Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 24 of 352
Found at i:7656162 original size:25 final size:26
Alignment explanation
Indices: 7656134--7656187 Score: 92
Period size: 25 Copynumber: 2.1 Consensus size: 26
7656124 AGGCTCATTC
*
7656134 TCCTTCTTCCGTTCTTCAT-TTCTTT
1 TCCTTCTTCCGTTCTTCATCTTCTCT
7656159 TCCTTCTTCCGTTCTTCATCTTCTCT
1 TCCTTCTTCCGTTCTTCATCTTCTCT
7656185 TCC
1 TCC
7656188 AGGTAAAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
25 19 0.70
26 8 0.30
ACGTcount: A:0.04, C:0.37, G:0.04, T:0.56
Consensus pattern (26 bp):
TCCTTCTTCCGTTCTTCATCTTCTCT
Found at i:7659444 original size:55 final size:55
Alignment explanation
Indices: 7659356--7659459 Score: 154
Period size: 55 Copynumber: 1.9 Consensus size: 55
7659346 TCTTAGGTCC
* *
7659356 AACTTAAAATATGACTTGGATATAGTATCCTTAAAAGGCTGGCAAGCTTTAAACA
1 AACTTAAAATATGACTTAGATATAGTATCCTTAAAAGGCTGACAAGCTTTAAACA
** * *
7659411 AACTTAAAATATGGGTTAGATGTAGTATTCTTAAAAGGCTGACAAGCTT
1 AACTTAAAATATGACTTAGATATAGTATCCTTAAAAGGCTGACAAGCTT
7659460 AAAAAGTTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 43 1.00
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.31
Consensus pattern (55 bp):
AACTTAAAATATGACTTAGATATAGTATCCTTAAAAGGCTGACAAGCTTTAAACA
Found at i:7664290 original size:6 final size:7
Alignment explanation
Indices: 7664273--7664297 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
7664263 CCCAGAATAA
7664273 AAAAAAG
1 AAAAAAG
7664280 AAAAAAG
1 AAAAAAG
7664287 AAAAAAG
1 AAAAAAG
7664294 AAAA
1 AAAA
7664298 GTGAACGGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:7673484 original size:14 final size:14
Alignment explanation
Indices: 7673467--7673501 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
7673457 TTATTATTTC
**
7673467 TTAATTAATTTAAA
1 TTAATTAATAAAAA
7673481 TTAATTAATAAAAA
1 TTAATTAATAAAAA
7673495 TTAATTA
1 TTAATTA
7673502 TGACACAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
TTAATTAATAAAAA
Found at i:7678694 original size:6 final size:6
Alignment explanation
Indices: 7678677--7678751 Score: 55
Period size: 6 Copynumber: 12.2 Consensus size: 6
7678667 TTCTTCTTTC
* * *
7678677 TTTCTT TCTCTT TTTC-T TTCCTT TTTC-T TTTCTG TTTCGTT TTTGCTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTC-TT TTT-CTT
**
7678725 TGTCTCTT TTTCGA TTTCTT TTTCTT T
1 T-T-TCTT TTTCTT TTTCTT TTTCTT T
7678752 CATTTATTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
5 9 0.17
6 29 0.55
7 8 0.15
8 6 0.11
9 1 0.02
ACGTcount: A:0.01, C:0.20, G:0.07, T:0.72
Consensus pattern (6 bp):
TTTCTT
Found at i:7678708 original size:12 final size:12
Alignment explanation
Indices: 7678677--7678706 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
7678667 TTCTTCTTTC
7678677 TTTCTTTCTCTT
1 TTTCTTTCTCTT
7678689 TTTCTTTC-CTT
1 TTTCTTTCTCTT
7678700 TTTCTTT
1 TTTCTTT
7678707 TCTGTTTCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTCTTTCTCTT
Found at i:7678709 original size:16 final size:16
Alignment explanation
Indices: 7678664--7678707 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 16
7678654 CCTAGCCTTG
*
7678664 TCTTTCT-TCTTTCTT
1 TCTTTCTCTTTTTCTT
7678679 TCTTTCTCTTTTTCTT
1 TCTTTCTCTTTTTCTT
*
7678695 TCCTTTTTCTTTT
1 T-CTTTCTCTTTT
7678708 CTGTTTCGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 7 0.28
16 8 0.32
17 10 0.40
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (16 bp):
TCTTTCTCTTTTTCTT
Found at i:7696857 original size:30 final size:31
Alignment explanation
Indices: 7696814--7696872 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
7696804 ATAACGGTTC
**
7696814 AAAAGATCCAATTAATTATTATTTTTAAATT
1 AAAAGATCCAATTAATTACAATTTTTAAATT
*
7696845 AAAAG-TCTAATTAATTACAATTTTTAAA
1 AAAAGATCCAATTAATTACAATTTTTAAA
7696873 AAACCAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.42
Consensus pattern (31 bp):
AAAAGATCCAATTAATTACAATTTTTAAATT
Found at i:7697850 original size:18 final size:18
Alignment explanation
Indices: 7697800--7697850 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 18
7697790 ACCTAATCTG
7697800 AATTTAATTTAAATAATAA
1 AATTTAATTTAAAT-ATAA
* *
7697819 AATGTATTTTTAAAT-TAA
1 AATTTA-ATTTAAATATAA
7697837 AATTTAATTATAAA
1 AATTTAATT-TAAA
7697851 AAATGTATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
17 2 0.08
18 12 0.46
19 5 0.19
20 7 0.27
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (18 bp):
AATTTAATTTAAATATAA
Found at i:7703777 original size:105 final size:105
Alignment explanation
Indices: 7703587--7703796 Score: 321
Period size: 105 Copynumber: 2.0 Consensus size: 105
7703577 AGGAGTTCAT
* * * * * *
7703587 GATTTTAAGGTTTGTTGTCAGCTACGATTCTGGTAGAAAGTTGGTTTCTTATAGGGACACTTTAT
1 GATTATAAGGTTCGTTGTCAGCGACGATTCTAGTAGAAAGTTGATCTCTTATAGGGACACTTTAT
* * *
7703652 TGAGAGCAATAGTTATTAAACATGACTTACAACTTTTAGA
66 TGAGAACAATAGTTAATAAACATGACTCACAACTTTTAGA
*
7703692 GATTATAAGGTTCGTTGTCAGCGACGATTCTAGTAGAAAGTTGATCTCTTATAGGGACACTTTGT
1 GATTATAAGGTTCGTTGTCAGCGACGATTCTAGTAGAAAGTTGATCTCTTATAGGGACACTTTAT
*
7703757 TGAGAATAATAGTTAATAAACATGACTCACAACTTTTAGA
66 TGAGAACAATAGTTAATAAACATGACTCACAACTTTTAGA
7703797 AGATAAAACG
Statistics
Matches: 94, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
105 94 1.00
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.36
Consensus pattern (105 bp):
GATTATAAGGTTCGTTGTCAGCGACGATTCTAGTAGAAAGTTGATCTCTTATAGGGACACTTTAT
TGAGAACAATAGTTAATAAACATGACTCACAACTTTTAGA
Found at i:7703826 original size:105 final size:105
Alignment explanation
Indices: 7703610--7703828 Score: 246
Period size: 105 Copynumber: 2.1 Consensus size: 105
7703600 GTTGTCAGCT
* * * * *
7703610 ACGATTCTGGTAGAAAGTTGGTTTCTTATAGGGACACTTTATTGAGAGCAATAGTTATTAAACAT
1 ACGATTCTAGTAGAAAGTTGATCTCTTATAGGGACACTTTATTGAGAACAATAGTTAATAAACAT
* * *** ** *
7703675 GACTTACAACTTTTAGAGATTATAAGGTTCGTTGTCAGCG
66 GACTCACAACTTTTAGAGATTAAAAGAAACGTTGAAAACG
* *
7703715 ACGATTCTAGTAGAAAGTTGATCTCTTATAGGGACACTTTGTTGAGAATAATAGTTAATAAACAT
1 ACGATTCTAGTAGAAAGTTGATCTCTTATAGGGACACTTTATTGAGAACAATAGTTAATAAACAT
*
7703780 GACTCACAACTTTTAGAAGA-TAAAACGAAACTTATGAAAAC-
66 GACTCACAACTTTTAG-AGATTAAAA-GAAACGT-TGAAAACG
7703821 A-GATTCTA
1 ACGATTCTA
7703829 AAGGGGATGA
Statistics
Matches: 95, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
105 84 0.88
106 7 0.07
107 4 0.04
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (105 bp):
ACGATTCTAGTAGAAAGTTGATCTCTTATAGGGACACTTTATTGAGAACAATAGTTAATAAACAT
GACTCACAACTTTTAGAGATTAAAAGAAACGTTGAAAACG
Found at i:7706310 original size:46 final size:44
Alignment explanation
Indices: 7706206--7706313 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
7706196 TGTCTTTGAC
** * * *
7706206 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
7706250 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
7706296 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
7706314 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:7709186 original size:346 final size:346
Alignment explanation
Indices: 7708553--7709241 Score: 1218
Period size: 346 Copynumber: 2.0 Consensus size: 346
7708543 ACCCCGTCAG
7708553 ACTTCAGTATGGCGACAACCAAGCTTTGATGCCACGACATTCTCGATAGTAGCACAACATTAGGT
1 ACTTCAGTATGGCGACAACCAAGCTTTGATGCCACGACATTCTCGATAGTAGCACAACATTAGGT
* *
7708618 AGGGGGTTCTTGGTGTCACGACACCCTTATTAGTGGCCTTAGGTTCATTCACTTCAACCATCAGC
66 AGGGGGTTATCGGTGTCACGACACCCTTATTAGTGGCCTTAGGTTCATTCACTTCAACCATCAGC
*
7708683 TTGTAGTCGCAACCTTAAAGGCTTGAAGTCAAGACATTGGGGTTTAGAGTCACGACACAACACAC
131 TTGTAGTCACAACCTTAAAGGCTTGAAGTCAAGACATTGGGGTTTAGAGTCACGACACAACACAC
*
7708748 CTAATGTTGCGACATCTTTGGTAGACTGCTTCAGGTTGGTTTTTCATTGAAGCTTTACTCCTCTA
196 CTAATGTTGCGACATCTTTGGTAGACTGCTTCAGGTTGGTTTTTCATTAAAGCTTTACTCCTCTA
*
7708813 AGGTGATGGAGGGTCAATATCGTGACACACATGCATCAGTGTTGCAATATCCAAAACAGTTGATG
261 AGGTGATGGAGGGTCAATATCGTGACACACATGCATCAGTGTCGCAATATCCAAAACAGTTGATG
7708878 CTTTCCTCAAGGTTTGGCCAT
326 CTTTCCTCAAGGTTTGGCCAT
* *
7708899 ACTTCAGTATGGCGACAACTAAGCTTTGATGTCACGACATTCTCGATAGTAGCACAACATT-GGT
1 ACTTCAGTATGGCGACAACCAAGCTTTGATGCCACGACATTCTCGATAGTAGCACAACATTAGG-
7708963 TAGGGGGTTATCGGTGTCACGACACCCTTATTAGTGGCCTTAGGTTCATTCACTTCAACCATCAG
65 TAGGGGGTTATCGGTGTCACGACACCCTTATTAGTGGCCTTAGGTTCATTCACTTCAACCATCAG
*
7709028 CTTGTAGTCACAACCTTAAAGGCTTGAAGTCAAGACATTGGGGTTTAGTGTCACGACACAACACA
130 CTTGTAGTCACAACCTTAAAGGCTTGAAGTCAAGACATTGGGGTTTAGAGTCACGACACAACACA
** *
7709093 CCTAATGTTGCGACATCTTTGGTAGACTGCTTCAGGTTGGTTTTTCATTAAATTTTTGCTCCTCT
195 CCTAATGTTGCGACATCTTTGGTAGACTGCTTCAGGTTGGTTTTTCATTAAAGCTTTACTCCTCT
* * *
7709158 AAGGTGATGGAGGGTCAATGTCGTGACACACATGCATTAGTGTCGCAATATCCAAAGCAGTTGAT
260 AAGGTGATGGAGGGTCAATATCGTGACACACATGCATCAGTGTCGCAATATCCAAAACAGTTGAT
* *
7709223 GTTTTTCTCAAGGTTTGGC
325 GCTTTCCTCAAGGTTTGGC
7709242 TATATTTATT
Statistics
Matches: 326, Mismatches: 16, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
345 2 0.01
346 324 0.99
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.30
Consensus pattern (346 bp):
ACTTCAGTATGGCGACAACCAAGCTTTGATGCCACGACATTCTCGATAGTAGCACAACATTAGGT
AGGGGGTTATCGGTGTCACGACACCCTTATTAGTGGCCTTAGGTTCATTCACTTCAACCATCAGC
TTGTAGTCACAACCTTAAAGGCTTGAAGTCAAGACATTGGGGTTTAGAGTCACGACACAACACAC
CTAATGTTGCGACATCTTTGGTAGACTGCTTCAGGTTGGTTTTTCATTAAAGCTTTACTCCTCTA
AGGTGATGGAGGGTCAATATCGTGACACACATGCATCAGTGTCGCAATATCCAAAACAGTTGATG
CTTTCCTCAAGGTTTGGCCAT
Found at i:7713188 original size:22 final size:21
Alignment explanation
Indices: 7713155--7713195 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
7713145 AAATGAAATA
*
7713155 AAAGAAATGAAAAAGAGAAAC
1 AAAGAAACGAAAAAGAGAAAC
*
7713176 AAAGCAAACGAAACAGAGAA
1 AAAG-AAACGAAAAAGAGAA
7713196 GAACAGGGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.68, C:0.10, G:0.20, T:0.02
Consensus pattern (21 bp):
AAAGAAACGAAAAAGAGAAAC
Found at i:7725771 original size:16 final size:16
Alignment explanation
Indices: 7725750--7725793 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
7725740 GATTCAACCT
7725750 TATAAAATTATAAAAA
1 TATAAAATTATAAAAA
*
7725766 TAT-AAATTATTAAAA
1 TATAAAATTATAAAAA
*
7725781 TAACAAAATTATA
1 T-ATAAAATTATA
7725794 TTTTTACTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 12 0.52
16 4 0.17
17 7 0.30
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (16 bp):
TATAAAATTATAAAAA
Found at i:7726737 original size:45 final size:42
Alignment explanation
Indices: 7726651--7726735 Score: 136
Period size: 42 Copynumber: 2.0 Consensus size: 42
7726641 AATTAATCCG
* *
7726651 CAATCATCCTCTACTTATCAACAGCCTGCACAATATCCTCCT
1 CAATCATCATCTACTTATCAACAACCTGCACAATATCCTCCT
7726693 CAATCATCATCCT-CTTATCAACAACCTGCACAATATCCTCCT
1 CAATCATCAT-CTACTTATCAACAACCTGCACAATATCCTCCT
7726735 C
1 C
7726736 CTGAAAGTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
42 38 0.95
43 2 0.05
ACGTcount: A:0.29, C:0.39, G:0.04, T:0.28
Consensus pattern (42 bp):
CAATCATCATCTACTTATCAACAACCTGCACAATATCCTCCT
Found at i:7733762 original size:3 final size:3
Alignment explanation
Indices: 7733756--7733787 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
7733746 ATCATCATCA
7733756 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
7733788 CATTTTTGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:7741593 original size:46 final size:46
Alignment explanation
Indices: 7741526--7741700 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
7741516 TGTAACCCGC
* *
7741526 CCATAAGCGAACTCGGACTCAACTCAACTAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* * * *
7741572 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC--GGAC--GTTCGCAT
* *
7741621 -C-TCA-CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* *
7741664 CCATAAGTGAACTCGGAATCAACTCAACGAGCTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
7741701 TGCCCAAATA
Statistics
Matches: 107, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 3 0.03
45 2 0.02
46 86 0.80
47 2 0.02
48 3 0.03
49 3 0.03
50 3 0.03
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.19
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
Found at i:7743608 original size:53 final size:53
Alignment explanation
Indices: 7743467--7743608 Score: 205
Period size: 53 Copynumber: 2.7 Consensus size: 53
7743457 ATAAGTGCGC
* ** *
7743467 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTAATAATGTGACT
*
7743520 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTAATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTAATAATGTGACT
* *
7743573 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTAT
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT
7743609 GATATGTGAA
Statistics
Matches: 81, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
52 1 0.01
53 80 0.99
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTAATAATGTGACT
Found at i:7751896 original size:45 final size:42
Alignment explanation
Indices: 7751810--7751894 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 42
7751800 AAGTAACCCG
* *
7751810 CAATCATCCTCCACTTATCAGCAGCCTGCACAATATCCTCCT
1 CAATCATCCTCCACTTATCAACAACCTGCACAATATCCTCCT
* * *
7751852 CAATCATCCTCCTCTTATCAACAACCTGGACAATATACTCCT
1 CAATCATCCTCCACTTATCAACAACCTGCACAATATCCTCCT
7751894 C
1 C
7751895 CTGAAAGTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.28, C:0.39, G:0.06, T:0.27
Consensus pattern (42 bp):
CAATCATCCTCCACTTATCAACAACCTGCACAATATCCTCCT
Found at i:7752131 original size:126 final size:126
Alignment explanation
Indices: 7751900--7752157 Score: 394
Period size: 126 Copynumber: 2.0 Consensus size: 126
7751890 TCCTCCTGAA
* *
7751900 AGTAATTCTGAGCTTCTCTCCACACACATTAGCTTCTCTGGTCATAACCAGCAAGACAGTACAAG
1 AGTAATTCTGAGCTCCTCTCCACACACAATAGCTTCTCTGGTCATAACCAGCAAGACAGTACAAG
* * * *
7751965 TTCCTTAGCAGCAAATACGGGAAGTGCTTCACCACTTTACCCGCGTTTGGATCATCAGTTG
66 TTCCTTAGCAGCAAATACGGGAAGTGCCTCACCACTTTACCCGCGTTTAGATCATCAATTC
*
7752026 AGTAATTCTGAGCTCCTCTCTACACACAATAGCTTCTCTGGTCATAA-CAGGCAAGACAGTACAA
1 AGTAATTCTGAGCTCCTCTCCACACACAATAGCTTCTCTGGTCATAACCA-GCAAGACAGTACAA
* * *
7752090 GTTCCTTAGCAGCAAATTCGGGAAGTGCCTCACCTGC-TTACCCGCTTTTAGATCATCAATTC
65 GTTCCTTAGCAGCAAATACGGGAAGTGCCTCACC-ACTTTACCCGCGTTTAGATCATCAATTC
7752152 AGTAAT
1 AGTAAT
7752158 ATGCATTTGT
Statistics
Matches: 120, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
125 2 0.02
126 117 0.98
127 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (126 bp):
AGTAATTCTGAGCTCCTCTCCACACACAATAGCTTCTCTGGTCATAACCAGCAAGACAGTACAAG
TTCCTTAGCAGCAAATACGGGAAGTGCCTCACCACTTTACCCGCGTTTAGATCATCAATTC
Found at i:7767399 original size:16 final size:18
Alignment explanation
Indices: 7767360--7767405 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
7767350 CAAGTTCACA
7767360 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
7767377 ATTTTTATATATTAT-TT
1 ATATTTATATATTATGTT
7767394 A-ATTTATTATAT
1 ATATTTA-TATAT
7767406 ATTAAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 4 0.16
17 13 0.52
18 8 0.32
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:7769529 original size:7 final size:7
Alignment explanation
Indices: 7769517--7769553 Score: 56
Period size: 7 Copynumber: 5.1 Consensus size: 7
7769507 ATATGTATGT
7769517 ATATATC
1 ATATATC
7769524 ATATATC
1 ATATATC
7769531 ATATATC
1 ATATATC
*
7769538 ATATACC
1 ATATATC
7769545 ATATCATC
1 ATAT-ATC
7769553 A
1 A
7769554 ATGTCAAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
7 24 0.89
8 3 0.11
ACGTcount: A:0.43, C:0.19, G:0.00, T:0.38
Consensus pattern (7 bp):
ATATATC
Found at i:7772517 original size:164 final size:161
Alignment explanation
Indices: 7772242--7772560 Score: 530
Period size: 164 Copynumber: 2.0 Consensus size: 161
7772232 CAAGCAGTCA
* *
7772242 CATAAACATTTGCATTCGTACACATAAAAATCATTATTGGCATCCCATACTAATGAAACTGACAC
1 CATAAAAATTTGCATTCATACACATAAAAATCATTATTGGCATCCCATACTAATGAAACTGACAC
* * * *
7772307 GTAATAATTAAGTAGTAAAGACATAATCAATCAATCTAATGGTTGAAACAATCAAAAGCTAATGT
66 ATAATAATTAAGTACTAAAGACATAATCAATAAATATAATGGTTGAAACAATCAAAAGCTAATGT
*
7772372 CTTGCATATATGCAGTTAAAATTATTATCAG
131 CTTGCATATATACAGTTAAAATTATTATCAG
*
7772403 CATAAAAATTTGCATTCATACACATAAAAAAAATCATTATTGGCATCCCATACTAATGAAGCTGA
1 CATAAAAATTTGCATTCATACACAT---AAAAATCATTATTGGCATCCCATACTAATGAAACTGA
*
7772468 CACATAATAATTAAGTACTAAAGACATAATCGATAAATATAATGGTTGAAACAATCAAAAGCTAA
63 CACATAATAATTAAGTACTAAAGACATAATCAATAAATATAATGGTTGAAACAATCAAAAGCTAA
7772533 TGTCTTGCATATATACAGTTAAAATTAT
128 TGTCTTGCATATATACAGTTAAAATTAT
7772561 AGGAAAACAA
Statistics
Matches: 146, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
161 23 0.16
164 123 0.84
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.29
Consensus pattern (161 bp):
CATAAAAATTTGCATTCATACACATAAAAATCATTATTGGCATCCCATACTAATGAAACTGACAC
ATAATAATTAAGTACTAAAGACATAATCAATAAATATAATGGTTGAAACAATCAAAAGCTAATGT
CTTGCATATATACAGTTAAAATTATTATCAG
Found at i:7774620 original size:4 final size:4
Alignment explanation
Indices: 7774611--7774643 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
7774601 GTTTTTTTAA
*
7774611 CTTT CTTT CTTT CTTT CTTT CTTT -TTT CATT CT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CT
7774644 CTTCCGCTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.73
Consensus pattern (4 bp):
CTTT
Found at i:7776209 original size:9 final size:9
Alignment explanation
Indices: 7776195--7776227 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
7776185 TTCTTATATT
7776195 TTTTTTTAC
1 TTTTTTTAC
7776204 TTTTTTTAC
1 TTTTTTTAC
7776213 -TTTTTTAC
1 TTTTTTTAC
7776221 TTTTTTT
1 TTTTTTT
7776228 TCTTATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTTTTTAC
Found at i:7776216 original size:7 final size:8
Alignment explanation
Indices: 7776196--7776226 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
7776186 TCTTATATTT
7776196 TTTTTTAC
1 TTTTTTAC
7776204 TTTTTTTAC
1 -TTTTTTAC
7776213 TTTTTTAC
1 TTTTTTAC
7776221 TTTTTT
1 TTTTTT
7776227 TTCTTATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTTTTAC
Found at i:7776313 original size:36 final size:36
Alignment explanation
Indices: 7776244--7776317 Score: 98
Period size: 36 Copynumber: 2.0 Consensus size: 36
7776234 ATTTTGTCTC
*
7776244 TTTCTTAGATTTTTTTCTTTTTTAAGTTTTATATTAT
1 TTTCTTAGATTTTTTTCTTATTTAAG-TTTATATTAT
7776281 TTTCTTA-ATTTATTTTGCTTATTTAA-TTTATATTAT
1 TTTCTTAGATTT-TTTT-CTTATTTAAGTTTATATTAT
7776317 T
1 T
7776318 AATTTTAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
36 15 0.44
37 11 0.32
38 8 0.24
ACGTcount: A:0.22, C:0.05, G:0.04, T:0.69
Consensus pattern (36 bp):
TTTCTTAGATTTTTTTCTTATTTAAGTTTATATTAT
Found at i:7776322 original size:18 final size:17
Alignment explanation
Indices: 7776271--7776318 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
7776261 TTTTTTAAGT
*
7776271 TTTATATTATTTTCTTAA
1 TTTATATTATTAT-TTAA
* *
7776289 TTTATTTTGCTTATTTAA
1 TTTATATT-ATTATTTAA
7776307 TTTATATTATTA
1 TTTATATTATTA
7776319 ATTTTAAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
17 3 0.12
18 18 0.75
19 3 0.12
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (17 bp):
TTTATATTATTATTTAA
Found at i:7776376 original size:21 final size:21
Alignment explanation
Indices: 7776320--7776393 Score: 60
Period size: 21 Copynumber: 3.4 Consensus size: 21
7776310 ATATTATTAA
* * * *
7776320 TTTTAAAAAATTTGTAATATA
1 TTTTTAAAATTTTATAATATT
*
7776341 TATTTAAAATGTTTTATAATATT
1 TTTTTAAAA--TTTTATAATATT
*
7776364 TTTTTAAAATTTTA-ATTATT
1 TTTTTAAAATTTTATAATATT
7776384 ATTTTTAAAA
1 -TTTTTAAAA
7776394 ATATTTTTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
20 5 0.12
21 21 0.49
23 17 0.40
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (21 bp):
TTTTTAAAATTTTATAATATT
Found at i:7776394 original size:22 final size:23
Alignment explanation
Indices: 7776307--7776395 Score: 78
Period size: 23 Copynumber: 4.0 Consensus size: 23
7776297 GCTTATTTAA
* *
7776307 TTTATATTATTAATTTTAAAAAA
1 TTTATATTATTATTTTTAAAAAT
* * * *
7776330 TTTGTAATA-TATATTTAAAATGT
1 TTTATATTATTATTTTTAAAA-AT
*
7776353 TTTATAATATT-TTTTT-AAAAT
1 TTTATATTATTATTTTTAAAAAT
7776374 TTTA-ATTATTATTTTTAAAAAT
1 TTTATATTATTATTTTTAAAAAT
7776396 ATTTTTTAAC
Statistics
Matches: 52, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
20 5 0.10
21 10 0.19
22 17 0.33
23 19 0.37
24 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
TTTATATTATTATTTTTAAAAAT
Found at i:7776681 original size:18 final size:18
Alignment explanation
Indices: 7776658--7776704 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
7776648 GTGATTATTA
7776658 ATAAATTTAAATATAAAT
1 ATAAATTTAAATATAAAT
*
7776676 ATAAATTTTAA-A-AAAT
1 ATAAATTTAAATATAAAT
*
7776692 ATATA-TTAAATAT
1 ATAAATTTAAATAT
7776705 TATTTTATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
15 4 0.17
16 9 0.38
17 1 0.04
18 10 0.42
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
ATAAATTTAAATATAAAT
Found at i:7776901 original size:27 final size:26
Alignment explanation
Indices: 7776871--7776939 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 26
7776861 AAATTTTAAA
*
7776871 TATAATTTTTAAATACATTTAA-AAATT
1 TATAATTTTTAAATA-ATATAAGAAA-T
*
7776898 TATAATTTTTTAATAATATAAGAAAT
1 TATAATTTTTAAATAATATAAGAAAT
*
7776924 CATAATATTTTAAATA
1 TATAAT-TTTTAAATA
7776940 TTTTTTTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 11 0.31
27 25 0.69
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.46
Consensus pattern (26 bp):
TATAATTTTTAAATAATATAAGAAAT
Found at i:7777076 original size:21 final size:21
Alignment explanation
Indices: 7777034--7777079 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
7777024 TATTATTAAT
*
7777034 TTTAAAAATTTTGTAATGTATA
1 TTTAAAAATTTTATAA-GTATA
7777056 TTTAAAATATTTTATAA-TATA
1 TTTAAAA-ATTTTATAAGTATA
7777077 TTT
1 TTT
7777080 TTTACAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 7 0.32
22 7 0.32
23 8 0.36
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.54
Consensus pattern (21 bp):
TTTAAAAATTTTATAAGTATA
Found at i:7777095 original size:21 final size:21
Alignment explanation
Indices: 7777064--7777110 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
7777054 TATTTAAAAT
7777064 ATTTTATAATA-TATTTTTTACA
1 ATTTTATAATATTA-TTTTTA-A
7777086 ATTTTA-AATATTATTTTTAA
1 ATTTTATAATATTATTTTTAA
7777106 ATTTT
1 ATTTT
7777111 TTTTAACATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.25
21 10 0.42
22 8 0.33
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTTTATAATATTATTTTTAA
Found at i:7777111 original size:21 final size:22
Alignment explanation
Indices: 7777033--7777111 Score: 56
Period size: 21 Copynumber: 3.6 Consensus size: 22
7777023 TTATTATTAA
* * * *
7777033 TTTTAAAAATTTTGTAATGTAT
1 TTTTTAAATTTTTATAATATAT
* *
7777055 ATTTAAAATATTTTATAATATAT
1 TTTTTAAAT-TTTTATAATATAT
7777078 TTTTTACAA-TTTTA-AATAT-T
1 TTTTTA-AATTTTTATAATATAT
7777098 ATTTTTAAATTTTT
1 -TTTTTAAATTTTT
7777112 TTTAACATTA
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
20 3 0.06
21 15 0.32
22 12 0.26
23 15 0.32
24 2 0.04
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (22 bp):
TTTTTAAATTTTTATAATATAT
Found at i:7777229 original size:18 final size:18
Alignment explanation
Indices: 7777206--7777255 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
7777196 GTGACTATTA
7777206 ATAAATTTAAATATAAAT
1 ATAAATTTAAATATAAAT
*
7777224 ATAAATTTTAAA-ATATAT
1 ATAAA-TTTAAATATAAAT
*
7777242 ATTAA-TTAAATATA
1 ATAAATTTAAATATA
7777256 TTTTTTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
16 5 0.18
17 3 0.11
18 14 0.50
19 6 0.21
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
ATAAATTTAAATATAAAT
Found at i:7779241 original size:10 final size:10
Alignment explanation
Indices: 7779188--7779251 Score: 69
Period size: 10 Copynumber: 6.5 Consensus size: 10
7779178 ATTATAAAAC
*
7779188 ATTTAAAATG
1 ATTTTAAATG
*
7779198 ATTTAAAATG
1 ATTTTAAATG
*
7779208 ATTTAAAATG
1 ATTTTAAATG
*
7779218 ATTTTTTAAT-
1 A-TTTTAAATG
7779228 ATTTTAAATG
1 ATTTTAAATG
7779238 ATTTTAAAT-
1 ATTTTAAATG
7779247 ATTTT
1 ATTTT
7779252 TAAAATTTTA
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
9 12 0.24
10 31 0.63
11 6 0.12
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (10 bp):
ATTTTAAATG
Found at i:7780034 original size:22 final size:24
Alignment explanation
Indices: 7780006--7780092 Score: 71
Period size: 22 Copynumber: 3.9 Consensus size: 24
7779996 TAAAAAATAT
7780006 TTTTAAAAATAATAAT-TAAAA-A
1 TTTTAAAAATAATAATATAAAACA
*
7780028 TTTT-AAAA-AATATTATAAAACA
1 TTTTAAAAATAATAATATAAAACA
* **
7780050 TTTTAAATAT-AT-AT-TACAAATT
1 TTTTAAAAATAATAATATA-AAACA
*
7780072 TTTTAAAATTAATAATATAAA
1 TTTTAAAAATAATAATATAAA
7780093 TTAAATAAGT
Statistics
Matches: 50, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
20 5 0.10
21 11 0.22
22 21 0.42
23 7 0.14
24 4 0.08
25 2 0.04
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (24 bp):
TTTTAAAAATAATAATATAAAACA
Found at i:7780036 original size:23 final size:22
Alignment explanation
Indices: 7779999--7780056 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
7779989 ATAAAGTTAA
* *
7779999 AAAATATTTTTAAAAATAATAATT
1 AAAACATTTTAAAAAAT-ATAA-T
*
7780023 AAAA-ATTTTAAAAAATATTAT
1 AAAACATTTTAAAAAATATAAT
7780044 AAAACATTTTAAA
1 AAAACATTTTAAA
7780057 TATATATTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 5 0.16
22 11 0.35
23 11 0.35
24 4 0.13
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (22 bp):
AAAACATTTTAAAAAATATAAT
Found at i:7780041 original size:35 final size:35
Alignment explanation
Indices: 7779920--7780038 Score: 113
Period size: 35 Copynumber: 3.4 Consensus size: 35
7779910 TTATTTTTTT
* *
7779920 AAAATTTTAAAAAATTAATTTGAAAAATACAT-TTT
1 AAAATTTTAAAAAATTAATTTTAAAAATA-ATATTA
*
7779955 AAAATTTTATAAATAATTAATTTTACAAAT-ATA-TA
1 AAAATTTTA-AAA-AATTAATTTTAAAAATAATATTA
* * *
7779990 TAAA-GTTAAAAAA-TATTTTTAAAAATAATAATTA
1 AAAATTTTAAAAAATTAATTTTAAAAATAAT-ATTA
7780024 AAAATTTTAAAAAAT
1 AAAATTTTAAAAAAT
7780039 ATTATAAAAC
Statistics
Matches: 67, Mismatches: 9, Indels: 15
0.74 0.10 0.16
Matches are distributed among these distances:
31 11 0.16
32 4 0.06
33 4 0.06
34 8 0.12
35 23 0.34
36 3 0.04
37 14 0.21
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (35 bp):
AAAATTTTAAAAAATTAATTTTAAAAATAATATTA
Found at i:7780093 original size:23 final size:22
Alignment explanation
Indices: 7780004--7780094 Score: 62
Period size: 23 Copynumber: 4.1 Consensus size: 22
7779994 GTTAAAAAAT
*
7780004 ATTTTTAAAAATAATAAT-TAA
1 ATTTTTTAAAATAATAATATAA
** *
7780025 AAATTTTAAAA-AATATTATAAA
1 ATTTTTTAAAATAATAATAT-AA
** * *
7780047 ACATTTT-AAATATATATTACAA
1 ATTTTTTAAAATA-ATAATATAA
7780069 ATTTTTTAAAATTAATAATATAA
1 ATTTTTTAAAA-TAATAATATAA
7780092 ATT
1 ATT
7780095 AAATAAGTAA
Statistics
Matches: 54, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
20 5 0.09
21 12 0.22
22 16 0.30
23 19 0.35
24 2 0.04
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
ATTTTTTAAAATAATAATATAA
Found at i:7780127 original size:18 final size:18
Alignment explanation
Indices: 7780077--7780128 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
7780067 AAATTTTTTA
*
7780077 AAATTAATAATATAAATT
1 AAATAAATAATATAAATT
* *
7780095 AAATAAGTAAAATAAATT
1 AAATAAATAATATAAATT
7780113 AAGA-AAATAATATAAA
1 AA-ATAAATAATATAAA
7780129 ACTTAAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
18 27 0.96
19 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (18 bp):
AAATAAATAATATAAATT
Found at i:7780178 original size:9 final size:9
Alignment explanation
Indices: 7780164--7780196 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
7780154 AAAATATAAG
7780164 AAAAAAAGT
1 AAAAAAAGT
7780173 -AAAAAAGT
1 AAAAAAAGT
7780181 AAAAAAAGT
1 AAAAAAAGT
7780190 AAAAAAA
1 AAAAAAA
7780197 ATAAGAACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.82, C:0.00, G:0.09, T:0.09
Consensus pattern (9 bp):
AAAAAAAGT
Found at i:7780184 original size:7 final size:8
Alignment explanation
Indices: 7780165--7780195 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
7780155 AAATATAAGA
7780165 AAAAAAGT
1 AAAAAAGT
7780173 AAAAAAGT
1 AAAAAAGT
7780181 AAAAAAAGT
1 -AAAAAAGT
7780190 AAAAAA
1 AAAAAA
7780196 AATAAGAACC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.81, C:0.00, G:0.10, T:0.10
Consensus pattern (8 bp):
AAAAAAGT
Found at i:7781602 original size:74 final size:74
Alignment explanation
Indices: 7781466--7781605 Score: 174
Period size: 74 Copynumber: 1.9 Consensus size: 74
7781456 AATAAACAAC
* * * ** * * *
7781466 AAAATCTCACGAGAAAATATTATGACAATTAAAAAGGACAAAGATAATAAACTCCCATTAAAGCA
1 AAAATCCCACAAGAAAATATTATCACAACAAAAAAAGACAAAGATAATAAACTCCAAATAAAGCA
7781531 CGCAATGAT
66 CGCAATGAT
* *
7781540 AAAATCCCACAAGAAAATATTATCACAACAAAAAAAGACAAAGAT-GTCAATCTCCAAATAAAGC
1 AAAATCCCACAAGAAAATATTATCACAACAAAAAAAGACAAAGATAAT-AAACTCCAAATAAAGC
7781604 AC
65 AC
7781606 ACACCCTGTT
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
73 1 0.02
74 54 0.98
ACGTcount: A:0.54, C:0.19, G:0.10, T:0.18
Consensus pattern (74 bp):
AAAATCCCACAAGAAAATATTATCACAACAAAAAAAGACAAAGATAATAAACTCCAAATAAAGCA
CGCAATGAT
Found at i:7789277 original size:18 final size:18
Alignment explanation
Indices: 7789250--7789285 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
7789240 ACTAAAGTTT
* *
7789250 TATTTTAATAATTTTATA
1 TATTTCAATAATATTATA
7789268 TATTTCAATAATATTATA
1 TATTTCAATAATATTATA
7789286 CAAATATTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (18 bp):
TATTTCAATAATATTATA
Found at i:7798305 original size:15 final size:15
Alignment explanation
Indices: 7798285--7798315 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
7798275 TTGAAGGTAA
7798285 TTTGATTTTTGAATT
1 TTTGATTTTTGAATT
7798300 TTTGATTTTTGAATT
1 TTTGATTTTTGAATT
7798315 T
1 T
7798316 GATTGGGATC
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:0.19, C:0.00, G:0.13, T:0.68
Consensus pattern (15 bp):
TTTGATTTTTGAATT
Found at i:7807608 original size:54 final size:54
Alignment explanation
Indices: 7807527--7807649 Score: 212
Period size: 54 Copynumber: 2.3 Consensus size: 54
7807517 TGAGGTGTAA
* *
7807527 GTCCATGCA-AACTTTTCGTTACCACAATCCTGGCATGATTCTTTCACAATATT
1 GTCCATGCAGGACTTGTCGTTACCACAATCCTGGCATGATTCTTTCACAATATT
*
7807580 GTCCATGCAGGACTTGTCGTTACCACAATCCTGGCATGATTCTTTCACGATATT
1 GTCCATGCAGGACTTGTCGTTACCACAATCCTGGCATGATTCTTTCACAATATT
7807634 GTCCATGCAGGACTTG
1 GTCCATGCAGGACTTG
7807650 ACATGACCCA
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
53 9 0.14
54 57 0.86
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (54 bp):
GTCCATGCAGGACTTGTCGTTACCACAATCCTGGCATGATTCTTTCACAATATT
Found at i:7812511 original size:9 final size:9
Alignment explanation
Indices: 7812484--7812517 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
7812474 ATCTAATAAA
7812484 TTTATATTT
1 TTTATATTT
* *
7812493 TCTATTTTT
1 TTTATATTT
7812502 TTTATATTT
1 TTTATATTT
7812511 TTTATAT
1 TTTATAT
7812518 GTATTAAGAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTATATTT
Found at i:7816794 original size:19 final size:19
Alignment explanation
Indices: 7816770--7816836 Score: 71
Period size: 19 Copynumber: 3.3 Consensus size: 19
7816760 TGTACTGATA
*
7816770 ATTTTTTATAACAATTAAT
1 ATTTTTTATAAAAATTAAT
7816789 ATTTTTAAACTATAAAAATTAAT
1 ATTTTT----TATAAAAATTAAT
**
7816812 ATTTTTTATAGTAATTAAT
1 ATTTTTTATAAAAATTAAT
7816831 ATTTTT
1 ATTTTT
7816837 AATTTAAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
19 23 0.56
23 18 0.44
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (19 bp):
ATTTTTTATAAAAATTAAT
Found at i:7822728 original size:9 final size:9
Alignment explanation
Indices: 7822699--7822728 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
7822689 TGTTTTCTTG
*
7822699 TTTCTTGTT
1 TTTCTTTTT
7822708 TTTCTTTTT
1 TTTCTTTTT
7822717 TTTCTTTTT
1 TTTCTTTTT
7822726 TTT
1 TTT
7822729 ACTGAAAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.00, C:0.10, G:0.03, T:0.87
Consensus pattern (9 bp):
TTTCTTTTT
Found at i:7849898 original size:18 final size:20
Alignment explanation
Indices: 7849862--7849898 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
7849852 TAATTTTATC
7849862 TAAAACTATCTATAATAATG
1 TAAAACTATCTATAATAATG
*
7849882 TAAAA-TAT-TATATTAAT
1 TAAAACTATCTATAATAAT
7849899 AAAATTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 8 0.50
19 3 0.19
20 5 0.31
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (20 bp):
TAAAACTATCTATAATAATG
Found at i:7850294 original size:22 final size:24
Alignment explanation
Indices: 7850267--7850313 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
7850257 AATTTATACT
7850267 TTTTGGT-C-GCACTTTATAATCA
1 TTTTGGTACAGCACTTTATAATCA
**
7850289 TTTTGGTACATTACTTTATAATCA
1 TTTTGGTACAGCACTTTATAATCA
7850313 T
1 T
7850314 ACATTATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 7 0.33
23 1 0.05
24 13 0.62
ACGTcount: A:0.26, C:0.15, G:0.11, T:0.49
Consensus pattern (24 bp):
TTTTGGTACAGCACTTTATAATCA
Found at i:7850722 original size:3 final size:3
Alignment explanation
Indices: 7850714--7850741 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
7850704 CTAAACCCAC
7850714 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
7850742 TAAAAAGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:7864038 original size:112 final size:112
Alignment explanation
Indices: 7863836--7864051 Score: 371
Period size: 112 Copynumber: 1.9 Consensus size: 112
7863826 CATACAATTC
* * * *
7863836 ATTATTATGAATATTTTTTATTATTGGATTAATAGAAGTTTCTTCATTAATTATTCAAAATAAAA
1 ATTAATATGAATATCTTTTATCATTGGATTAATAGAAGTTTCTTCATTAATTATTCAAAACAAAA
7863901 GTAAATAATGAGCTAAGCTAACTTGGCATTAAATAAAAACACGATTT
66 GTAAATAATGAGCTAAGCTAACTTGGCATTAAATAAAAACACGATTT
7863948 ATTAATATGAATATCTTTTATCATTGGATTAAT-GAGAGTTTCTTCATTAATTATTCAAAACAAA
1 ATTAATATGAATATCTTTTATCATTGGATTAATAGA-AGTTTCTTCATTAATTATTCAAAACAAA
*
7864012 AGTAAATAATGGGCTAAGCTAACTTGGCATTAAATAAAAA
65 AGTAAATAATGAGCTAAGCTAACTTGGCATTAAATAAAAA
7864052 TGAGCATCAC
Statistics
Matches: 98, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
111 2 0.02
112 96 0.98
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.38
Consensus pattern (112 bp):
ATTAATATGAATATCTTTTATCATTGGATTAATAGAAGTTTCTTCATTAATTATTCAAAACAAAA
GTAAATAATGAGCTAAGCTAACTTGGCATTAAATAAAAACACGATTT
Found at i:7868389 original size:45 final size:45
Alignment explanation
Indices: 7868339--7868504 Score: 314
Period size: 45 Copynumber: 3.7 Consensus size: 45
7868329 ATAATTCACA
*
7868339 AATTATGCATGATGTTGGTCAAATGCTTCCTCAAATTCTTCCATG
1 AATTATGCATGATGTTGGCCAAATGCTTCCTCAAATTCTTCCATG
7868384 AATTATGCATGATGTTGGCCAAATGCTTCCTCAAATTCTTCCATG
1 AATTATGCATGATGTTGGCCAAATGCTTCCTCAAATTCTTCCATG
7868429 AATTATGCATGATGTTGGCCAAATGCTTCCTCAAATTCTTCCATG
1 AATTATGCATGATGTTGGCCAAATGCTTCCTCAAATTCTTCCATG
*
7868474 AATTATGCATGATGTTGGTCAAATGCTTCCT
1 AATTATGCATGATGTTGGCCAAATGCTTCCT
7868505 TAATTTCATG
Statistics
Matches: 119, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 119 1.00
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (45 bp):
AATTATGCATGATGTTGGCCAAATGCTTCCTCAAATTCTTCCATG
Found at i:7868868 original size:20 final size:20
Alignment explanation
Indices: 7868843--7868897 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
7868833 ACGAGTTAAA
*
7868843 TTGAGCTTGAATGAGCTGAC
1 TTGAGCTTGAATGAGCTAAC
*
7868863 TTGAGCATGAATGAGCTAAC
1 TTGAGCTTGAATGAGCTAAC
*
7868883 TTGAGCTCGAATGAG
1 TTGAGCTTGAATGAG
7868898 TTGAACCACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (20 bp):
TTGAGCTTGAATGAGCTAAC
Found at i:7871227 original size:19 final size:19
Alignment explanation
Indices: 7871185--7871230 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
7871175 TTCAATCACT
*
7871185 TTTTTTTTTTTAATTTCGA
1 TTTTTTTTTTGAATTTCGA
* **
7871204 ATTTTTTTTTGAATTTCTC
1 TTTTTTTTTTGAATTTCGA
7871223 TTTTTTTT
1 TTTTTTTT
7871231 AATACCGAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.13, C:0.07, G:0.04, T:0.76
Consensus pattern (19 bp):
TTTTTTTTTTGAATTTCGA
Found at i:7872117 original size:45 final size:45
Alignment explanation
Indices: 7872068--7872390 Score: 529
Period size: 45 Copynumber: 7.2 Consensus size: 45
7872058 TCGGCCATGG
* * * * *
7872068 TGCTTCCTCAATTTGTTCCTTAAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
*
7872113 TGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
*
7872158 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
7872203 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
* * * **
7872248 TGCTTCCTTAATTTGTTCCACAAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
*
7872293 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
7872338 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
7872383 TGCTTCCT
1 TGCTTCCT
7872391 TAATTTCATG
Statistics
Matches: 257, Mismatches: 21, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 257 1.00
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.38
Consensus pattern (45 bp):
TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
Found at i:7872754 original size:20 final size:20
Alignment explanation
Indices: 7872729--7872783 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
7872719 ACGAGTTAAA
* *
7872729 TTGAGCTTGAATGAGCTGAC
1 TTGAGCTCGAATGAGCTAAC
*
7872749 TTGAGCACGAATGAGCTAAC
1 TTGAGCTCGAATGAGCTAAC
7872769 TTGAGCTCGAATGAG
1 TTGAGCTCGAATGAG
7872784 TTGAACCACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (20 bp):
TTGAGCTCGAATGAGCTAAC
Found at i:7873380 original size:22 final size:22
Alignment explanation
Indices: 7873352--7873419 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
7873342 CCTATTGTTG
7873352 TTTTGTTATTATTTTTTCATTA
1 TTTTGTTATTATTTTTTCATTA
* *
7873374 TTTTGTTATCA-TTTTGCAATTA
1 TTTTGTTATTATTTTTTC-ATTA
* *
7873396 TATTGCTATTATTATTTT-ATTA
1 TTTTGTTATTATT-TTTTCATTA
7873418 TT
1 TT
7873420 ATTTAGGTAT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
21 5 0.14
22 27 0.75
23 1 0.03
24 3 0.08
ACGTcount: A:0.22, C:0.06, G:0.06, T:0.66
Consensus pattern (22 bp):
TTTTGTTATTATTTTTTCATTA
Found at i:7873387 original size:11 final size:11
Alignment explanation
Indices: 7873352--7873419 Score: 59
Period size: 11 Copynumber: 6.2 Consensus size: 11
7873342 CCTATTGTTG
7873352 TTTTGTTATTA
1 TTTTGTTATTA
7873363 TTTT-TTCATTA
1 TTTTGTT-ATTA
*
7873374 TTTTGTTATCA
1 TTTTGTTATTA
**
7873385 TTTTGCAATTA
1 TTTTGTTATTA
* *
7873396 TATTGCTATTA
1 TTTTGTTATTA
7873407 TTATT-TTATTA
1 TT-TTGTTATTA
7873418 TT
1 TT
7873420 ATTTAGGTAT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
10 2 0.04
11 40 0.87
12 4 0.09
ACGTcount: A:0.22, C:0.06, G:0.06, T:0.66
Consensus pattern (11 bp):
TTTTGTTATTA
Found at i:7879427 original size:20 final size:19
Alignment explanation
Indices: 7879398--7879481 Score: 64
Period size: 20 Copynumber: 4.3 Consensus size: 19
7879388 AAAATTAAAA
*
7879398 AAAAAATTAAAATAATTTTC
1 AAAAATTTAAAA-AATTTTC
** *
7879418 AAAAATTTAAAATTTATTTA
1 AAAAATTTAAAAAAT-TTTC
*
7879438 AAAAATATATAAAAAAATTT-
1 AAAAAT-T-TAAAAAATTTTC
7879458 AAAAATTT-AAAAATTTTC
1 AAAAATTTAAAAAATTTTC
*
7879476 TAAAAT
1 AAAAAT
7879482 AATAATTTTT
Statistics
Matches: 51, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
17 8 0.16
18 6 0.12
19 2 0.04
20 26 0.51
21 4 0.08
22 5 0.10
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAAATTTAAAAAATTTTC
Found at i:7886666 original size:23 final size:22
Alignment explanation
Indices: 7886597--7886672 Score: 75
Period size: 21 Copynumber: 3.5 Consensus size: 22
7886587 TCCTGATCAG
** *
7886597 AATACGACACATAAAGTGCCTA
1 AATACGACACACGAGGTGCCTA
* *
7886619 AA-ACGACACACGAGTTGTCT-
1 AATACGACACACGAGGTGCCTA
*
7886639 GATACGACACACGAGGTGCCTAA
1 AATACGACACACGAGGTGCCT-A
7886662 AATACGACACA
1 AATACGACACA
7886673 TAAAGTGTCT
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
20 1 0.02
21 29 0.69
22 2 0.05
23 10 0.24
ACGTcount: A:0.41, C:0.25, G:0.18, T:0.16
Consensus pattern (22 bp):
AATACGACACACGAGGTGCCTA
Found at i:7888531 original size:13 final size:13
Alignment explanation
Indices: 7888515--7888552 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
7888505 ATGATGGTTT
7888515 ATAATTATATATA
1 ATAATTATATATA
7888528 ATAA-T-TATATA
1 ATAATTATATATA
*
7888539 ATATTTATATATA
1 ATAATTATATATA
7888552 A
1 A
7888553 CCTAAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
11 9 0.41
12 2 0.09
13 11 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
ATAATTATATATA
Found at i:7900147 original size:23 final size:23
Alignment explanation
Indices: 7900121--7900166 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
7900111 AGGAATGCAA
**
7900121 TGCTTTCCTTTTAATTTTTATTT
1 TGCTTTCCTTTTAAGGTTTATTT
*
7900144 TGCTTTGCTTTTAAGGTTTATTT
1 TGCTTTCCTTTTAAGGTTTATTT
7900167 GTTTATCTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.13, C:0.11, G:0.11, T:0.65
Consensus pattern (23 bp):
TGCTTTCCTTTTAAGGTTTATTT
Found at i:7901637 original size:20 final size:18
Alignment explanation
Indices: 7901612--7901648 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
7901602 ATTGCTAAGT
7901612 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
7901632 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
7901649 TATGAGTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:7901912 original size:10 final size:10
Alignment explanation
Indices: 7901897--7901996 Score: 61
Period size: 10 Copynumber: 10.5 Consensus size: 10
7901887 AAATATGATG
7901897 ATTTTTATAT
1 ATTTTTATAT
7901907 ATTTTTATA-
1 ATTTTTATAT
*
7901916 AATTTTATAT
1 ATTTTTATAT
7901926 -TTCTTTATAT
1 ATT-TTTATAT
7901936 -TTTTTATAAT
1 ATTTTTAT-AT
* **
7901946 ATTCTTA-CG
1 ATTTTTATAT
*
7901955 A-CTTTATA-
1 ATTTTTATAT
*
7901963 ATTTTTTTAT
1 ATTTTTATAT
*
7901973 ATTTCTATAT
1 ATTTTTATAT
*
7901983 A-TTTTATAA
1 ATTTTTATAT
7901992 ATTTT
1 ATTTT
7901997 CATGAATTTT
Statistics
Matches: 68, Mismatches: 14, Indels: 16
0.69 0.14 0.16
Matches are distributed among these distances:
8 4 0.06
9 27 0.40
10 32 0.47
11 5 0.07
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.64
Consensus pattern (10 bp):
ATTTTTATAT
Found at i:7901923 original size:19 final size:19
Alignment explanation
Indices: 7901899--7902046 Score: 76
Period size: 19 Copynumber: 7.7 Consensus size: 19
7901889 ATATGATGAT
7901899 TTTTATATATTTTTATAAA
1 TTTTATATATTTTTATAAA
**
7901918 TTTTATAT-TTCTTTATATT
1 TTTTATATATT-TTTATAAA
* **
7901937 TTTTATAATATTCTTA-CGA
1 TTTTAT-ATATTTTTATAAA
* * *
7901956 CTTTATA-ATTTTTTTATA
1 TTTTATATATTTTTATAAA
7901974 TTTCTATATA-TTTTATAAA
1 TTT-TATATATTTTTATAAA
7901993 TTTTCATGA-A-TTTTATAAAA
1 TTTT-AT-ATATTTTTAT-AAA
* * *
7902013 TTTTACAAATTTTTAATAAT
1 TTTTATATATTTTT-ATAAA
7902033 TTTTA-ATAATTTTT
1 TTTTATAT-ATTTTT
7902047 GTTTCTAATT
Statistics
Matches: 99, Mismatches: 17, Indels: 25
0.70 0.12 0.18
Matches are distributed among these distances:
17 5 0.05
18 8 0.08
19 51 0.52
20 31 0.31
21 4 0.04
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.61
Consensus pattern (19 bp):
TTTTATATATTTTTATAAA
Found at i:7902033 original size:29 final size:29
Alignment explanation
Indices: 7901983--7902045 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
7901973 ATTTCTATAT
* *
7901983 ATTTTATAAATTTTCATGAATTTTATAA-A
1 ATTTTACAAATTTTAATGAATTTT-TAATA
7902012 ATTTTACAAATTTTTAAT-AATTTTTAATA
1 ATTTTACAAA-TTTTAATGAATTTTTAATA
7902041 ATTTT
1 ATTTT
7902046 TGTTTCTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 3 0.10
29 21 0.70
30 6 0.20
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.56
Consensus pattern (29 bp):
ATTTTACAAATTTTAATGAATTTTTAATA
Found at i:7902036 original size:20 final size:18
Alignment explanation
Indices: 7901984--7902046 Score: 56
Period size: 20 Copynumber: 3.2 Consensus size: 18
7901974 TTTCTATATA
*
7901984 TTTTATAAATTTTCATGAAT
1 TTTTA-AAATTTTAAT-AAT
7902004 TTTATAAAATTTTACA-AAT
1 TTT-TAAAATTTTA-ATAAT
7902023 TTTTAATAATTTTTAATAAT
1 TTTTAA-AA-TTTTAATAAT
7902043 TTTT
1 TTTT
7902047 GTTTCTAATT
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
18 3 0.08
19 9 0.24
20 22 0.59
21 3 0.08
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (18 bp):
TTTTAAAATTTTAATAAT
Found at i:7902096 original size:29 final size:29
Alignment explanation
Indices: 7902064--7902122 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
7902054 ATTTATAATA
* *
7902064 AAATTTAAGT-ATTTTTTATATTTTTATTT
1 AAATTTAA-TAATTTTTAAAATTTTTATTT
7902093 AAATTTAATAATTTTTAAAATTTTTATTT
1 AAATTTAATAATTTTTAAAATTTTTATTT
7902122 A
1 A
7902123 TTTTTTTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 1 0.04
29 26 0.96
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (29 bp):
AAATTTAATAATTTTTAAAATTTTTATTT
Found at i:7902118 original size:9 final size:10
Alignment explanation
Indices: 7902020--7902046 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
7902010 AAATTTTACA
7902020 AATTTTTAAT
1 AATTTTTAAT
7902030 AATTTTTAAT
1 AATTTTTAAT
7902040 AATTTTT
1 AATTTTT
7902047 GTTTCTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
AATTTTTAAT
Found at i:7914955 original size:11 final size:11
Alignment explanation
Indices: 7914939--7914969 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
7914929 ACATTTAAGT
7914939 TCTGAATATCA
1 TCTGAATATCA
7914950 TCTGAATATCA
1 TCTGAATATCA
*
7914961 TTTGAATAT
1 TCTGAATAT
7914970 TGCTCCAGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (11 bp):
TCTGAATATCA
Found at i:7916396 original size:19 final size:19
Alignment explanation
Indices: 7916360--7916397 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
7916350 TTTTTATAAG
*
7916360 GGTGTTTTTGTTTTTTGTT
1 GGTGTTTTTGTTTGTTGTT
7916379 GGTGTTTTATG-TTGTTGTT
1 GGTGTTTT-TGTTTGTTGTT
7916398 TTGATGATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.03, C:0.00, G:0.29, T:0.68
Consensus pattern (19 bp):
GGTGTTTTTGTTTGTTGTT
Found at i:7917624 original size:28 final size:28
Alignment explanation
Indices: 7917586--7917644 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
7917576 TGCAAAGCCT
7917586 TTTATGTTCTTTTAGATATGTAATGTCC
1 TTTATGTTCTTTTAGATATGTAATGTCC
7917614 TTTATGTTCTTTTAGATATGTAATGTCC
1 TTTATGTTCTTTTAGATATGTAATGTCC
7917642 TTT
1 TTT
7917645 CTCTTGTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.20, C:0.10, G:0.14, T:0.56
Consensus pattern (28 bp):
TTTATGTTCTTTTAGATATGTAATGTCC
Found at i:7927549 original size:75 final size:75
Alignment explanation
Indices: 7927426--7927578 Score: 288
Period size: 75 Copynumber: 2.0 Consensus size: 75
7927416 AATTATCTTA
* *
7927426 ACACAGCAATATCTTACCCCTAAATGCTTCCCCAATCTGAATGGTTCCTCCAAAACGATAGTTAG
1 ACACAGCAATATCTCACCCCTAAATGCTTCCCCAATCTGAATGGTTCCTCCAAAACAATAGTTAG
7927491 CTCAACCAAT
66 CTCAACCAAT
7927501 ACACAGCAATATCTCACCCCTAAATGCTTCCCCAATCTGAATGGTTCCTCCAAAACAATAGTTAG
1 ACACAGCAATATCTCACCCCTAAATGCTTCCCCAATCTGAATGGTTCCTCCAAAACAATAGTTAG
7927566 CTCAACCAAT
66 CTCAACCAAT
7927576 ACA
1 ACA
7927579 AAGCTTTCAT
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 76 1.00
ACGTcount: A:0.35, C:0.31, G:0.10, T:0.24
Consensus pattern (75 bp):
ACACAGCAATATCTCACCCCTAAATGCTTCCCCAATCTGAATGGTTCCTCCAAAACAATAGTTAG
CTCAACCAAT
Found at i:7928290 original size:19 final size:19
Alignment explanation
Indices: 7928268--7928306 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
7928258 TGCAAATGAC
*
7928268 ATTAAAAAACACCAACTCG
1 ATTAAAAAACACCAAATCG
7928287 ATTAAAAAACACCAAATCG
1 ATTAAAAAACACCAAATCG
7928306 A
1 A
7928307 GTCACACAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.56, C:0.23, G:0.05, T:0.15
Consensus pattern (19 bp):
ATTAAAAAACACCAAATCG
Found at i:7928447 original size:26 final size:26
Alignment explanation
Indices: 7928414--7928465 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
7928404 GCTAGTCAAT
7928414 ACAATATTGCACTAATCCCAATCACA
1 ACAATATTGCACTAATCCCAATCACA
7928440 ACAATATTGCACTAATCCCAATCACA
1 ACAATATTGCACTAATCCCAATCACA
7928466 CAACAACAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.31, G:0.04, T:0.23
Consensus pattern (26 bp):
ACAATATTGCACTAATCCCAATCACA
Found at i:7935428 original size:30 final size:30
Alignment explanation
Indices: 7935392--7935457 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
7935382 GGTTTCCAGT
* *
7935392 TTTTAAGGGTCC-AAATTTTTTTTTACCAAC
1 TTTTAAGGGACCTAAATTTTTTTCT-CCAAC
*
7935422 TTTTAAGGGACCTAAATTTTTTTCTCTAAC
1 TTTTAAGGGACCTAAATTTTTTTCTCCAAC
7935452 TTTTAA
1 TTTTAA
7935458 AAAATCTACC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
30 21 0.66
31 11 0.34
ACGTcount: A:0.27, C:0.15, G:0.09, T:0.48
Consensus pattern (30 bp):
TTTTAAGGGACCTAAATTTTTTTCTCCAAC
Found at i:7938061 original size:30 final size:31
Alignment explanation
Indices: 7938006--7938076 Score: 76
Period size: 30 Copynumber: 2.3 Consensus size: 31
7937996 ATTTCTAATT
* *
7938006 TTTTTAAATTTTATAATATTTTATTTT-GAC
1 TTTTTAAAATTTATAATATTTTATTTTAGAA
7938036 TTTTTAAAATTTA-AA-ATTATATATTTTAGAA
1 TTTTTAAAATTTATAATATT-T-TATTTTAGAA
7938067 TTTTATAAAA
1 TTTT-TAAAA
7938077 AAATATTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
28 3 0.09
29 3 0.09
30 18 0.51
31 6 0.17
32 5 0.14
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.56
Consensus pattern (31 bp):
TTTTTAAAATTTATAATATTTTATTTTAGAA
Found at i:7938095 original size:23 final size:23
Alignment explanation
Indices: 7938036--7938096 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
7938026 TTATTTTGAC
**
7938036 TTTTTAAA-ATT-TAAAATTATA
1 TTTTTAAATATTATAAAAAAATA
*
7938057 TATTTTAGAATTTTATAAAAAAATA
1 T-TTTTA-AATATTATAAAAAAATA
7938082 TTTTTAAATATTATA
1 TTTTTAAATATTATA
7938097 CATGATTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
21 1 0.03
22 5 0.16
23 10 0.31
24 7 0.22
25 9 0.28
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
TTTTTAAATATTATAAAAAAATA
Found at i:7938301 original size:20 final size:19
Alignment explanation
Indices: 7938268--7938324 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 19
7938258 ATCAAAAGTG
7938268 TTTTTTAATATTTAATATTTAA
1 TTTTTT-AT-TTTAA-ATTTAA
*
7938290 TTTTTTATTTTAAATTTAG
1 TTTTTTATTTTAAATTTAA
7938309 TATTTTTATTTTAAAT
1 T-TTTTTATTTTAAAT
7938325 AAACTTAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
19 6 0.18
20 19 0.58
21 2 0.06
22 6 0.18
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTTTTATTTTAAATTTAA
Found at i:7939554 original size:3 final size:3
Alignment explanation
Indices: 7939546--7939580 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
7939536 CCAGCACTTT
* *
7939546 CAA CAA CAA CAA CAA CAA CAC CAG CAA CAA CAA CA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CA
7939581 GCATCAGCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.60, C:0.37, G:0.03, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:7939575 original size:18 final size:18
Alignment explanation
Indices: 7939552--7939592 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
7939542 CTTTCAACAA
7939552 CAACAACAACAACACCAG
1 CAACAACAACAACACCAG
* *
7939570 CAACAACAACAGCATCAG
1 CAACAACAACAACACCAG
7939588 CAACA
1 CAACA
7939593 GCTGTGGCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.54, C:0.37, G:0.07, T:0.02
Consensus pattern (18 bp):
CAACAACAACAACACCAG
Found at i:7939582 original size:12 final size:12
Alignment explanation
Indices: 7939546--7939594 Score: 62
Period size: 12 Copynumber: 4.1 Consensus size: 12
7939536 CCAGCACTTT
*
7939546 CAACAACAACAA
1 CAACAACAACAG
*
7939558 CAACAACACCAG
1 CAACAACAACAG
7939570 CAACAACAACAG
1 CAACAACAACAG
* *
7939582 CATCAGCAACAG
1 CAACAACAACAG
7939594 C
1 C
7939595 TGTGGCTCAG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.53, C:0.37, G:0.08, T:0.02
Consensus pattern (12 bp):
CAACAACAACAG
Found at i:7949905 original size:37 final size:37
Alignment explanation
Indices: 7949855--7949929 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
7949845 AACTTACCTG
7949855 GGGCCCTACCCATTTAGAAAACGAGCCTTATTTTTTT
1 GGGCCCTACCCATTTAGAAAACGAGCCTTATTTTTTT
7949892 GGGCCCTACCCATTTAGAAAACGAGCCTTATTTTTTT
1 GGGCCCTACCCATTTAGAAAACGAGCCTTATTTTTTT
7949929 G
1 G
7949930 TCCAAGCCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (37 bp):
GGGCCCTACCCATTTAGAAAACGAGCCTTATTTTTTT
Found at i:7952747 original size:15 final size:15
Alignment explanation
Indices: 7952720--7952785 Score: 52
Period size: 13 Copynumber: 4.6 Consensus size: 15
7952710 AGTATTTAAG
7952720 TATA-AATAT-ATAT
1 TATATAATATAATAT
7952733 TATATAATATAATAT
1 TATATAATATAATAT
*
7952748 TAT-T-ATATTATAT
1 TATATAATATAATAT
* *
7952761 TAGTTTAATAATAATAA
1 TA-TATAAT-ATAATAT
7952778 TA-ATAATA
1 TATATAATA
7952786 AAACAAATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
13 14 0.33
14 8 0.19
15 12 0.28
16 2 0.05
17 7 0.16
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (15 bp):
TATATAATATAATAT
Found at i:7952813 original size:17 final size:16
Alignment explanation
Indices: 7952791--7952841 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
7952781 TAATAAAACA
7952791 AATAAAGTAAATAAAAG
1 AATAAAG-AAATAAAAG
*
7952808 AATAAAGAAACAAAAAG
1 AATAAAGAAA-TAAAAG
*
7952825 AA-AAAGAAATAACAG
1 AATAAAGAAATAAAAG
7952840 AA
1 AA
7952842 GGTTGAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 6 0.20
16 10 0.33
17 14 0.47
ACGTcount: A:0.75, C:0.04, G:0.12, T:0.10
Consensus pattern (16 bp):
AATAAAGAAATAAAAG
Found at i:7954327 original size:21 final size:21
Alignment explanation
Indices: 7954302--7954370 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
7954292 TATAATGATT
7954302 ATTATTATGGTTTTATATTAA
1 ATTATTATGGTTTTATATTAA
**
7954323 ATTATTATAATTATTA-ATT-A
1 ATTATTATGGTT-TTATATTAA
* *
7954343 A-CATTATGGTTTTATATTAG
1 ATTATTATGGTTTTATATTAA
7954363 ATTATTAT
1 ATTATTAT
7954371 TATTAGCATT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
18 3 0.08
19 10 0.27
20 3 0.08
21 18 0.49
22 3 0.08
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.55
Consensus pattern (21 bp):
ATTATTATGGTTTTATATTAA
Found at i:7954383 original size:15 final size:14
Alignment explanation
Indices: 7954357--7954387 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
7954347 TATGGTTTTA
7954357 TATTAGATTATTAT
1 TATTAGATTATTAT
7954371 TATTAGCATTATTAT
1 TATTAG-ATTATTAT
7954386 TA
1 TA
7954388 AATAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (14 bp):
TATTAGATTATTAT
Found at i:7954521 original size:8 final size:8
Alignment explanation
Indices: 7954508--7954533 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
7954498 ATATTTGTTA
7954508 ATTAAATT
1 ATTAAATT
7954516 ATTAAATT
1 ATTAAATT
7954524 ATTAAATT
1 ATTAAATT
7954532 AT
1 AT
7954534 GAGATTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
ATTAAATT
Found at i:7954783 original size:12 final size:12
Alignment explanation
Indices: 7954766--7954796 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
7954756 GAAGCAGGGG
7954766 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
7954778 AGAAAAAGGGAA
1 AGAAAAAGAGAA
7954790 AGAAAAA
1 AGAAAAA
7954797 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:7956247 original size:29 final size:30
Alignment explanation
Indices: 7956189--7956245 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
7956179 CCGAGCCTTA
*
7956189 GGGCAAAAATGTAATTATGTAAAAGTTTAG
1 GGGCAAAAATGTAATTATGAAAAAGTTTAG
* *
7956219 GGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGCAAAAATGTAATTATGAAAAAGTT
7956246 AGAGTCGAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.42, C:0.04, G:0.23, T:0.32
Consensus pattern (30 bp):
GGGCAAAAATGTAATTATGAAAAAGTTTAG
Found at i:7956476 original size:13 final size:13
Alignment explanation
Indices: 7956458--7956488 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
7956448 TTCCAGCAAC
7956458 TATGAATTTATTT
1 TATGAATTTATTT
7956471 TATGAATTTATTT
1 TATGAATTTATTT
*
7956484 GATGA
1 TATGA
7956489 TGATCTAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (13 bp):
TATGAATTTATTT
Found at i:7956661 original size:50 final size:50
Alignment explanation
Indices: 7956586--7956824 Score: 370
Period size: 50 Copynumber: 4.8 Consensus size: 50
7956576 TGGGTAAAGA
* *
7956586 GTCCCATGTAAAACCATGTCTGGGACATGACATTGGCACCGAGATGAGAG
1 GTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAG
7956636 GTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAG
1 GTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAG
*
7956686 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAG
1 GTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAG
* * * * * *
7956736 GTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCAACATGAGAAC
1 GTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAG-AG
* *
7956787 ATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 GTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
7956825 TGTTATTATC
Statistics
Matches: 173, Mismatches: 15, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
50 139 0.80
51 34 0.20
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (50 bp):
GTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAG
Found at i:7961082 original size:39 final size:37
Alignment explanation
Indices: 7961015--7961107 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
7961005 ACCAGAATGG
* *
7961015 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
7961054 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
7961091 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
7961108 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:7961667 original size:120 final size:117
Alignment explanation
Indices: 7961440--7961674 Score: 427
Period size: 120 Copynumber: 2.0 Consensus size: 117
7961430 TATCAACTAT
7961440 TCAATTTAATTCCCACTCATATAATAATAATAATACTAATAAACAATAATACTAATATTATACTT
1 TCAATTTAATTCCCACTCATATAATAATAATAATACTAATAAACAATAATACTAATATTATACTT
7961505 ACCTCACATTTCTTTACTAGACACATAAATTAAAATTTAGCATTTAATAAAA
66 ACCTCACATTTCTTTACTAGACACATAAATTAAAATTTAGCATTTAATAAAA
7961557 TCAATTTAATTCCCACTCATAATAATAATAATAATACTAATAATA-AATTAATACTAATATTATA
1 TCAATTTAATTCCCACTCAT-ATAATAATAATAATACTAATAA-ACAA-TAATACTAATATTATA
7961621 CTTACCTCACATTTCATTTACTAGACACATAAATTAAAATTTAGCATTTAATAA
63 CTTACCTCACATTTC-TTTACTAGACACATAAATTAAAATTTAGCATTTAATAA
7961675 TAAATAACTT
Statistics
Matches: 114, Mismatches: 0, Indels: 5
0.96 0.00 0.04
Matches are distributed among these distances:
117 20 0.18
118 24 0.21
119 32 0.28
120 38 0.33
ACGTcount: A:0.46, C:0.16, G:0.02, T:0.37
Consensus pattern (117 bp):
TCAATTTAATTCCCACTCATATAATAATAATAATACTAATAAACAATAATACTAATATTATACTT
ACCTCACATTTCTTTACTAGACACATAAATTAAAATTTAGCATTTAATAAAA
Found at i:7962344 original size:17 final size:16
Alignment explanation
Indices: 7962312--7962345 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
7962302 TTGGCTATTC
*
7962312 TGTTTCTTTCTTCTTT
1 TGTTTCTTTATTCTTT
7962328 TGTTTCTTTTATTCTTT
1 TGTTTC-TTTATTCTTT
7962345 T
1 T
7962346 ATTTTAACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.03, C:0.15, G:0.06, T:0.76
Consensus pattern (16 bp):
TGTTTCTTTATTCTTT
Found at i:7962393 original size:14 final size:14
Alignment explanation
Indices: 7962334--7962384 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
7962324 CTTTTGTTTC
*
7962334 TTTTA-TTCTTTTA
1 TTTTATTTCCTTTA
* *
7962347 TTTTAACTTACTTTA
1 TTTT-ATTTCCTTTA
*
7962362 CTTTATTTCCTTTA
1 TTTTATTTCCTTTA
7962376 TTTTATTTC
1 TTTTATTTC
7962385 TTTTGTTTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
13 4 0.13
14 17 0.57
15 9 0.30
ACGTcount: A:0.18, C:0.14, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTATTTCCTTTA
Found at i:7962553 original size:14 final size:17
Alignment explanation
Indices: 7962534--7962570 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
7962524 ATTTATTTCT
7962534 TAATATAA-T-ATTT-A
1 TAATATAATTAATTTAA
7962548 TAATATAATTAATTTAA
1 TAATATAATTAATTTAA
7962565 TAATAT
1 TAATAT
7962571 CCTTTATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 8 0.40
15 1 0.05
16 4 0.20
17 7 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TAATATAATTAATTTAA
Found at i:7972989 original size:12 final size:12
Alignment explanation
Indices: 7972957--7972982 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
7972947 TGAAAAATTT
7972957 TAAAAATATAAA
1 TAAAAATATAAA
7972969 TAAAAATATAAA
1 TAAAAATATAAA
7972981 TA
1 TA
7972983 CATATATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (12 bp):
TAAAAATATAAA
Found at i:7973014 original size:18 final size:17
Alignment explanation
Indices: 7972991--7973034 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
7972981 TACATATATT
7972991 TTAAAAAAAATCAAGAAA
1 TTAAAAAAAAT-AAGAAA
* *
7973009 TTAAAAATATATAATAAA
1 TTAAAAA-AAATAAGAAA
7973027 TTAAAAAA
1 TTAAAAAA
7973035 TATTTTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 1 0.04
18 19 0.83
19 3 0.13
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.25
Consensus pattern (17 bp):
TTAAAAAAAATAAGAAA
Found at i:7973241 original size:65 final size:63
Alignment explanation
Indices: 7973166--7973315 Score: 180
Period size: 65 Copynumber: 2.4 Consensus size: 63
7973156 TTAAATCGTT
* * *
7973166 AAAATAATTAAACATTTTA-AATTTTATAAAT-TATATATTTTAGAAAAAAATAAAAATAAAAAT
1 AAAATAATTAAACATTTTAGAAATTTAAAAATATATAAATTTT---AAAAAATAAAAATAAAAA-
7973229 AA
62 AA
* *
7973231 AAAATAATTAAACATTTTAGAAATTTAAAAATATATAAATTTTAAAAAATAAAAATTATAAAA
1 AAAATAATTAAACATTTTAGAAATTTAAAAATATATAAATTTTAAAAAATAAAAATAAAAAAA
* *
7973294 AAAATAGTTAATC-TTTTAGAAA
1 AAAATAATTAAACATTTTAGAAA
7973316 AAGTTGGTTA
Statistics
Matches: 76, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
62 9 0.12
63 13 0.17
64 16 0.21
65 19 0.25
66 10 0.13
67 9 0.12
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.35
Consensus pattern (63 bp):
AAAATAATTAAACATTTTAGAAATTTAAAAATATATAAATTTTAAAAAATAAAAATAAAAAAA
Found at i:7973274 original size:17 final size:16
Alignment explanation
Indices: 7973254--7973295 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
7973244 ATTTTAGAAA
*
7973254 TTTAAAAATATATAAAT
1 TTTAAAAA-ATAAAAAT
7973271 TTTAAAAAATAAAAAT
1 TTTAAAAAATAAAAAT
*
7973287 TATAAAAAA
1 TTTAAAAAA
7973296 AATAGTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 15 0.65
17 8 0.35
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
TTTAAAAAATAAAAAT
Found at i:7973560 original size:18 final size:18
Alignment explanation
Indices: 7973524--7973559 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
7973514 AAATGCTCGA
7973524 TAAACTTTTAATTTATTT
1 TAAACTTTTAATTTATTT
7973542 TAAA-TTTTAATTTATTT
1 TAAACTTTTAATTTATTT
7973559 T
1 T
7973560 TGAATGTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (18 bp):
TAAACTTTTAATTTATTT
Found at i:7978439 original size:32 final size:28
Alignment explanation
Indices: 7978403--7978466 Score: 76
Period size: 32 Copynumber: 2.2 Consensus size: 28
7978393 TAGGTTAATA
7978403 ATTTAATATAAATATAAATATATATAATTATT
1 ATTTAATAT--ATATAAATA-ATATAA-TATT
*
7978435 ATTTAATATATATAATTAATATAATATT
1 ATTTAATATATATAAATAATATAATATT
7978463 -TTTA
1 ATTTA
7978467 TAACATAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
27 4 0.13
28 4 0.13
29 6 0.19
30 8 0.26
32 9 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (28 bp):
ATTTAATATATATAAATAATATAATATT
Found at i:7978456 original size:9 final size:10
Alignment explanation
Indices: 7978414--7978459 Score: 51
Period size: 9 Copynumber: 4.7 Consensus size: 10
7978404 TTTAATATAA
*
7978414 ATATAAATAT
1 ATATAATTAT
7978424 ATATAATTATT
1 ATATAATTA-T
*
7978435 ATTTAA-TAT
1 ATATAATTAT
7978444 ATATAATTA-
1 ATATAATTAT
7978453 ATATAAT
1 ATATAAT
7978460 ATTTTTATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
9 13 0.42
10 12 0.39
11 6 0.19
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
ATATAATTAT
Found at i:7978459 original size:18 final size:18
Alignment explanation
Indices: 7978413--7978461 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 18
7978403 ATTTAATATA
7978413 AATATAAATATATATAATT
1 AATAT-AATATATATAATT
*
7978432 ATTATTTAATATATATAATT
1 A--ATATAATATATATAATT
7978452 AATATAATAT
1 AATATAATAT
7978462 TTTTATAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 8 0.31
19 1 0.04
20 14 0.54
21 3 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
AATATAATATATATAATT
Found at i:7978461 original size:16 final size:16
Alignment explanation
Indices: 7978400--7978461 Score: 51
Period size: 16 Copynumber: 4.0 Consensus size: 16
7978390 TATTAGGTTA
7978400 ATAATTTAATATAA-AT
1 ATAA-TTAATATAATAT
*
7978416 ATAAATATATATAAT-T
1 ATAATTA-ATATAATAT
* *
7978432 ATTATTTA-AT-ATAT
1 ATAATTAATATAATAT
7978446 ATAATTAATATAATAT
1 ATAATTAATATAATAT
7978462 TTTTATAACA
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
13 2 0.06
14 9 0.26
15 5 0.14
16 19 0.54
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATAATTAATATAATAT
Found at i:7983575 original size:18 final size:18
Alignment explanation
Indices: 7983554--7983594 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
7983544 TATTTTCTAA
*
7983554 TATTATTTTCATT-TTATT
1 TATTATTCTCATTGTTA-T
7983572 TATTATTCTCATTGTTAT
1 TATTATTCTCATTGTTAT
7983590 TATTA
1 TATTA
7983595 GCATGTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 18 0.86
19 3 0.14
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.66
Consensus pattern (18 bp):
TATTATTCTCATTGTTAT
Found at i:7996354 original size:34 final size:34
Alignment explanation
Indices: 7996311--7996451 Score: 111
Period size: 34 Copynumber: 3.9 Consensus size: 34
7996301 TCAAACCTTA
*
7996311 AACCCCTAAGCAGTAGGGAAACAGGTCGAGCTTT
1 AACCCCTAAGCAGTAGGGAAACAGGTTGAGCTTT
* * *
7996345 AACCCCTAAGCAATAGGGTAACAAGCTGAATTTTGAAGATCTT
1 AACCCCTAAGCAGTAGGGAAAC-AG--G----TTG-AGCT-TT
* *
7996388 ATCATCCTAAGCAGTAGGGAAACAGGTTGAGCTTT
1 AAC-CCCTAAGCAGTAGGGAAACAGGTTGAGCTTT
* * *
7996423 AACCCCTAAACAGTAGGGTAACAAGTTGA
1 AACCCCTAAGCAGTAGGGAAACAGGTTGA
7996452 ATTTTGAAAA
Statistics
Matches: 83, Mismatches: 14, Indels: 20
0.71 0.12 0.17
Matches are distributed among these distances:
34 42 0.51
35 6 0.07
36 3 0.04
37 4 0.05
41 3 0.04
42 3 0.04
43 6 0.07
44 16 0.19
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (34 bp):
AACCCCTAAGCAGTAGGGAAACAGGTTGAGCTTT
Found at i:7996414 original size:78 final size:76
Alignment explanation
Indices: 7996270--7996490 Score: 298
Period size: 78 Copynumber: 2.8 Consensus size: 76
7996260 GGGCTTCAAC
** * * *
7996270 CCCCTAAGCAATAGGGTAACAAGCCAAATTTTCAAACCTTAAACCCCTAAGCAGTAGGGAAACAG
1 CCCCTAAGCAATAGGGTAACAAGCTGAATTTTGAAATCTTACA-CCCTAAGCAGTAGGGAAACAG
7996335 GTCGAGCTTTAA
65 GTCGAGCTTTAA
*
7996347 CCCCTAAGCAATAGGGTAACAAGCTGAATTTTGAAGATCTTATCATCCTAAGCAGTAGGGAAACA
1 CCCCTAAGCAATAGGGTAACAAGCTGAATTTTGAA-ATCTTA-CACCCTAAGCAGTAGGGAAACA
*
7996412 GGTTGAGCTTTAA
64 GGTCGAGCTTTAA
* * * *
7996425 CCCCTAAACAGTAGGGTAACAAGTTGAATTTTGAAAATCTTAACCCCCTAAGCAGTAGGGAAACA
1 CCCCTAAGCAATAGGGTAACAAGCTGAATTTTG-AAATCTT-ACACCCTAAGCAGTAGGGAAACA
7996490 G
64 G
7996491 ATCAAAGAGG
Statistics
Matches: 128, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
77 32 0.25
78 92 0.72
79 4 0.03
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (76 bp):
CCCCTAAGCAATAGGGTAACAAGCTGAATTTTGAAATCTTACACCCTAAGCAGTAGGGAAACAGG
TCGAGCTTTAA
Found at i:7998841 original size:25 final size:25
Alignment explanation
Indices: 7998813--7998871 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
7998803 ATTATATATA
7998813 TATA-TTTTAATACCATATG-TATTAT
1 TATAGTTTT-ATACCAT-TGCTATTAT
*
7998838 TATAGTTTTATACTATTGCTATTAT
1 TATAGTTTTATACCATTGCTATTAT
*
7998863 TATTGTTTT
1 TATAGTTTT
7998872 CGTCATCATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 2 0.07
25 24 0.80
26 4 0.13
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.58
Consensus pattern (25 bp):
TATAGTTTTATACCATTGCTATTAT
Found at i:8008426 original size:17 final size:18
Alignment explanation
Indices: 8008394--8008427 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
8008384 TGATTTTTTT
*
8008394 AAATATATAAAGTTTAAA
1 AAATATATAAAATTTAAA
8008412 AAATAT-TAAAATTTAA
1 AAATATATAAAATTTAA
8008428 TTTTCTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (18 bp):
AAATATATAAAATTTAAA
Found at i:8008905 original size:17 final size:19
Alignment explanation
Indices: 8008885--8008919 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
8008875 TTTTAAATAG
8008885 ACTTT-TTTAA-ATTTTAA
1 ACTTTATTTAATATTTTAA
8008902 ACTTTATTTAATATTTTA
1 ACTTTATTTAATATTTTA
8008920 TAAATTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 5 0.31
19 6 0.38
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (19 bp):
ACTTTATTTAATATTTTAA
Found at i:8008930 original size:17 final size:19
Alignment explanation
Indices: 8008910--8008962 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
8008900 AAACTTTATT
*
8008910 TAATATTTTATAAATTTTAA
1 TAATA-TTTAAAAATTTTAA
8008930 TAATATTTAAAAATTTATAA
1 TAATATTTAAAAATTT-TAA
*
8008950 -AAAATTTAAAAAT
1 TAATATTTAAAAAT
8008963 AATTTTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 22 0.73
20 8 0.27
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TAATATTTAAAAATTTTAA
Found at i:8008950 original size:10 final size:9
Alignment explanation
Indices: 8008914--8008962 Score: 53
Period size: 9 Copynumber: 5.2 Consensus size: 9
8008904 TTTATTTAAT
*
8008914 ATTTTATAA
1 ATTTTAAAA
*
8008923 ATTTTAATA
1 ATTTTAAAA
8008932 ATATTTAAAA
1 AT-TTTAAAA
8008942 ATTTATAAAA
1 ATTT-TAAAA
*
8008952 AATTTAAAA
1 ATTTTAAAA
8008961 AT
1 AT
8008963 AATTTTTTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
9 17 0.52
10 16 0.48
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (9 bp):
ATTTTAAAA
Found at i:8018378 original size:57 final size:57
Alignment explanation
Indices: 8018290--8018403 Score: 228
Period size: 57 Copynumber: 2.0 Consensus size: 57
8018280 TTATGGAGTC
8018290 AGTCCACAAAAAGTATCATGATTAAAAACTCCTTATTGTATACACTTTATCCACCTA
1 AGTCCACAAAAAGTATCATGATTAAAAACTCCTTATTGTATACACTTTATCCACCTA
8018347 AGTCCACAAAAAGTATCATGATTAAAAACTCCTTATTGTATACACTTTATCCACCTA
1 AGTCCACAAAAAGTATCATGATTAAAAACTCCTTATTGTATACACTTTATCCACCTA
8018404 CTTTGTCCAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.39, C:0.23, G:0.07, T:0.32
Consensus pattern (57 bp):
AGTCCACAAAAAGTATCATGATTAAAAACTCCTTATTGTATACACTTTATCCACCTA
Done.