Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 33 of 310
Found at i:9101238 original size:16 final size:16
Alignment explanation
Indices: 9101219--9101254 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
9101209 CTTTTCCCCC
9101219 CTCTCCTTCCTCCCTT
1 CTCTCCTTCCTCCCTT
* *
9101235 CTCTCTTTTCTCCCTT
1 CTCTCCTTCCTCCCTT
9101251 CTCT
1 CTCT
9101255 TTCTTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (16 bp):
CTCTCCTTCCTCCCTT
Found at i:9103429 original size:8 final size:8
Alignment explanation
Indices: 9103409--9103442 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
9103399 TTTTAAAATT
9103409 ATAATA-A
1 ATAATATA
*
9103416 ATAATATT
1 ATAATATA
9103424 ATAATATA
1 ATAATATA
9103432 ATAATATA
1 ATAATATA
9103440 ATA
1 ATA
9103443 TAATGAACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 6 0.25
8 18 0.75
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATAATATA
Found at i:9103434 original size:13 final size:13
Alignment explanation
Indices: 9103406--9103446 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
9103396 AATTTTTAAA
9103406 ATTATAATAAATAAT
1 ATTATAAT--ATAAT
9103421 ATTATAATATAAT
1 ATTATAATATAAT
*
9103434 AATATAATATAAT
1 ATTATAATATAAT
9103447 GAACAATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 17 0.68
15 8 0.32
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
ATTATAATATAAT
Found at i:9103455 original size:33 final size:33
Alignment explanation
Indices: 9103408--9103481 Score: 80
Period size: 33 Copynumber: 2.2 Consensus size: 33
9103398 TTTTTAAAAT
* * *
9103408 TATAATAAATAATATTATAATATAATAATAT-A-A
1 TATAATGAACAATA-TAT-ATATAATAAAATGATA
*
9103441 TATAATGAACAATATATGTATAATAAAATGATA
1 TATAATGAACAATATATATATAATAAAATGATA
9103474 TATAATGA
1 TATAATGA
9103482 GATGTATAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
31 10 0.29
32 4 0.11
33 21 0.60
ACGTcount: A:0.57, C:0.01, G:0.05, T:0.36
Consensus pattern (33 bp):
TATAATGAACAATATATATATAATAAAATGATA
Found at i:9103633 original size:25 final size:25
Alignment explanation
Indices: 9103574--9103633 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 25
9103564 ATTTTCATAT
*
9103574 ATAAATAATATTTATAGTAAAATAA
1 ATAAATTATATTTATAGTAAAATAA
* *
9103599 AT--ATTGTATATTATATTTAAAATAA
1 ATAAATTATAT-TTATA-GTAAAATAA
9103624 ATAAATTATA
1 ATAAATTATA
9103634 AAGAGAGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
23 5 0.19
24 5 0.19
25 12 0.44
27 5 0.19
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (25 bp):
ATAAATTATATTTATAGTAAAATAA
Found at i:9105187 original size:44 final size:44
Alignment explanation
Indices: 9105139--9105801 Score: 829
Period size: 44 Copynumber: 15.4 Consensus size: 44
9105129 AAACTCAGGA
* * **
9105139 ACGCCAAATCTGTTATTTTTTATCTGCTCTCTGACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* *
9105183 ACGCCAAATCCGCTATTTTCGATCTGCTCTCTGACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* *
9105227 ACGCCAAATCCGCTATTTTCGATCTGCTCTCTGACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* *
9105271 ACGCCAAATCTGCTATCTTCGATCTGCTTTCTAACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* *
9105315 ACGCCAAATCAGCTATCTTCGATCTGCTCTCTGAAAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* *
9105359 ATGCCAAA-----TAT-TT-GATCTGCTCTCT-ATCAATACACAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGA-CAATACAGAG
* *
9105396 ACACCAAATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* * *
9105440 ACGCCAAATCTGCTATTTTCGATTTGCTCTCTGACAATACAAAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
** ** *
9105484 ACATCAAATCAACTATCTTTGATCTGCTCTCTGACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* * *
9105528 ATGTCAAATCAGCTATCTTCGATCTGCTCTCTGACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* * *
9105572 ACGCCAAATCCGCTATCTTCGATCTGCTCTCTAACAATACAAAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
*
9105616 ACGCCAAAT-TAGCTATCTTCGATCTGCTCTCTGGCAATACAGAG
1 ACGCCAAATCT-GCTATCTTCGATCTGCTCTCTGACAATACAGAG
*
9105660 ACGCCAAA-----TAT-TT-GATCTGCTCTCT-ATCAATACACAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGA-CAATACAGAG
* *
9105697 ACACCAAATCTGATATCTTCGATCTGCTCTCTGACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* * * *
9105741 ACACCAAATCTGTTATCTTCAATCTGCTCTCTGATAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
*
9105785 ACGCCAAATCGGCTATC
1 ACGCCAAATCTGCTATC
9105802 GGTGATCTGC
Statistics
Matches: 546, Mismatches: 54, Indels: 38
0.86 0.08 0.06
Matches are distributed among these distances:
36 1 0.00
37 54 0.10
38 4 0.01
39 6 0.01
42 6 0.01
43 4 0.01
44 469 0.86
45 2 0.00
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (44 bp):
ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
Found at i:9105810 original size:301 final size:301
Alignment explanation
Indices: 9105142--9105811 Score: 1072
Period size: 301 Copynumber: 2.2 Consensus size: 301
9105132 CTCAGGAACG
** *
9105142 CCAAATCTGTTATTTTTTATCTGCTCTCTGACAATACAGAGACGCCAAATCCGCTAT-TTTCGAT
1 CCAAATCTGTTATTTTCAATCTGCTCTCTGACAATACAGAGACGCCAAATCAGCTATCTTT-GAT
* *
9105206 CTGCTCTCTGACAATACAGAGACGCCAAATCCGCTATTTTCGATCTGCTCTCTGACAATACAGAG
65 CTGCTCTCTGACAATACAGAGACGCCAAATCAGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* * *
9105271 ACGCCAAATCTGCTATCTTCGATCTGCTTTCTAACAATACAGAGACGCCAAATCAGCTATCTTCG
130 ACGCCAAATCCGCTATCTTCGATCTGCTCTCTAACAATACAAAGACGCCAAATCAGCTATCTTCG
*
9105336 ATCTGCTCTCTGAAAATACAGAGATGCCAAATATTTGATCTGCTCTCTATCAATACACAGACACC
195 ATCTGCTCTCTGAAAATACAGAGACGCCAAATATTTGATCTGCTCTCTATCAATACACAGACACC
* *
9105401 AAATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACG
260 AAATCTGATATCTTCGATCTGCTCTCTGACAATACAGAGACA
* * * * ** *
9105443 CCAAATCTGCTATTTTCGATTTGCTCTCTGACAATACAAAGACATCAAATCAACTATCTTTGATC
1 CCAAATCTGTTATTTTCAATCTGCTCTCTGACAATACAGAGACGCCAAATCAGCTATCTTTGATC
* *
9105508 TGCTCTCTGACAATACAGAGATGTCAAATCAGCTATCTTCGATCTGCTCTCTGACAATACAGAGA
66 TGCTCTCTGACAATACAGAGACGCCAAATCAGCTATCTTCGATCTGCTCTCTGACAATACAGAGA
*
9105573 CGCCAAATCCGCTATCTTCGATCTGCTCTCTAACAATACAAAGACGCCAAATTAGCTATCTTCGA
131 CGCCAAATCCGCTATCTTCGATCTGCTCTCTAACAATACAAAGACGCCAAATCAGCTATCTTCGA
**
9105638 TCTGCTCTCTGGCAATACAGAGACGCCAAATATTTGATCTGCTCTCTATCAATACACAGACACCA
196 TCTGCTCTCTGAAAATACAGAGACGCCAAATATTTGATCTGCTCTCTATCAATACACAGACACCA
9105703 AATCTGATATCTTCGATCTGCTCTCTGACAATACAGAGACA
261 AATCTGATATCTTCGATCTGCTCTCTGACAATACAGAGACA
* * * **
9105744 CCAAATCTGTTATCTTCAATCTGCTCTCTGATAATACAGAGACGCCAAATCGGCTATCGGTGATC
1 CCAAATCTGTTATTTTCAATCTGCTCTCTGACAATACAGAGACGCCAAATCAGCTATCTTTGATC
9105809 TGC
66 TGC
9105812 ATTGTCCCTT
Statistics
Matches: 334, Mismatches: 34, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
301 331 0.99
302 3 0.01
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (301 bp):
CCAAATCTGTTATTTTCAATCTGCTCTCTGACAATACAGAGACGCCAAATCAGCTATCTTTGATC
TGCTCTCTGACAATACAGAGACGCCAAATCAGCTATCTTCGATCTGCTCTCTGACAATACAGAGA
CGCCAAATCCGCTATCTTCGATCTGCTCTCTAACAATACAAAGACGCCAAATCAGCTATCTTCGA
TCTGCTCTCTGAAAATACAGAGACGCCAAATATTTGATCTGCTCTCTATCAATACACAGACACCA
AATCTGATATCTTCGATCTGCTCTCTGACAATACAGAGACA
Found at i:9117559 original size:7 final size:7
Alignment explanation
Indices: 9117535--9117573 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
9117525 TAATCGTTTC
9117535 GTATTTA
1 GTATTTA
9117542 GT-TTTA
1 GTATTTA
*
9117548 ATATTTA
1 GTATTTA
9117555 GTATTTA
1 GTATTTA
9117562 GTATTTA
1 GTATTTA
9117569 GTATT
1 GTATT
9117574 ATGTATACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 5 0.17
7 24 0.83
ACGTcount: A:0.28, C:0.00, G:0.13, T:0.59
Consensus pattern (7 bp):
GTATTTA
Found at i:9118136 original size:30 final size:30
Alignment explanation
Indices: 9118069--9118137 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
9118059 GAATAACGAC
**
9118069 CCGGGCCCATCAACAATGCCCATACAATCA
1 CCGGGCCCATCAACAACACCCATACAATCA
* * * * *
9118099 GCTGGCCCATCAATAGCACCCATACAGTCA
1 CCGGGCCCATCAACAACACCCATACAATCA
9118129 CCGGGCCCA
1 CCGGGCCCA
9118138 ACACTTCAAC
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.29, C:0.41, G:0.17, T:0.13
Consensus pattern (30 bp):
CCGGGCCCATCAACAACACCCATACAATCA
Found at i:9118502 original size:21 final size:21
Alignment explanation
Indices: 9118476--9118515 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
9118466 TAAATCTCCA
9118476 GCCGGATG-AACCACAACCCCC
1 GCCGGA-GCAACCACAACCCCC
*
9118497 GCCGGAGCAACCAGAACCC
1 GCCGGAGCAACCACAACCC
9118516 TTTCCGAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.30, C:0.45, G:0.23, T:0.03
Consensus pattern (21 bp):
GCCGGAGCAACCACAACCCCC
Found at i:9121967 original size:126 final size:126
Alignment explanation
Indices: 9121803--9122191 Score: 493
Period size: 126 Copynumber: 3.1 Consensus size: 126
9121793 AATAGGAACT
* * * * *
9121803 ACTGTAGAAAAATAGCGTCCACATGAGAGCTTTTTTCAGTAATTTTGCTGAAAGTGCATACTGCA
1 ACTGTAGAAAAAAAGCGTCCACGTGAGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCT
* *
9121868 TGAAGCGTTTTTGACACTATTTTTTCAGAAAGGTCATT-TCACAATTATTTT-TTCAGATACC
66 TGAAGCGTTTTTGACACTATTTTTTCAGAAACGTC-TTCTCAAAATTATTTTCTT-AGATACC
** * *
9121929 ACTGTATCAAAAGAGCGTCCACGTGAGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCTGCT
1 ACTGTAGAAAAAAAGCGTCCACGTGAGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCT
* * *
9121994 TAAAGCGTTTTTTACACTATTTTTTCAGAAACTTCTTCTCAAAATTATTTTCTTAGATACC
66 TGAAGCGTTTTTGACACTATTTTTTCAGAAACGTCTTCTCAAAATTATTTTCTTAGATACC
* *
9122055 ACTGTAGAAAAAAAGCGTCCACGTGGGAGCATTTTTCAGTAATTTTGCTGACAGTGCATCCTGCT
1 ACTGTAGAAAAAAAGCGTCCACGTGAGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCT
* * * * * * * *
9122120 TGAAGC-TTTTTGGATACTATTTCTTCAGAAACTTCTTCTTATAATTTTTTTC-CAGATACT
66 TGAAGCGTTTTT-GACACTATTTTTTCAGAAACGTCTTCTCAAAATTATTTTCTTAGATACC
9122180 ACTG-A-AAAAAAA
1 ACTGTAGAAAAAAA
9122192 CCAAAACATT
Statistics
Matches: 232, Mismatches: 28, Indels: 9
0.86 0.10 0.03
Matches are distributed among these distances:
123 7 0.03
124 1 0.00
125 17 0.07
126 205 0.88
127 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (126 bp):
ACTGTAGAAAAAAAGCGTCCACGTGAGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCT
TGAAGCGTTTTTGACACTATTTTTTCAGAAACGTCTTCTCAAAATTATTTTCTTAGATACC
Found at i:9122398 original size:16 final size:17
Alignment explanation
Indices: 9122358--9122403 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 17
9122348 TTTAATTAAC
9122358 TAAACCCTTACAAAAACCA
1 TAAACCC-TA-AAAAACCA
*
9122377 TAAACCCTAAAAAACCC
1 TAAACCCTAAAAAACCA
9122394 T-AACCCTAAA
1 TAAACCCTAAA
9122404 CCATAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 9 0.35
17 8 0.31
18 2 0.08
19 7 0.27
ACGTcount: A:0.52, C:0.33, G:0.00, T:0.15
Consensus pattern (17 bp):
TAAACCCTAAAAAACCA
Found at i:9122403 original size:23 final size:23
Alignment explanation
Indices: 9122372--9122421 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
9122362 CCCTTACAAA
*
9122372 AACCATAAACCCTAAAAAACCCT
1 AACCATAAACCATAAAAAACCCT
* *
9122395 AACCCTAAACCATAAAAAACCTT
1 AACCATAAACCATAAAAAACCCT
9122418 AACC
1 AACC
9122422 TACCCGAACC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.52, C:0.34, G:0.00, T:0.14
Consensus pattern (23 bp):
AACCATAAACCATAAAAAACCCT
Found at i:9122923 original size:9 final size:9
Alignment explanation
Indices: 9122909--9122939 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
9122899 TAAAAGAATA
9122909 GAGTTATTC
1 GAGTTATTC
9122918 GAGTTATTC
1 GAGTTATTC
9122927 GAGTTATTC
1 GAGTTATTC
9122936 GAGT
1 GAGT
9122940 CAACTCAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.23, C:0.10, G:0.26, T:0.42
Consensus pattern (9 bp):
GAGTTATTC
Found at i:9123006 original size:9 final size:9
Alignment explanation
Indices: 9122989--9123025 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
9122979 TGAGTTTTCG
9122989 AATTCGAAT
1 AATTCGAAT
*
9122998 AACTCGAAT
1 AATTCGAAT
9123007 AATTCGAAT
1 AATTCGAAT
9123016 AATTCGAAT
1 AATTCGAAT
9123025 A
1 A
9123026 TCAAACGATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:9125904 original size:16 final size:17
Alignment explanation
Indices: 9125878--9125909 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
9125868 AAATATTTAA
9125878 TTAATTTTTTAAAAATT
1 TTAATTTTTTAAAAATT
9125895 TTAA-TTTTTAAAAAT
1 TTAATTTTTTAAAAAT
9125910 AATTTTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTAATTTTTTAAAAATT
Found at i:9142292 original size:50 final size:51
Alignment explanation
Indices: 9142215--9142336 Score: 201
Period size: 50 Copynumber: 2.4 Consensus size: 51
9142205 GACCATGGCA
* *
9142215 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
9142266 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* *
9142316 ACAAGTGAAAAGTGGTAGCTT
1 ACAAGTGATAAGTGATAGCTT
9142337 TAGCTACCTA
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
50 48 0.73
51 18 0.27
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:9142357 original size:31 final size:31
Alignment explanation
Indices: 9142319--9142404 Score: 127
Period size: 31 Copynumber: 2.8 Consensus size: 31
9142309 ACAAATGACA
*
9142319 AGTGAAAAGTGGTAGCTTTAGCTACCTAATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTAATC
* *
9142350 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTAATC
* *
9142381 AGTGAATAGTGGTAGCTTCGGCTA
1 AGTGAAAAGTGGTAGCTTCAGCTA
9142405 AAAGTGACAA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 51 1.00
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCAGCTACCTAATC
Found at i:9142623 original size:10 final size:10
Alignment explanation
Indices: 9142608--9142635 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
9142598 ATGCTATGGC
9142608 ATCAGTGATT
1 ATCAGTGATT
9142618 ATCAGTGATT
1 ATCAGTGATT
9142628 ATCAGTGA
1 ATCAGTGA
9142636 AATTCAGTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.36
Consensus pattern (10 bp):
ATCAGTGATT
Found at i:9146712 original size:47 final size:47
Alignment explanation
Indices: 9146644--9146750 Score: 187
Period size: 47 Copynumber: 2.3 Consensus size: 47
9146634 TCTAAGGGCA
9146644 TTTTTTTTCAAACTTTAGGGTTGAATTTTGGTTGTATTAAAGCCACT
1 TTTTTTTTCAAACTTTAGGGTTGAATTTTGGTTGTATTAAAGCCACT
*
9146691 TTTTTTTTCAAACTTTGGGGTTGAATTTTGGTTGTATTAAAGCCACT
1 TTTTTTTTCAAACTTTAGGGTTGAATTTTGGTTGTATTAAAGCCACT
* *
9146738 TTTGTTGTCAAAC
1 TTTTTTTTCAAAC
9146751 ATAAAGGAGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 57 1.00
ACGTcount: A:0.22, C:0.11, G:0.18, T:0.49
Consensus pattern (47 bp):
TTTTTTTTCAAACTTTAGGGTTGAATTTTGGTTGTATTAAAGCCACT
Found at i:9150525 original size:14 final size:14
Alignment explanation
Indices: 9150506--9150534 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
9150496 CTCACTAGAA
9150506 GCCACATAGAATTC
1 GCCACATAGAATTC
9150520 GCCACATAGAATTC
1 GCCACATAGAATTC
9150534 G
1 G
9150535 TATACTTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.21
Consensus pattern (14 bp):
GCCACATAGAATTC
Found at i:9152573 original size:28 final size:28
Alignment explanation
Indices: 9152523--9152576 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
9152513 GTGCTCTAGT
*
9152523 AAAAAAAACATAAATACTTAATTGAATA
1 AAAAAAAACATAAATACTAAATTGAATA
* * *
9152551 AAAAAAAACTTAGATGCTAAATTGAA
1 AAAAAAAACATAAATACTAAATTGAA
9152577 CATTGGAGGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.61, C:0.07, G:0.07, T:0.24
Consensus pattern (28 bp):
AAAAAAAACATAAATACTAAATTGAATA
Found at i:9152733 original size:56 final size:55
Alignment explanation
Indices: 9152633--9152738 Score: 131
Period size: 56 Copynumber: 1.9 Consensus size: 55
9152623 ATATCAAAAT
* * *
9152633 AAAAAATTAGATACTAAAATAAACATTAAAACCAAACTTAAGTACTAAATCAAGA
1 AAAAAATCAGATACTAAAATAAACATTAAAACCAAAATTAAGTACCAAATCAAGA
* * * * *
9152688 AAAAAACTCAGATACTAAATTAAACATTGACACTAAAATTTAGTACCAAAT
1 AAAAAA-TCAGATACTAAAATAAACATTAAAACCAAAATTAAGTACCAAAT
9152739 AATGTATTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
55 6 0.14
56 36 0.86
ACGTcount: A:0.57, C:0.14, G:0.06, T:0.24
Consensus pattern (55 bp):
AAAAAATCAGATACTAAAATAAACATTAAAACCAAAATTAAGTACCAAATCAAGA
Found at i:9153155 original size:31 final size:29
Alignment explanation
Indices: 9153120--9153189 Score: 104
Period size: 29 Copynumber: 2.3 Consensus size: 29
9153110 ATACAAAAAT
9153120 TATACATGAACTATGATTTAATGTGCAATTG
1 TATACATGAACTATGATTT--TGTGCAATTG
* *
9153151 TATACATGAACTTTGATTTTGTGCAATTT
1 TATACATGAACTATGATTTTGTGCAATTG
9153180 TATACATGAA
1 TATACATGAA
9153190 ATTTTGATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 19 0.51
31 18 0.49
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.41
Consensus pattern (29 bp):
TATACATGAACTATGATTTTGTGCAATTG
Found at i:9153174 original size:29 final size:30
Alignment explanation
Indices: 9153120--9153199 Score: 108
Period size: 31 Copynumber: 2.6 Consensus size: 30
9153110 ATACAAAAAT
*
9153120 TATACATGAACTATGATTTAATGTGCAATTG
1 TATACATGAACTTTGATTT-ATGTGCAATTG
*
9153151 TATACATGAACTTTGATTT-TGTGCAATTT
1 TATACATGAACTTTGATTTATGTGCAATTG
*
9153180 TATACATGAAATTTTGATTT
1 TATACATG-AACTTTGATTT
9153200 GATCCAATTC
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
29 17 0.38
30 10 0.22
31 18 0.40
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.45
Consensus pattern (30 bp):
TATACATGAACTTTGATTTATGTGCAATTG
Found at i:9153208 original size:30 final size:29
Alignment explanation
Indices: 9153120--9153208 Score: 90
Period size: 29 Copynumber: 3.0 Consensus size: 29
9153110 ATACAAAAAT
* *
9153120 TATACATGAACTATGATTTAATGTGCAATTG
1 TATACATGAACTTTGATTT--TGTCCAATTG
* *
9153151 TATACATGAACTTTGATTTTGTGCAATTT
1 TATACATGAACTTTGATTTTGTCCAATTG
*
9153180 TATACATGAAATTTTGA-TTTGATCCAATT
1 TATACATG-AACTTTGATTTTG-TCCAATT
9153209 CTTGTAAATT
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
29 21 0.40
30 13 0.25
31 18 0.35
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44
Consensus pattern (29 bp):
TATACATGAACTTTGATTTTGTCCAATTG
Found at i:9160229 original size:19 final size:19
Alignment explanation
Indices: 9160192--9160230 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
9160182 GTAATAATGT
*
9160192 TATATTTTGTAAATGTCAA
1 TATATTTTGTAAATATCAA
**
9160211 TATATTTTGTTTATATCAA
1 TATATTTTGTAAATATCAA
9160230 T
1 T
9160231 TGTTCATGTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.33, C:0.05, G:0.08, T:0.54
Consensus pattern (19 bp):
TATATTTTGTAAATATCAA
Found at i:9163756 original size:30 final size:29
Alignment explanation
Indices: 9163713--9163776 Score: 110
Period size: 30 Copynumber: 2.2 Consensus size: 29
9163703 CAAGTAGGCG
*
9163713 AAGCTAGTTAAATCGTACACTTAGTGCCA
1 AAGCTAGTTAAATCGCACACTTAGTGCCA
9163742 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAG-TTAAATCGCACACTTAGTGCCA
9163772 AAGCT
1 AAGCT
9163777 TCCGATTCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 7 0.21
30 26 0.79
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAGTGCCA
Found at i:9187579 original size:24 final size:25
Alignment explanation
Indices: 9187552--9187604 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
9187542 CATATCAAAT
9187552 CATAAAAA-AAAATAGATACAAAAA
1 CATAAAAAGAAAATAGATACAAAAA
* *
9187576 CATAAAAAGAAACTAGATACAAAAG
1 CATAAAAAGAAAATAGATACAAAAA
9187601 CATA
1 CATA
9187605 CTGAAATCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 8 0.31
25 18 0.69
ACGTcount: A:0.68, C:0.11, G:0.08, T:0.13
Consensus pattern (25 bp):
CATAAAAAGAAAATAGATACAAAAA
Found at i:9193615 original size:80 final size:80
Alignment explanation
Indices: 9193482--9193747 Score: 532
Period size: 80 Copynumber: 3.3 Consensus size: 80
9193472 CAGCGCAATC
9193482 GACATATAATAAAAACTAAATCAATCAATACCGATGCTAATTGAGTTTAGACTCAATCAATACTA
1 GACATATAATAAAAACTAAATCAATCAATACCGATGCTAATTGAGTTTAGACTCAATCAATACTA
9193547 AATTAATGTTTAATT
66 AATTAATGTTTAATT
9193562 GACATATAATAAAAACTAAATCAATCAATACCGATGCTAATTGAGTTTAGACTCAATCAATACTA
1 GACATATAATAAAAACTAAATCAATCAATACCGATGCTAATTGAGTTTAGACTCAATCAATACTA
9193627 AATTAATGTTTAATT
66 AATTAATGTTTAATT
9193642 GACATATAATAAAAACTAAATCAATCAATACCGATGCTAATTGAGTTTAGACTCAATCAATACTA
1 GACATATAATAAAAACTAAATCAATCAATACCGATGCTAATTGAGTTTAGACTCAATCAATACTA
9193707 AATTAATGTTTAATT
66 AATTAATGTTTAATT
9193722 GACATATAATAAAAACTAAATCAATC
1 GACATATAATAAAAACTAAATCAATC
9193748 TTAATATATA
Statistics
Matches: 186, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 186 1.00
ACGTcount: A:0.46, C:0.14, G:0.08, T:0.32
Consensus pattern (80 bp):
GACATATAATAAAAACTAAATCAATCAATACCGATGCTAATTGAGTTTAGACTCAATCAATACTA
AATTAATGTTTAATT
Found at i:9195315 original size:29 final size:29
Alignment explanation
Indices: 9195295--9195353 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
9195285 TTTTTTAATC
9195295 TAAATCTAGAGGCACTAAATTTCTGAATA
1 TAAATCTAGAGGCACTAAATTTCTGAATA
* * *
9195324 TAAATGTAGAGGGACTAAA-TTCTAAATA
1 TAAATCTAGAGGCACTAAATTTCTGAATA
9195352 TA
1 TA
9195354 CAAAATGTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 10 0.37
29 17 0.63
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.31
Consensus pattern (29 bp):
TAAATCTAGAGGCACTAAATTTCTGAATA
Found at i:9200310 original size:16 final size:15
Alignment explanation
Indices: 9200285--9200320 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
9200275 TTTTCTTAAT
9200285 TTATTAATTATTATA
1 TTATTAATTATTATA
*
9200300 TTATATAATTATTATT
1 TTAT-TAATTATTATA
9200316 TTATT
1 TTATT
9200321 TAAATTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TTATTAATTATTATA
Found at i:9207171 original size:13 final size:13
Alignment explanation
Indices: 9207139--9207172 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
9207129 TGTGATGAGT
*
9207139 TGATGATTTGAAC
1 TGATGAATTGAAC
9207152 T-ATGAATTGAAC
1 TGATGAATTGAAC
9207164 TGATGAATT
1 TGATGAATT
9207173 ACAATTTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (13 bp):
TGATGAATTGAAC
Found at i:9207299 original size:23 final size:23
Alignment explanation
Indices: 9207269--9207314 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
9207259 TAGATAGAGT
9207269 ACAGGTTACTTCGATTACATGTC
1 ACAGGTTACTTCGATTACATGTC
*
9207292 ACAGGTTACTTTGATTACATGTC
1 ACAGGTTACTTCGATTACATGTC
9207315 GATGAGTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (23 bp):
ACAGGTTACTTCGATTACATGTC
Found at i:9210349 original size:11 final size:11
Alignment explanation
Indices: 9210333--9210366 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
9210323 ACTCATCCAG
9210333 ACCAAGTGCAC
1 ACCAAGTGCAC
9210344 ACCAAGTGCAC
1 ACCAAGTGCAC
9210355 ACCAAGTGCAC
1 ACCAAGTGCAC
9210366 A
1 A
9210367 AAATAGAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.38, C:0.35, G:0.18, T:0.09
Consensus pattern (11 bp):
ACCAAGTGCAC
Found at i:9211496 original size:20 final size:19
Alignment explanation
Indices: 9211471--9211531 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 19
9211461 CTGACTTGTT
9211471 TTAAAATAATTTTAACTTGA
1 TTAAAA-AATTTTAACTTGA
**
9211491 TT-AAAAATTGTTAACTCAA
1 TTAAAAAATT-TTAACTTGA
*
9211510 TTAAAACCATTTTAACTTGA
1 TTAAAA-AATTTTAACTTGA
9211530 TT
1 TT
9211532 TTATCATTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
18 4 0.12
19 12 0.36
20 14 0.42
21 3 0.09
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.43
Consensus pattern (19 bp):
TTAAAAAATTTTAACTTGA
Found at i:9211506 original size:19 final size:18
Alignment explanation
Indices: 9211478--9211531 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 18
9211468 GTTTTAAAAT
9211478 AATTTTAACTTGATTAAA
1 AATTTTAACTTGATTAAA
**
9211496 AATTGTTAACTCAATTAAA
1 AATT-TTAACTTGATTAAA
9211515 ACCATTTTAACTTGATT
1 A--ATTTTAACTTGATT
9211532 TTATCATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 4 0.14
19 13 0.45
20 9 0.31
21 3 0.10
ACGTcount: A:0.41, C:0.11, G:0.06, T:0.43
Consensus pattern (18 bp):
AATTTTAACTTGATTAAA
Found at i:9211999 original size:80 final size:80
Alignment explanation
Indices: 9211866--9212185 Score: 604
Period size: 80 Copynumber: 4.0 Consensus size: 80
9211856 TTTGTAGAAA
*
9211866 GTATGGCTCTTATTAGTGATTCTCATGCCTTAGTCCCATCAGAGCTTTCTCCTGAAGCTTTTATT
1 GTATGGCTCTTATTAGTGATTCCCATGCCTTAGTCCCATCAGAGCTTTCTCCTGAAGCTTTTATT
9211931 GTCTTTAGGAAGCTC
66 GTCTTTAGGAAGCTC
9211946 GTATGGCTCTTATTAGTGATTCCCATGCCTTAGTCCCATCAGAGCTTTCTCCTGAAGCTTTTATT
1 GTATGGCTCTTATTAGTGATTCCCATGCCTTAGTCCCATCAGAGCTTTCTCCTGAAGCTTTTATT
9212011 GTCTTTAGGAAGCTC
66 GTCTTTAGGAAGCTC
9212026 GTATGGCTCTTATTAGTGATTCCCATGCCTTAGTCCCATCAGAGCTTTCTCCTGAAGCTTTTATT
1 GTATGGCTCTTATTAGTGATTCCCATGCCTTAGTCCCATCAGAGCTTTCTCCTGAAGCTTTTATT
9212091 GTCTTTAGGAAGCTC
66 GTCTTTAGGAAGCTC
*
9212106 GTATGGCTCTTATTAGTGATTCCCATGCCTTAGTCCCATCAGAGCTTTCTCCTGAAGCTTTCATT
1 GTATGGCTCTTATTAGTGATTCCCATGCCTTAGTCCCATCAGAGCTTTCTCCTGAAGCTTTTATT
* *
9212171 TTCTTCAGGAAGCTC
66 GTCTTTAGGAAGCTC
9212186 AAGTAAATTC
Statistics
Matches: 236, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 236 1.00
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.39
Consensus pattern (80 bp):
GTATGGCTCTTATTAGTGATTCCCATGCCTTAGTCCCATCAGAGCTTTCTCCTGAAGCTTTTATT
GTCTTTAGGAAGCTC
Found at i:9216856 original size:17 final size:18
Alignment explanation
Indices: 9216830--9216876 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
9216820 ATTTTTTAAA
9216830 AAAAATATTAATTACTAT-
1 AAAAA-ATTAATTACTATG
*
9216848 AAAAAATT-ATTAGTATG
1 AAAAAATTAATTACTATG
*
9216865 ATAAAATTAATT
1 AAAAAATTAATT
9216877 TCTAAATAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 7 0.28
17 10 0.40
18 8 0.32
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.38
Consensus pattern (18 bp):
AAAAAATTAATTACTATG
Found at i:9217586 original size:14 final size:15
Alignment explanation
Indices: 9217567--9217605 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
9217557 TAGTAAAAAA
9217567 ATAATATAAAA-TTT
1 ATAATATAAAACTTT
9217581 ATAATATAAAACCTTT
1 ATAATATAAAA-CTTT
9217597 ATAA-ATAAA
1 ATAATATAAA
9217606 GTTTTATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 11 0.48
15 5 0.22
16 7 0.30
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (15 bp):
ATAATATAAAACTTT
Found at i:9217910 original size:24 final size:26
Alignment explanation
Indices: 9217881--9217938 Score: 68
Period size: 24 Copynumber: 2.3 Consensus size: 26
9217871 CATAACTTCA
*
9217881 AATTTTTTAGGGTTTA-AATA-ATA-T
1 AATTTTTTAGGATTTATAATATA-AGT
*
9217905 AATTTTTTCGGATTTATAATATAAGT
1 AATTTTTTAGGATTTATAATATAAGT
9217931 AATTTTTT
1 AATTTTTT
9217939 GTCATAATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 14 0.48
25 5 0.17
26 10 0.34
ACGTcount: A:0.34, C:0.02, G:0.10, T:0.53
Consensus pattern (26 bp):
AATTTTTTAGGATTTATAATATAAGT
Found at i:9219851 original size:15 final size:16
Alignment explanation
Indices: 9219818--9219851 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9219808 AATGCACTCT
*
9219818 AAAAAACAAGTTCTAA
1 AAAAAACAAGTGCTAA
*
9219834 AAAAAATAAGTGCTAA
1 AAAAAACAAGTGCTAA
9219850 AA
1 AA
9219852 TTCTCCACAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.65, C:0.09, G:0.09, T:0.18
Consensus pattern (16 bp):
AAAAAACAAGTGCTAA
Found at i:9222236 original size:30 final size:30
Alignment explanation
Indices: 9222200--9222260 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
9222190 AAAATTGATA
*
9222200 CTTTAACTAATATCCACATTTAGACATAAC
1 CTTTAACTAATATCCACATTTACACATAAC
9222230 CTTTAACTAATATCCACATTTACACATAAC
1 CTTTAACTAATATCCACATTTACACATAAC
9222260 C
1 C
9222261 CAAATCATCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.39, C:0.26, G:0.02, T:0.33
Consensus pattern (30 bp):
CTTTAACTAATATCCACATTTACACATAAC
Found at i:9223055 original size:43 final size:42
Alignment explanation
Indices: 9222994--9223096 Score: 118
Period size: 42 Copynumber: 2.4 Consensus size: 42
9222984 AATGCCATAT
** * *
9222994 CCCAGAT-GTGGTCTTACATGCTATCACATATCGATGTCACTGA
1 CCCAGATAG-GGTCTTACATGAAATCAAATA-CGATGTCAATGA
*
9223037 CCCAGATAGGGTCTTACATGAAATCAAATACGATGTCAATGT
1 CCCAGATAGGGTCTTACATGAAATCAAATACGATGTCAATGA
* *
9223079 CCCAGACATGGTCTTACA
1 CCCAGATAGGGTCTTACA
9223097 CGTAATCGCA
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
42 26 0.50
43 25 0.48
44 1 0.02
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.27
Consensus pattern (42 bp):
CCCAGATAGGGTCTTACATGAAATCAAATACGATGTCAATGA
Found at i:9223084 original size:42 final size:42
Alignment explanation
Indices: 9223003--9223147 Score: 141
Period size: 43 Copynumber: 3.4 Consensus size: 42
9222993 TCCCAGATGT
* * * *
9223003 GGTCTTACATGCT-ATCACATATCGATGTCACTGACCCAGATAG
1 GGTCTTACATG-TAATCAAATA-CGATGTCAATGTCCCAGACAG
* *
9223046 GGTCTTACATGAAATCAAATACGATGTCAATGTCCCAGACAT
1 GGTCTTACATGTAATCAAATACGATGTCAATGTCCCAGACAG
* * * * *
9223088 GGTCTTACACGTAATCGCAATACAATG-CAAATGTCTCAGACAT
1 GGTCTTACATGTAATC-AAATACGATGTC-AATGTCCCAGACAG
9223131 GGTCTTACATGTAATCA
1 GGTCTTACATGTAATCA
9223148 CATCTCGGTA
Statistics
Matches: 86, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
42 32 0.37
43 54 0.63
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (42 bp):
GGTCTTACATGTAATCAAATACGATGTCAATGTCCCAGACAG
Found at i:9224999 original size:46 final size:46
Alignment explanation
Indices: 9224939--9225250 Score: 444
Period size: 46 Copynumber: 7.0 Consensus size: 46
9224929 TTTGACGTGA
* * * * * *
9224939 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
9224985 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
9225031 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
9225077 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
9225123 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
9225169 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
9225207 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
9225251 AGAGCACACT
Statistics
Matches: 244, Mismatches: 13, Indels: 18
0.89 0.05 0.07
Matches are distributed among these distances:
38 33 0.14
39 1 0.00
40 3 0.01
41 1 0.00
43 1 0.00
44 3 0.01
45 5 0.02
46 197 0.81
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:9225215 original size:38 final size:38
Alignment explanation
Indices: 9225164--9225239 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
9225154 CATTTCATAT
9225164 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
9225202 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
9225240 TTTCATATCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:9234293 original size:17 final size:18
Alignment explanation
Indices: 9234266--9234299 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
9234256 TCTATACTTT
9234266 TATTGTAAAATAAAAATA
1 TATTGTAAAATAAAAATA
*
9234284 TATT-TAAAATATAAAT
1 TATTGTAAAATAAAAAT
9234300 TTAATATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (18 bp):
TATTGTAAAATAAAAATA
Found at i:9245552 original size:27 final size:26
Alignment explanation
Indices: 9245521--9245698 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 26
9245511 TAAATTGTAC
9245521 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
9245548 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
9245574 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
9245602 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGA-T-TGACTATGT
* *
9245630 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* * *
9245657 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
9245684 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
9245699 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.01
27 100 0.79
28 25 0.20
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:9245637 original size:82 final size:81
Alignment explanation
Indices: 9245522--9245677 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
9245512 AAATTGTACA
* * *
9245522 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
9245586 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
9245603 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
9245668 TGCGAGTTGA
65 TGCGAATTGA
9245678 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 18 0.27
82 48 0.73
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:9245689 original size:82 final size:81
Alignment explanation
Indices: 9245518--9245698 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
9245508 GATTAAATTG
* * *
9245518 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
9245583 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
9245599 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
9245663 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
9245681 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
9245699 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 20 0.24
82 63 0.76
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:9252980 original size:21 final size:21
Alignment explanation
Indices: 9252946--9252988 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
9252936 GTATACGGTC
*
9252946 AAAATGTTTATGAAGTGAAAAA
1 AAAATGTGTATGAA-TGAAAAA
*
9252968 AAAATGTGT-TGAATGACAAA
1 AAAATGTGTATGAATGAAAAA
9252988 A
1 A
9252989 TGATGACCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 4 0.21
22 8 0.42
ACGTcount: A:0.53, C:0.02, G:0.19, T:0.26
Consensus pattern (21 bp):
AAAATGTGTATGAATGAAAAA
Found at i:9253546 original size:27 final size:27
Alignment explanation
Indices: 9253487--9253638 Score: 223
Period size: 27 Copynumber: 5.6 Consensus size: 27
9253477 TAAATTGTAC
*
9253487 AGCACTAAGTGTGCGAGTTGGACTATGT
1 AGCACTAAGTGTGCGAATT-GACTATGT
9253515 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
9253542 TGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
9253569 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* *
9253597 AGCACTAAGTGTGCGAGTTGACTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
9253624 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
9253639 GACTTAATAT
Statistics
Matches: 114, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
27 71 0.62
28 43 0.38
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:9253553 original size:55 final size:55
Alignment explanation
Indices: 9253487--9253638 Score: 234
Period size: 55 Copynumber: 2.8 Consensus size: 55
9253477 TAAATTGTAC
9253487 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTT-GACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
* * * *
9253542 TGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
* *
9253597 AGCACTAAGTGTGCGAGTTGACTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
9253639 GACTTAATAT
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 24 0.27
55 64 0.73
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
Found at i:9253601 original size:82 final size:82
Alignment explanation
Indices: 9253487--9253638 Score: 250
Period size: 82 Copynumber: 1.9 Consensus size: 82
9253477 TAAATTGTAC
* *
9253487 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATGTTGCACTAAGT
1 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
9253552 GTGCGAATTGACTATGT
66 GTGCGAATTGACTATGT
* * * *
9253569 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGACTATATAGCACTGAGT
1 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
9253634 GTGCG
66 GTGCG
9253639 GACTTAATAT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 64 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
GTGCGAATTGACTATGT
Found at i:9267977 original size:31 final size:32
Alignment explanation
Indices: 9267941--9268001 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
9267931 GTAAGCAAAT
9267941 AAAGGTATTA-TTTTTTTATGAGCAGGAATAA
1 AAAGGTATTATTTTTTTTATGAGCAGGAATAA
9267972 AAAGGTATTATTTTTTTTATGAGCAGGAAT
1 AAAGGTATTATTTTTTTTATGAGCAGGAAT
9268002 GGTATGTGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 10 0.34
32 19 0.66
ACGTcount: A:0.36, C:0.03, G:0.20, T:0.41
Consensus pattern (32 bp):
AAAGGTATTATTTTTTTTATGAGCAGGAATAA
Found at i:9277310 original size:27 final size:25
Alignment explanation
Indices: 9277280--9277365 Score: 91
Period size: 27 Copynumber: 3.2 Consensus size: 25
9277270 GGAGGAAGAG
*
9277280 TTCTGGTGGCTATTCTACAAGTATCTA
1 TTCTGGTGGCTCTTC-ACAA-TATCTA
*
9277307 TTCTGGTGGCTCTACCACAATATCTGA
1 TTCTGGTGGCTCT-TCACAATATCT-A
* *
9277334 ATCTGGTGACTCTGTCACAATATCTA
1 TTCTGGTGGCTCT-TCACAATATCTA
9277360 TTCTGG
1 TTCTGG
9277366 CTGCCACACT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
26 11 0.22
27 38 0.76
28 1 0.02
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (25 bp):
TTCTGGTGGCTCTTCACAATATCTA
Found at i:9278590 original size:18 final size:18
Alignment explanation
Indices: 9278569--9278603 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
9278559 GGAAAAATAG
9278569 AAAAATATAAAAA-ATTTA
1 AAAAATA-AAAAATATTTA
9278587 AAAAATAAAAAATATTT
1 AAAAATAAAAAATATTT
9278604 TTTGGGTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
AAAAATAAAAAATATTTA
Found at i:9279465 original size:33 final size:33
Alignment explanation
Indices: 9279423--9279489 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
9279413 ATGTGAAATG
9279423 TAAGCTGATAATTGAGAAATGTTACATTTTAGA
1 TAAGCTGATAATTGAGAAATGTTACATTTTAGA
* *
9279456 TAAGCTGATAATTGAGAACTTTTACATTTTAGA
1 TAAGCTGATAATTGAGAAATGTTACATTTTAGA
9279489 T
1 T
9279490 CAAGATCCCG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.37, C:0.07, G:0.16, T:0.39
Consensus pattern (33 bp):
TAAGCTGATAATTGAGAAATGTTACATTTTAGA
Found at i:9279891 original size:24 final size:25
Alignment explanation
Indices: 9279863--9279913 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
9279853 GTGTTTCAGT
9279863 TGGACTAGCTCTTATGAGCA-TTGG
1 TGGACTAGCTCTTATGAGCATTTGG
* *
9279887 TGGACTAGCTTTTGTGAGCATTTGG
1 TGGACTAGCTCTTATGAGCATTTGG
9279912 TG
1 TG
9279914 TGTTTTGGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 18 0.75
25 6 0.25
ACGTcount: A:0.18, C:0.14, G:0.31, T:0.37
Consensus pattern (25 bp):
TGGACTAGCTCTTATGAGCATTTGG
Found at i:9293945 original size:21 final size:21
Alignment explanation
Indices: 9293921--9293962 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
9293911 TTTATTCACA
9293921 CTTGTATAATTTTTATTTATT
1 CTTGTATAATTTTTATTTATT
* *
9293942 CTTGTTTCATTTTTATTTATT
1 CTTGTATAATTTTTATTTATT
9293963 TTCATGTCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.19, C:0.07, G:0.05, T:0.69
Consensus pattern (21 bp):
CTTGTATAATTTTTATTTATT
Found at i:9293975 original size:22 final size:23
Alignment explanation
Indices: 9293929--9293986 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 23
9293919 CACTTGTATA
* *
9293929 ATTTTTATTTA--TTCTTGTTTC
1 ATTTTTATTTATTTTCATGTCTC
9293950 ATTTTTATTTATTTTCATGTCT-
1 ATTTTTATTTATTTTCATGTCTC
* *
9293972 ATTTATATTTTTTTT
1 ATTTTTATTTATTTT
9293987 ACACATTCCC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 11 0.35
22 13 0.42
23 7 0.23
ACGTcount: A:0.17, C:0.07, G:0.03, T:0.72
Consensus pattern (23 bp):
ATTTTTATTTATTTTCATGTCTC
Found at i:9294361 original size:27 final size:27
Alignment explanation
Indices: 9294320--9294372 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
9294310 TTTACATTTG
9294320 GATTTAGGTTAGTCCTTAAGATCTTAA
1 GATTTAGGTTAGTCCTTAAGATCTTAA
*
9294347 GATTTAGGTTCGTCCTTAAGATCTTA
1 GATTTAGGTTAGTCCTTAAGATCTTA
9294373 CTTACCATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.42
Consensus pattern (27 bp):
GATTTAGGTTAGTCCTTAAGATCTTAA
Found at i:9309514 original size:14 final size:14
Alignment explanation
Indices: 9309495--9309521 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9309485 CCGAAACTAG
9309495 AAAGAAAAAAAAAC
1 AAAGAAAAAAAAAC
9309509 AAAGAAAAAAAAA
1 AAAGAAAAAAAAA
9309522 TGCTCATCCT
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:0.89, C:0.04, G:0.07, T:0.00
Consensus pattern (14 bp):
AAAGAAAAAAAAAC
Found at i:9310694 original size:39 final size:40
Alignment explanation
Indices: 9310599--9310860 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
9310589 TTGAATGATG
*
9310599 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
9310637 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
9310678 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
9310717 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
9310756 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
9310795 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
9310834 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
9310861 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:9313639 original size:48 final size:46
Alignment explanation
Indices: 9313571--9313896 Score: 248
Period size: 48 Copynumber: 6.9 Consensus size: 46
9313561 GTGAATTGCT
* * *
9313571 GATGCCATATCCCACACATGGTCTTACACTGGCTCACATGTCGAGGCT
1 GATGCCATGT-CCA-ACATGGTCTTACACTGGCTCACATGTCAAGGCC
* * * *
9313619 GATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCATCTCAATGCC
1 GATGCCATGTCC-A-ACATGGTCTTACACTGGCTCACATGTCAAGGCC
* * * * ***
9313667 GAGGCTATGTCCAACATGGTCTTACACTGGCTCTCATATGGTGGCC
1 GATGCCATGTCCAACATGGTCTTACACTGGCTCACATGTCAAGGCC
**
9313713 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACA-GTCAACACC
1 GATGCCATGT-CCA-ACATGGTCTTACACTGGCTCACATGTCAAGGCC
** * ** *
9313760 GATGCCATGTCCAACATGGTCTTACACCAGCTCTCATAACATA-GTC
1 GATGCCATGTCCAACATGGTCTTACACTGGCTCACATGTCA-AGGCC
* * * *
9313806 AATGCCATGTTCCAAACATGGTTTTACACTGGCATGCGAAATGT---GGCT
1 GATGCCATG-TCC-AACATGGTCTTACACTGGC-T-C-ACATGTCAAGGCC
*
9313854 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATGTCA
1 GATGCCATGT-CC-AACATGGTCTTACACTGGCTCACATGTCA
9313897 CCCCAAATGT
Statistics
Matches: 218, Mismatches: 46, Indels: 29
0.74 0.16 0.10
Matches are distributed among these distances:
45 25 0.11
46 50 0.23
47 25 0.11
48 114 0.52
49 1 0.00
50 1 0.00
51 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (46 bp):
GATGCCATGTCCAACATGGTCTTACACTGGCTCACATGTCAAGGCC
Found at i:9313796 original size:93 final size:94
Alignment explanation
Indices: 9313571--9313838 Score: 295
Period size: 93 Copynumber: 2.8 Consensus size: 94
9313561 GTGAATTGCT
* * * * * *
9313571 GATGCCATATCCCACACATGGTCTTACACTGGCTCACATGTCGAGGCTGATGCCATGTCCTAGAC
1 GATGCCATGT-CCA-ACATGGTCTTACACTGGCTCTCATATCGTGGCCGATGCCATGTCCCAGAC
* * **
9313636 ATGGTCTTACACTAGCTCTCATCTCAATGCC
64 ATGGTCTTACACTGGCTCACATCTCAACACC
* * *
9313667 GAGGCTATGTCCAACATGGTCTTACACTGGCTCTCATATGGTGGCCGATGCCATGTCCCAGACAT
1 GATGCCATGTCCAACATGGTCTTACACTGGCTCTCATATCGTGGCCGATGCCATGTCCCAGACAT
*
9313732 GGTCTTACACTGGCTCACA-GTCAACACC
66 GGTCTTACACTGGCTCACATCTCAACACC
** * * * * * * *
9313760 GATGCCATGTCCAACATGGTCTTACACCAGCTCTCATAACATAGTCAATGCCATGTTCCAAACAT
1 GATGCCATGTCCAACATGGTCTTACACTGGCTCTCATATCGTGGCCGATGCCATGTCCCAGACAT
*
9313825 GGTTTTACACTGGC
66 GGTCTTACACTGGC
9313839 ATGCGAAATG
Statistics
Matches: 145, Mismatches: 27, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
93 72 0.50
94 63 0.43
95 3 0.02
96 7 0.05
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.26
Consensus pattern (94 bp):
GATGCCATGTCCAACATGGTCTTACACTGGCTCTCATATCGTGGCCGATGCCATGTCCCAGACAT
GGTCTTACACTGGCTCACATCTCAACACC
Found at i:9313858 original size:141 final size:142
Alignment explanation
Indices: 9313568--9313896 Score: 400
Period size: 141 Copynumber: 2.3 Consensus size: 142
9313558 AGGGTGAATT
* * * ** *
9313568 GCTGATGCCATATCCCACACATGGTCTTACACTGGCTCACATGTCGAGGCTGATGCCATGTCCTA
1 GCTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATGTCAACACCGATGCCATGTCCTA
* ** * *
9313633 GACATGGTCTTACACTAGCTCTCATCTCAATGCCGAGGCTATGTCCAACATGGTCTTACACTGGC
66 GACATGGTCTTACACCAGCTCTCATAACAATGCCAAGGCCATGTCCAACATGGTCTTACACTGGC
*
9313698 TCTCATATGGTG
131 TCTCAAATGGTG
* *
9313710 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACA-GTCAACACCGATGCCATGTCC-A
1 GCTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATGTCAACACCGATGCCATGTCCTA
* * *
9313773 -ACATGGTCTTACACCAGCTCTCATAAC-ATAGTCAATGCCATGTTCCAAACATGGTTTTACACT
66 GACATGGTCTTACACCAGCTCTCATAACAAT-GCCAAGGCCATG-TCC-AACATGGTCTTACACT
*
9313836 GGCATGC-GAAAT-GTG
128 GGC-T-CTCAAATGGTG
*
9313851 GCTGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATGTCA
1 GCTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATGTCA
9313897 CCCCAAATGT
Statistics
Matches: 161, Mismatches: 20, Indels: 12
0.83 0.10 0.06
Matches are distributed among these distances:
138 2 0.01
139 32 0.20
140 4 0.02
141 76 0.47
142 46 0.29
143 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (142 bp):
GCTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATGTCAACACCGATGCCATGTCCTA
GACATGGTCTTACACCAGCTCTCATAACAATGCCAAGGCCATGTCCAACATGGTCTTACACTGGC
TCTCAAATGGTG
Found at i:9316132 original size:31 final size:30
Alignment explanation
Indices: 9316106--9316164 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
9316096 AATTTACATT
*
9316106 TTATATACCATTATATTAAATTATTTAAACA
1 TTATATAACATTA-ATTAAATTATTTAAACA
*
9316137 TTATGTAACATTAATTAAATTATTTAAA
1 TTATATAACATTAATTAAATTATTTAAA
9316165 TATCAGTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 15 0.58
31 11 0.42
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.46
Consensus pattern (30 bp):
TTATATAACATTAATTAAATTATTTAAACA
Found at i:9316802 original size:5 final size:6
Alignment explanation
Indices: 9316775--9316800 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
9316765 ATGTTCTTAG
9316775 TTTATT TTTATT TTTATT TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TT
9316801 ATGAATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:9323579 original size:26 final size:26
Alignment explanation
Indices: 9323543--9323910 Score: 727
Period size: 26 Copynumber: 14.2 Consensus size: 26
9323533 TGAAATTCCA
9323543 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
9323569 ATCATAGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
9323595 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
9323621 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
9323647 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
9323673 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
9323699 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
9323725 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
9323751 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
9323777 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
9323803 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
9323829 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
9323855 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
9323881 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
9323907 ATCA
1 ATCA
9323911 ATTTGTATCA
Statistics
Matches: 340, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
26 340 1.00
ACGTcount: A:0.35, C:0.27, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:9327625 original size:10 final size:10
Alignment explanation
Indices: 9327610--9327636 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
9327600 TCAAACTCTA
9327610 TTGCCCGTAC
1 TTGCCCGTAC
9327620 TTGCCCGTAC
1 TTGCCCGTAC
9327630 TTGCCCG
1 TTGCCCG
9327637 GCAACCCTTT
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:0.07, C:0.41, G:0.22, T:0.30
Consensus pattern (10 bp):
TTGCCCGTAC
Found at i:9330903 original size:26 final size:26
Alignment explanation
Indices: 9330864--9331231 Score: 727
Period size: 26 Copynumber: 14.2 Consensus size: 26
9330854 TGAAATTCCA
9330864 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
9330890 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
9330916 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
9330942 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
9330968 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
9330994 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
9331020 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
9331046 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
9331072 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
9331098 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
9331124 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
9331150 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
9331176 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
9331202 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
9331228 ATCA
1 ATCA
9331232 ATTTGTATCA
Statistics
Matches: 340, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
26 340 1.00
ACGTcount: A:0.35, C:0.27, G:0.08, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:9336776 original size:94 final size:95
Alignment explanation
Indices: 9336666--9336844 Score: 247
Period size: 94 Copynumber: 1.9 Consensus size: 95
9336656 CTCGTCGGTT
9336666 TTTTTTTTCAATTTCAAATATAACGGTAAAA-TTTATGTTTTG-GCCTCACTATTAAACTCGAAT
1 TTTTTTTTCAATTTCAAATATAACGGTAAAATTTTA-GTTTTGAGCC-CACTATTAAACTCGAAT
* *
9336729 TTAAGATTTAATTTTTATATTTTATATTTTTA
64 TTAAAATTTAATCTTTATATTTTATATTTTTA
* * * * *
9336761 TTTTTTTTC-ATTTCAATTATAATGGTAAAATTTTAGTTTTGATCCCTCTTTTAAACTCGAATTT
1 TTTTTTTTCAATTTCAAATATAACGGTAAAATTTTAGTTTTGAGCCCACTATTAAACTCGAATTT
*
9336825 AAAATTTACTCTTTATATTT
66 AAAATTTAATCTTTATATTT
9336845 CTATGTCCAC
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
94 59 0.80
95 15 0.20
ACGTcount: A:0.30, C:0.11, G:0.07, T:0.53
Consensus pattern (95 bp):
TTTTTTTTCAATTTCAAATATAACGGTAAAATTTTAGTTTTGAGCCCACTATTAAACTCGAATTT
AAAATTTAATCTTTATATTTTATATTTTTA
Found at i:9353152 original size:48 final size:48
Alignment explanation
Indices: 9352827--9353155 Score: 251
Period size: 48 Copynumber: 6.9 Consensus size: 48
9352817 GGGTAGGATA
*
9352827 CCGATGCCATG-CCCTAGAAATGGTCTTACACTGG--CTCATACATCAAT-
1 CCGATGCCATGTCCC-AGACATGGTCTTACACTGGCTCTCAT-C-TCAATG
* * * * * *
9352874 TCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCGCA-ATCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGC--TCTCATCTCAATG
** * * * **
9352923 CCGACACCATGTCCCAGGCATGGTCTTACACTAGCTCTCACATATCTGTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT--CATCTCAATG
* * * * *
9352973 CCTATGCCATATCCCAGACATGGTCTTACA-TTG-ACACATCTC-ATAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAAT-G
* * * *
9353019 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATCTCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAATG
* * ** * *
9353067 CCAATGCCATGTCCTAGACACAGTCTTACACTAGCTCTCGTCTCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAATG
* *
9353115 CCGATGACATGTCTCAGACATGGTCTTACACTGGCTCTCAT
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT
9353156 AATGTGACCG
Statistics
Matches: 218, Mismatches: 51, Indels: 25
0.74 0.17 0.09
Matches are distributed among these distances:
45 1 0.00
46 33 0.15
47 31 0.14
48 87 0.40
49 34 0.16
50 29 0.13
51 3 0.01
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAATG
Found at i:9356881 original size:21 final size:21
Alignment explanation
Indices: 9356847--9356887 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
9356837 GTCAGTAACC
*
9356847 AAATGTTCACACAAATAGACA
1 AAATGTTCACACAAACAGACA
**
9356868 AAATGTTCTGACAAACAGAC
1 AAATGTTCACACAAACAGAC
9356888 GTCTATTTAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.49, C:0.20, G:0.12, T:0.20
Consensus pattern (21 bp):
AAATGTTCACACAAACAGACA
Found at i:9359050 original size:41 final size:41
Alignment explanation
Indices: 9358993--9359098 Score: 167
Period size: 41 Copynumber: 2.6 Consensus size: 41
9358983 CCTGCCTACC
* *
9358993 AGGCACAAAGCTTGATATAATACACCGGCACGAAGCCTGCT
1 AGGCACAACGCTTGATATAATACACAGGCACGAAGCCTGCT
* *
9359034 AGGCACAACGCCTGATATAATACATAGGCACGAAGCCTGCT
1 AGGCACAACGCTTGATATAATACACAGGCACGAAGCCTGCT
*
9359075 AGGCACAACGCTTGGTATAATACA
1 AGGCACAACGCTTGATATAATACA
9359099 GGAAATCTAG
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.35, C:0.25, G:0.22, T:0.18
Consensus pattern (41 bp):
AGGCACAACGCTTGATATAATACACAGGCACGAAGCCTGCT
Found at i:9359685 original size:23 final size:23
Alignment explanation
Indices: 9359659--9359702 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
9359649 TCGAATCCAA
9359659 GTCT-GAAAACAAGAATAAAACTT
1 GTCTAGAAAACAA-AATAAAACTT
*
9359682 GTCTAGAAAATAAAATAAAAC
1 GTCTAGAAAACAAAATAAAAC
9359703 CTTATTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.57, C:0.11, G:0.11, T:0.20
Consensus pattern (23 bp):
GTCTAGAAAACAAAATAAAACTT
Found at i:9361843 original size:25 final size:24
Alignment explanation
Indices: 9361777--9361847 Score: 74
Period size: 25 Copynumber: 2.9 Consensus size: 24
9361767 TATGCTCCTA
*
9361777 CGAGC-GATAATCGGTAAGCTTCTC
1 CGAGCTGAGAATCGGTAAGC-TCTC
*
9361801 CGAGCTGAGTATCGGTAAGCTCTC
1 CGAGCTGAGAATCGGTAAGCTCTC
*
9361825 ACGAGCTGTA-AATCAGTAAGCTC
1 -CGAGCTG-AGAATCGGTAAGCTC
9361848 ATATGAGCTG
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
24 9 0.22
25 30 0.75
26 1 0.03
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (24 bp):
CGAGCTGAGAATCGGTAAGCTCTC
Found at i:9362932 original size:106 final size:106
Alignment explanation
Indices: 9362747--9363027 Score: 562
Period size: 106 Copynumber: 2.7 Consensus size: 106
9362737 ATTTTTTTAT
9362747 CTTTTAAATCACCTAATACCAACCTAACCTTGACAATTTCATGATTGAAATCCATGTACATCCAC
1 CTTTTAAATCACCTAATACCAACCTAACCTTGACAATTTCATGATTGAAATCCATGTACATCCAC
9362812 TAACTCATTTATTGGTCTAATTACTAAATAATAGAAAATAA
66 TAACTCATTTATTGGTCTAATTACTAAATAATAGAAAATAA
9362853 CTTTTAAATCACCTAATACCAACCTAACCTTGACAATTTCATGATTGAAATCCATGTACATCCAC
1 CTTTTAAATCACCTAATACCAACCTAACCTTGACAATTTCATGATTGAAATCCATGTACATCCAC
9362918 TAACTCATTTATTGGTCTAATTACTAAATAATAGAAAATAA
66 TAACTCATTTATTGGTCTAATTACTAAATAATAGAAAATAA
9362959 CTTTTAAATCACCTAATACCAACCTAACCTTGACAATTTCATGATTGAAATCCATGTACATCCAC
1 CTTTTAAATCACCTAATACCAACCTAACCTTGACAATTTCATGATTGAAATCCATGTACATCCAC
9363024 TAAC
66 TAAC
9363028 CTCTACATTA
Statistics
Matches: 175, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
106 175 1.00
ACGTcount: A:0.39, C:0.22, G:0.06, T:0.32
Consensus pattern (106 bp):
CTTTTAAATCACCTAATACCAACCTAACCTTGACAATTTCATGATTGAAATCCATGTACATCCAC
TAACTCATTTATTGGTCTAATTACTAAATAATAGAAAATAA
Found at i:9367060 original size:25 final size:25
Alignment explanation
Indices: 9367031--9367082 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
9367021 GGGTAAAATG
9367031 AACTAGAAGACAAAATTAAAAGCCA
1 AACTAGAAGACAAAATTAAAAGCCA
9367056 AACTAGAAGACAAAATTAAAAGCCA
1 AACTAGAAGACAAAATTAAAAGCCA
9367081 AA
1 AA
9367083 TGTGTCCATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.62, C:0.15, G:0.12, T:0.12
Consensus pattern (25 bp):
AACTAGAAGACAAAATTAAAAGCCA
Found at i:9368569 original size:24 final size:24
Alignment explanation
Indices: 9368542--9368595 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
9368532 TGAAAGGTAT
*
9368542 GTATATATGTGTTTATATGTATAA
1 GTATATATGTGTTCATATGTATAA
* * *
9368566 GTATGTATGTGTTCATGTGTATAT
1 GTATATATGTGTTCATATGTATAA
9368590 GTATAT
1 GTATAT
9368596 GAAGGTGTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.28, C:0.02, G:0.20, T:0.50
Consensus pattern (24 bp):
GTATATATGTGTTCATATGTATAA
Found at i:9370091 original size:22 final size:22
Alignment explanation
Indices: 9370066--9370139 Score: 130
Period size: 22 Copynumber: 3.4 Consensus size: 22
9370056 TGGCCTGAGG
9370066 ACACGGGCGTGCCCCTGTGTCC
1 ACACGGGCGTGCCCCTGTGTCC
9370088 ACACGGGCGTGCCCCTGTGTCC
1 ACACGGGCGTGCCCCTGTGTCC
* *
9370110 ACATGGGTGTGCCCCTGTGTCC
1 ACACGGGCGTGCCCCTGTGTCC
9370132 ACACGGGC
1 ACACGGGC
9370140 CTGTGACTCT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.11, C:0.38, G:0.32, T:0.19
Consensus pattern (22 bp):
ACACGGGCGTGCCCCTGTGTCC
Found at i:9373516 original size:25 final size:25
Alignment explanation
Indices: 9373477--9373525 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
9373467 GGCTAAAATC
*
9373477 GAAGCTCGCTTTCATTTCTCTCGTT
1 GAAGCTCGCTCTCATTTCTCTCGTT
*
9373502 GAAGCTCTCTCTCATTTCTCTCGT
1 GAAGCTCGCTCTCATTTCTCTCGT
9373526 CTCTAGCTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.12, C:0.31, G:0.14, T:0.43
Consensus pattern (25 bp):
GAAGCTCGCTCTCATTTCTCTCGTT
Found at i:9376840 original size:9 final size:9
Alignment explanation
Indices: 9376822--9376852 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
9376812 TGACAAGAAT
*
9376822 GATGATGAC
1 GATGAGGAC
9376831 GATGAGGAC
1 GATGAGGAC
9376840 GATGAGGAC
1 GATGAGGAC
9376849 GATG
1 GATG
9376853 TTTCTTCGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.32, C:0.10, G:0.42, T:0.16
Consensus pattern (9 bp):
GATGAGGAC
Found at i:9377125 original size:21 final size:22
Alignment explanation
Indices: 9377091--9377132 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
9377081 TGTACTGCTG
9377091 TTTTGATGCTGTTTTATTGTTC
1 TTTTGATGCTGTTTTATTGTTC
*
9377113 TTTTG-TGGTGTTTTATTGTT
1 TTTTGATGCTGTTTTATTGTT
9377133 TTGTTGTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.07, C:0.05, G:0.21, T:0.67
Consensus pattern (22 bp):
TTTTGATGCTGTTTTATTGTTC
Found at i:9388832 original size:87 final size:87
Alignment explanation
Indices: 9388735--9388911 Score: 354
Period size: 87 Copynumber: 2.0 Consensus size: 87
9388725 AATTAAAAAA
9388735 ATTAAACATTTGATATTTATCGAATTCCAAAATTAATACAAAATTATAATTCCATAAAAGAATCA
1 ATTAAACATTTGATATTTATCGAATTCCAAAATTAATACAAAATTATAATTCCATAAAAGAATCA
9388800 AATAATATTGGAAATCTGGCTT
66 AATAATATTGGAAATCTGGCTT
9388822 ATTAAACATTTGATATTTATCGAATTCCAAAATTAATACAAAATTATAATTCCATAAAAGAATCA
1 ATTAAACATTTGATATTTATCGAATTCCAAAATTAATACAAAATTATAATTCCATAAAAGAATCA
9388887 AATAATATTGGAAATCTGGCTT
66 AATAATATTGGAAATCTGGCTT
9388909 ATT
1 ATT
9388912 TTTAACTACC
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 90 1.00
ACGTcount: A:0.46, C:0.11, G:0.08, T:0.35
Consensus pattern (87 bp):
ATTAAACATTTGATATTTATCGAATTCCAAAATTAATACAAAATTATAATTCCATAAAAGAATCA
AATAATATTGGAAATCTGGCTT
Found at i:9391553 original size:23 final size:24
Alignment explanation
Indices: 9391509--9391564 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
9391499 TGAGTATTTA
*
9391509 AATGTATAT-ATTTAATTGAATTG
1 AATGTATATGATTTAATTAAATTG
*
9391532 AATGTATATGATTTGA-TAAATTG
1 AATGTATATGATTTAATTAAATTG
9391555 AAT-TAT-TGAT
1 AATGTATATGAT
9391565 CATTAAATGC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 4 0.13
22 3 0.10
23 18 0.60
24 5 0.17
ACGTcount: A:0.39, C:0.00, G:0.14, T:0.46
Consensus pattern (24 bp):
AATGTATATGATTTAATTAAATTG
Found at i:9392057 original size:20 final size:20
Alignment explanation
Indices: 9392003--9392075 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 20
9391993 ATAAGATATG
9392003 TGTTTATATAGAA-GAACTAC
1 TGTTTATAT-GAATGAACTAC
* *
9392023 TGTTTATACGGATGAACTAC
1 TGTTTATATGAATGAACTAC
*
9392043 T-TGTTATATGAATGAATTAC
1 TGT-TTATATGAATGAACTAC
**
9392063 AATTTATATGAAT
1 TGTTTATATGAAT
9392076 AGAAATGAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 40 0.91
21 1 0.02
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.40
Consensus pattern (20 bp):
TGTTTATATGAATGAACTAC
Found at i:9393746 original size:20 final size:20
Alignment explanation
Indices: 9393721--9393770 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
9393711 AGATCATATT
*
9393721 GAGAGATTGAATTTATTTCA
1 GAGAGATTAAATTTATTTCA
9393741 GAGAGATTAAATTTATTTCA
1 GAGAGATTAAATTTATTTCA
9393761 GAGAGATTAA
1 GAGAGATTAA
9393771 GGATATTGAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.40, C:0.04, G:0.20, T:0.36
Consensus pattern (20 bp):
GAGAGATTAAATTTATTTCA
Found at i:9393777 original size:20 final size:20
Alignment explanation
Indices: 9393734--9393777 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
9393724 AGATTGAATT
**
9393734 TATTTCAGAGAGATTAAATT
1 TATTTCAGAGAGATTAAAGA
*
9393754 TATTTCAGAGAGATTAAGGA
1 TATTTCAGAGAGATTAAAGA
9393774 TATT
1 TATT
9393778 GAGGGTAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.05, G:0.18, T:0.39
Consensus pattern (20 bp):
TATTTCAGAGAGATTAAAGA
Found at i:9399106 original size:16 final size:16
Alignment explanation
Indices: 9399087--9399117 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9399077 CTAGTTTTTT
*
9399087 AAAATTGTAAATTATA
1 AAAATTATAAATTATA
9399103 AAAATTATAAATTAT
1 AAAATTATAAATTAT
9399118 TGTAATTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (16 bp):
AAAATTATAAATTATA
Found at i:9399134 original size:19 final size:19
Alignment explanation
Indices: 9399110--9399166 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 19
9399100 ATAAAAATTA
9399110 TAAATTATTGTAATTTTTT
1 TAAATTATTGTAATTTTTT
* * *
9399129 TAAATTATAG-AAATATTT
1 TAAATTATTGTAATTTTTT
* *
9399147 TAAA-TGTTATAATTTTTT
1 TAAATTATTGTAATTTTTT
9399165 TA
1 TA
9399167 CAAAATACAT
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
17 2 0.07
18 18 0.62
19 9 0.31
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (19 bp):
TAAATTATTGTAATTTTTT
Found at i:9399134 original size:35 final size:36
Alignment explanation
Indices: 9399094--9399166 Score: 96
Period size: 36 Copynumber: 2.1 Consensus size: 36
9399084 TTTAAAATTG
*
9399094 TAAATTATA-AAA-ATTATAAATTATTGTAATTTTTT
1 TAAATTATAGAAATATTATAAA-TATTATAATTTTTT
* *
9399129 TAAATTATAGAAATATTTTAAATGTTATAATTTTTT
1 TAAATTATAGAAATATTATAAATATTATAATTTTTT
9399165 TA
1 TA
9399167 CAAAATACAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
35 9 0.27
36 17 0.52
37 7 0.21
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (36 bp):
TAAATTATAGAAATATTATAAATATTATAATTTTTT
Found at i:9407474 original size:18 final size:18
Alignment explanation
Indices: 9407451--9407486 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
9407441 TATAGAAGTC
*
9407451 AAACTTTCTAGCAGAATA
1 AAACTTTCTAGCAAAATA
9407469 AAACTTTCTAGCAAAATA
1 AAACTTTCTAGCAAAATA
9407487 GGTAAAATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.47, C:0.17, G:0.08, T:0.28
Consensus pattern (18 bp):
AAACTTTCTAGCAAAATA
Found at i:9409525 original size:87 final size:87
Alignment explanation
Indices: 9409379--9409548 Score: 313
Period size: 87 Copynumber: 2.0 Consensus size: 87
9409369 ATGAAACAAC
*
9409379 TTTGAATATCATGAACGTGCGAACCAAAATCCAAACAACTTTTTTCTTTGATATTCGACATTGAC
1 TTTGAACATCATGAACGTGCGAACCAAAATCCAAACAACTTTTTTCTTTGATATTCGACATTGAC
9409444 CATTAGATAGACTTAAATGTTG
66 CATTAGATAGACTTAAATGTTG
* *
9409466 TTTGAACATCATGAACGTGTGAACCAAAATCCAAACAATTTTTTTCTTTGATATTCGACATTGAC
1 TTTGAACATCATGAACGTGCGAACCAAAATCCAAACAACTTTTTTCTTTGATATTCGACATTGAC
9409531 CATTAGATAGACTTAAAT
66 CATTAGATAGACTTAAAT
9409549 CTAAGATATG
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 80 1.00
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (87 bp):
TTTGAACATCATGAACGTGCGAACCAAAATCCAAACAACTTTTTTCTTTGATATTCGACATTGAC
CATTAGATAGACTTAAATGTTG
Found at i:9413246 original size:48 final size:47
Alignment explanation
Indices: 9413178--9413454 Score: 238
Period size: 48 Copynumber: 5.8 Consensus size: 47
9413168 CAGCCATATT
* *
9413178 ATGAGAGCCAGTGTAAGACCATGTATGGGACATGGCATTGGCATTGAG
1 ATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATTGGC-TTGAG
* * * * *
9413226 ACGAGAGCTAGTATAAGACCATGTTTGGGACATGGCATCGGCCTCAAGAT
1 ATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATTGG-CT--TGAG
*
9413276 ATGAAAGCTAGTGTAAGACCATGTTTGGGACATGGCATTGGCTTGAG
1 ATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATTGGCTTGAG
* * * * * *
9413323 ATGTG-TC-AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAT
1 ATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATTGG-CTTGAG
* * *
9413369 ATGTGAGAG-TCAGTGTAAGACCATGTCTAGGACATGGCATTGACTTTGATG
1 A--TGAGAGCT-AGTGTAAGACCATGTTTGGGACATGGCATTGGC-TTGA-G
* * * * *
9413420 -TGTGAACCAGTGTAAGACCATGTCTAGGACATGGC
1 ATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGC
9413455 GTCGGCATCT
Statistics
Matches: 187, Mismatches: 30, Indels: 24
0.78 0.12 0.10
Matches are distributed among these distances:
45 30 0.16
46 6 0.03
47 5 0.03
48 71 0.38
49 4 0.02
50 71 0.38
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.25
Consensus pattern (47 bp):
ATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATTGGCTTGAG
Found at i:9413297 original size:50 final size:50
Alignment explanation
Indices: 9413129--9413460 Score: 235
Period size: 48 Copynumber: 6.9 Consensus size: 50
9413119 ACATTTGGGT
* * *
9413129 GATATGTGTGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAG-C-CATA
1 GATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCA-A
* * * * * *
9413176 -TTATGAGAGCCAGTGTAAGACCATGTATGGGACATGGCATTGGCAT--T
1 GATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAA
* * * *
9413223 GAGACGAGAGCTAGTATAAGACCATGTTTGGGACATGGCATCGGCCTCAA
1 GATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAA
* * * *
9413273 GATATGAAAGCTAGTGTAAGACCATGTTTGGGACATGGCATTGG-CT--T
1 GATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAA
* * * *
9413320 GAGATGTG-TC-AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA
1 GATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAA
* * * * * **
9413368 TATGTGAGAG-TCAGTGTAAGACCATGTCTAGGACATGGCAT-TGACT-TT
1 GATATGAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAA
* * * * * *
9413416 GATGTGTGAACCAGTGTAAGACCATGTCTAGGACATGGCGTCGGC
1 GATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
9413461 ATCTTACCCT
Statistics
Matches: 222, Mismatches: 48, Indels: 28
0.74 0.16 0.09
Matches are distributed among these distances:
45 30 0.14
46 19 0.09
47 18 0.08
48 82 0.37
49 6 0.03
50 67 0.30
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (50 bp):
GATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAA
Found at i:9413384 original size:95 final size:96
Alignment explanation
Indices: 9413139--9413460 Score: 363
Period size: 95 Copynumber: 3.4 Consensus size: 96
9413129 GATATGTGTG
*
9413139 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCAG-C-CATATTATGAGAGCCAGTGTAAGACCAT
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCATA-TATGAGAG-CAGTGTAAGACCAT
* * *
9413200 GTATGGGACATGGCATTGGCATTGAGACGAGAG
64 GTATGGGACATGGCATTGGCATTGAGATGTGAT
* * * *
9413233 CTAGTATAAGACCATGTTTGGGACATGGCATCGGCCTCAAGATATGAAAGCTAGTGTAAGACCAT
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC-ATATATGAGAGC-AGTGTAAGACCAT
*
9413298 GTTTGGGACATGGCATTGGC-TTGAGATGTG-T
64 GTATGGGACATGGCATTGGCATTGAGATGTGAT
*
9413329 C-AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGTGAGAGTCAGTGTAAGACCAT
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC-ATATATGAGAG-CAGTGTAAGACCAT
* * * * *
9413393 GTCTAGGACATGGCATTGACTTTGATG-TGTGAA
64 GTATGGGACATGGCATTGGCATTGA-GATGTGAT
* * *
9413426 CCAGTGTAAGACCATGTCTAGGACATGGCGTCGGC
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
9413461 ATCTTACCCT
Statistics
Matches: 196, Mismatches: 21, Indels: 18
0.83 0.09 0.08
Matches are distributed among these distances:
94 10 0.05
95 85 0.43
96 16 0.08
97 12 0.06
98 71 0.36
99 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (96 bp):
CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCATATATGAGAGCAGTGTAAGACCATGT
ATGGGACATGGCATTGGCATTGAGATGTGAT
Found at i:9416476 original size:44 final size:44
Alignment explanation
Indices: 9416409--9416499 Score: 130
Period size: 44 Copynumber: 2.1 Consensus size: 44
9416399 ATTTGCAGGT
* **
9416409 AAAATAATATTAAAGTAACCTACACTAATTAGAGTTTAAG-TGG
1 AAAATAATATTAAAGTAACCTACAATAACCAGAGTTTAAGTTGG
*
9416452 AAAACTAATATTAAAGTAACCTACAATAACCAGAGTTTACGTTGG
1 AAAA-TAATATTAAAGTAACCTACAATAACCAGAGTTTAAGTTGG
9416497 AAA
1 AAA
9416500 CGAAAAGCAG
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 4 0.10
44 32 0.76
45 6 0.14
ACGTcount: A:0.47, C:0.12, G:0.13, T:0.27
Consensus pattern (44 bp):
AAAATAATATTAAAGTAACCTACAATAACCAGAGTTTAAGTTGG
Found at i:9418902 original size:151 final size:147
Alignment explanation
Indices: 9418632--9418904 Score: 368
Period size: 151 Copynumber: 1.8 Consensus size: 147
9418622 CGTGTGGTCC
* * *
9418632 ACACGGCTTGACCCAATAACCCACACGTGTGGCCCACACGCCCAACTTAGCCTGACCTGTGTGGC
1 ACACGGCTTGACCCAATAACCCACACGTGTGACCCACACGCCCAAATTAGCCTGACCCGTGTGGC
* * * *
9418697 CCACACGGCCACACTCAAGCCACTACACGACCGTGTCTTGTGTACGGCCATGCCTTCATCAATCA
66 CCACACGACCACACTCAAGCCACCACACAACCGTGTCTTGCGTACGGCCATGCCTTCATCAATCA
9418762 CACGGTTGTATCCTCAT
131 CACGGTTGTATCCTCAT
* * * *
9418779 ACACGGTTTGGCCCAATAACCCACACGCCCGTGTGACCCACATGCCCAAATTGGCCT-AGCCCGT
1 ACACGGCTTGACCCAATAACCCACA----CGTGTGACCCACACGCCCAAATTAGCCTGA-CCCGT
* * *
9418843 GTGGCCCACACGACTACACTCAAGCCACCACACAATCGTGTCTTGCGTATGGCCATGCCTTC
61 GTGGCCCACACGACCACACTCAAGCCACCACACAACCGTGTCTTGCGTACGGCCATGCCTTC
9418905 GTCAGTTATA
Statistics
Matches: 107, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
147 23 0.21
150 1 0.01
151 83 0.78
ACGTcount: A:0.23, C:0.38, G:0.19, T:0.20
Consensus pattern (147 bp):
ACACGGCTTGACCCAATAACCCACACGTGTGACCCACACGCCCAAATTAGCCTGACCCGTGTGGC
CCACACGACCACACTCAAGCCACCACACAACCGTGTCTTGCGTACGGCCATGCCTTCATCAATCA
CACGGTTGTATCCTCAT
Found at i:9419418 original size:7 final size:7
Alignment explanation
Indices: 9419379--9419416 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
9419369 TGAGAGAAAC
9419379 AAAAGAG
1 AAAAGAG
9419386 AAAAGAG
1 AAAAGAG
*
9419393 GAAAGAG
1 AAAAGAG
9419400 AAAAGAG
1 AAAAGAG
*
9419407 AAAGGAG
1 AAAAGAG
9419414 AAA
1 AAA
9419417 GGGAACGCCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (7 bp):
AAAAGAG
Found at i:9420174 original size:33 final size:33
Alignment explanation
Indices: 9420132--9420198 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
9420122 GCCTCAACAT
9420132 CGAAACATGAAAAACATCATGGATATGATCTAA
1 CGAAACATGAAAAACATCATGGATATGATCTAA
*
9420165 CGAAACATGAAAAACATCATGGATATGGTCTAA
1 CGAAACATGAAAAACATCATGGATATGATCTAA
9420198 C
1 C
9420199 TCTGGAGGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.46, C:0.16, G:0.16, T:0.21
Consensus pattern (33 bp):
CGAAACATGAAAAACATCATGGATATGATCTAA
Found at i:9426482 original size:26 final size:26
Alignment explanation
Indices: 9426452--9426504 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
9426442 ACCATTATTA
9426452 AGTTTA-TATATTAT-TTCATTAAGGAT
1 AGTTTAGTA-ATTATGTT-ATTAAGGAT
*
9426478 AGTTTAGTAATTATGTTATTAATGAT
1 AGTTTAGTAATTATGTTATTAAGGAT
9426504 A
1 A
9426505 ATAAAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.36, C:0.02, G:0.13, T:0.49
Consensus pattern (26 bp):
AGTTTAGTAATTATGTTATTAAGGAT
Found at i:9429901 original size:7 final size:7
Alignment explanation
Indices: 9429886--9429923 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
9429876 TGAGAGAAAC
9429886 AAAAGAG
1 AAAAGAG
*
9429893 AACAGAG
1 AAAAGAG
*
9429900 AAGAGAG
1 AAAAGAG
9429907 AAAAGAG
1 AAAAGAG
9429914 AAAAGAG
1 AAAAGAG
9429921 AAA
1 AAA
9429924 GGGAACGTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.68, C:0.03, G:0.29, T:0.00
Consensus pattern (7 bp):
AAAAGAG
Found at i:9431272 original size:44 final size:44
Alignment explanation
Indices: 9431209--9431299 Score: 155
Period size: 44 Copynumber: 2.1 Consensus size: 44
9431199 GTAGGTCAAA
*
9431209 TAATATTAAAATAACCTACACTAATCAGAGTTTAAGTGGAAAAC
1 TAATATTAAAATAACCTACACTAATCAGAGTTTAAATGGAAAAC
* *
9431253 TAATATTAAAGTAACCTACACTAATCAGAGTTTAAATGGGAAAC
1 TAATATTAAAATAACCTACACTAATCAGAGTTTAAATGGAAAAC
9431297 TAA
1 TAA
9431300 CAATAGAATT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.47, C:0.13, G:0.12, T:0.27
Consensus pattern (44 bp):
TAATATTAAAATAACCTACACTAATCAGAGTTTAAATGGAAAAC
Found at i:9433808 original size:14 final size:14
Alignment explanation
Indices: 9433789--9433816 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
9433779 TAGCTTGTAG
9433789 CATCTAGATAAAAA
1 CATCTAGATAAAAA
9433803 CATCTAGATAAAAA
1 CATCTAGATAAAAA
9433817 GATAAGGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.14, G:0.07, T:0.21
Consensus pattern (14 bp):
CATCTAGATAAAAA
Found at i:9436543 original size:57 final size:58
Alignment explanation
Indices: 9436451--9436568 Score: 193
Period size: 57 Copynumber: 2.1 Consensus size: 58
9436441 ATAGAAATGG
*
9436451 TGAAAATGGAGAAATGAGAAACATTTGGAACTGAATATGGTTTTCTCCAAAATGAAAA
1 TGAAAATGGAGAAATGAGAAACATTTGGAAATGAATATGGTTTTCTCCAAAATGAAAA
* * *
9436509 TGAAAATGGAGAAATTA-AAACATTTGGAAATGAATGTGGTTTTCTCCACAATGAAAA
1 TGAAAATGGAGAAATGAGAAACATTTGGAAATGAATATGGTTTTCTCCAAAATGAAAA
9436566 TGA
1 TGA
9436569 CCTAGAAATG
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
57 40 0.71
58 16 0.29
ACGTcount: A:0.44, C:0.08, G:0.20, T:0.27
Consensus pattern (58 bp):
TGAAAATGGAGAAATGAGAAACATTTGGAAATGAATATGGTTTTCTCCAAAATGAAAA
Found at i:9455054 original size:48 final size:49
Alignment explanation
Indices: 9454950--9455055 Score: 119
Period size: 48 Copynumber: 2.2 Consensus size: 49
9454940 AGGGACACAC
* * *
9454950 CCGTGTGAG-GTGACTTAGGCTGTGTTTAAAGTCTGCTAAATAGACACGG
1 CCGTGTG-GTGTGCCTTAGGCCGTGTTTAAAGTCTGCTAAATAAACACGG
*
9454999 CCGTGTGGTGTGCCTTAGGCCGTG-TTACAA-TCTGTTAAATAAACACGG
1 CCGTGTGGTGTGCCTTAGGCCGTGTTTA-AAGTCTGCTAAATAAACACGG
**
9455047 GGGTGTGGT
1 CCGTGTGGT
9455056 CTACCCGTGT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
48 27 0.55
49 22 0.45
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (49 bp):
CCGTGTGGTGTGCCTTAGGCCGTGTTTAAAGTCTGCTAAATAAACACGG
Found at i:9463839 original size:48 final size:48
Alignment explanation
Indices: 9463779--9463943 Score: 174
Period size: 48 Copynumber: 3.5 Consensus size: 48
9463769 TAAGCTGACA
* * * * *
9463779 GCATGTCCTAGACAGGTCTTACACTAGCTTGTATATCGCGAGGCCAAT
1 GCATGTCCTAGACATGTCTTACAATAGCTTATATATCTCGAAGCCAAT
* * ** *
9463827 ACATGTCCTAGACATGTCTTACAATAGC-TCT-CGTCTC-AATGCCGAT
1 GCATGTCCTAGACATGTCTTACAATAGCTTATATATCTCGAA-GCCAAT
* * * *
9463873 GCATGTCCCAGACATGTCTTACATTGGCTTAAATATCTCGAAGCCAAT
1 GCATGTCCTAGACATGTCTTACAATAGCTTATATATCTCGAAGCCAAT
9463921 GCATGTCCTAGACATGTCTTACA
1 GCATGTCCTAGACATGTCTTACA
9463944 TTGGCTCTCA
Statistics
Matches: 94, Mismatches: 19, Indels: 8
0.78 0.16 0.07
Matches are distributed among these distances:
45 1 0.01
46 32 0.34
47 3 0.03
48 56 0.60
49 2 0.02
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (48 bp):
GCATGTCCTAGACATGTCTTACAATAGCTTATATATCTCGAAGCCAAT
Found at i:9463892 original size:94 final size:94
Alignment explanation
Indices: 9463779--9463994 Score: 265
Period size: 94 Copynumber: 2.3 Consensus size: 94
9463769 TAAGCTGACA
* ** *
9463779 GCATGTCCTAGACAGGTCTTACACTAGCTTGTATATCGCGAGGCCAATACATGTCCTAGACATGT
1 GCATGTCCTAGACATGTCTTACACTAGCTTAAATATCGCGAAGCCAATACATGTCCTAGACATGT
*
9463844 CTTACAATAGCTCTCGT-CTCAAT-GCCGAT
66 CTTACAATAGCTCTCATGCT--ATGGCCGAT
* * * * *
9463873 GCATGTCCCAGACATGTCTTACATTGGCTTAAATATCTCGAAGCCAATGCATGTCCTAGACATGT
1 GCATGTCCTAGACATGTCTTACACTAGCTTAAATATCGCGAAGCCAATACATGTCCTAGACATGT
* * * *
9463938 CTTACATTGGCTCTCATGCTGTGGCTGAT
66 CTTACAATAGCTCTCATGCTATGGCCGAT
*
9463967 GCATGTCCTAAACATGTCTTACACTAGC
1 GCATGTCCTAGACATGTCTTACACTAGC
9463995 ACACATATCA
Statistics
Matches: 102, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
93 1 0.01
94 99 0.97
95 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (94 bp):
GCATGTCCTAGACATGTCTTACACTAGCTTAAATATCGCGAAGCCAATACATGTCCTAGACATGT
CTTACAATAGCTCTCATGCTATGGCCGAT
Found at i:9469141 original size:43 final size:43
Alignment explanation
Indices: 9469058--9469144 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
9469048 GGAAGGGGAG
*
9469058 TAAGCTATAAAGCTTAGTAAGTTCATATGAAAATAATAAGTAA
1 TAAGCTATAAAGCTTAGCAAGTTCATATGAAAATAATAAGTAA
9469101 TAAGCTATAAAGCTTAGCAAGTTCATATGAAAATAATAAGTAA
1 TAAGCTATAAAGCTTAGCAAGTTCATATGAAAATAATAAGTAA
9469144 T
1 T
9469145 TTATTAACTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.48, C:0.08, G:0.14, T:0.30
Consensus pattern (43 bp):
TAAGCTATAAAGCTTAGCAAGTTCATATGAAAATAATAAGTAA
Found at i:9474125 original size:43 final size:44
Alignment explanation
Indices: 9474089--9474172 Score: 107
Period size: 43 Copynumber: 1.9 Consensus size: 44
9474079 TCACATATTG
* *
9474089 ATGCCACTGTCCCACACAGGGTCTTACACGTAATCACA-ATACA
1 ATGCCAATGTCCCACACAGGGCCTTACACGTAATCACATATACA
* * **
9474132 ATGCCAATGTCCCAGACATGGCCTTACATTTAATCACATAT
1 ATGCCAATGTCCCACACAGGGCCTTACACGTAATCACATAT
9474173 CGAGTCGATG
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
43 32 0.94
44 2 0.06
ACGTcount: A:0.32, C:0.30, G:0.13, T:0.25
Consensus pattern (44 bp):
ATGCCAATGTCCCACACAGGGCCTTACACGTAATCACATATACA
Found at i:9474199 original size:47 final size:47
Alignment explanation
Indices: 9474132--9474396 Score: 204
Period size: 47 Copynumber: 5.6 Consensus size: 47
9474122 TCACAATACA
*
9474132 ATGCCAATGTCCCAGACATGGCCTTACATTTAATCACATATCGAGTCG
1 ATGCC-ATGTCCCAGACATGGTCTTACATTTAATCACATATCGAGTCG
* * *
9474180 ATGCCATGTCTCAGACATGGTCTTACA-CTAACTCTCTTATATCGAGGTCG
1 ATGCCATGTCCCAGACATGGTCTTACATTTAA-TCAC--ATATCGA-GTCG
* * ** ** *
9474230 ATGCCACTGTCCCACACAGGGTCTTAC-TCGAAATTGCA-AT--A--CA
1 ATGCCA-TGTCCCAGACATGGTCTTACAT-TTAATCACATATCGAGTCG
*
9474273 ATGCCAATGCCCCAGACATGGTCTTACATTTAATCACATATCGAGTCG
1 ATGCC-ATGTCCCAGACATGGTCTTACATTTAATCACATATCGAGTCG
* * * * * *
9474321 ATGCCATGTCCCAAACATGGTCTTACACTGACTCTCTTATATCGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACATTTAATCAC--ATATCGA-GTCG
*
9474371 ATGCCATATCCCAGAC-TGGTCTTACA
1 ATGCCATGTCCCAGACATGGTCTTACA
9474397 CTGGCTCTCC
Statistics
Matches: 171, Mismatches: 29, Indels: 33
0.73 0.12 0.14
Matches are distributed among these distances:
43 28 0.16
44 4 0.02
46 5 0.03
47 48 0.28
48 13 0.08
49 25 0.15
50 27 0.16
51 19 0.11
52 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACATTTAATCACATATCGAGTCG
Found at i:9474342 original size:141 final size:141
Alignment explanation
Indices: 9474088--9474397 Score: 489
Period size: 141 Copynumber: 2.2 Consensus size: 141
9474078 ATCACATATT
* *
9474088 GATGCCACTGTCCCACACAGGGTCTTACACGTAATCACAATACAATGCCAATGTCCCAGACATGG
1 GATGCCACTGTCCCACACAGGGTCTTACACGAAATCACAATACAATGCCAATGCCCCAGACATGG
* *
9474153 CCTTACATTTAATCACATATCGAGTCGATGCCATGTCTCAGACATGGTCTTACACTAACTCTCTT
66 CCTTACATTTAATCACATATCGAGTCGATGCCATGTCCCAAACATGGTCTTACACTAACTCTCTT
*
9474218 ATATCGAGGTC
131 ATATCGAGGCC
* **
9474229 GATGCCACTGTCCCACACAGGGTCTTACTCGAAATTGCAATACAATGCCAATGCCCCAGACATGG
1 GATGCCACTGTCCCACACAGGGTCTTACACGAAATCACAATACAATGCCAATGCCCCAGACATGG
* *
9474294 TCTTACATTTAATCACATATCGAGTCGATGCCATGTCCCAAACATGGTCTTACACTGACTCTCTT
66 CCTTACATTTAATCACATATCGAGTCGATGCCATGTCCCAAACATGGTCTTACACTAACTCTCTT
9474359 ATATCGAGGCC
131 ATATCGAGGCC
* * *
9474370 GATGCCA-TATCCCAGAC-TGGTCTTACAC
1 GATGCCACTGTCCCACACAGGGTCTTACAC
9474398 TGGCTCTCCT
Statistics
Matches: 155, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
139 9 0.06
140 8 0.05
141 138 0.89
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (141 bp):
GATGCCACTGTCCCACACAGGGTCTTACACGAAATCACAATACAATGCCAATGCCCCAGACATGG
CCTTACATTTAATCACATATCGAGTCGATGCCATGTCCCAAACATGGTCTTACACTAACTCTCTT
ATATCGAGGCC
Found at i:9474366 original size:49 final size:50
Alignment explanation
Indices: 9474310--9474444 Score: 177
Period size: 49 Copynumber: 2.7 Consensus size: 50
9474300 ATTTAATCAC
*
9474310 ATATCGAGTCGATGCCATGTCCCAAACATGGTCTTACACTGACTCT-CTT
1 ATATCGAGTCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCCTT
* * *
9474359 ATATCGAGGCCGATGCCATATCCCAGAC-TGGTCTTACACTGGCTCTCCTT
1 ATATCGA-GTCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCCTT
* *
9474409 -TTTCCGTGTCGATGCCATGTCCCAGACATGGTCTTA
1 ATAT-CGAGTCGATGCCATGTCCCAGACATGGTCTTA
9474445 AACTAGCTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
49 44 0.59
50 30 0.41
ACGTcount: A:0.21, C:0.30, G:0.19, T:0.30
Consensus pattern (50 bp):
ATATCGAGTCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCCTT
Found at i:9475812 original size:27 final size:27
Alignment explanation
Indices: 9475755--9475844 Score: 112
Period size: 28 Copynumber: 3.2 Consensus size: 27
9475745 GTGACAGAGT
9475755 CACCAGATACAGATATTTTGTGGC-AGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAAG-GC
*
9475784 CACCAGAACAGATATATGTGGCAAGGC
1 CACCAGAACAGATATTTGTGGCAAGGC
9475811 CACCAGAACAGATAATTTGTGGCATA-GC
1 CACCAGAACAGAT-ATTTGTGGCA-AGGC
9475839 CACCAG
1 CACCAG
9475845 GACGCTTCCT
Statistics
Matches: 56, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
27 22 0.39
28 26 0.46
29 8 0.14
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAAGGC
Found at i:9475840 original size:28 final size:28
Alignment explanation
Indices: 9475755--9475844 Score: 114
Period size: 27 Copynumber: 3.2 Consensus size: 28
9475745 GTGACAGAGT
*
9475755 CACCAGATACAGATATTTTGTGGCAGT-GC
1 CACCAGA-ACAGATAATTTGTGGCA-TAGC
*
9475784 CACCAGAACAGAT-ATATGTGGCA-AGGC
1 CACCAGAACAGATAATTTGTGGCATA-GC
9475811 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCATAGC
9475839 CACCAG
1 CACCAG
9475845 GACGCTTCCT
Statistics
Matches: 54, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
27 23 0.43
28 23 0.43
29 8 0.15
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.20
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCATAGC
Found at i:9481437 original size:28 final size:27
Alignment explanation
Indices: 9481380--9481476 Score: 149
Period size: 27 Copynumber: 3.6 Consensus size: 27
9481370 TAAATTGTGC
*
9481380 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
9481407 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
9481435 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
9481462 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
9481477 GACTTAATAT
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
27 38 0.58
28 27 0.42
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:9481487 original size:27 final size:27
Alignment explanation
Indices: 9481380--9481489 Score: 114
Period size: 27 Copynumber: 4.0 Consensus size: 27
9481370 TAAATTGTGC
* * *
9481380 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGACTTGAATATAT
* * *
9481407 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
9481435 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
9481462 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
9481489 A
1 A
9481490 TTCTTGAATC
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
27 44 0.59
28 30 0.41
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Done.