-TTTTCCAGTCCTCAAAGAGCAGG
1 ACACTTCTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTT--AGTCCTCAAAGAGCAGG
* * *
90980 ACACTTTTTTTCTTTTTAAAGCCCACACGAGTTAGTGGCACCTTTAGTCCTCAAAGAGCAGG
1 ACAC--TTCTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGG
* * *
91042 ACACATCTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGG
1 ACACTTCTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGG
** *
91102 ATGCTTTCTT--TTTGTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCA
1 ACAC-TTCTTCCTTT-TAAAGCCCACACGAGTTGGTGGCACCTT--TAGTCCTCAAAGAGCA
91161 AGACGTTTTT
Statistics
Matches: 757, Mismatches: 55, Indels: 59
0.87 0.06 0.07
Matches are distributed among these distances:
54 3 0.00
55 42 0.06
57 3 0.00
58 32 0.04
59 55 0.07
60 227 0.30
61 298 0.39
62 43 0.06
63 48 0.06
64 6 0.01
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.26
Consensus pattern (60 bp):
ACACTTCTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGG
Found at i:91177 original size:121 final size:121
Alignment explanation
Indices: 90264--91160 Score: 1234
Period size: 121 Copynumber: 7.4 Consensus size: 121
90254 GTCCTACACC
* *
90264 TCTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACAACTTCTT
1 TCTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGAC-ACCTCTT
*
90329 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACAAC-T
65 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGA-AACTT
*
90386 TCTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACACCTCTTC
1 TCTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACACCTCTTC
* *
90451 CTTTTAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACAAC-T
66 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGA-AACTT
* * *
90507 TCTTCCTTTTATAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAAGACACCTCTTC
1 TCTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACACCTCTTC
* *
90572 CTTTTAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACAACTT
66 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGA-AACTT
90629 T-TTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACACCTCTT-
1 TCTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACACCTCTTC
*
90692 CTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCAGGACACTTT
66 CTTTTAAAGCCCACACAAGTTGGTGGCACCTT-C-AGTCCTCAAAGAGCAGGAAAC-TT
* * * *
90750 TTTTCTTTTTAAAGCCCACACGAGTTAGTGGCACCTTTAGTCCTCAAAGAGTAGGACGCCT-TTC
1 TCTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACACCTCTT-
* **
90814 CCATTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGC-T
65 CC-TTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGAAACTT
** * * *
90871 T-TT-TTTCCAAAGCCCACACAAGCTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGAC-GC-CTT
1 TCTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTT-AGTCCTCAAAGAGCAGGACACCTCTT
* ** *
90932 CC----AAAGCCCACACAAGTTAGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACTTT
65 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGAAAC-TT
* * *
90987 TTTTCTTTTTAAAGCCCACACGAGTTAGTGGCACCTTTAGTCCTCAAAGAGCAGGACACATCTTC
1 TCTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACACCTCTTC
**
91052 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCTT
66 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGAAACTT
* *
91108 TCTT-TTTGTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCA
1 TCTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTT--TAGTCCTCAAAGAGCA
91161 AGACGTTTTT
Statistics
Matches: 707, Mismatches: 44, Indels: 49
0.88 0.05 0.06
Matches are distributed among these distances:
113 24 0.03
114 20 0.03
116 2 0.00
117 21 0.03
118 30 0.04
119 42 0.06
120 74 0.10
121 285 0.40
122 135 0.19
123 44 0.06
124 27 0.04
125 3 0.00
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (121 bp):
TCTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACACCTCTTC
CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGAAACTT
Found at i:91263 original size:103 final size:98
Alignment explanation
Indices: 91082--91357 Score: 355
Period size: 103 Copynumber: 2.8 Consensus size: 98
91072 TGGTGGCACC
* * *
91082 TTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGTAAAGCCCACACAAGTTGGTGGCACTTCCTA
1 TTCAGTCCTCAAAGAGCAGGACGCTTTC-TTTT-CAAAGCCCACACAAGTTGGTGGCACTTTCTA
* * *
91147 GTCCTCAAAGAGCAAGACGTTTTTTCCTTTTCTTCCT
64 GTCCTCAAAGAGCAAGACGTTCTCTCC-TTTC-GCCT
91184 TTCCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTCT
1 TT-CAGTCCTCAAAGAGCAGGACG-C-TTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTCT
*
91249 AGTCCTCAAAGAGCAGGACGTTCTCTCCTTTCGCCT
63 AGTCCTCAAAGAGCAAGACGTTCTCTCCTTTCGCCT
** *
91285 TTTTGTCCTCAAAGAGCAGGACAC---C-TTTCAAAGCCCACACAAGTTGGTGGCACTTT-TCAG
1 TTCAGTCCTCAAAGAGCAGGACGCTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTCT-AG
91345 TCCTCAAAGAGCA
65 TCCTCAAAGAGCA
91358 GGATGCTTTC
Statistics
Matches: 160, Mismatches: 10, Indels: 16
0.86 0.05 0.09
Matches are distributed among these distances:
93 1 0.01
94 46 0.29
95 1 0.01
99 1 0.01
100 18 0.11
101 5 0.03
102 6 0.04
103 73 0.46
104 5 0.03
105 4 0.03
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (98 bp):
TTCAGTCCTCAAAGAGCAGGACGCTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTCTAGT
CCTCAAAGAGCAAGACGTTCTCTCCTTTCGCCT
Found at i:91413 original size:61 final size:61
Alignment explanation
Indices: 91310--91483 Score: 246
Period size: 61 Copynumber: 2.9 Consensus size: 61
91300 GCAGGACACC
*
91310 TTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATG-C-TTTCTT
1 TTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTC-T
* * * *
91370 TTTGCAAATCCCACACTAGTTGGTGGCA-TCTTCCAGTCCTCAAAGAGCATGACGCCTTTTCT
1 TTT-CAAAGCCCACACAAGTTGGTGGCACT-TTTCAGTCCTCAAAGAGCAGGACGCCTTTTCT
*
91432 TTTCAAAGACCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGAC
1 TTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGAC
91484 ACACTTCTTT
Statistics
Matches: 99, Mismatches: 10, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
60 4 0.04
61 85 0.86
62 6 0.06
63 4 0.04
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (61 bp):
TTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCT
Found at i:91513 original size:42 final size:42
Alignment explanation
Indices: 91466--91567 Score: 113
Period size: 42 Copynumber: 2.4 Consensus size: 42
91456 GCACTTTTCA
91466 GTCCTCAAAGAGCAGGACACACTT-C-TTTC-TCTTTTTCACTTT
1 GTCCTCAAAGAGCAGGACAC-CTTCCTTTTCTTCTTTTT--CTTT
*
91508 GTCCTC-AAGAAGCAGGACACTTTCCTTTTCTTCTTTTTCTTT
1 GTCCTCAAAG-AGCAGGACACCTTCCTTTTCTTCTTTTTCTTT
* *
91550 GTCTTCAAGGAGCAGGAC
1 GTCCTCAAAGAGCAGGAC
91568 TTATTTCACT
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
41 5 0.10
42 34 0.65
43 6 0.12
44 7 0.13
ACGTcount: A:0.21, C:0.26, G:0.16, T:0.37
Consensus pattern (42 bp):
GTCCTCAAAGAGCAGGACACCTTCCTTTTCTTCTTTTTCTTT
Found at i:92341 original size:172 final size:172
Alignment explanation
Indices: 92055--92391 Score: 595
Period size: 172 Copynumber: 2.0 Consensus size: 172
92045 GGTCATTTTC
*
92055 TTGAAATTTTGGATATCCGAGATTTCATAATTGACCGAATATTCATTTTTATCGGATAAGAGTAA
1 TTGAAATTTTGGATATCCGAGATTTCATAACTGACCGAATATTCATTTTTATCGGATAAGAGTAA
*
92120 ATTGCATCAGTCGATGTTTTTTTCAAGCTTTTCTCGGAGGTCCGGAGAAGTCGCAATTAATCGAG
66 ATTGCATCAGTCAATGTTTTTTTCAAGCTTTTCTCGGAGGTCCGGAGAAGTCGCAATTAATCGAG
* * * *
92185 TTAATTTTCGGTTTGAAAATCAAGGAATAAAAAAATGAAGGT
131 TTAAGTTTCGATTTAAAAATCAAGAAATAAAAAAATGAAGGT
92227 TTGAAATTTTGGATATCCGAGATTTCATAACTGACCGAATATTCATTTTTATCGGATAAGAGTAA
1 TTGAAATTTTGGATATCCGAGATTTCATAACTGACCGAATATTCATTTTTATCGGATAAGAGTAA
*
92292 ATTGCATCAGTCAATGTTTTTTTTAAGCTTTTCTCGGAGG-CTCGGAGAAGTCGCAATTAATCGA
66 ATTGCATCAGTCAATGTTTTTTTCAAGCTTTTCTCGGAGGTC-CGGAGAAGTCGCAATTAATCGA
92356 GTTAAGTTTCGATTTAAAAATCAAGAAATAAAAAAA
130 GTTAAGTTTCGATTTAAAAATCAAGAAATAAAAAAA
92392 ACACGGGATG
Statistics
Matches: 157, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
171 1 0.01
172 156 0.99
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.35
Consensus pattern (172 bp):
TTGAAATTTTGGATATCCGAGATTTCATAACTGACCGAATATTCATTTTTATCGGATAAGAGTAA
ATTGCATCAGTCAATGTTTTTTTCAAGCTTTTCTCGGAGGTCCGGAGAAGTCGCAATTAATCGAG
TTAAGTTTCGATTTAAAAATCAAGAAATAAAAAAATGAAGGT
Found at i:92452 original size:26 final size:27
Alignment explanation
Indices: 92402--92486 Score: 163
Period size: 27 Copynumber: 3.2 Consensus size: 27
92392 ACACGGGATG
92402 ATGGGCATGGAATAAAAAAATGAAGGC
1 ATGGGCATGGAATAAAAAAATGAAGGC
92429 ATGGGCATGGAAT-AAAAAATGAAGGC
1 ATGGGCATGGAATAAAAAAATGAAGGC
92455 ATGGGCATGGAATAAAAAAATGAAGGC
1 ATGGGCATGGAATAAAAAAATGAAGGC
92482 ATGGG
1 ATGGG
92487 ATGATGGAAA
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
26 26 0.46
27 31 0.54
ACGTcount: A:0.46, C:0.07, G:0.32, T:0.15
Consensus pattern (27 bp):
ATGGGCATGGAATAAAAAAATGAAGGC
Found at i:93916 original size:79 final size:79
Alignment explanation
Indices: 93707--94215 Score: 795
Period size: 79 Copynumber: 6.4 Consensus size: 79
93697 TAAGTTTCTT
* *
93707 AATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTT
1 AATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTT
* *
93772 ATTTCTAAAATATT
66 ATTTCTAAAACATC
* * * *
93786 AATTTTTTTTACAATCGGGGATACTCCAATCCCGTTATTTCCGAGGGGATACTCCAACCTCGGTT
1 AA--TTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
*
93851 TTATTTCTAAAACACC
64 TTATTTCTAAAACATC
* *
93867 AATTTTTCATAATCGAGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTT
1 AATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTT
* *
93932 ATTTCTAAAATATT
66 ATTTCTAAAACATC
* * **
93946 AATTTTTTTACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTT
1 AA-TTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTT
94011 TATTTCTAAAACATC
65 TATTTCTAAAACATC
*
94026 AATTTTTCATAATCGGGGATACTCC-ACTCCCGTTATTTCCGAGGGGATACTCCGACCCCGGTTT
1 AATTTTTCATAATCGGGGATACTCCAAC-CCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTT
*
94090 TATTTCTAAAACACC
65 TATTTCTAAAACATC
94105 AATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTT
1 AATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTT
94170 ATTTCTAAAACATC
66 ATTTCTAAAACATC
*
94184 AATTTTTCATAATCGGGGATACTCTAACCCCG
1 AATTTTTCATAATCGGGGATACTCCAACCCCG
94216 ATTTTATTTT
Statistics
Matches: 392, Mismatches: 33, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
78 2 0.01
79 245 0.62
80 73 0.19
81 72 0.18
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.33
Consensus pattern (79 bp):
AATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTT
ATTTCTAAAACATC
Found at i:94035 original size:159 final size:159
Alignment explanation
Indices: 93707--94215 Score: 851
Period size: 159 Copynumber: 3.2 Consensus size: 159
93697 TAAGTTTCTT
*
93707 AATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTT
1 AATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTT
*
93772 ATTTCTAAAATATTAATTTTTTTTACAATCGGGGATACTCCAATCCCGTTATTTCCGAGGGGATA
66 ATTTCTAAAATATTAA-TTTTTTTACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATA
* *
93837 CTCCAACCTCGGTTTTATTTCTAAAACACC
130 CTCCAACCCCGGTTTTATTTCTAAAACATC
*
93867 AATTTTTCATAATCGAGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTT
1 AATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTT
93932 ATTTCTAAAATATTAATTTTTTTACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATAC
66 ATTTCTAAAATATTAATTTTTTTACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATAC
**
93997 TCCAACCCCGACTTTATTTCTAAAACATC
131 TCCAACCCCGGTTTTATTTCTAAAACATC
* *
94026 AATTTTTCATAATCGGGGATACTCC-ACTCCCGTTATTTCCGAGGGGATACTCCGACCCCGGTTT
1 AATTTTTCATAATCGGGGATACTCCAAC-CCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTT
* ** * *
94090 TATTTCTAAAACACCAA-TTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATA
65 TATTTCTAAAATATTAATTTTTTTACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATA
94154 CTCCAACCCCGGTTTTATTTCTAAAACATC
130 CTCCAACCCCGGTTTTATTTCTAAAACATC
*
94184 AATTTTTCATAATCGGGGATACTCTAACCCCG
1 AATTTTTCATAATCGGGGATACTCCAACCCCG
94216 ATTTTATTTT
Statistics
Matches: 329, Mismatches: 18, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
158 103 0.31
159 147 0.45
160 79 0.24
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.33
Consensus pattern (159 bp):
AATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTT
ATTTCTAAAATATTAATTTTTTTACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATAC
TCCAACCCCGGTTTTATTTCTAAAACATC
Found at i:94135 original size:238 final size:238
Alignment explanation
Indices: 93705--94215 Score: 844
Period size: 238 Copynumber: 2.1 Consensus size: 238
93695 GTTAAGTTTC
* **
93705 TTAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
1 TTAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACT
* * *
93770 TTATTTCTAAAATATTAATTTTTTTTACAATCGGGGATACTCCAATCCCGTTATTTCCGAGGGGA
66 TTATTTCTAAAACATCAA-TTTTTTCACAATCGGGGATACTCCAATCCCGTTATTTCCGAGGGGA
*
93835 TACTCCAACCTCGGTTTTATTTCTAAAACACCAATTTTTCATAATCGAGGATACTCCAACCCCGT
130 TACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCATAATCGAGGATACTCCAACCCCGT
* *
93900 TATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATA
195 TATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACA
*
93944 TTAATTTTTTTACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGAC
1 TTAA-TTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGAC
* *
94009 TTTATTTCTAAAACATCAA-TTTTTCATAATCGGGGATACTCCACTCCCGTTATTTCCGAGGGGA
65 TTTATTTCTAAAACATCAATTTTTTCACAATCGGGGATACTCCAATCCCGTTATTTCCGAGGGGA
* *
94073 TACTCCGACCCCGGTTTTATTTCTAAAACACCAATTTTTCATAATCGGGGATACTCCAACCCCGT
130 TACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCATAATCGAGGATACTCCAACCCCGT
94138 TATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACA
195 TATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACA
* * *
94182 TCAATTTTTCATAATCGGGGATACTCTAACCCCG
1 TTAATTTTTCACAATCGGGGATACTCCAACCCCG
94216 ATTTTATTTT
Statistics
Matches: 253, Mismatches: 18, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
237 27 0.11
238 149 0.59
239 4 0.02
240 73 0.29
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.33
Consensus pattern (238 bp):
TTAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACT
TTATTTCTAAAACATCAATTTTTTCACAATCGGGGATACTCCAATCCCGTTATTTCCGAGGGGAT
ACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCATAATCGAGGATACTCCAACCCCGTT
ATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACA
Found at i:94223 original size:51 final size:52
Alignment explanation
Indices: 94147--94267 Score: 165
Period size: 52 Copynumber: 2.3 Consensus size: 52
94137 TTATTTCCGA
* *
94147 GGGGATACTCCAACCCCGGTTTTA-TTTCTAAAACATCAATTTTT-CATAATC
1 GGGGATACTCTAACCCCGATTTTATTTTCTAAAACA-CAATTTTTCCATAATC
* * **
94198 GGGGATACTCTAACCCCGATTTTATTTTTTAGAACACTGTTTTTCCATAATC
1 GGGGATACTCTAACCCCGATTTTATTTTCTAAAACACAATTTTTCCATAATC
94250 GGGGATACTCTAACCCCG
1 GGGGATACTCTAACCCCG
94268 TTATTATCTC
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
51 28 0.45
52 34 0.55
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (52 bp):
GGGGATACTCTAACCCCGATTTTATTTTCTAAAACACAATTTTTCCATAATC
Found at i:96644 original size:20 final size:20
Alignment explanation
Indices: 96599--96672 Score: 107
Period size: 20 Copynumber: 3.8 Consensus size: 20
96589 ACATTATGCT
96599 TTGTATCGATACAT-GATC-A
1 TTGTATCGATACATGGA-CAA
* *
96618 CTGTATCAATACATGGACAA
1 TTGTATCGATACATGGACAA
96638 TTGTATCGATACATGGACAA
1 TTGTATCGATACATGGACAA
96658 TTGTATCGATACATG
1 TTGTATCGATACATG
96673 AAACTGGCAG
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
19 13 0.27
20 36 0.73
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (20 bp):
TTGTATCGATACATGGACAA
Found at i:96737 original size:25 final size:25
Alignment explanation
Indices: 96703--96753 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
96693 ACTACTATTT
*
96703 GTATCGATACATGGT-ACATTATATC
1 GTATCGATACATGATGA-ATTATATC
96728 GTATCGATACATGATGAATTATATC
1 GTATCGATACATGATGAATTATATC
96753 G
1 G
96754 ATACATTGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 23 0.96
26 1 0.04
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (25 bp):
GTATCGATACATGATGAATTATATC
Found at i:98370 original size:18 final size:18
Alignment explanation
Indices: 98344--98378 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
98334 AGTCAACCAT
98344 TAATAATGATAAAGATGA
1 TAATAATGATAAAGATGA
* *
98362 TAATGATGATGAAGATG
1 TAATAATGATAAAGATG
98379 GTGACTCGGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.00, G:0.23, T:0.29
Consensus pattern (18 bp):
TAATAATGATAAAGATGA
Found at i:100803 original size:13 final size:13
Alignment explanation
Indices: 100785--100811 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
100775 ACAACATTCC
100785 TTGTATCGATACA
1 TTGTATCGATACA
100798 TTGTATCGATACA
1 TTGTATCGATACA
100811 T
1 T
100812 GGGTTACTAT
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:100963 original size:21 final size:20
Alignment explanation
Indices: 100939--100978 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
100929 TTACAAATGT
*
100939 CTTCATCTTTACTTCAAAATA
1 CTTCAT-TTTACATCAAAATA
*
100960 CTTCATTTTTCATCAAAAT
1 CTTCATTTTACATCAAAAT
100979 CACCAACAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.45
Consensus pattern (20 bp):
CTTCATTTTACATCAAAATA
Found at i:101851 original size:30 final size:30
Alignment explanation
Indices: 101815--101875 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
101805 GGAGAAAATC
*
101815 TCGTTAACCGATTAAGGGTGAGAAATTTTT
1 TCGTTAACCGATTAAGGGGGAGAAATTTTT
101845 TCGTTAACCGATTAAGGGGGAGAAATTTTT
1 TCGTTAACCGATTAAGGGGGAGAAATTTTT
101875 T
1 T
101876 TTATATATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.10, G:0.25, T:0.36
Consensus pattern (30 bp):
TCGTTAACCGATTAAGGGGGAGAAATTTTT
Found at i:102441 original size:20 final size:19
Alignment explanation
Indices: 102418--102491 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
102408 CACACCTAGA
* *
102418 TGTATCGATACATTATGCTT
1 TGTATCGATACATGAT-CAT
102438 TGTATCGATACATGATCAT
1 TGTATCGATACATGATCAT
*
102457 TGTATCCATACATGGA-CAAT
1 TGTATCGATACAT-GATC-AT
102477 TGTATCGATACATGA
1 TGTATCGATACATGA
102492 AACTGGCAGT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
19 17 0.35
20 31 0.65
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.36
Consensus pattern (19 bp):
TGTATCGATACATGATCAT
Found at i:102544 original size:20 final size:20
Alignment explanation
Indices: 102519--102572 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
102509 CTACCACTGT
*
102519 TTGTATCGATACATGGT-ACA
1 TTGTATCGATACATGATGA-A
*
102539 TTGTATCAATACATGATGAA
1 TTGTATCGATACATGATGAA
102559 TTGTATCGATACAT
1 TTGTATCGATACAT
102573 TGCCTGTAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:107276 original size:8 final size:7
Alignment explanation
Indices: 107238--107283 Score: 65
Period size: 7 Copynumber: 6.3 Consensus size: 7
107228 TAAAATAATA
107238 TTTATTT
1 TTTATTT
*
107245 ATTATTT
1 TTTATTT
107252 TGTTAATTT
1 T-TT-ATTT
107261 TTTATTT
1 TTTATTT
107268 TTTATTT
1 TTTATTT
107275 TTTATTT
1 TTTATTT
107282 TT
1 TT
107284 GAAAATTTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
7 26 0.74
8 4 0.11
9 5 0.14
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.80
Consensus pattern (7 bp):
TTTATTT
Found at i:108142 original size:11 final size:10
Alignment explanation
Indices: 108123--108171 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
108113 TTTGGTTAGA
108123 TTTTTCTTTT
1 TTTTTCTTTT
*
108133 TTTTTCCTTT
1 TTTTTCTTTT
*
108143 TTTTTCTCTT
1 TTTTTCTTTT
* *
108153 TTTATCTCTAT
1 TTTTTCT-TTT
108164 TTTTTCTT
1 TTTTTCTT
108172 CACTTTCCAA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
10 24 0.77
11 7 0.23
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:109081 original size:167 final size:163
Alignment explanation
Indices: 108726--109162 Score: 438
Period size: 166 Copynumber: 2.6 Consensus size: 163
108716 GTTCAACAAC
* * * *
108726 AATATTATATGAATTCTAAAAATTTAAAAT-CAAGAAAAATCCCTTCGAAAACTTTTATGGAATA
1 AATATTTTATGAATTTTAAAAA-TTAAAATCCAAGAAAAATCCC-T-GAAAACATTTATGGAGTA
* * * * * **
108790 GGAAACTT-AGTTTTTCGAAAATAAGAGAATTTTAAAGAAAAAATAAAAAACTCATGCAAATAAA
63 -AAAAATTCA-TATTTCAAAAATAAGAAAATTTTAAAGAAAAAATAAAAAACTCATAAAAATAAA
* * * ** * *
108854 TGAATTTTTTAAAGTTGATTAACTATGAATTAAATAAT
126 TAAAATTTTGAAAAATGATTAACAATAAATTAAATAAT
* *
108892 AATATTTAATAAATTTTAAAAATTAAAATCCAAGAAAAATCTCACTGAAAACATTTATGGAGTAA
1 AATATTTTATGAATTTTAAAAATTAAAATCCAAGAAAAATC-C-CTGAAAACATTTATGGAGTAA
* *
108957 AAAATTCCATATTTCAAAAATAAGAAAATTTTAAGGAAAAAATTCAAAAACTCATAAAAATAAAT
64 AAAATT-CATATTTCAAAAATAAGAAAATTTTAAAGAAAAAA-TAAAAAACTCATAAAAATAAAT
109022 AAAATTTTGAAAAATGATTTAA-AATAAATTAAATAAT
127 AAAATTTTGAAAAATGA-TTAACAATAAATTAAATAAT
* * * * *
109059 AATATTTTATGAGTTTTAAAAATTCAAAA-CTAAGAAAAATCCCCCGAAAA-AGTTATAGAG-AA
1 AATATTTTATGAATTTTAAAAATT-AAAATCCAAGAAAAAT-CCCTGAAAACATTTATGGAGTAA
109121 GAAAATTCTATATTTCAAAAATAA-AAGAATTTTAAAAGAAAA
64 -AAAATTC-ATATTTCAAAAATAAGAA-AATTTT-AAAGAAAA
109163 TCGATAACTC
Statistics
Matches: 228, Mismatches: 30, Indels: 26
0.80 0.11 0.09
Matches are distributed among these distances:
164 5 0.02
165 47 0.21
166 87 0.38
167 79 0.35
168 10 0.04
ACGTcount: A:0.53, C:0.08, G:0.08, T:0.30
Consensus pattern (163 bp):
AATATTTTATGAATTTTAAAAATTAAAATCCAAGAAAAATCCCTGAAAACATTTATGGAGTAAAA
AATTCATATTTCAAAAATAAGAAAATTTTAAAGAAAAAATAAAAAACTCATAAAAATAAATAAAA
TTTTGAAAAATGATTAACAATAAATTAAATAAT
Found at i:112532 original size:25 final size:25
Alignment explanation
Indices: 112498--112547 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
112488 AGGAATAATG
112498 GTCTAACATTGGAAAAACACATGCT
1 GTCTAACATTGGAAAAACACATGCT
112523 GTCTAACATTGGAAAAACACATGCT
1 GTCTAACATTGGAAAAACACATGCT
112548 TACACCTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (25 bp):
GTCTAACATTGGAAAAACACATGCT
Found at i:113593 original size:16 final size:16
Alignment explanation
Indices: 113572--113608 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
113562 TTATATATTG
113572 TTTTAAATATCATCAA
1 TTTTAAATATCATCAA
113588 TTTTAAATATCATCAA
1 TTTTAAATATCATCAA
113604 TTTTA
1 TTTTA
113609 TGATATCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.49
Consensus pattern (16 bp):
TTTTAAATATCATCAA
Found at i:116224 original size:20 final size:20
Alignment explanation
Indices: 116199--116313 Score: 140
Period size: 20 Copynumber: 5.8 Consensus size: 20
116189 TTTTACCCAG
116199 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
116219 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
116239 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * * *
116259 ATGTATTGATAAATGTATGA
1 ATGTATCGATACATTTTTCA
116279 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* *
116299 ATATATCAATACATT
1 ATGTATCGATACATT
116314 CTATCTTTTT
Statistics
Matches: 77, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 77 1.00
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:116254 original size:40 final size:40
Alignment explanation
Indices: 116199--116312 Score: 192
Period size: 40 Copynumber: 2.9 Consensus size: 40
116189 TTTTACCCAG
116199 ATGTATCGATACATTTTTCAATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCAATGTATCGATACATGTATGA
* *
116239 ATGTATCGATACATTTTTCAATGTATTGATAAATGTATGA
1 ATGTATCGATACATTTTTCAATGTATCGATACATGTATGA
* *
116279 ATGTATCGATACATTTTTCAATATATCAATACAT
1 ATGTATCGATACATTTTTCAATGTATCGATACAT
116313 TCTATCTTTT
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 68 1.00
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.41
Consensus pattern (40 bp):
ATGTATCGATACATTTTTCAATGTATCGATACATGTATGA
Found at i:117288 original size:22 final size:23
Alignment explanation
Indices: 117263--117309 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
117253 TTTTAATATG
117263 TCCAGCATCTCATTGAATG-TTA
1 TCCAGCATCTCATTGAATGATTA
* * *
117285 TCCATCATTTCATTGTATGATTA
1 TCCAGCATCTCATTGAATGATTA
117308 TC
1 TC
117310 ACATTTTCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.26, C:0.21, G:0.11, T:0.43
Consensus pattern (23 bp):
TCCAGCATCTCATTGAATGATTA
Found at i:122804 original size:34 final size:35
Alignment explanation
Indices: 122766--122832 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
122756 CCATACAACA
122766 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
122800 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
122833 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:123320 original size:13 final size:13
Alignment explanation
Indices: 123302--123339 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
123292 CTATTTATAG
*
123302 TGTATCGATACAC
1 TGTATCGATACAA
123315 TGTATCGATACAA
1 TGTATCGATACAA
123328 TGTATCGATACA
1 TGTATCGATACA
123340 TGAATAGTGA
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:123387 original size:16 final size:16
Alignment explanation
Indices: 123348--123391 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
123338 CATGAATAGT
123348 GATGAACAGTGAACAG
1 GATGAACAGTGAACAG
* *
123364 TATAAACAGT-AACAG
1 GATGAACAGTGAACAG
123379 CGATGAACAGTGA
1 -GATGAACAGTGA
123392 TGTATCGATA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
15 5 0.23
16 16 0.73
17 1 0.05
ACGTcount: A:0.45, C:0.14, G:0.25, T:0.16
Consensus pattern (16 bp):
GATGAACAGTGAACAG
Found at i:131402 original size:12 final size:12
Alignment explanation
Indices: 131387--131430 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 12
131377 GAAAAAAAAC
131387 AAAAAAACAGAA
1 AAAAAAACAGAA
*
131399 AAAAAAACAAAA
1 AAAAAAACAGAA
131411 ACAAAAAACCAAGAA
1 A-AAAAAA-C-AGAA
131426 AAAAA
1 AAAAA
131431 TAATAACAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 12 0.44
13 6 0.22
14 5 0.19
15 4 0.15
ACGTcount: A:0.84, C:0.11, G:0.05, T:0.00
Consensus pattern (12 bp):
AAAAAAACAGAA
Found at i:131402 original size:18 final size:17
Alignment explanation
Indices: 131378--131418 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
131368 TCATACCTAG
131378 AAAAAAAACAA-AAAAAC
1 AAAAAAAA-AACAAAAAC
131395 AGAAAAAAAAACAAAAAC
1 A-AAAAAAAAACAAAAAC
131413 AAAAAA
1 AAAAAA
131419 CCAAGAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.88, C:0.10, G:0.02, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAACAAAAAC
Found at i:131412 original size:26 final size:25
Alignment explanation
Indices: 131381--131443 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
131371 TACCTAGAAA
131381 AAAAACAAAAAAACAGAAAAAAAAAC
1 AAAAACAAAAAAACA-AAAAAAAAAC
* * *
131407 AAAAACAAAAAACCAAGAAAAAAAT
1 AAAAACAAAAAAACAAAAAAAAAAC
*
131432 AATAACAAAAAA
1 AAAAACAAAAAA
131444 TAGAAAGAGG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
25 19 0.58
26 14 0.42
ACGTcount: A:0.83, C:0.11, G:0.03, T:0.03
Consensus pattern (25 bp):
AAAAACAAAAAAACAAAAAAAAAAC
Found at i:132754 original size:13 final size:13
Alignment explanation
Indices: 132736--132761 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
132726 CAATTTTTTG
132736 TGTATCGATACAT
1 TGTATCGATACAT
132749 TGTATCGATACAT
1 TGTATCGATACAT
132762 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:135166 original size:21 final size:21
Alignment explanation
Indices: 135142--135188 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
135132 TTTGATGCTG
135142 ATTTTG-A-TGAAAAACGAAGT
1 ATTTTGAAGTGAAAAAC-AAGT
135162 -TATTTGAAGTGAAAAACAAGT
1 AT-TTTGAAGTGAAAAACAAGT
135183 ATTTTG
1 ATTTTG
135189 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
19 1 0.04
20 4 0.17
21 9 0.39
22 9 0.39
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAACAAGT
Found at i:135328 original size:13 final size:13
Alignment explanation
Indices: 135310--135348 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
135300 ATAATCACCC
*
135310 TGTATCGATACAG
1 TGTATCGATACAA
135323 TGTATCGATACAA
1 TGTATCGATACAA
135336 TGTATCGATACAA
1 TGTATCGATACAA
135349 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:135359 original size:20 final size:20
Alignment explanation
Indices: 135334--135412 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
135324 GTATCGATAC
135334 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
135354 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
135379 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
135399 CATGTATCGATACA
1 AATGTATCGATACA
135413 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:137449 original size:15 final size:15
Alignment explanation
Indices: 137429--137459 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
137419 ATTTCGTTTG
*
137429 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
137444 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
137459 G
1 G
137460 GACATTTTTA
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:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Done.