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 183 of 352
Found at i:60156760 original size:46 final size:46
Alignment explanation
Indices: 60156700--60156880 Score: 256
Period size: 46 Copynumber: 3.9 Consensus size: 46
60156690 TTTGACATGA
* * * ** *
60156700 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGCCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCACGT
*
60156746 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
*
60156792 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* *
60156838 TGCCATGGCATCTTTCAACCATGGTCTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCA
60156881 GAGAGCACAC
Statistics
Matches: 124, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
45 4 0.03
46 120 0.97
ACGTcount: A:0.22, C:0.25, G:0.13, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
Found at i:60170819 original size:88 final size:88
Alignment explanation
Indices: 60170665--60171080 Score: 586
Period size: 88 Copynumber: 4.7 Consensus size: 88
60170655 AATCTCCACT
* *
60170665 AGCCTTAACCCCCTAAGTAGTAGGGCAACAGGCTG-GGAATTACAGATCTTATCTCCCTAAGTAG
1 AGCCTTAACCCCCTAAGTAGTAGGGCAACAGGCTGAAG-ATTACAGATCTTATCTCCCTAAGCAG
* *
60170729 TAGTGGAATAGATCGAAGACGGTG
65 TAGTGGAGTAGATCGAAGACAGTG
* * * **
60170753 AGCCTTAAACCCCTAAGTAGTAGGGCAACAGGTTGAAGATTACAGATATTATCTCTTTAAGCAGT
1 AGCCTTAACCCCCTAAGTAGTAGGGCAACAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGT
*
60170818 AGTGGAGTAGATCGAAGA-TGATG
66 AGTGGAGTAGATCGAAGACAG-TG
* * * * *
60170841 AGCCTTAACCCCTTAAGCAGTAGGGCAACAGGCTGAAGATTATAGATCTTATCTCCATAAGTAGT
1 AGCCTTAACCCCCTAAGTAGTAGGGCAACAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGT
* *
60170906 AGTGGAGCAGATCGAAGACAGTA
66 AGTGGAGTAGATCGAAGACAGTG
* * *
60170929 AGCCTTAACCCCCTAAGTAGTAGGGAAACATGCTGGAA-ATTACAGATCTTATCTCTCTAAGCAG
1 AGCCTTAACCCCCTAAGTAGTAGGGCAACAGGCT-GAAGATTACAGATCTTATCTCCCTAAGCAG
*
60170993 TAGTGGAGTAGATCGAATACAGTG
65 TAGTGGAGTAGATCGAAGACAGTG
*
60171017 AGCCTTAACCCCCTAAGCAGTAGGGCAACAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAG
1 AGCCTTAACCCCCTAAGTAGTAGGGCAACAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAG
60171081 CTGTAACACC
Statistics
Matches: 287, Mismatches: 36, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
87 4 0.01
88 278 0.97
89 5 0.02
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.24
Consensus pattern (88 bp):
AGCCTTAACCCCCTAAGTAGTAGGGCAACAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGT
AGTGGAGTAGATCGAAGACAGTG
Found at i:60171078 original size:44 final size:43
Alignment explanation
Indices: 60170703--60171080 Score: 143
Period size: 44 Copynumber: 8.6 Consensus size: 43
60170693 CAGGCTGGGA
* *
60170703 ATTACAGATCTTATCTCCCTAAGTAGTAGTGGAATAGATCGAAG
1 ATTACAGATCTTATCTCCCTAAGCAGTAG-GGAACAGATCGAAG
* * * * * * *
60170747 ACGGT-GAG-CCTTAAAC-CCCTAAGTAGTAGGGCAACAGGTTGAAG
1 A--TTACAGATCTT-ATCTCCCTAAGCAGTAGGG-AACAGATCGAAG
* ** **
60170791 ATTACAGATATTATCTCTTTAAGCAGTAGTGGAGTAGATCGAAG
1 ATTACAGATCTTATCTCCCTAAGCAGTAG-GGAACAGATCGAAG
* * * * *
60170835 ATGA-TGAGCCTTAAC-CCCTTAAGCAGTAGGGCAACAG-GCTGAAG
1 ATTACAGA-TCTTATCTCCC-TAAGCAGTAGGG-AACAGATC-GAAG
* * * *
60170879 ATTATAGATCTTATCTCCATAAGTAGTAGTGGAGCAGATCGAAG
1 ATTACAGATCTTATCTCCCTAAGCAGTAG-GGAACAGATCGAAG
* * * * * * *
60170923 ACAGTA-AG-CCTTAACCCCCTAAGTAGTAGGGAAACATGCTGGAA-
1 --ATTACAGATCTTATCTCCCTAAGCAGTAGGG-AACA-GATCGAAG
* **
60170967 ATTACAGATCTTATCTCTCTAAGCAGTAGTGGAGTAGATCG-A-
1 ATTACAGATCTTATCTCCCTAAGCAGTAG-GGAACAGATCGAAG
* * * *
60171009 A-TACAGTGAGCCTTAACCCCCTAAGCAGTAGGGCAACAG-GCTGAAG
1 ATTACA--GA-TCTTATCTCCCTAAGCAGTAGGG-AACAGATC-GAAG
60171055 ATTACAGATCTTATCTCCCTAAGCAG
1 ATTACAGATCTTATCTCCCTAAGCAG
60171081 CTGTAACACC
Statistics
Matches: 238, Mismatches: 65, Indels: 62
0.65 0.18 0.17
Matches are distributed among these distances:
41 4 0.02
42 6 0.03
43 24 0.10
44 170 0.71
45 25 0.11
46 5 0.02
47 4 0.02
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.24
Consensus pattern (43 bp):
ATTACAGATCTTATCTCCCTAAGCAGTAGGGAACAGATCGAAG
Found at i:60172055 original size:42 final size:42
Alignment explanation
Indices: 60171992--60172118 Score: 170
Period size: 42 Copynumber: 3.0 Consensus size: 42
60171982 CTTCGTTTTC
** *
60171992 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACAT-A
* *
60172035 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
60172076 TCGATGCCATAGCCCAACTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAACTATGGTCTTACAC-ATATTCACATA
60172117 TC
1 TC
60172119 TTACTGATGC
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
41 10 0.13
42 63 0.84
43 2 0.03
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
Found at i:60172144 original size:46 final size:46
Alignment explanation
Indices: 60172077--60172200 Score: 142
Period size: 47 Copynumber: 2.7 Consensus size: 46
60172067 ATTCATATAT
* * **
60172077 CGATGCCATAGCCCA-ACTATGGTCTTACACGAATCACATATCTTAC
1 CGATGCCATATCCCAGA-TATGGTCTTACACGAAGCACATATCACAC
* * * *
60172123 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTACAC-GAAGCACATATCACAC
*
60172170 CAATGCCATATCCCAGATATGGTCTTACACG
1 CGATGCCATATCCCAGATATGGTCTTACACG
60172201 GAAATCACTT
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
46 26 0.40
47 39 0.60
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (46 bp):
CGATGCCATATCCCAGATATGGTCTTACACGAAGCACATATCACAC
Found at i:60172268 original size:31 final size:31
Alignment explanation
Indices: 60172225--60172404 Score: 270
Period size: 31 Copynumber: 5.8 Consensus size: 31
60172215 CTTGTCACTT
* * *
60172225 GTAGCCGAAGCTACCACTATTCATTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
* *
60172256 GTAGCTGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
60172287 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
* *
60172318 GTAGCCGGAACTACCAATTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
*
60172349 GTAGCCGGAACTACCACTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
* *
60172380 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGGAGCTACCACTTTTCACT
60172405 TGTCATTTGT
Statistics
Matches: 136, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 136 1.00
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.28
Consensus pattern (31 bp):
GTAGCCGGAGCTACCACTTTTCACTGATCAG
Found at i:60172490 original size:50 final size:51
Alignment explanation
Indices: 60172380--60172508 Score: 181
Period size: 50 Copynumber: 2.5 Consensus size: 51
60172370 CACTGATCAG
* * * *
60172380 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGCTCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
* *
60172431 GTAGTCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
60172481 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
60172509 TGCCATGGTC
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
50 43 0.62
51 26 0.38
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:60174325 original size:21 final size:21
Alignment explanation
Indices: 60174301--60174374 Score: 60
Period size: 21 Copynumber: 3.3 Consensus size: 21
60174291 ATGTTTATGG
60174301 CTCGATTTATGAAGTTGAGGT
1 CTCGATTTATGAAGTTGAGGT
** *
60174322 CTCGATATTTCTAAAAATGTTTATGG-
1 CTCG--A-TT-TATGAA-GTTGA-GGT
60174348 CTCGATTTATGAAGTTGAGGT
1 CTCGATTTATGAAGTTGAGGT
60174369 CTCGAT
1 CTCGAT
60174375 ACCTCATTCT
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
20 2 0.05
21 14 0.35
22 4 0.10
23 3 0.08
24 3 0.08
25 4 0.10
26 8 0.20
27 2 0.05
ACGTcount: A:0.26, C:0.12, G:0.23, T:0.39
Consensus pattern (21 bp):
CTCGATTTATGAAGTTGAGGT
Found at i:60174330 original size:47 final size:47
Alignment explanation
Indices: 60174279--60174375 Score: 194
Period size: 47 Copynumber: 2.1 Consensus size: 47
60174269 CACTCCATAA
60174279 ATATTTCTAAAAATGTTTATGGCTCGATTTATGAAGTTGAGGTCTCG
1 ATATTTCTAAAAATGTTTATGGCTCGATTTATGAAGTTGAGGTCTCG
60174326 ATATTTCTAAAAATGTTTATGGCTCGATTTATGAAGTTGAGGTCTCG
1 ATATTTCTAAAAATGTTTATGGCTCGATTTATGAAGTTGAGGTCTCG
60174373 ATA
1 ATA
60174376 CCTCATTCTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (47 bp):
ATATTTCTAAAAATGTTTATGGCTCGATTTATGAAGTTGAGGTCTCG
Found at i:60174714 original size:88 final size:88
Alignment explanation
Indices: 60174561--60174932 Score: 491
Period size: 88 Copynumber: 4.2 Consensus size: 88
60174551 TTACAACAGC
* *
60174561 AGTGGAGCAGATTGAAGACGGTGAGCCTTAACCCCCTAAGCAGTAAGGCAACAGGCTGGAAATTA
1 AGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAAGGCAACAGGCTGGAAATTA
60174626 CAGATCTTATC-CCCTTAAGCAGT
66 CAGATCTTATCTCCC-TAAGCAGT
* *
60174649 AGTGGAGCAGATCGAAGACAGTGAGCCTTAACCTCCTAAGCAATAAGGCAACAGGCT-GAAGATT
1 AGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAAGGCAACAGGCTGGAA-ATT
* *
60174713 ACAGATCTTATCTCCCTAAGAAAAT
65 ACAGATCTTATCTCCCTAAG-CAGT
* * * *
60174738 AGTGGAGTAGATCGAAGACAGTGAGCCTTAACCCCCCAAGTAGTAGGGCAACAGGCT-GAAAGTT
1 AGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAAGGCAACAGGCTGGAAA-TT
* **
60174802 ACAGATCTGATCTCCCTAATTAGT
65 ACAGATCTTATCTCCCTAAGCAGT
* * * * * *
60174826 AGTGGAGCAGATCGAAGACAATAAACTTTAACCCCCTAAGTAGT-GGGACAACAGGCTGGAAATT
1 AGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAAGG-CAACAGGCTGGAAATT
*
60174890 ACAGATCCTATCTCCCTAAGCAGT
65 ACAGATCTTATCTCCCTAAGCAGT
60174914 AGTGGAGCAGATCGAAGAC
1 AGTGGAGCAGATCGAAGAC
60174933 GGTAAGCAGT
Statistics
Matches: 252, Mismatches: 26, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
87 6 0.02
88 163 0.65
89 83 0.33
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (88 bp):
AGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAAGGCAACAGGCTGGAAATTA
CAGATCTTATCTCCCTAAGCAGT
Found at i:60174880 original size:177 final size:176
Alignment explanation
Indices: 60174561--60174932 Score: 491
Period size: 177 Copynumber: 2.1 Consensus size: 176
60174551 TTACAACAGC
* * *
60174561 AGTGGAGCAGATTGAAGACGGTGAGCCTTAACCCCCTAAGCAGTAAGGCAACAGGCTGGAAATTA
1 AGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCCAAGCAGTAAGGCAACAGGCTGGAAATTA
* * * * *
60174626 CAGATCTTATCCCCTTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCTCCTAAGCA
66 CAGATCTGATCCCCTTAAGCAGTAGTGGAGCAGATCGAAGACAATAAACCTTAACCCCCTAAGCA
*
60174691 ATAAGGCAACAGGCT-GAAGATTACAGATCTTATCTCCCTAAGAAAAT
131 ATAAGGCAACAGGCTGGAA-ATTACAGATCCTATCTCCCTAAG-AAAT
* * *
60174738 AGTGGAGTAGATCGAAGACAGTGAGCCTTAACCCCCCAAGTAGTAGGGCAACAGGCT-GAAAGTT
1 AGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCCAAGCAGTAAGGCAACAGGCTGGAAA-TT
** *
60174802 ACAGATCTGATCTCCC-TAATTAGTAGTGGAGCAGATCGAAGACAATAAACTTTAACCCCCTAAG
65 ACAGATCTGATC-CCCTTAAGCAGTAGTGGAGCAGATCGAAGACAATAAACCTTAACCCCCTAAG
* * * * *
60174866 TAGT-GGGACAACAGGCTGGAAATTACAGATCCTATCTCCCTAAGCAGT
129 CAATAAGG-CAACAGGCTGGAAATTACAGATCCTATCTCCCTAAGAAAT
60174914 AGTGGAGCAGATCGAAGAC
1 AGTGGAGCAGATCGAAGAC
60174933 GGTAAGCAGT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
176 26 0.15
177 138 0.81
178 6 0.04
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (176 bp):
AGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCCAAGCAGTAAGGCAACAGGCTGGAAATTA
CAGATCTGATCCCCTTAAGCAGTAGTGGAGCAGATCGAAGACAATAAACCTTAACCCCCTAAGCA
ATAAGGCAACAGGCTGGAAATTACAGATCCTATCTCCCTAAGAAAT
Found at i:60176555 original size:3 final size:3
Alignment explanation
Indices: 60176531--60176697 Score: 97
Period size: 3 Copynumber: 54.7 Consensus size: 3
60176521 TGGATTGCTA
* * * * *
60176531 ATT AAT ATT ATC ATT GTT ATT ATT ATT CTT ACT ATT ATAT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT
* * * * * *
60176577 GTT ATT ATT CTT ACT ATT ATAT GTT ATT ATT ATT ATCG A-T ACT ATT
1 ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT AT-T ATT ATT ATT
* * * * *
60176623 TTT ATT ACT ATT ATT -TAT ATAC ATT ATT ATT ATT ACT ATT ATT TTT
1 ATT ATT ATT ATT ATT AT-T AT-T ATT ATT ATT ATT ATT ATT ATT ATT
* *
60176669 CATT ATT ATT ATT -TT ACT ATT ATT TTT AT
1 -ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
60176698 ATACTATAGT
Statistics
Matches: 121, Mismatches: 35, Indels: 16
0.70 0.20 0.09
Matches are distributed among these distances:
2 4 0.03
3 105 0.87
4 12 0.10
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:60176589 original size:28 final size:28
Alignment explanation
Indices: 60176547--60176692 Score: 119
Period size: 28 Copynumber: 5.4 Consensus size: 28
60176537 ATTATCATTG
60176547 TTATTATTATTCTTACTATTATATATTA
1 TTATTATTATTCTTACTATTATATATTA
* *
60176575 TTGTTATTATTCTTACTATTATATGTTA
1 TTATTATTATTCTTACTATTATATATTA
* *
60176603 TTATTATTA-TCGATACTATT-TTTATTA
1 TTATTATTATTC-TTACTATTATATATTA
* *
60176630 CTATTATT-TAT-ATAC-ATTAT-TATTA
1 TTATTATTAT-TCTTACTATTATATATTA
* * *
60176655 TTACTATTATTTTTCATTATTAT-TATT-
1 TTATTATTATTCTT-ACTATTATATATTA
*
60176682 TTACTATTATT
1 TTATTATTATT
60176693 TTTATATACT
Statistics
Matches: 99, Mismatches: 11, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
25 15 0.15
26 7 0.07
27 26 0.26
28 51 0.52
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.61
Consensus pattern (28 bp):
TTATTATTATTCTTACTATTATATATTA
Found at i:60176608 original size:68 final size:68
Alignment explanation
Indices: 60176536--60176692 Score: 176
Period size: 68 Copynumber: 2.3 Consensus size: 68
60176526 TGCTAATTAA
* * * ** *
60176536 TATTATCATTGTTATTATTATTCTTACTATTATATAT-TATTGTTATTATTCTTACTATTATATG
1 TATTATTATTGTTACTATTATTATTACTATTATATATATA-CATTATTATTATTACTATTAT-TG
60176600 TT-AT
64 TTCAT
* * * * *
60176604 TATTATTATCGATACTATTTTTATTACTATTATTTATATACATTATTATTATTACTATTATTTTT
1 TATTATTATTGTTACTATTATTATTACTATTATATATATACATTATTATTATTACTATTATTGTT
60176669 CAT
66 CAT
60176672 TATTATTATT-TTACTATTATT
1 TATTATTATTGTTACTATTATT
60176693 TTTATATACT
Statistics
Matches: 73, Mismatches: 14, Indels: 5
0.79 0.15 0.05
Matches are distributed among these distances:
67 12 0.16
68 59 0.81
69 2 0.03
ACGTcount: A:0.29, C:0.08, G:0.03, T:0.61
Consensus pattern (68 bp):
TATTATTATTGTTACTATTATTATTACTATTATATATATACATTATTATTATTACTATTATTGTT
CAT
Found at i:60176648 original size:13 final size:13
Alignment explanation
Indices: 60176616--60176693 Score: 72
Period size: 13 Copynumber: 5.8 Consensus size: 13
60176606 TTATTATCGA
60176616 TACTATT-TTTAT
1 TACTATTATTTAT
60176628 TACTATTATTTAT
1 TACTATTATTTAT
60176641 ATAC-ATTATTATTAT
1 -TACTATTA-T-TTAT
60176656 TACTATTATTT-T
1 TACTATTATTTAT
* *
60176668 TCATTATTATTATTT
1 T-ACTATTATT-TAT
60176683 TACTATTATTT
1 TACTATTATTT
60176694 TTATATACTA
Statistics
Matches: 56, Mismatches: 2, Indels: 15
0.77 0.03 0.21
Matches are distributed among these distances:
12 9 0.16
13 20 0.36
14 17 0.30
15 10 0.18
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (13 bp):
TACTATTATTTAT
Found at i:60177954 original size:26 final size:26
Alignment explanation
Indices: 60177924--60177982 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 26
60177914 CAAAAATCAT
* * *
60177924 ATTAAGAGAAATTATTTTCTTAAAAG
1 ATTAAAAGAAACTATTTTATTAAAAG
**
60177950 ATTAAAATTAACTATTTTATTAAAAG
1 ATTAAAAGAAACTATTTTATTAAAAG
*
60177976 ATCAAAA
1 ATTAAAA
60177983 TTTTTAGGTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (26 bp):
ATTAAAAGAAACTATTTTATTAAAAG
Found at i:60182021 original size:12 final size:12
Alignment explanation
Indices: 60181993--60182031 Score: 60
Period size: 12 Copynumber: 3.1 Consensus size: 12
60181983 GGATTTAAAT
60181993 AATAAATATATCAA
1 AATAAATAT-TC-A
60182007 AATAAATATTCA
1 AATAAATATTCA
60182019 AATAAATATTCA
1 AATAAATATTCA
60182031 A
1 A
60182032 TCTGTTGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 14 0.56
13 2 0.08
14 9 0.36
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (12 bp):
AATAAATATTCA
Found at i:60184465 original size:13 final size:14
Alignment explanation
Indices: 60184442--60184470 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
60184432 AAGTTACAGT
60184442 AAGAGAAAAAAGAA
1 AAGAGAAAAAAGAA
60184456 AAGA-AAAAAAGAA
1 AAGAGAAAAAAGAA
60184469 AA
1 AA
60184471 CAATGGGTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAGAGAAAAAAGAA
Found at i:60195854 original size:21 final size:21
Alignment explanation
Indices: 60195828--60195868 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
60195818 ATCTGCTCAA
* *
60195828 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
60195849 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
60195869 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:60213141 original size:3 final size:3
Alignment explanation
Indices: 60213133--60213212 Score: 160
Period size: 3 Copynumber: 26.7 Consensus size: 3
60213123 TTTCTAAGTT
60213133 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
60213181 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
60213213 TGTTTGTCAT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 77 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:60213840 original size:25 final size:24
Alignment explanation
Indices: 60213794--60213841 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
60213784 AAGTTATAAA
60213794 TAAAAAATATCTCTAGAAAATTTC
1 TAAAAAATATCTCTAGAAAATTTC
* * *
60213818 TAAAATAATTTCTTTAGAGAATTT
1 TAAAA-AATATCTCTAGAAAATTT
60213842 TCTCTCTACA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.46, C:0.08, G:0.06, T:0.40
Consensus pattern (24 bp):
TAAAAAATATCTCTAGAAAATTTC
Found at i:60214889 original size:45 final size:45
Alignment explanation
Indices: 60214825--60214916 Score: 175
Period size: 45 Copynumber: 2.0 Consensus size: 45
60214815 GGATTCAATC
60214825 CACATGAAGTATCATGATTGAAAACTCCCTATTGTATACTCTTTA
1 CACATGAAGTATCATGATTGAAAACTCCCTATTGTATACTCTTTA
*
60214870 CACATGAAGTATCATGATTGAAAATTCCCTATTGTATACTCTTTA
1 CACATGAAGTATCATGATTGAAAACTCCCTATTGTATACTCTTTA
60214915 CA
1 CA
60214917 AAAGCAATTC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.36
Consensus pattern (45 bp):
CACATGAAGTATCATGATTGAAAACTCCCTATTGTATACTCTTTA
Found at i:60220703 original size:26 final size:26
Alignment explanation
Indices: 60220647--60220697 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
60220637 TTGGCATTTA
60220647 TTTTTGTCATTGATATTAGCTGCAGG
1 TTTTTGTCATTGATATTAGCTGCAGG
*
60220673 TTTTTGTCATTGGTATTAGCTGCAG
1 TTTTTGTCATTGATATTAGCTGCAG
60220698 TATTTTACGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.18, C:0.12, G:0.24, T:0.47
Consensus pattern (26 bp):
TTTTTGTCATTGATATTAGCTGCAGG
Found at i:60224367 original size:18 final size:18
Alignment explanation
Indices: 60224340--60224376 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
60224330 GCTTACTGCC
60224340 ATATACTATGATTTGAGT
1 ATATACTATGATTTGAGT
*
60224358 ATATATTATGATTTGAGT
1 ATATACTATGATTTGAGT
60224376 A
1 A
60224377 AATTAATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.35, C:0.03, G:0.16, T:0.46
Consensus pattern (18 bp):
ATATACTATGATTTGAGT
Found at i:60224571 original size:120 final size:120
Alignment explanation
Indices: 60224358--60225296 Score: 1790
Period size: 120 Copynumber: 7.8 Consensus size: 120
60224348 TGATTTGAGT
*
60224358 ATATATTATGATTTGAGTAAATTAATATAAGAACATTAATTATTAAGAATTTCATTAAATTATAT
1 ATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATAT
60224423 ATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
66 ATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
*
60224478 ATATATTATGATTTGAGTAAATTAATATAAGAACATTAATTATTAAGAATTTCATTAAATTATAT
1 ATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATAT
60224543 ATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATA-TTTACAGTATC
66 ATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
60224597 ATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATAT
1 ATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATAT
60224662 ATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
66 ATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
*
60224717 ATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATAT
1 ATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATAT
60224782 ATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
66 ATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
*
60224837 ATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATAT
1 ATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATAT
60224902 ATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
66 ATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
*
60224957 ATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATAT
1 ATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATAT
60225022 ATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
66 ATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
* *
60225077 ATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATAT
1 ATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATAT
*
60225142 ATTTTAATTAAATTATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
66 ATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
*
60225197 ATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATAT
1 ATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATAT
60225262 ATTTTAATTAAAATATATTTAATAATAATTATGTT
66 ATTTTAATTAAAATATATTTAATAATAATTATGTT
60225297 TAAATATGAT
Statistics
Matches: 810, Mismatches: 8, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
119 118 0.15
120 692 0.85
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.48
Consensus pattern (120 bp):
ATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATAT
ATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
Found at i:60224793 original size:18 final size:17
Alignment explanation
Indices: 60224765--60224799 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
60224755 ATTATTAAGA
*
60224765 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
60224782 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
60224800 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:60224913 original size:18 final size:17
Alignment explanation
Indices: 60224885--60224919 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
60224875 ATTATTAAGA
*
60224885 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
60224902 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
60224920 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:60225153 original size:18 final size:17
Alignment explanation
Indices: 60225125--60225159 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
60225115 ATTATTAAGA
60225125 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
60225142 ATTTTAATTAAATTATAT
1 ATTTT-ATTAAATTATAT
60225160 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:60225540 original size:16 final size:16
Alignment explanation
Indices: 60225515--60225583 Score: 111
Period size: 16 Copynumber: 4.2 Consensus size: 16
60225505 GATTAGCTAT
*
60225515 TACACATCTAATCCAA
1 TACACCTCTAATCCAA
60225531 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
60225548 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
60225564 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
60225580 TACA
1 TACA
60225584 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
16 33 0.67
17 16 0.33
ACGTcount: A:0.38, C:0.36, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:60225558 original size:33 final size:32
Alignment explanation
Indices: 60225515--60225583 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
60225505 GATTAGCTAT
60225515 TACACATCTAATCCAATACACCTCTAATCCCAA
1 TACACATCTAATCCAATACACCTCTAAT-CCAA
* *
60225548 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACATCTAATCCAATACACCTCTAATCCAA
60225580 TACA
1 TACA
60225584 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 8 0.24
33 26 0.76
ACGTcount: A:0.38, C:0.36, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACATCTAATCCAATACACCTCTAATCCAA
Found at i:60234619 original size:31 final size:31
Alignment explanation
Indices: 60234583--60234641 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
60234573 TCGTGCTTTT
60234583 TAGGATTATGAGAATTGATTTTAATGTATTG
1 TAGGATTATGAGAATTGATTTTAATGTATTG
60234614 TAGGATTATGAGAATTGATTTTAATGTA
1 TAGGATTATGAGAATTGATTTTAATGTA
60234642 ATGTTAATAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.34, C:0.00, G:0.22, T:0.44
Consensus pattern (31 bp):
TAGGATTATGAGAATTGATTTTAATGTATTG
Found at i:60247206 original size:24 final size:25
Alignment explanation
Indices: 60247178--60247224 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
60247168 ATATTCGTAA
*
60247178 TTAAATTAAAA-TTAATCTTATTCT
1 TTAAATTAAAATTTAATATTATTCT
60247202 TTAAATTAAAATTTAATATTATT
1 TTAAATTAAAATTTAATATTATT
60247225 TTGATAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (25 bp):
TTAAATTAAAATTTAATATTATTCT
Found at i:60256423 original size:22 final size:22
Alignment explanation
Indices: 60256398--60256445 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
60256388 GTGTAAGGTG
60256398 ATAATA-ATATACAAATGAAATA
1 ATAATATATATACAAATGAAA-A
* *
60256420 ATAATATCTATACAATTGAAAA
1 ATAATATATATACAAATGAAAA
60256442 ATAA
1 ATAA
60256446 ATAAATAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.29
Consensus pattern (22 bp):
ATAATATATATACAAATGAAAA
Found at i:60256643 original size:22 final size:22
Alignment explanation
Indices: 60256618--60256659 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
60256608 TAAATACAAT
* *
60256618 TATAATATATGTATTGTTTAAG
1 TATAAGATATGTATTATTTAAG
*
60256640 TATAAGATATTTATTATTTA
1 TATAAGATATGTATTATTTA
60256660 TTATGTTTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (22 bp):
TATAAGATATGTATTATTTAAG
Found at i:60257816 original size:44 final size:43
Alignment explanation
Indices: 60257767--60257858 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 43
60257757 TGTTCAGGGA
60257767 TACTTCGACCTT-GAGTCAATGAGGCA-TTATAAGTGTCGTACTGT
1 TACTTCGA-CTTCGAGTCAATGAGGCACTTAT--GTGTCGTACTGT
* *
60257811 TACTTCGACTTCGAGTCGATGAGGCACCTTGTGTGTCGTACTGT
1 TACTTCGACTTCGAGTCAATGAGGCA-CTTATGTGTCGTACTGT
60257855 TACT
1 TACT
60257859 ATTACTTCAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
43 3 0.07
44 37 0.86
46 3 0.07
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.35
Consensus pattern (43 bp):
TACTTCGACTTCGAGTCAATGAGGCACTTATGTGTCGTACTGT
Found at i:60264826 original size:24 final size:24
Alignment explanation
Indices: 60264799--60264866 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 24
60264789 TACAAAGTAG
60264799 TTTAAACTACATGATATATGAA-AA
1 TTTAAACTACATGATATAT-AAGAA
* * *
60264823 TTTAAAGTCCATGATATGTAAGAA
1 TTTAAACTACATGATATATAAGAA
* * *
60264847 TTTAAAATAAATAATATATA
1 TTTAAACTACATGATATATA
60264867 CATAAAAACG
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
23 2 0.06
24 33 0.94
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.35
Consensus pattern (24 bp):
TTTAAACTACATGATATATAAGAA
Found at i:60266830 original size:25 final size:27
Alignment explanation
Indices: 60266789--60266838 Score: 77
Period size: 25 Copynumber: 1.9 Consensus size: 27
60266779 TAGTCCTAAT
60266789 TAGTTTAAGATTAAATTGAAAATAAAC
1 TAGTTTAAGATTAAATTGAAAATAAAC
*
60266816 TAGTTT-AG-TTAAATTTAAAATAA
1 TAGTTTAAGATTAAATTGAAAATAA
60266839 TTGAAGAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 14 0.64
26 2 0.09
27 6 0.27
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.38
Consensus pattern (27 bp):
TAGTTTAAGATTAAATTGAAAATAAAC
Found at i:60278488 original size:35 final size:34
Alignment explanation
Indices: 60278449--60278585 Score: 141
Period size: 35 Copynumber: 3.9 Consensus size: 34
60278439 ATCAAATGCG
*
60278449 ACCTTAAAAAGGTTGAGATAGACCTTTTTAAGGCA
1 ACCTTAAAAAGGTTGAGATAGACC-GTTTAAGGCA
* * *
60278484 ACCTTAAAAAGGTT-AGGATAAACCCGTATAAGTCA
1 ACCTTAAAAAGGTTGA-GATAGA-CCGTTTAAGGCA
* * *
60278519 ACCTTAAAAATGTTGGGATAGACACGTCTAAGGCA
1 ACCTTAAAAAGGTTGAGATAGAC-CGTTTAAGGCA
* * *
60278554 ACCTTAAAAATGTTGGGATAGACCATTTAAGG
1 ACCTTAAAAAGGTTGAGATAGACCGTTTAAGG
60278586 GAAAAAAAAT
Statistics
Matches: 87, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
34 9 0.10
35 76 0.87
36 2 0.02
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (34 bp):
ACCTTAAAAAGGTTGAGATAGACCGTTTAAGGCA
Found at i:60282054 original size:15 final size:15
Alignment explanation
Indices: 60281977--60282054 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
60281967 AGAAAACCGA
*
60281977 ATAAAGAAATACAAG
1 ATAAAGAAATCCAAG
* **
60281992 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
60282006 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
60282021 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
60282037 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
60282052 ATA
1 ATA
60282055 CGATACTATG
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
14 2 0.04
15 44 0.90
16 3 0.06
ACGTcount: A:0.56, C:0.14, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:60286316 original size:30 final size:30
Alignment explanation
Indices: 60286241--60286329 Score: 85
Period size: 30 Copynumber: 3.0 Consensus size: 30
60286231 CAAAGATAAT
*
60286241 AAGAAAACC-GAATAAAGAAATACAAGATA
1 AAGAAACCCGGAATAAAGAAATACAAGATA
* *
60286270 GAGAAACCCGGAATAAAGAAAT-CCAGAATA
1 AAGAAACCCGGAATAAAGAAATACAAG-ATA
* **
60286300 AAGAGACCCAGG-ATAAAGAAACCCAAGATA
1 AAGAAACCC-GGAATAAAGAAATACAAGATA
60286330 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
29 10 0.20
30 34 0.69
31 5 0.10
ACGTcount: A:0.57, C:0.16, G:0.18, T:0.09
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATACAAGATA
Found at i:60286324 original size:15 final size:15
Alignment explanation
Indices: 60286252--60286329 Score: 68
Period size: 15 Copynumber: 5.2 Consensus size: 15
60286242 AGAAAACCGA
** *
60286252 ATAAAGAAATACAAG
1 ATAAAGAAACCCAGG
*
60286267 ATAGAGAAACCC-GG
1 ATAAAGAAACCCAGG
* *
60286281 AATAAAGAAATCCAGA
1 -ATAAAGAAACCCAGG
*
60286297 ATAAAGAGACCCAGG
1 ATAAAGAAACCCAGG
*
60286312 ATAAAGAAACCCAAG
1 ATAAAGAAACCCAGG
60286327 ATA
1 ATA
60286330 CGATACTATG
Statistics
Matches: 49, Mismatches: 12, Indels: 4
0.75 0.18 0.06
Matches are distributed among these distances:
14 1 0.02
15 47 0.96
16 1 0.02
ACGTcount: A:0.56, C:0.15, G:0.18, T:0.10
Consensus pattern (15 bp):
ATAAAGAAACCCAGG
Found at i:60293182 original size:40 final size:39
Alignment explanation
Indices: 60293119--60293204 Score: 109
Period size: 40 Copynumber: 2.2 Consensus size: 39
60293109 TAACGACTTA
**
60293119 TCGGCTAAAATGACACTTAGTGTGCGGTTTGAAATAGCT
1 TCGGCTAAAATGACACTTAGTGTGCAATTTGAAATAGCT
* * * *
60293158 TCGGTTAAAAGTGGCACTTGGTGTGCAATTTGAGATAGCT
1 TCGGCTAAAA-TGACACTTAGTGTGCAATTTGAAATAGCT
60293198 TCGGCTA
1 TCGGCTA
60293205 TATATATATA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 9 0.23
40 30 0.77
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (39 bp):
TCGGCTAAAATGACACTTAGTGTGCAATTTGAAATAGCT
Found at i:60297360 original size:27 final size:29
Alignment explanation
Indices: 60297330--60297389 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 29
60297320 TTCTCGCATA
* **
60297330 TATATATAT-TTTTAAAATTTATT-TATG
1 TATACATATGTTTTAAAACCTATTATATG
*
60297357 TATACATATGTTTTTAAACCTATTATATG
1 TATACATATGTTTTAAAACCTATTATATG
60297386 TATA
1 TATA
60297390 AGTGTTTCCT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 8 0.30
28 11 0.41
29 8 0.30
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (29 bp):
TATACATATGTTTTAAAACCTATTATATG
Found at i:60298764 original size:127 final size:129
Alignment explanation
Indices: 60298448--60298778 Score: 398
Period size: 129 Copynumber: 2.6 Consensus size: 129
60298438 AAAAATCCCT
** * *
60298448 TAAAACGAAGGCAATGTTTGATGTTTGGAAATTCGAAAAATTGTGTCCTACCGTGATGGGTTTCG
1 TAAAACG-AGGCAATGTTTGATGTTTGGAAATTCGAGGAATCGTGCCCTACCGTGATGGGTTTCG
* * * * * *
60298513 ATTTCCCGTTTGTTCAAAACAATCGAACCTTCCTTTAGAATTTCATTGGTGTTTTTTCTAAATTC
65 ATTTCCCGTTTGTTCAAAACAATCAAACATTCCTTTAGAATTCCATTCGTGATTCTTCTAAATTC
* * * * * *
60298578 CAAAACAAGGCAATGTTTGATGCTTGGAAATTC-AGGGAACCGTGCCCTATCGTGTTGGGTTTCG
1 TAAAACGAGGCAATGTTTGATGTTTGGAAATTCGA-GGAATCGTGCCCTACCGTGATGGGTTTCG
* * *
60298642 ATTTCTCGTTTGTTCAAAATAATCAAATATTCCTTTAGAATTCCATTCGT-ATTCTT-TAAATTC
65 ATTTCCCGTTTGTTCAAAACAATCAAACATTCCTTTAGAATTCCATTCGTGATTCTTCTAAATTC
** * * *
60298705 TAAAACGAGGCAATGTTCAATGTTTGGAAGTTCGAGGAATCGTGCCCTACCGTGCTGGGTTTCGG
1 TAAAACGAGGCAATGTTTGATGTTTGGAAATTCGAGGAATCGTGCCCTACCGTGATGGGTTTCGA
*
60298770 TTTTCCGTT
66 TTTCCCGTT
60298779 GGACTAAATA
Statistics
Matches: 168, Mismatches: 31, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
127 67 0.40
128 6 0.04
129 90 0.54
130 5 0.03
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.37
Consensus pattern (129 bp):
TAAAACGAGGCAATGTTTGATGTTTGGAAATTCGAGGAATCGTGCCCTACCGTGATGGGTTTCGA
TTTCCCGTTTGTTCAAAACAATCAAACATTCCTTTAGAATTCCATTCGTGATTCTTCTAAATTC
Found at i:60303905 original size:17 final size:17
Alignment explanation
Indices: 60303883--60303915 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
60303873 TTGTATAAAA
60303883 TTTCTT-TTATTGTTAAT
1 TTTCTTATTATT-TTAAT
60303900 TTTCTTATTATTTTAA
1 TTTCTTATTATTTTAA
60303916 AGGCATTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.21, C:0.06, G:0.03, T:0.70
Consensus pattern (17 bp):
TTTCTTATTATTTTAAT
Found at i:60303926 original size:30 final size:30
Alignment explanation
Indices: 60303892--60303954 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
60303882 ATTTCTTTTA
60303892 TTGTTAATTTTCTTATTATTTTA-AAGGCAT
1 TTGTTAATTTTCTTATTATTTTAGAA-GCAT
*
60303922 TTGTTAATTTTTTTATTATTTTAGAAGCAT
1 TTGTTAATTTTCTTATTATTTTAGAAGCAT
60303952 TTG
1 TTG
60303955 CTTCTTAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.94
31 2 0.06
ACGTcount: A:0.25, C:0.05, G:0.11, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTCTTATTATTTTAGAAGCAT
Found at i:60304092 original size:10 final size:11
Alignment explanation
Indices: 60304076--60304108 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
60304066 TATATATATG
60304076 TAAAAATAATA
1 TAAAAATAATA
60304087 -AAAAATAATA
1 TAAAAATAATA
60304097 TAAAAATTAATA
1 TAAAAA-TAATA
60304109 CGGGCGGGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.50
11 5 0.25
12 5 0.25
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
TAAAAATAATA
Found at i:60309198 original size:23 final size:23
Alignment explanation
Indices: 60309145--60309257 Score: 99
Period size: 23 Copynumber: 4.9 Consensus size: 23
60309135 AAGCTCTTCA
* *
60309145 TGAGCTAATAAACAGTAGGCTCTAT
1 TGAGCTGA-AAACAGTAAGCTC-AT
*
60309170 TGAGCTGAAAACGGTAAGCTCAT
1 TGAGCTGAAAACAGTAAGCTCAT
*
60309193 TGAGCTG--AACAGTAAGCTCTTT
1 TGAGCTGAAAACAGTAAGCTC-AT
* * *
60309215 TGAGCTG-AATCGGTAAGCTCCAA
1 TGAGCTGAAAACAGTAAGCT-CAT
60309238 TGAGCT-AAAACAGTAAGCTC
1 TGAGCTGAAAACAGTAAGCTC
60309258 TTACTAGCTA
Statistics
Matches: 73, Mismatches: 11, Indels: 11
0.77 0.12 0.12
Matches are distributed among these distances:
21 11 0.15
22 9 0.12
23 34 0.47
24 12 0.16
25 7 0.10
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.25
Consensus pattern (23 bp):
TGAGCTGAAAACAGTAAGCTCAT
Found at i:60309212 original size:45 final size:46
Alignment explanation
Indices: 60309131--60309258 Score: 145
Period size: 45 Copynumber: 2.7 Consensus size: 46
60309121 AAGACATGGT
*
60309131 CGGTAAGCTCTTC-ATGAGCTAATAAACAGTAGGCTCTATTGAGCTGAAAA
1 CGGTAAGCTC--CAATGAGCT-A-AAACAGTAAGCTCTATTGAGCTG-AAA
* * * *
60309181 CGGTAAGCT-CATTGAGCT-GAACAGTAAGCTCTTTTGAGCTGAAT
1 CGGTAAGCTCCAATGAGCTAAAACAGTAAGCTCTATTGAGCTGAAA
60309225 CGGTAAGCTCCAATGAGCTAAAACAGTAAGCTCT
1 CGGTAAGCTCCAATGAGCTAAAACAGTAAGCTCT
60309259 TACTAGCTAT
Statistics
Matches: 68, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
44 11 0.16
45 28 0.41
46 13 0.19
47 1 0.01
48 6 0.09
50 9 0.13
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.26
Consensus pattern (46 bp):
CGGTAAGCTCCAATGAGCTAAAACAGTAAGCTCTATTGAGCTGAAA
Found at i:60309981 original size:26 final size:26
Alignment explanation
Indices: 60309944--60310052 Score: 200
Period size: 26 Copynumber: 4.2 Consensus size: 26
60309934 TGATACAAAT
60309944 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
60309970 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60309996 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60310022 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60310048 TGATA
1 TGATA
60310053 GGAATTTCAT
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:60311805 original size:21 final size:21
Alignment explanation
Indices: 60311779--60311826 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
60311769 ATTCCCCACA
60311779 TGGAGTGTAG-GGCTGGTAGGG
1 TGGAGTGTAGTGGCTGGT-GGG
*
60311800 TGGAGTGTAGTGGTTGGTGGG
1 TGGAGTGTAGTGGCTGGTGGG
*
60311821 TTGAGT
1 TGGAGT
60311827 AGTCTCCCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.12, C:0.02, G:0.54, T:0.31
Consensus pattern (21 bp):
TGGAGTGTAGTGGCTGGTGGG
Found at i:60319147 original size:24 final size:24
Alignment explanation
Indices: 60319115--60319166 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
60319105 AATCAAAGTC
* *
60319115 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
60319139 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
60319163 AAAT
1 AAAT
60319167 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:60320265 original size:39 final size:39
Alignment explanation
Indices: 60320222--60320346 Score: 180
Period size: 39 Copynumber: 3.2 Consensus size: 39
60320212 CTTTAACCCA
** *
60320222 GATATTTTTTC-AGCACGTAGCCTGCGGACCTCAAGTCCG
1 GATA-TTTTTCGAGCATATAGCCTGCGGACCTCATGTCCG
* * *
60320261 GATATATTTCTAGCATATAGCCTGCGGATCTCATGTCCG
1 GATATTTTTCGAGCATATAGCCTGCGGACCTCATGTCCG
60320300 GATATTTTTCGAGCATATAGCCTGCGGACCTCATGTCCG
1 GATATTTTTCGAGCATATAGCCTGCGGACCTCATGTCCG
60320339 GATATTTT
1 GATATTTT
60320347 CAATCTCATA
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
38 5 0.06
39 72 0.94
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.33
Consensus pattern (39 bp):
GATATTTTTCGAGCATATAGCCTGCGGACCTCATGTCCG
Found at i:60327063 original size:16 final size:16
Alignment explanation
Indices: 60327042--60327074 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
60327032 CTTCAACCTC
*
60327042 TCATTTCCTTCTCATT
1 TCATTTCCTCCTCATT
60327058 TCATTTCCTCCTCATT
1 TCATTTCCTCCTCATT
60327074 T
1 T
60327075 TTTCTCCGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.33, G:0.00, T:0.55
Consensus pattern (16 bp):
TCATTTCCTCCTCATT
Found at i:60327972 original size:13 final size:11
Alignment explanation
Indices: 60327944--60327976 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
60327934 ATTTTTTTCT
60327944 CATATATTGTA
1 CATATATTGTA
60327955 CATATATTGTA
1 CATATATTGTA
60327966 CATATATTGTA
1 CATATATTGTA
60327977 TTAATTCCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.45
Consensus pattern (11 bp):
CATATATTGTA
Found at i:60329214 original size:20 final size:20
Alignment explanation
Indices: 60329189--60329228 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
60329179 AATATTTTCC
* *
60329189 AGTAAATCATTTTACAGAAA
1 AGTAAAACACTTTACAGAAA
*
60329209 AGTAAAACACTTTCCAGAAA
1 AGTAAAACACTTTACAGAAA
60329229 TCATTTTACG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.15, G:0.10, T:0.25
Consensus pattern (20 bp):
AGTAAAACACTTTACAGAAA
Found at i:60330899 original size:39 final size:39
Alignment explanation
Indices: 60330856--60330983 Score: 202
Period size: 39 Copynumber: 3.3 Consensus size: 39
60330846 GGTCTTTAAC
** *
60330856 CCGGATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
* * *
60330895 CCGGATATATTTCTAGCATATAGCCTGCGGATCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
60330934 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
60330973 CCGGATATTTT
1 CCGGATATTTT
60330984 CAATCTCTTA
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.31
Consensus pattern (39 bp):
CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
Found at i:60334608 original size:21 final size:21
Alignment explanation
Indices: 60334584--60334722 Score: 61
Period size: 21 Copynumber: 6.3 Consensus size: 21
60334574 TCTATAGTCG
60334584 TAAATCATAAACTATAAACCT
1 TAAATCATAAACTATAAACCT
* *
60334605 TAAACCCTAAA-TATTAAACCT
1 TAAATCATAAACTA-TAAACCT
* * * *
60334626 TGAATCCTAAACCATAATACCC
1 TAAATCATAAACTATAA-ACCT
60334648 TAAA-CTATAAACAGTACTAAACCTT
1 TAAATC-ATAAAC--TA-TAAACC-T
* * **
60334673 TAAACCCTTAAA-TATAGATTCT
1 TAAA-TCATAAACTATA-AACCT
*
60334695 TAAATCATAAAACTGTAAACC-
1 TAAATCAT-AAACTATAAACCT
60334716 TAAATCA
1 TAAATCA
60334723 GTAGACCTTA
Statistics
Matches: 87, Mismatches: 18, Indels: 26
0.66 0.14 0.20
Matches are distributed among these distances:
20 2 0.02
21 38 0.44
22 24 0.28
23 7 0.08
24 4 0.05
25 7 0.08
26 4 0.05
27 1 0.01
ACGTcount: A:0.47, C:0.22, G:0.03, T:0.28
Consensus pattern (21 bp):
TAAATCATAAACTATAAACCT
Found at i:60334779 original size:21 final size:21
Alignment explanation
Indices: 60334745--60334801 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
60334735 TTATAAAACG
* *
60334745 TCTTAAAACTATAAATCCTAAA
1 TCTT-AAACCATAAACCCTAAA
60334767 TCTTAAACCATAAACCCTAAA
1 TCTTAAACCATAAACCCTAAA
**
60334788 TCCAAAACCATAAA
1 TCTTAAACCATAAA
60334802 ACCTTAAACT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 27 0.87
22 4 0.13
ACGTcount: A:0.51, C:0.25, G:0.00, T:0.25
Consensus pattern (21 bp):
TCTTAAACCATAAACCCTAAA
Found at i:60339151 original size:19 final size:19
Alignment explanation
Indices: 60339127--60339226 Score: 75
Period size: 19 Copynumber: 5.3 Consensus size: 19
60339117 CAATCTTATT
60339127 TTAATTAATATAATTTGGA
1 TTAATTAATATAATTTGGA
* *
60339146 TTAATTTATTTAA-TT--A
1 TTAATTAATATAATTTGGA
*
60339162 TTTAATTAATATAAATTGGA
1 -TTAATTAATATAATTTGGA
* *
60339182 TTAATTTATTTAAATATT--A
1 TTAATTAATAT-AAT-TTGGA
*
60339201 TTTAATTAAAATAATTTGGA
1 -TTAATTAATATAATTTGGA
60339221 TTAATT
1 TTAATT
60339227 TATTTAAATA
Statistics
Matches: 62, Mismatches: 10, Indels: 18
0.69 0.11 0.20
Matches are distributed among these distances:
16 1 0.02
17 11 0.18
18 6 0.10
19 30 0.48
20 12 0.19
21 2 0.03
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (19 bp):
TTAATTAATATAATTTGGA
Found at i:60339220 original size:39 final size:39
Alignment explanation
Indices: 60339126--60339256 Score: 207
Period size: 39 Copynumber: 3.4 Consensus size: 39
60339116 TCAATCTTAT
60339126 TTTAATTAATATAATTTGGATTAATTTATTT--A-ATTA
1 TTTAATTAATATAATTTGGATTAATTTATTTAAATATTA
*
60339162 TTTAATTAATATAAATTGGATTAATTTATTTAAATATTA
1 TTTAATTAATATAATTTGGATTAATTTATTTAAATATTA
*
60339201 TTTAATTAAAATAATTTGGATTAATTTATTTAAATATT-
1 TTTAATTAATATAATTTGGATTAATTTATTTAAATATTA
60339239 TTTAAATTAATATAATTT
1 TTT-AATTAATATAATTT
60339257 TTATAAATAT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
36 30 0.34
38 4 0.05
39 53 0.61
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (39 bp):
TTTAATTAATATAATTTGGATTAATTTATTTAAATATTA
Found at i:60339264 original size:29 final size:29
Alignment explanation
Indices: 60339222--60339282 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
60339212 TAATTTGGAT
*
60339222 TAATTTATTTAAATATT-TTTAAATTAATA
1 TAATTTATTTAAATATTATTT-AATTAAAA
60339251 TAATTT-TTATAAATATTATTTAATTAAAA
1 TAATTTATT-TAAATATTATTTAATTAAAA
60339280 TAA
1 TAA
60339283 AATTTTTTCC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 2 0.07
29 24 0.83
30 3 0.10
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (29 bp):
TAATTTATTTAAATATTATTTAATTAAAA
Found at i:60339287 original size:31 final size:28
Alignment explanation
Indices: 60339223--60339290 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 28
60339213 AATTTGGATT
*
60339223 AATTTATTTAAATATTTTTAAATTAATAT
1 AATTT-TTTAAATATTTTTAAATTAATAA
60339252 AATTTTTATAAATATTATTT-AATTAAAATAA
1 AATTTTT-TAAATATT-TTTAAATT--AATAA
60339283 AATTTTTT
1 AATTTTTT
60339291 CCATGTGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
28 2 0.06
29 17 0.50
30 4 0.12
31 11 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (28 bp):
AATTTTTTAAATATTTTTAAATTAATAA
Found at i:60339566 original size:9 final size:9
Alignment explanation
Indices: 60339548--60339776 Score: 266
Period size: 9 Copynumber: 25.7 Consensus size: 9
60339538 TATATACTTG
*
60339548 AACTTCCAT
1 AACTTACAT
*
60339557 AACTCACAT
1 AACTTACAT
60339566 AACTTACAT
1 AACTTACAT
* *
60339575 AACCTATAT
1 AACTTACAT
60339584 AACTTACAT
1 AACTTACAT
*
60339593 AACTCACAT
1 AACTTACAT
60339602 AACTTACAT
1 AACTTACAT
*
60339611 AACTTATAT
1 AACTTACAT
60339620 AACTTACAT
1 AACTTACAT
60339629 AACTTACAT
1 AACTTACAT
*
60339638 AACTCACAT
1 AACTTACAT
60339647 AACTTACAT
1 AACTTACAT
*
60339656 AACTTATAT
1 AACTTACAT
*
60339665 AACTTGCAT
1 AACTTACAT
*
60339674 AACTCACAT
1 AACTTACAT
60339683 AACTTACAT
1 AACTTACAT
*
60339692 AACTCACAT
1 AACTTACAT
* *
60339701 AACTTATAG
1 AACTTACAT
60339710 AACTTACAT
1 AACTTACAT
*
60339719 AATTTACAT
1 AACTTACAT
60339728 AACTTACAT
1 AACTTACAT
60339737 AA--TACAT
1 AACTTACAT
* *
60339744 AA-ATATAT
1 AACTTACAT
* *
60339752 ATCATATCAT
1 AACTTA-CAT
60339762 AACTTACAT
1 AACTTACAT
60339771 AACTTA
1 AACTTA
60339777 ATTAGAGTTA
Statistics
Matches: 185, Mismatches: 32, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
7 7 0.04
8 5 0.03
9 167 0.90
10 6 0.03
ACGTcount: A:0.45, C:0.22, G:0.01, T:0.33
Consensus pattern (9 bp):
AACTTACAT
Found at i:60346314 original size:21 final size:21
Alignment explanation
Indices: 60346289--60346331 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
60346279 TTAGAGCGGA
*
60346289 GGCAGCAGAGAGGGAGGCAGC
1 GGCAGCAGAGAGAGAGGCAGC
*
60346310 GGCAGCAGCGAGAGAGGCAGC
1 GGCAGCAGAGAGAGAGGCAGC
60346331 G
1 G
60346332 ATAATAGTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.28, C:0.21, G:0.51, T:0.00
Consensus pattern (21 bp):
GGCAGCAGAGAGAGAGGCAGC
Found at i:60348120 original size:39 final size:39
Alignment explanation
Indices: 60348066--60348249 Score: 208
Period size: 40 Copynumber: 4.7 Consensus size: 39
60348056 AAACCCTTCG
* * ** *
60348066 GAACTTTAAGCCCGGATATATTTCCAGCACGTAACCTGC
1 GAACCTTAAGTCCGGATATATTTCCAGCATATAGCCTGC
** *
60348105 GAACCTTAAGTCCGGATTATAACTCCAGCATATAGCATGC
1 GAACCTTAAGTCCGGA-TATATTTCCAGCATATAGCCTGC
60348145 -AGACCTTAAGTCCGGATATATTTCCAGCATATAGCCTGC
1 GA-ACCTTAAGTCCGGATATATTTCCAGCATATAGCCTGC
* * ** *
60348184 GGACCTTAAGTCCGAATTATAACTCCAGCATATAGCTTGC
1 GAACCTTAAGTCCGGA-TATATTTCCAGCATATAGCCTGC
*
60348224 GGACCTTAAGTCCGGATATATTTCCA
1 GAACCTTAAGTCCGGATATATTTCCA
60348250 AATATCATGC
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 56 0.46
40 66 0.54
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (39 bp):
GAACCTTAAGTCCGGATATATTTCCAGCATATAGCCTGC
Found at i:60348167 original size:79 final size:79
Alignment explanation
Indices: 60348071--60348249 Score: 286
Period size: 79 Copynumber: 2.3 Consensus size: 79
60348061 CTTCGGAACT
* * *
60348071 TTAAGCCCGGATATATTTCCAGCACGTAACCTGCGAACCTTAAGTCCGGATTATAACTCCAGCAT
1 TTAAGTCCGGATATATTTCCAGCACATAACCTGCGAACCTTAAGTCCGAATTATAACTCCAGCAT
60348136 ATAGCATGCAGACC
66 ATAGCATGCAGACC
* * *
60348150 TTAAGTCCGGATATATTTCCAGCATATAGCCTGCGGACCTTAAGTCCGAATTATAACTCCAGCAT
1 TTAAGTCCGGATATATTTCCAGCACATAACCTGCGAACCTTAAGTCCGAATTATAACTCCAGCAT
* *
60348215 ATAGCTTGCGGACC
66 ATAGCATGCAGACC
60348229 TTAAGTCCGGATATATTTCCA
1 TTAAGTCCGGATATATTTCCA
60348250 AATATCATGC
Statistics
Matches: 92, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
79 92 1.00
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (79 bp):
TTAAGTCCGGATATATTTCCAGCACATAACCTGCGAACCTTAAGTCCGAATTATAACTCCAGCAT
ATAGCATGCAGACC
Found at i:60354823 original size:39 final size:39
Alignment explanation
Indices: 60354775--60354991 Score: 150
Period size: 40 Copynumber: 5.7 Consensus size: 39
60354765 AAACCCTTCG
* ** *
60354775 GAACTTTAAGCCTGGATATATTTCCAGCACGTAACCTGC
1 GAACCTTAAGCCTGGATATATTTCCAGCATATAGCCTGC
* ** *
60354814 GAACCTTAAG-TTCGGATTATAACTCCAGCATATAGCTTGC
1 GAACCTTAAGCCT-GGA-TATATTTCCAGCATATAGCCTGC
*
60354854 GGACCTTAAGTCC-GGATATATTTCCAGCATATAGCCTGC
1 GAACCTTAAG-CCTGGATATATTTCCAGCATATAGCCTGC
* *
60354893 GGACCTTAAGTCC-----AGA-TT-CAGCATATAGCCTGC
1 GAACCTTAAG-CCTGGATATATTTCCAGCATATAGCCTGC
* ** *
60354926 GGACCTTAAGTCC-GGATTATAACTCCAGCATATAGCCTAC
1 GAACCTTAAG-CCTGGA-TATATTTCCAGCATATAGCCTGC
*
60354966 GGACCTTAAGTCC-GGATATATTTCCA
1 GAACCTTAAG-CCTGGATATATTTCCA
60354992 AATATCATGC
Statistics
Matches: 148, Mismatches: 19, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
33 28 0.19
34 2 0.01
35 2 0.01
38 3 0.02
39 54 0.36
40 59 0.40
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (39 bp):
GAACCTTAAGCCTGGATATATTTCCAGCATATAGCCTGC
Found at i:60354841 original size:40 final size:39
Alignment explanation
Indices: 60354809--60354985 Score: 231
Period size: 40 Copynumber: 4.6 Consensus size: 39
60354799 CAGCACGTAA
* *
60354809 CCTGCGAACCTTAAGTTCGGATTATAACTCCAGCATATAG
1 CCTGCGGACCTTAAGTCCGGA-TATAACTCCAGCATATAG
* **
60354849 CTTGCGGACCTTAAGTCCGGATATATTTCCAGCATATAG
1 CCTGCGGACCTTAAGTCCGGATATAACTCCAGCATATAG
*
60354888 CCTGCGGACCTTAAGTCC--AGAT---T-CAGCATATAG
1 CCTGCGGACCTTAAGTCCGGATATAACTCCAGCATATAG
60354921 CCTGCGGACCTTAAGTCCGGATTATAACTCCAGCATATAG
1 CCTGCGGACCTTAAGTCCGGA-TATAACTCCAGCATATAG
*
60354961 CCTACGGACCTTAAGTCCGGATATA
1 CCTGCGGACCTTAAGTCCGGATATA
60354986 TTTCCAAATA
Statistics
Matches: 121, Mismatches: 9, Indels: 15
0.83 0.06 0.10
Matches are distributed among these distances:
33 28 0.23
34 1 0.01
35 1 0.01
36 2 0.02
37 3 0.02
39 38 0.31
40 48 0.40
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.27
Consensus pattern (39 bp):
CCTGCGGACCTTAAGTCCGGATATAACTCCAGCATATAG
Found at i:60354882 original size:79 final size:72
Alignment explanation
Indices: 60354839--60354978 Score: 181
Period size: 73 Copynumber: 1.9 Consensus size: 72
60354829 ATTATAACTC
* * * *
60354839 CAGCATATAGCTTGCGGACCTTAAGTCCGGATATATTTCCAGCATATAGCCTGCGGACCTTAAGT
1 CAGCATATAGCCTGCGGACCTTAAGTCCGGATATATTTCCAGCACATAACCTGCGAACCTTAAGT
60354904 CCAGATT
66 CCAGATT
** * * * *
60354911 CAGCATATAGCCTGCGGACCTTAAGTCCGGATTATAACTCCAGCATATAGCCTACGGACCTTAAG
1 CAGCATATAGCCTGCGGACCTTAAGTCCGGA-TATATTTCCAGCACATAACCTGCGAACCTTAAG
60354976 TCC
65 TCC
60354979 GGATATATTT
Statistics
Matches: 63, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
72 30 0.48
73 33 0.52
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (72 bp):
CAGCATATAGCCTGCGGACCTTAAGTCCGGATATATTTCCAGCACATAACCTGCGAACCTTAAGT
CCAGATT
Found at i:60354920 original size:33 final size:34
Alignment explanation
Indices: 60354837--60354978 Score: 142
Period size: 39 Copynumber: 3.9 Consensus size: 34
60354827 GGATTATAAC
* *
60354837 TCCAGCATATAGCTTGCGGACCTTAAGTCCGGATATATT
1 TCCAGCATATAGCCTGCGGACCTTAAGTCC----AGA-T
60354876 TCCAGCATATAGCCTGCGGACCTTAAGTCCAGAT
1 TCCAGCATATAGCCTGCGGACCTTAAGTCCAGAT
*
60354910 T-CAGCATATAGCCTGCGGACCTTAAGTCCGGATTAT
1 TCCAGCATATAGCCTGCGGACCTTAAGTCC--A-GAT
*
60354946 AACTCCAGCATATAGCCTACGGACCTTAAGTCC
1 ---TCCAGCATATAGCCTGCGGACCTTAAGTCC
60354979 GGATATATTT
Statistics
Matches: 92, Mismatches: 4, Indels: 13
0.84 0.04 0.12
Matches are distributed among these distances:
33 28 0.30
34 2 0.02
35 3 0.03
36 2 0.02
39 30 0.33
40 27 0.29
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (34 bp):
TCCAGCATATAGCCTGCGGACCTTAAGTCCAGAT
Found at i:60356796 original size:24 final size:25
Alignment explanation
Indices: 60356750--60356799 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
60356740 CTTAGAGGAT
* *
60356750 CTTACCGATTTGCAGCTCGTATGAG
1 CTTACCGATTTACAGCTCATATGAG
*
60356775 CTTACCG-TTTACCGCTCATATGAG
1 CTTACCGATTTACAGCTCATATGAG
60356799 C
1 C
60356800 ATACATGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 15 0.68
25 7 0.32
ACGTcount: A:0.20, C:0.28, G:0.20, T:0.32
Consensus pattern (25 bp):
CTTACCGATTTACAGCTCATATGAG
Found at i:60362737 original size:54 final size:54
Alignment explanation
Indices: 60362651--60362967 Score: 314
Period size: 55 Copynumber: 5.9 Consensus size: 54
60362641 ATTAGGGTTT
* * *
60362651 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTTATAAGGC
* * * * * **
60362705 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGT-AAGTTTTATAAGGC
* * * *
60362760 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTTATAAGGC
* * * * **
60362814 AAGGAAATCATGTAAGACCATGTCC-AGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATG-CCAAGACATGGCATTGGT-AAGTTTTATAAGGC
* * * * * *
60362869 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAG-TTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTTATAAGGC
* * * * *
60362922 AAGGATACCACGTAAGACCATGTCAAGATATGGAAATGGTAAGTTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTT
60362968 AAAAAGGAAA
Statistics
Matches: 207, Mismatches: 51, Indels: 10
0.77 0.19 0.04
Matches are distributed among these distances:
53 42 0.20
54 80 0.39
55 85 0.41
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTTATAAGGC
Found at i:60362836 original size:109 final size:109
Alignment explanation
Indices: 60362662--60362954 Score: 498
Period size: 109 Copynumber: 2.7 Consensus size: 109
60362652 AGGATACCAA
60362662 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGCAAGGAAATCATGTAAGACCATG
1 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGCAAGGAAATCATGTAAGACCATG
60362727 TCAAGACATGGCATTGATAAACTACTATAAGGCAAAGATCCCAT
66 TCAAGACATGGCATTGATAAACTACTATAAGGCAAAGATCCCAT
60362771 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGCAAGGAAATCATGTAAGACCATG
1 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGCAAGGAAATCATGTAAGACCATG
*
60362836 TCCAGACATGGCATTGATAAACTACTATAAGGCAAAGATCCCAT
66 TCAAGACATGGCATTGATAAACTACTATAAGGCAAAGATCCCAT
* * * * * * *
60362880 GTAAGACCATGCCAAGGCATGGCAATGGTGAG-TTCATAAGGCAAGGATACCACGTAAGACCATG
1 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGCAAGGAAATCATGTAAGACCATG
*
60362944 TCAAGATATGG
66 TCAAGACATGG
60362955 AAATGGTAAG
Statistics
Matches: 174, Mismatches: 10, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
108 36 0.21
109 138 0.79
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.21
Consensus pattern (109 bp):
GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGCAAGGAAATCATGTAAGACCATG
TCAAGACATGGCATTGATAAACTACTATAAGGCAAAGATCCCAT
Found at i:60365292 original size:42 final size:42
Alignment explanation
Indices: 60365231--60365428 Score: 222
Period size: 42 Copynumber: 4.6 Consensus size: 42
60365221 TCGTTTTCTC
** * * *
60365231 GATGCCATAGTTCAACTATGGTCTTGCACATCTTCACATAAT
1 GATGCCATAGCCCAGCTATGGTCTTACACATATTCACATAAT
*
60365273 GATGCCATATCCCAGCTATGGTCTTACACATATTCACATAAT
1 GATGCCATAGCCCAGCTATGGTCTTACACATATTCACATAAT
* *
60365315 GATGTCATAGCCCAGCTATGGTCTTACACATATTCATAT-AT
1 GATGCCATAGCCCAGCTATGGTCTTACACATATTCACATAAT
60365356 CGATGCCATAGCCCAGCTATGGTCTTACACGA-A-TCACATATCTCACT
1 -GATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCACATA----A-T
* *
60365403 GATGCCATATCCCAGATATGGTCTTA
1 GATGCCATAGCCCAGCTATGGTCTTA
60365429 TACAGTAGCA
Statistics
Matches: 135, Mismatches: 13, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
41 7 0.05
42 101 0.75
43 1 0.01
46 25 0.19
47 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.31
Consensus pattern (42 bp):
GATGCCATAGCCCAGCTATGGTCTTACACATATTCACATAAT
Found at i:60365459 original size:47 final size:46
Alignment explanation
Indices: 60365356--60365479 Score: 167
Period size: 47 Copynumber: 2.7 Consensus size: 46
60365346 ATTCATATAT
* * * * *
60365356 CGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
* * *
60365402 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATAC-GAAGCACATATCACAC
60365449 CGATGCCATATCCCAGATATGGTCTTATACG
1 CGATGCCATATCCCAGATATGGTCTTATACG
60365480 GAAATTACTT
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
46 27 0.40
47 41 0.60
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (46 bp):
CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
Found at i:60365539 original size:31 final size:31
Alignment explanation
Indices: 60365504--60365650 Score: 204
Period size: 31 Copynumber: 4.7 Consensus size: 31
60365494 CTTGTCACTT
* * *
60365504 GTAGCCGAAGCTACCACTATTCACTGATCAA
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
*
60365535 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
* *
60365566 GTAGCCGGAGCAACCACTTTTCACTGACCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
*
60365597 GTAGCCGGAGCTACCACTTTTCACTTATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
* * *
60365628 GTAGCAGAAGCTATCACTTTTCA
1 GTAGCCGGAGCTACCACTTTTCA
60365651 GTTGTCATTT
Statistics
Matches: 103, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 103 1.00
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.26
Consensus pattern (31 bp):
GTAGCCGGAGCTACCACTTTTCACTGATCAG
Found at i:60365786 original size:55 final size:50
Alignment explanation
Indices: 60365690--60365852 Score: 256
Period size: 50 Copynumber: 3.2 Consensus size: 50
60365680 TAGCCGAAGC
60365690 TATCACTTTCACTTT-TCCTTGATCAGATAAGTGTAGCCGAAGCTATTACT
1 TATCACTTTCA-TTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATTACT
60365740 TATCACTTTCATTTGTCCTTGATCAAATCAGATAAGTGTAGCCGAAGCTATTACT
1 TATCACTTTCATTTGTCCTTG-----ATCAGATAAGTGTAGCCGAAGCTATTACT
*
60365795 TATCACTTTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATTACT
60365845 TATCACTT
1 TATCACTT
60365853 GTTGCCATGG
Statistics
Matches: 106, Mismatches: 1, Indels: 12
0.89 0.01 0.10
Matches are distributed among these distances:
49 3 0.03
50 53 0.50
55 50 0.47
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.37
Consensus pattern (50 bp):
TATCACTTTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATTACT
Found at i:60365823 original size:105 final size:98
Alignment explanation
Indices: 60365628--60365852 Score: 289
Period size: 105 Copynumber: 2.3 Consensus size: 98
60365618 CACTTATCAG
* * * *
60365628 GTAGCAGAAGCTATCACTTTTCAGTTGTCATTTGTCATTG-----ATCAGATAAGTGTAGCCGAA
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAAATCAGATAAGTGTAGCCGAA
60365688 GCTATCACTTTCACTTTTCCTTGATCAGATAAGT
65 GCTATCACTTTCACTTTTCCTTGATCAGATAAGT
*
60365722 GTAGCCGAAGCTATTACTTATCACTTTCATTTGTCCTTGATCAAATCAGATAAGTGTAGCCGAAG
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAAATCAGATAAGTGTAGCCGAAG
*
60365787 CTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
66 CTATCACTT-TCA----C-TTT-TCCTTGATCAGATAAGT
60365827 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
60365853 GTTGCCATGG
Statistics
Matches: 112, Mismatches: 7, Indels: 13
0.85 0.05 0.10
Matches are distributed among these distances:
93 12 0.11
94 22 0.20
98 29 0.26
99 3 0.03
103 1 0.01
104 3 0.03
105 42 0.38
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.36
Consensus pattern (98 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAAATCAGATAAGTGTAGCCGAAG
CTATCACTTTCACTTTTCCTTGATCAGATAAGT
Found at i:60368464 original size:22 final size:22
Alignment explanation
Indices: 60368436--60368494 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 22
60368426 CAACTTGTAT
60368436 GAGCTTACTGTTCAGCTCGA-TA
1 GAGCTTACTGTTCAGCTC-ATTA
60368458 GAGCTTACCAT-TTCAGCTCATTA
1 GAGCTTA-C-TGTTCAGCTCATTA
*
60368481 GAGCTTATTGTTCA
1 GAGCTTACTGTTCA
60368495 TCAACTCAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
21 1 0.03
22 12 0.38
23 18 0.56
24 1 0.03
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.36
Consensus pattern (22 bp):
GAGCTTACTGTTCAGCTCATTA
Found at i:60369360 original size:22 final size:22
Alignment explanation
Indices: 60369300--60369350 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
60369290 TTGAGTTGCA
*
60369300 TAAATGTGGTCAATTATGCTTT
1 TAAATGCGGTCAATTATGCTTT
60369322 TAAATGCGGTCAATTATGCTTT
1 TAAATGCGGTCAATTATGCTTT
60369344 TAAATGC
1 TAAATGC
60369351 TTGTGTTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (22 bp):
TAAATGCGGTCAATTATGCTTT
Found at i:60370430 original size:43 final size:43
Alignment explanation
Indices: 60370365--60370515 Score: 194
Period size: 43 Copynumber: 3.5 Consensus size: 43
60370355 GCAATTTTTA
* * **
60370365 GTCATGTTCTTTAGCGATGTTTGTGGGGAAAGCGCCGCTAAAG
1 GTCATGTTCTATAACGGCGTTTGTGGGGAAAGCGCCGCTAAAG
* *
60370408 GTCATGTTCTATAATGGCGTTTGTGGGGAAAGCACCGCTAAAG
1 GTCATGTTCTATAACGGCGTTTGTGGGGAAAGCGCCGCTAAAG
* * * * *
60370451 GCCATGTTCTTTAACGGCATTTGTGGGAAAAGCGTCGCTAAAG
1 GTCATGTTCTATAACGGCGTTTGTGGGGAAAGCGCCGCTAAAG
*
60370494 GTCATGTTCTATAACGGAGTTT
1 GTCATGTTCTATAACGGCGTTT
60370516 TTCCACATAA
Statistics
Matches: 91, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 91 1.00
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (43 bp):
GTCATGTTCTATAACGGCGTTTGTGGGGAAAGCGCCGCTAAAG
Found at i:60371320 original size:21 final size:21
Alignment explanation
Indices: 60371291--60371331 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
60371281 CAAAAATTAT
60371291 AAAAATAAAA-TAAAATAAATC
1 AAAAATAAAATTAAAA-AAATC
*
60371312 AAAATTAAAATTAAAAAAAT
1 AAAAATAAAATTAAAAAAAT
60371332 ATAAAAAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (21 bp):
AAAAATAAAATTAAAAAAATC
Found at i:60371594 original size:82 final size:83
Alignment explanation
Indices: 60371441--60371607 Score: 282
Period size: 82 Copynumber: 2.0 Consensus size: 83
60371431 TTTATGTTAA
*
60371441 CTAGTTTTCAAAAGGTTGATGTCAAAATTGACTCTTTCTAAAAAGTTAAGGGTC-AATTTTTTTT
1 CTAGTTTTCAAAAGGTTGATGTCAAAATTGACTCTTTCTAAAAAGTTAAGGGTCAAATTTTTTTA
***
60371505 TTTAAAAAGAATAAAACC
66 AAAAAAAAGAATAAAACC
60371523 CTAGTTTTCAAAAGGTTGATGTCAAAATTGACTCTTTCTAAAAAGTTAAGGGTCAAATTTTTTTA
1 CTAGTTTTCAAAAGGTTGATGTCAAAATTGACTCTTTCTAAAAAGTTAAGGGTCAAATTTTTTT-
60371588 AAAAAAAAAGAATAAAACC
65 AAAAAAAAAGAATAAAACC
60371607 C
1 C
60371608 AAATTAACAA
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
82 54 0.68
83 9 0.11
84 16 0.20
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (83 bp):
CTAGTTTTCAAAAGGTTGATGTCAAAATTGACTCTTTCTAAAAAGTTAAGGGTCAAATTTTTTTA
AAAAAAAAGAATAAAACC
Found at i:60372311 original size:28 final size:28
Alignment explanation
Indices: 60372279--60372334 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
60372269 TTAGGACTCC
60372279 TTAACTCAGAAACACATGTACTAAATTT
1 TTAACTCAGAAACACATGTACTAAATTT
60372307 TTAACTCAGAAACACATGTACTAAATTT
1 TTAACTCAGAAACACATGTACTAAATTT
60372335 AGTGAGATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.32
Consensus pattern (28 bp):
TTAACTCAGAAACACATGTACTAAATTT
Found at i:60374327 original size:27 final size:25
Alignment explanation
Indices: 60374300--60374353 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 25
60374290 TTTCTTAAAT
60374300 TTTAAAAATCTTTTTATTTTTTATAAT
1 TTTAAAAA-CTTTTTATTTTTTA-AAT
* *
60374327 TTTAAAGAGTTTTTA-TTTTTAAAT
1 TTTAAAAACTTTTTATTTTTTAAAT
60374351 TTT
1 TTT
60374354 TATGTTTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 6 0.24
25 6 0.24
26 6 0.24
27 7 0.28
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (25 bp):
TTTAAAAACTTTTTATTTTTTAAAT
Found at i:60384152 original size:17 final size:17
Alignment explanation
Indices: 60384130--60384172 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
60384120 TTCGGGAGTC
*
60384130 GGTTACGTACGAGGAAG
1 GGTTACGCACGAGGAAG
60384147 GGTTACGCACGAGGAAG
1 GGTTACGCACGAGGAAG
60384164 GGTTA-GCAC
1 GGTTACGCAC
60384173 CCTCGATATG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
16 4 0.16
17 21 0.84
ACGTcount: A:0.28, C:0.16, G:0.40, T:0.16
Consensus pattern (17 bp):
GGTTACGCACGAGGAAG
Found at i:60384779 original size:23 final size:22
Alignment explanation
Indices: 60384753--60384802 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
60384743 TATATAATGC
60384753 AATAACAATGAAGACAAAAATAA
1 AATAACAATGAA-ACAAAAATAA
* *
60384776 AATAAGAATGAAACAATAATAA
1 AATAACAATGAAACAAAAATAA
60384798 AATAA
1 AATAA
60384803 AATAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 14 0.56
23 11 0.44
ACGTcount: A:0.70, C:0.06, G:0.08, T:0.16
Consensus pattern (22 bp):
AATAACAATGAAACAAAAATAA
Found at i:60384818 original size:22 final size:22
Alignment explanation
Indices: 60384766--60384818 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
60384756 AACAATGAAG
* *
60384766 ACAAAAATAAAATAAGAATGAA
1 ACAACAATAAAATAAGAATAAA
*
60384788 ACAATAATAAAATAA-AATAAAA
1 ACAACAATAAAATAAGAAT-AAA
*
60384810 ATAACAATA
1 ACAACAATA
60384819 CATTAATAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 3 0.12
22 23 0.88
ACGTcount: A:0.74, C:0.06, G:0.04, T:0.17
Consensus pattern (22 bp):
ACAACAATAAAATAAGAATAAA
Found at i:60385053 original size:3 final size:3
Alignment explanation
Indices: 60385038--60385241 Score: 104
Period size: 3 Copynumber: 68.7 Consensus size: 3
60385028 AATATTGTAT
* * *
60385038 TAA TAA GAA TAA TAA T-A TAA TAA TAA TCA TGGAA -AA AAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T--AA TAA TAA TAA TAA
* ** * *
60385083 TAT TAA T-A TTT TAAA TAA -GA TAA TAA TAA TAGGT TAA TAA -AA GTAA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TA--A TAA TAA TAA -TAA
* * * * *
60385129 GAG TAA TAA TAA T-A TAT TGA TAA TAA TAA TAA TAA TAA TAA -AA GGAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
* * * *
60385176 TAA TAA TAA TAG TAA -AA TAA TAA TAG TGA TAA TAA TATA TCA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA
*
60385220 TAA TAA TAG TAA -AA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TA
60385242 TATTAAATTA
Statistics
Matches: 150, Mismatches: 33, Indels: 36
0.68 0.15 0.16
Matches are distributed among these distances:
2 18 0.12
3 122 0.81
4 7 0.05
5 3 0.02
ACGTcount: A:0.60, C:0.01, G:0.08, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:60385151 original size:29 final size:28
Alignment explanation
Indices: 60385096--60385241 Score: 93
Period size: 29 Copynumber: 5.0 Consensus size: 28
60385086 TAATATTTTA
*
60385096 AATAAGATAATAATAATAGGTTAATAA-
1 AATAAGATAATAATAATAGATTAATAAT
* *
60385123 AAGTAAGAGTAATAATAATATATTGATAAT
1 AA-TAAGA-TAATAATAATAGATTAATAAT
* * *
60385153 AATAATAATAATAATAAAAGGAATAATAAT
1 AATAA-GATAATAATAATA-GATTAATAAT
*
60385183 AAT-AGTAAAATAATAATAG-TGATAATAAT
1 AATAAG-ATAATAATAATAGAT--TAATAAT
* * *
60385212 ATATCAA-ATAATAATAGTAAAATAATAAT
1 A-AT-AAGATAATAATAATAGATTAATAAT
60385241 A
1 A
60385242 TATTAAATTA
Statistics
Matches: 91, Mismatches: 16, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
27 2 0.02
28 6 0.07
29 57 0.63
30 25 0.27
32 1 0.01
ACGTcount: A:0.60, C:0.01, G:0.09, T:0.30
Consensus pattern (28 bp):
AATAAGATAATAATAATAGATTAATAAT
Found at i:60385208 original size:41 final size:39
Alignment explanation
Indices: 60385133--60385241 Score: 112
Period size: 41 Copynumber: 2.7 Consensus size: 39
60385123 AAGTAAGAGT
* *
60385133 AATAATAAT-ATATTGATAATAATAATAATAATAATAAAA
1 AATAATAATAATAGT-AAAATAATAATAATAATAATAAAA
* * *
60385172 GGAATAATAATAATAGTAAAATAATAATAGTGATAATAATA
1 --AATAATAATAATAGTAAAATAATAATAATAATAATAAAA
*
60385213 TATCAAATAATAATAGTAAAATAATAATA
1 AAT--AATAATAATAGTAAAATAATAATA
60385242 TATTAAATTA
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
39 2 0.03
41 53 0.90
42 4 0.07
ACGTcount: A:0.61, C:0.01, G:0.06, T:0.31
Consensus pattern (39 bp):
AATAATAATAATAGTAAAATAATAATAATAATAATAAAA
Found at i:60388999 original size:18 final size:18
Alignment explanation
Indices: 60388976--60389047 Score: 81
Period size: 18 Copynumber: 4.0 Consensus size: 18
60388966 GACTATTTAT
*
60388976 GGTACTATTCATGTATAC
1 GGTACTATTCACGTATAC
*
60388994 GGTACTATTCACGTATAT
1 GGTACTATTCACGTATAC
* *
60389012 GATACTATTTACGTATAC
1 GGTACTATTCACGTATAC
** *
60389030 AATACTGTTCACGTATAC
1 GGTACTATTCACGTATAC
60389048 AGTAGTTGAG
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 46 1.00
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.38
Consensus pattern (18 bp):
GGTACTATTCACGTATAC
Found at i:60389028 original size:36 final size:36
Alignment explanation
Indices: 60388973--60389046 Score: 94
Period size: 36 Copynumber: 2.1 Consensus size: 36
60388963 TACGACTATT
* * **
60388973 TATGGTACTATTCATGTATACGGTACTATTCACGTA
1 TATGATACTATTCACGTATACAATACTATTCACGTA
* *
60389009 TATGATACTATTTACGTATACAATACTGTTCACGTA
1 TATGATACTATTCACGTATACAATACTATTCACGTA
60389045 TA
1 TA
60389047 CAGTAGTTGA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (36 bp):
TATGATACTATTCACGTATACAATACTATTCACGTA
Found at i:60406386 original size:51 final size:50
Alignment explanation
Indices: 60406325--60406459 Score: 171
Period size: 51 Copynumber: 2.7 Consensus size: 50
60406315 TGGAAACATG
*
60406325 ATCTTAAAGATATGATTTTATAATCTTAGAGATCTTAGATATGATATGTA
1 ATCTTAAAGATATGATTTTATAATCTTAGAGATCTTAGATAAGATATGTA
* ** * *
60406375 ATCTTATAAGATATTATTTTATAAGATTACATATCTTAGATAAGATATGTA
1 ATCTTA-AAGATATGATTTTATAATCTTAGAGATCTTAGATAAGATATGTA
* * *
60406426 ATCTTAGGAGATATGATTCTATATTCTTAGAGAT
1 ATCTTA-AAGATATGATTTTATAATCTTAGAGAT
60406460 TTGATTGTAG
Statistics
Matches: 69, Mismatches: 15, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
50 6 0.09
51 63 0.91
ACGTcount: A:0.38, C:0.07, G:0.13, T:0.42
Consensus pattern (50 bp):
ATCTTAAAGATATGATTTTATAATCTTAGAGATCTTAGATAAGATATGTA
Found at i:60406429 original size:19 final size:19
Alignment explanation
Indices: 60406356--60406432 Score: 60
Period size: 19 Copynumber: 4.4 Consensus size: 19
60406346 AATCTTAGAG
*
60406356 ATCTTAGATATGATATGTA
1 ATCTTAGATAAGATATGTA
60406375 ATCTT--ATAAGATAT-T-
1 ATCTTAGATAAGATATGTA
* **
60406390 AT-TT-TATAAGAT-TACA
1 ATCTTAGATAAGATATGTA
60406406 TATCTTAGATAAGATATGTA
1 -ATCTTAGATAAGATATGTA
60406426 ATCTTAG
1 ATCTTAG
60406433 GAGATATGAT
Statistics
Matches: 46, Mismatches: 5, Indels: 14
0.71 0.08 0.22
Matches are distributed among these distances:
14 3 0.07
15 9 0.20
16 1 0.02
17 10 0.22
18 2 0.04
19 19 0.41
20 2 0.04
ACGTcount: A:0.39, C:0.06, G:0.12, T:0.43
Consensus pattern (19 bp):
ATCTTAGATAAGATATGTA
Found at i:60410987 original size:14 final size:14
Alignment explanation
Indices: 60410970--60410996 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
60410960 ATATATATAA
60410970 ATATAGATATGTAT
1 ATATAGATATGTAT
60410984 ATATAGATATGTA
1 ATATAGATATGTA
60410997 GGTGATATCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (14 bp):
ATATAGATATGTAT
Found at i:60412166 original size:35 final size:35
Alignment explanation
Indices: 60412060--60412166 Score: 85
Period size: 35 Copynumber: 2.9 Consensus size: 35
60412050 TTCAATCACC
60412060 GTTGGTTTATCCAACTAGAGCTGGGCTCACAATAATTATT
1 GTTGG-TTATCCAACTAGAGCTGGGCT-AC-A-AA-TATT
* * * *
60412100 TTTGATTAATCCAACTAGCA-CTGAG-TGCAAATATT
1 GTTGGTT-ATCCAACTAG-AGCTGGGCTACAAATATT
60412135 GTTGGTCTATCCAACTAGAGCTGGGCT-CAAAT
1 GTTGGT-TATCCAACTAGAGCTGGGCTACAAAT
60412167 TTATTAGTGT
Statistics
Matches: 55, Mismatches: 7, Indels: 15
0.71 0.09 0.19
Matches are distributed among these distances:
34 1 0.02
35 27 0.49
36 4 0.07
37 1 0.02
38 1 0.02
39 3 0.05
40 17 0.31
41 1 0.02
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.33
Consensus pattern (35 bp):
GTTGGTTATCCAACTAGAGCTGGGCTACAAATATT
Found at i:60416958 original size:34 final size:34
Alignment explanation
Indices: 60416920--60416988 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
60416910 ACATGTATGT
*
60416920 ATTATACTTTATACACATGTAATTAATGTTTACC
1 ATTATACTTTATACACATGTAATAAATGTTTACC
60416954 ATTATACTTTATACACATGTAATAAATGTTTACC
1 ATTATACTTTATACACATGTAATAAATGTTTACC
60416988 A
1 A
60416989 CACATTTTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.38, C:0.14, G:0.06, T:0.42
Consensus pattern (34 bp):
ATTATACTTTATACACATGTAATAAATGTTTACC
Found at i:60425987 original size:26 final size:26
Alignment explanation
Indices: 60425957--60426010 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
60425947 GTGATGAATC
60425957 TGAGCATGTCGAATATTTGAGAATAG
1 TGAGCATGTCGAATATTTGAGAATAG
60425983 TGAGCATGTCGAATATTTGAGAATAG
1 TGAGCATGTCGAATATTTGAGAATAG
60426009 TG
1 TG
60426011 CTACAGACTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.33, C:0.07, G:0.28, T:0.31
Consensus pattern (26 bp):
TGAGCATGTCGAATATTTGAGAATAG
Found at i:60434396 original size:17 final size:18
Alignment explanation
Indices: 60434375--60434438 Score: 58
Period size: 18 Copynumber: 3.5 Consensus size: 18
60434365 ACCCTAATTT
60434375 TTCCCTTTTCTTTTTCT-
1 TTCCCTTTTCTTTTTCTA
*
60434392 TTCCCTTTCCTTCTTTCCTA
1 TTCCCTTTTCTT-TTT-CTA
* * * *
60434412 TTCCGTTTTCATTCTCTG
1 TTCCCTTTTCTTTTTCTA
60434430 TTCCCTTTT
1 TTCCCTTTT
60434439 TCTATTTTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
17 11 0.30
18 13 0.35
19 4 0.11
20 9 0.24
ACGTcount: A:0.03, C:0.33, G:0.03, T:0.61
Consensus pattern (18 bp):
TTCCCTTTTCTTTTTCTA
Found at i:60434485 original size:5 final size:5
Alignment explanation
Indices: 60434477--60434506 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
60434467 TTACTTTAAC
60434477 TATTA TATTA TATTA TATTA TTATTA TATT
1 TATTA TATTA TATTA TATTA -TATTA TATT
60434507 TTAGTAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TATTA
Found at i:60440001 original size:40 final size:40
Alignment explanation
Indices: 60439946--60440057 Score: 145
Period size: 40 Copynumber: 2.8 Consensus size: 40
60439936 TATTCGGATG
60439946 ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTCACT
1 ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTCACT
* * *
60439986 ATATCCGGACTAAGATCCGAAGGCAATTGTGCTAGTTATT
1 ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTCACT
* ** *
60440026 ATAACCGGGTTAAG-TCCCGAAGGCATTCGTGC
1 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGC
60440058 GGGTTATTAT
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.02
40 62 0.98
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (40 bp):
ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTCACT
Found at i:60440166 original size:40 final size:40
Alignment explanation
Indices: 60440002--60440142 Score: 230
Period size: 40 Copynumber: 3.5 Consensus size: 40
60439992 GGACTAAGAT
**
60440002 CCGAAGGCAATT-GTGCTAGTTATTATAACCGGGTTAAGTC
1 CCGAAGGC-ATTCGTGCGGGTTATTATAACCGGGTTAAGTC
60440042 CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
*
60440082 CCAAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
*
60440122 CCGAAGGCATTCGTGCTGGTT
1 CCGAAGGCATTCGTGCGGGTT
60440143 GTTACATCCG
Statistics
Matches: 95, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
39 3 0.03
40 92 0.97
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
Found at i:60448339 original size:40 final size:40
Alignment explanation
Indices: 60448284--60448359 Score: 136
Period size: 40 Copynumber: 1.9 Consensus size: 40
60448274 TATTCGAATG
60448284 ATATCCGGACTAAGATCCGAAGGC-ATTTGTGCTAGTCACT
1 ATATCCGGACTAAGATCCGAAGGCGA-TTGTGCTAGTCACT
60448324 ATATCCGGACTAAGATCCGAAGGCGATTGTGCTAGT
1 ATATCCGGACTAAGATCCGAAGGCGATTGTGCTAGT
60448360 TATTATAAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
40 34 0.97
41 1 0.03
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (40 bp):
ATATCCGGACTAAGATCCGAAGGCGATTGTGCTAGTCACT
Found at i:60448504 original size:40 final size:40
Alignment explanation
Indices: 60448340--60448480 Score: 221
Period size: 40 Copynumber: 3.5 Consensus size: 40
60448330 GGACTAAGAT
** *
60448340 CCGAAGGCGATT-GTGCTAGTTATTATAAACGGGTTAAGTC
1 CCGAAGGC-ATTCGTGCGGGTTATTATAACCGGGTTAAGTC
60448380 CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
*
60448420 CCAAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
*
60448460 CCGAAGGCATTCGTGCTGGTT
1 CCGAAGGCATTCGTGCGGGTT
60448481 GTTACATCCG
Statistics
Matches: 94, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
39 3 0.03
40 91 0.97
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
Found at i:60458063 original size:8 final size:8
Alignment explanation
Indices: 60458052--60458155 Score: 66
Period size: 8 Copynumber: 12.0 Consensus size: 8
60458042 TTAAATTTTA
60458052 ATAAAAAT
1 ATAAAAAT
60458060 ATAAAAAT
1 ATAAAAAT
*
60458068 ATTTAAAAT
1 A-TAAAAAT
*
60458077 -TAAAATTAG
1 ATAAAA--AT
* *
60458086 AAAAAAAA
1 ATAAAAAT
60458094 ATAAAAAT
1 ATAAAAAT
60458102 AGTAAAAAAT
1 A-T-AAAAAT
60458112 ATAAAAAATT
1 AT-AAAAA-T
*
60458122 ATCAAATAT
1 AT-AAAAAT
60458131 ATAAAAAT
1 ATAAAAAT
*
60458139 ATAAAAAA
1 ATAAAAAT
60458147 ATATAAAAT
1 ATA-AAAAT
60458156 TTTATAAAGT
Statistics
Matches: 76, Mismatches: 12, Indels: 15
0.74 0.12 0.15
Matches are distributed among these distances:
7 4 0.05
8 32 0.42
9 22 0.29
10 18 0.24
ACGTcount: A:0.71, C:0.01, G:0.02, T:0.26
Consensus pattern (8 bp):
ATAAAAAT
Found at i:60458074 original size:18 final size:18
Alignment explanation
Indices: 60458054--60458154 Score: 91
Period size: 18 Copynumber: 5.7 Consensus size: 18
60458044 AAATTTTAAT
60458054 AAAAATATAAAAATATT-
1 AAAAATATAAAAATATTA
* * **
60458071 TAAAAT-TAAAATTAGAA
1 AAAAATATAAAAATATTA
* *
60458088 AAAAAAATAAAAATAGTA
1 AAAAATATAAAAATATTA
60458106 AAAAATATAAAAA-ATTA
1 AAAAATATAAAAATATTA
* *
60458123 TCAAATATATAAAAATATAA
1 --AAAAATATAAAAATATTA
60458143 AAAAATATAAAA
1 AAAAATATAAAA
60458155 TTTTATAAAG
Statistics
Matches: 66, Mismatches: 13, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
16 7 0.11
17 12 0.18
18 32 0.48
19 12 0.18
20 3 0.05
ACGTcount: A:0.72, C:0.01, G:0.02, T:0.25
Consensus pattern (18 bp):
AAAAATATAAAAATATTA
Found at i:60458198 original size:10 final size:9
Alignment explanation
Indices: 60458054--60458154 Score: 68
Period size: 9 Copynumber: 11.3 Consensus size: 9
60458044 AAATTTTAAT
60458054 AAAAATAT-
1 AAAAATATA
*
60458062 AAAAATATT
1 AAAAATATA
*
60458071 TAAAAT-T-
1 AAAAATATA
* *
60458078 AAAATTAGA
1 AAAAATATA
*
60458087 AAAAA-AAA
1 AAAAATATA
60458095 TAAAAATAGTA
1 -AAAAATA-TA
60458106 AAAAATATA
1 AAAAATATA
60458115 AAAAAT-TA
1 AAAAATATA
**
60458123 TCAAATATA
1 AAAAATATA
60458132 TAAAAATATAA
1 -AAAAATAT-A
60458143 AAAAATATA
1 AAAAATATA
60458152 AAA
1 AAA
60458155 TTTTATAAAG
Statistics
Matches: 73, Mismatches: 11, Indels: 17
0.72 0.11 0.17
Matches are distributed among these distances:
7 4 0.05
8 17 0.23
9 28 0.38
10 22 0.30
11 2 0.03
ACGTcount: A:0.72, C:0.01, G:0.02, T:0.25
Consensus pattern (9 bp):
AAAAATATA
Found at i:60458936 original size:28 final size:28
Alignment explanation
Indices: 60458877--60458937 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
60458867 AAACAAATAT
*
60458877 TAAAACAAGAAACAAATAAAAATGATAC
1 TAAAACAAGAAACAAATAAAAATGATAA
* * *
60458905 TAAAACAATACACAAATTGAAAAT-ATAA
1 TAAAACAAGAAACAAA-TAAAAATGATAA
60458933 TAAAA
1 TAAAA
60458938 AGTGATTGCA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 22 0.79
29 6 0.21
ACGTcount: A:0.67, C:0.10, G:0.05, T:0.18
Consensus pattern (28 bp):
TAAAACAAGAAACAAATAAAAATGATAA
Found at i:60462080 original size:21 final size:20
Alignment explanation
Indices: 60462015--60462080 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 20
60462005 ATTTTAAAAT
* *
60462015 TTATAGAAAATAGAATTAAA
1 TTATAAAAAATAGAAATAAA
60462035 TATATAAAAAATTCAGAAAT--A
1 T-TATAAAAAA-T-AGAAATAAA
60462056 -TATAATAAAATAGAAATAAA
1 TTATAA-AAAATAGAAATAAA
60462076 TTATA
1 TTATA
60462081 GATTATAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 13
0.71 0.04 0.25
Matches are distributed among these distances:
18 6 0.16
19 6 0.16
20 6 0.16
21 13 0.35
22 1 0.03
23 5 0.14
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (20 bp):
TTATAAAAAATAGAAATAAA
Found at i:60465793 original size:18 final size:18
Alignment explanation
Indices: 60465770--60465806 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
60465760 GATATGTAGT
*
60465770 TTTTTTTTAATTGCTTTA
1 TTTTTTTAAATTGCTTTA
60465788 TTTTTTTAAATTGCTTTA
1 TTTTTTTAAATTGCTTTA
60465806 T
1 T
60465807 GCTATTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.19, C:0.05, G:0.05, T:0.70
Consensus pattern (18 bp):
TTTTTTTAAATTGCTTTA
Found at i:60473877 original size:13 final size:13
Alignment explanation
Indices: 60473861--60473887 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
60473851 TAAATTGTTT
60473861 TATTCAATTTTAC
1 TATTCAATTTTAC
60473874 TATTCAATTTTAC
1 TATTCAATTTTAC
60473887 T
1 T
60473888 TTGAAAGAAT
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:0.00, T:0.56
Consensus pattern (13 bp):
TATTCAATTTTAC
Found at i:60477037 original size:6 final size:6
Alignment explanation
Indices: 60477026--60477059 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
60477016 TTGGTGAGGG
*
60477026 AAGAAA AAGAAA AAGAAA AAGAGA AAGAAA AAGA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGA
60477060 GAAGGAGAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:60477052 original size:18 final size:18
Alignment explanation
Indices: 60477026--60477077 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
60477016 TTGGTGAGGG
*
60477026 AAGAAAAAGAAAAAGAAA
1 AAGAGAAAGAAAAAGAAA
*
60477044 AAGAGAAAGAAAAAGAGA
1 AAGAGAAAGAAAAAGAAA
* *
60477062 AGGAG-AAGAAGAAGAA
1 AAGAGAAAGAAAAAGAA
60477078 GAGGGAGGGA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 9 0.31
18 20 0.69
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (18 bp):
AAGAGAAAGAAAAAGAAA
Found at i:60477060 original size:12 final size:12
Alignment explanation
Indices: 60477026--60477062 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
60477016 TTGGTGAGGG
*
60477026 AAGAAAAAGAAA
1 AAGAAAAAGAGA
60477038 AAGAAAAAGAGA
1 AAGAAAAAGAGA
60477050 AAGAAAAAGAGA
1 AAGAAAAAGAGA
60477062 A
1 A
60477063 GGAGAAGAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (12 bp):
AAGAAAAAGAGA
Found at i:60477164 original size:27 final size:27
Alignment explanation
Indices: 60477111--60477166 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
60477101 AATATTCTTT
*
60477111 TTTAAGGAAATAATTTTTAATTGTTAA
1 TTTAAGGAAATAATTTTTAATTATTAA
60477138 TTTAAGGAAATAAATTATTT-A-TATTAA
1 TTTAAGGAAAT-AATT-TTTAATTATTAA
60477165 TT
1 TT
60477167 GTTAATGTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 18 0.69
28 5 0.19
29 3 0.12
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (27 bp):
TTTAAGGAAATAATTTTTAATTATTAA
Found at i:60477512 original size:13 final size:13
Alignment explanation
Indices: 60477496--60477527 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
60477486 AAAGAATAGC
*
60477496 TTAATAGTATATT
1 TTAAAAGTATATT
60477509 TTAAAAGTATATT
1 TTAAAAGTATATT
60477522 TTAAAA
1 TTAAAA
60477528 AATCCAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (13 bp):
TTAAAAGTATATT
Found at i:60478199 original size:148 final size:146
Alignment explanation
Indices: 60477708--60478403 Score: 995
Period size: 147 Copynumber: 4.8 Consensus size: 146
60477698 AAAATCAAAG
* *
60477708 ATTAATAT-AAAAAACTAAAATAATATATTTGAAACATTATGTACTAAAATGATATAAAAAATAA
1 ATTAATATAAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAA
* * *
60477772 AATAAGATAATAGTATATTTTAAAAAATAAAATCCGGAAATAAAAT---AAAAAATGGCCAAAAT
66 AATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATAAAATAAAAAAAAATGGCCAAAAT
* **
60477834 CACAAATTTTTACTAA
131 CAGAGTTTTTTACTAA
*
60477850 ATTAATAT-AAAAAACTAAAATAATACA--TGAAATATTATGTACTAAAATAATATAAAAAAATA
1 ATTAATATAAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATAT-AAAAAATA
* * * *
60477912 AAATATGAAAATAGTATATTTTAAAAAATAAAATCCAAAAAT-AAA-AATAAAAAAGGGCCAAAA
65 AAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATAAAATAAAAAAAAATGGCCAAAA
*
60477975 TCAGAGTTTTTTTTCTAA
130 TCAGAG-TTTTTTACTAA
*
60477993 ATTAATATAAAAAAATTAAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAAT
1 ATTAATATAAAAAAACT-AAAATAATACATTTGAAACATTATGTACTAAAATAATAT-AAAAAAT
*
60478058 AAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATAAAATAAAAAATAAATGGCAAA
64 AAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATAAAATAAAAAA-AAATGGCCAA
*
60478123 AATCAGAGTTTTTTAATAA
128 AATCAGAGTTTTTTACTAA
*
60478142 ATTAATATAAAAAAACTAAAATAATACATATGAAACATTATGTACTAAAATAATATAAAAAATAA
1 ATTAATATAAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAA
* *
60478207 AATACGAAAATAGTATATTTTAAAAAGA-AAAATCTGAAAATAAAATAAAAAAACAAACGGCCAA
66 AATACGAAAATAGTATATTTTAAAAA-ATAAAATCCGAAAATAAAAT-AAAAAA-AAATGGCCAA
*
60478271 AATCAAAGTTTTTTACTAA
128 AATCAGAGTTTTTTACTAA
*
60478290 ATTAATATAAAAAAATACAAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAT
1 ATTAATAT-AAAAAA-ACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAT
*
60478355 AAAATACGAAAATAG--TATTTTAAAAAGA-AAAATTCGAAAATAAAATAAA
64 AAAATACGAAAATAGTATATTTTAAAAA-ATAAAATCCGAAAATAAAATAAA
60478404 TACCAAAATA
Statistics
Matches: 505, Mismatches: 33, Indels: 27
0.89 0.06 0.05
Matches are distributed among these distances:
140 27 0.05
141 46 0.09
142 44 0.09
143 17 0.03
144 7 0.01
145 11 0.02
147 129 0.26
148 110 0.22
149 36 0.07
150 78 0.15
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.28
Consensus pattern (146 bp):
ATTAATATAAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAA
AATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATAAAATAAAAAAAAATGGCCAAAAT
CAGAGTTTTTTACTAA
Found at i:60486294 original size:18 final size:18
Alignment explanation
Indices: 60486271--60486307 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
60486261 GATATGTAGT
*
60486271 TTTTTTTTAATTGCTTTA
1 TTTTTTTAAATTGCTTTA
60486289 TTTTTTTAAATTGCTTTA
1 TTTTTTTAAATTGCTTTA
60486307 T
1 T
60486308 GCTATTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.19, C:0.05, G:0.05, T:0.70
Consensus pattern (18 bp):
TTTTTTTAAATTGCTTTA
Done.