Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 389 of 427
Found at i:112893601 original size:21 final size:21
Alignment explanation
Indices: 112893557--112893602 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
112893547 TGCTATTCTC
*
112893557 TATTATTATTACCATTACTTT
1 TATTATTATTACCATTACTAT
*
112893578 TATTATTATTA-CAGTTTCTAT
1 TATTATTATTACCA-TTACTAT
112893599 TATT
1 TATT
112893603 GCTTTTCTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.28, C:0.11, G:0.02, T:0.59
Consensus pattern (21 bp):
TATTATTATTACCATTACTAT
Found at i:112893656 original size:3 final size:3
Alignment explanation
Indices: 112893643--112893900 Score: 125
Period size: 3 Copynumber: 87.3 Consensus size: 3
112893633 GCACTATTCT
* * *
112893643 TTA TT- TTA TTA TTA TTA TTT TTT TTA TTA TT- TTA TCA TTA CTT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
* * * *
112893686 TCTA TTA TTG TTA TTA TTA ATA -TA TTA TTA TTA TTG TTA TTAA CGTA
1 T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A -TTA
* * * *
112893733 TTA TTA CTA TTA TTT TCTA CT- TTA TTA TTA -TA TTA TT- TCTA TTG
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
* * * * *
112893777 TTA TCA TCA -TC TTA TTA -AA TTAA TTAA TT- TTA -TA TTGA TT- TTG
1 TTA TTA TTA TTA TTA TTA TTA TT-A TT-A TTA TTA TTA TT-A TTA TTA
* * *
112893820 TCA -CA TTA TATA TT- TTC TT- TT- TGTA TTTA TTA TTA TTA TTA TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA T-TA -TTA TTA TTA TTA TTA TTA
112893864 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
112893901 CTTTAAGCAA
Statistics
Matches: 201, Mismatches: 28, Indels: 52
0.72 0.10 0.19
Matches are distributed among these distances:
2 25 0.12
3 152 0.76
4 22 0.11
5 2 0.01
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:112893728 original size:23 final size:23
Alignment explanation
Indices: 112893688--112893769 Score: 73
Period size: 23 Copynumber: 3.7 Consensus size: 23
112893678 CATTACTTTC
* *
112893688 TATTATTGTTATTATTAATATAT
1 TATTATTATTATTATTAACATAT
* *
112893711 TATTATTATTGTTATTAACGTAT
1 TATTATTATTATTATTAACATAT
* *
112893734 TATTACTATTATT-TTCTAC-T-T
1 TATTATTATTATTATT-AACATAT
112893755 TATTATTA-TATTATT
1 TATTATTATTATTATT
112893770 TCTATTGTTA
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
20 4 0.08
21 10 0.20
22 3 0.06
23 32 0.65
ACGTcount: A:0.30, C:0.05, G:0.04, T:0.61
Consensus pattern (23 bp):
TATTATTATTATTATTAACATAT
Found at i:112897122 original size:5 final size:5
Alignment explanation
Indices: 112897112--112897136 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
112897102 TGGCTCATTT
112897112 CTGTC CTGTC CTGTC CTGTC CTGTC
1 CTGTC CTGTC CTGTC CTGTC CTGTC
112897137 AACCCCAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.40, G:0.20, T:0.40
Consensus pattern (5 bp):
CTGTC
Found at i:112899183 original size:2 final size:2
Alignment explanation
Indices: 112899176--112899225 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
112899166 CAAGCACTTC
112899176 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
112899218 AT AT AT AT
1 AT AT AT AT
112899226 CCTTGCCATT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:112899850 original size:11 final size:11
Alignment explanation
Indices: 112899834--112899861 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
112899824 AGAATGAAGA
112899834 TTGTATAATCT
1 TTGTATAATCT
112899845 TTGTATAATCT
1 TTGTATAATCT
112899856 TTGTAT
1 TTGTAT
112899862 TTCTTATCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.25, C:0.07, G:0.11, T:0.57
Consensus pattern (11 bp):
TTGTATAATCT
Found at i:112904545 original size:17 final size:17
Alignment explanation
Indices: 112904520--112904552 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
112904510 TTGTTGAAGA
112904520 ATCTATTTGGATTTTGC
1 ATCTATTTGGATTTTGC
*
112904537 ATCTGTTTGGATTTTG
1 ATCTATTTGGATTTTG
112904553 TATCAGTCTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.09, G:0.21, T:0.55
Consensus pattern (17 bp):
ATCTATTTGGATTTTGC
Found at i:112909676 original size:16 final size:17
Alignment explanation
Indices: 112909655--112909688 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
112909645 CATTTTTTTG
*
112909655 CTTTATAT-GTATTATT
1 CTTTATATCGTAGTATT
112909671 CTTTATATCGTAGTATT
1 CTTTATATCGTAGTATT
112909688 C
1 C
112909689 ATTTTTTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.24, C:0.12, G:0.09, T:0.56
Consensus pattern (17 bp):
CTTTATATCGTAGTATT
Found at i:112921262 original size:119 final size:119
Alignment explanation
Indices: 112921051--112921400 Score: 567
Period size: 119 Copynumber: 2.9 Consensus size: 119
112921041 AATTAAAGAC
* * *
112921051 AGCAGATCTAGA-CTTCAGACATTTATGCTGAAGCAGATCCAAGATGATTTGGTTTTCTTGTGTT
1 AGCAGATCTA-ACCTTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTT
* * *
112921115 TACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATAT
65 TACAAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAAAGTTCTCAAATAT
*
112921170 AGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
1 AGCAGATCTAACCTTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
* * *
112921235 ACAAGGAACAAATCGAAGACATAGCAGATATAACTCTCAAAAGTTCTCAAATGT
66 ACAAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAAAGTTCTCAAATAT
*
112921289 AGCAGATCTAACCTTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTCTGTTT
1 AGCAGATCTAACCTTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
* *
112921354 ACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCT
66 ACAAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAAAGTTCT
112921401 TAAACAAATT
Statistics
Matches: 214, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
118 1 0.00
119 213 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (119 bp):
AGCAGATCTAACCTTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
ACAAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAAAGTTCTCAAATAT
Found at i:112921592 original size:202 final size:202
Alignment explanation
Indices: 112921217--112921602 Score: 556
Period size: 202 Copynumber: 1.9 Consensus size: 202
112921207 TCCAAGATGA
* * *
112921217 TTTGGTATTCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATATAACTCTCAAAAGTTCT
1 TTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCAGATATAACTCTCAAAAGTTCT
* * * *
112921282 CAAATGTAGCAGATCTAACCTTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGTATTCT
66 CAAATATAGCAGATCTAAACTTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGCATCCT
* * * *
112921347 TCTGTTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTTAAACAAATTC
131 TCTGTCTACAAGGAACAAATCGAAGACATAGCAGATATGACTCTCAAAAGTTCTTAAACAAATTC
112921412 AAGAGGG
196 AAGAGGG
* * * * * * *
112921419 TTTGGCATCCTTGTGCTTACAAGGGACAAATCGAGGACATAGCAGATTTGATTCTCAGACGTTCT
1 TTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCAGATATAACTCTCAAAAGTTCT
* * *
112921484 CAGATATAGCAGATCTAAACTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCT
66 CAAATATAGCAGATCTAAACTTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGCATCCT
* * *
112921549 TGTGTCTACAAGGGACAAATCGAAGACATAGCAGATTTGACTCTCAAAAGTTCT
131 TCTGTCTACAAGGAACAAATCGAAGACATAGCAGATATGACTCTCAAAAGTTCT
112921603 CAAATATAGC
Statistics
Matches: 160, Mismatches: 24, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
202 160 1.00
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (202 bp):
TTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCAGATATAACTCTCAAAAGTTCT
CAAATATAGCAGATCTAAACTTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGCATCCT
TCTGTCTACAAGGAACAAATCGAAGACATAGCAGATATGACTCTCAAAAGTTCTTAAACAAATTC
AAGAGGG
Found at i:112921626 original size:119 final size:119
Alignment explanation
Indices: 112921411--112921729 Score: 498
Period size: 119 Copynumber: 2.7 Consensus size: 119
112921401 TAAACAAATT
* *
112921411 CAAGAGGGTTTGGCATCCTTGTGCTTACAAGGGACAAATCGAGGACATAGCAGATTTGATTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGGACAAATCGAGGACATAGCAGATTTGACTCTCA
* * *
112921476 GACGTTCTCAGATATAGCAGATCTAAACTTCAGATGTTTATACTGAAGCAGATC
66 AAAGTTCTCAAATATAGCAGATCTAAACTTCAGATGTTTATACTGAAGCAGATC
*
112921530 CAAGATGGTTTGGCATCCTTGTG-TCTACAAGGGACAAATCGAAGACATAGCAGATTTGACTCTC
1 CAAGATGGTTTGGCATCCTTGTGCT-TACAAGGGACAAATCGAGGACATAGCAGATTTGACTCTC
*
112921594 AAAAGTTCTCAAATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATC
65 AAAAGTTCTCAAATATAGCAGATCTAAACTTCAGATGTTTATACTGAAGCAGATC
* * * * *
112921649 CAAGATGATTTGGCATCCTTGTACTTACAAGGAACAAATCGAGGACGTAGCAGATATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGGACAAATCGAGGACATAGCAGATTTGACTCTCA
*
112921714 AATGTTCTCAAA-ATAG
66 AAAGTTCTCAAATATAG
112921730 ACTCAAACTG
Statistics
Matches: 184, Mismatches: 14, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
118 5 0.03
119 178 0.97
120 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (119 bp):
CAAGATGGTTTGGCATCCTTGTGCTTACAAGGGACAAATCGAGGACATAGCAGATTTGACTCTCA
AAAGTTCTCAAATATAGCAGATCTAAACTTCAGATGTTTATACTGAAGCAGATC
Found at i:112921704 original size:321 final size:321
Alignment explanation
Indices: 112921107--112921721 Score: 1041
Period size: 321 Copynumber: 1.9 Consensus size: 321
112921097 ATTTGGTTTT
*
112921107 CTTGTGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATATAG
1 CTTGTGCTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATATAG
* * * *
112921172 CAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTAC
66 CAGATCTAAACTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTCTAC
*
112921237 AAGGAACAAATCGAAGACATAGCAGATATAACTCTCAAAAGTTCTCAAATGTAGCAGATCTAACC
131 AAGGAACAAATCGAAGACATAGCAGATATAACTCTCAAAAGTTCTCAAATATAGCAGATCTAACC
* * **
112921302 TTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTCTGTTTACAAGGAACAAAT
196 TTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTCTACTTACAAGGAACAAAT
*
112921367 CGAGGACATTGCAGATATGACTCTCAAATGTTCTTAAACAAATTCAAGAGGGTTTGGCATC
261 CGAGGACATAGCAGATATGACTCTCAAATGTTCTTAAACAAATTCAAGAGGGTTTGGCATC
* * *
112921428 CTTGTGCTTACAAGGGACAAATCGAGGACATAGCAGATTTGATTCTCAGACGTTCTCAGATATAG
1 CTTGTGCTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATATAG
*
112921493 CAGATCTAAACTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTCTAC
66 CAGATCTAAACTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTCTAC
* * *
112921558 AAGGGACAAATCGAAGACATAGCAGATTTGACTCTCAAAAGTTCTCAAATATAGCAGATCTAACC
131 AAGGAACAAATCGAAGACATAGCAGATATAACTCTCAAAAGTTCTCAAATATAGCAGATCTAACC
* *
112921623 TTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTACTTACAAGGAACAAAT
196 TTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTCTACTTACAAGGAACAAAT
*
112921688 CGAGGACGTAGCAGATATGACTCTCAAATGTTCT
261 CGAGGACATAGCAGATATGACTCTCAAATGTTCT
112921722 CAAAATAGAC
Statistics
Matches: 273, Mismatches: 21, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
321 273 1.00
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (321 bp):
CTTGTGCTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATATAG
CAGATCTAAACTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTCTAC
AAGGAACAAATCGAAGACATAGCAGATATAACTCTCAAAAGTTCTCAAATATAGCAGATCTAACC
TTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTCTACTTACAAGGAACAAAT
CGAGGACATAGCAGATATGACTCTCAAATGTTCTTAAACAAATTCAAGAGGGTTTGGCATC
Found at i:112924939 original size:27 final size:27
Alignment explanation
Indices: 112924909--112924981 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 27
112924899 TGTCTTGGAT
112924909 TTGTTAGATATTGATTATGTTTTAAGC
1 TTGTTAGATATTGATTATGTTTTAAGC
112924936 TTGTTAGATATTGAATTTATTATGTTTTAAGC
1 TTGTTAGATATTG-----ATTATGTTTTAAGC
*
112924968 TTGTTGGATATTGA
1 TTGTTAGATATTGA
112924982 ATTTATTATA
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
27 14 0.35
32 26 0.65
ACGTcount: A:0.26, C:0.03, G:0.19, T:0.52
Consensus pattern (27 bp):
TTGTTAGATATTGATTATGTTTTAAGC
Found at i:112924961 original size:32 final size:32
Alignment explanation
Indices: 112924922--112925014 Score: 159
Period size: 32 Copynumber: 2.9 Consensus size: 32
112924912 TTAGATATTG
*
112924922 ATTATGTTTTAAGCTTGTTAGATATTGAATTT
1 ATTATGTTTTAAGCTTGTTGGATATTGAATTT
112924954 ATTATGTTTTAAGCTTGTTGGATATTGAATTT
1 ATTATGTTTTAAGCTTGTTGGATATTGAATTT
* *
112924986 ATTATATTTTAAACTTGTTGGATATTGAA
1 ATTATGTTTTAAGCTTGTTGGATATTGAA
112925015 ATGATTGACA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 58 1.00
ACGTcount: A:0.29, C:0.03, G:0.16, T:0.52
Consensus pattern (32 bp):
ATTATGTTTTAAGCTTGTTGGATATTGAATTT
Found at i:112926322 original size:118 final size:118
Alignment explanation
Indices: 112926114--112926344 Score: 390
Period size: 118 Copynumber: 2.0 Consensus size: 118
112926104 TGTTTTCCAT
* *
112926114 GGTTATGAGTACAGCTTAGATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
112926179 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGTCGA
66 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGTCGA
**
112926232 GGTTATGAGTATGGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
****
112926297 CTACTTCGCGTCAAAAGGTTGTGTGACGTGTTGGGTAAAACTCCGCTA
66 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTA
112926345 ACCGAAAATA
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
118 105 1.00
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (118 bp):
GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGTCGA
Found at i:112926487 original size:11 final size:11
Alignment explanation
Indices: 112926471--112926499 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
112926461 ATAAATTTAA
112926471 AAAAAAAAAAG
1 AAAAAAAAAAG
112926482 AAAAAAAAAAG
1 AAAAAAAAAAG
112926493 AAAAAAA
1 AAAAAAA
112926500 TAAGTACTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:112930383 original size:29 final size:29
Alignment explanation
Indices: 112930350--112930406 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
112930340 TAATGTGGTG
112930350 TAATATTAGTTATGCACTTGGACAATGTC
1 TAATATTAGTTATGCACTTGGACAATGTC
112930379 TAATATTAGTTATGCACTTGGACAATGT
1 TAATATTAGTTATGCACTTGGACAATGT
112930407 TGTTGTTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.39
Consensus pattern (29 bp):
TAATATTAGTTATGCACTTGGACAATGTC
Found at i:112930834 original size:19 final size:19
Alignment explanation
Indices: 112930771--112930827 Score: 105
Period size: 19 Copynumber: 3.0 Consensus size: 19
112930761 ATCCAAACAG
*
112930771 CAGAAAAGTAAATCATTTC
1 CAGAAAAGTAAATCATTTT
112930790 CAGAAAAGTAAATCATTTT
1 CAGAAAAGTAAATCATTTT
112930809 CAGAAAAGTAAATCATTTT
1 CAGAAAAGTAAATCATTTT
112930828 GCAAAAATTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 37 1.00
ACGTcount: A:0.47, C:0.12, G:0.11, T:0.30
Consensus pattern (19 bp):
CAGAAAAGTAAATCATTTT
Found at i:112931661 original size:31 final size:31
Alignment explanation
Indices: 112931601--112931671 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
112931591 TTTTTTATTT
* * *
112931601 AGTTAAATTTGATTCTCAACATTTTAAAAAC
1 AGTTAAATTTGAATCTCAACATTTAAAAAAA
*
112931632 AGTTAAATTT-AATCATCAATATTTAAAAAAA
1 AGTTAAATTTGAATC-TCAACATTTAAAAAAA
*
112931663 AGTAAAATT
1 AGTTAAATT
112931672 ACTATTTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 3 0.09
31 31 0.91
ACGTcount: A:0.49, C:0.08, G:0.06, T:0.37
Consensus pattern (31 bp):
AGTTAAATTTGAATCTCAACATTTAAAAAAA
Found at i:112932265 original size:30 final size:30
Alignment explanation
Indices: 112932229--112932286 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
112932219 AGCAGGAGCC
112932229 TTGGTCCCCTAAAATGGAAAAATTTTAATT
1 TTGGTCCCCTAAAATGGAAAAATTTTAATT
** **
112932259 TTGGTCCTTTAAAATTTAAAAATTTTAA
1 TTGGTCCCCTAAAATGGAAAAATTTTAA
112932287 ATTAGTAAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.41
Consensus pattern (30 bp):
TTGGTCCCCTAAAATGGAAAAATTTTAATT
Found at i:112932635 original size:18 final size:18
Alignment explanation
Indices: 112932604--112932654 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
112932594 TGTATTATAA
112932604 TATTAATTAATAAAATAT
1 TATTAATTAATAAAATAT
* *
112932622 TATTACTTATTAAAATAT
1 TATTAATTAATAAAATAT
*
112932640 TATTATTTAATAAAA
1 TATTAATTAATAAAA
112932655 ATATAATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTAATTAATAAAATAT
Found at i:112933623 original size:26 final size:25
Alignment explanation
Indices: 112933582--112933631 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
112933572 TTGGTAATAC
*
112933582 TTTTAAAAAGTATTTTTGAGAAGTG
1 TTTTAAAAAGTATTTTTGAAAAGTG
*
112933607 TTTTAAAAAAGTGTTTTTGAAAAGT
1 TTTT-AAAAAGTATTTTTGAAAAGT
112933632 TTAGTTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (25 bp):
TTTTAAAAAGTATTTTTGAAAAGTG
Found at i:112933629 original size:13 final size:13
Alignment explanation
Indices: 112933582--112933631 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
112933572 TTGGTAATAC
*
112933582 TTTTAAAAAGTAT
1 TTTTAAAAAGTGT
* *
112933595 TTTTGAGAAGTGT
1 TTTTAAAAAGTGT
*
112933608 TTTAAAAAAGTGT
1 TTTTAAAAAGTGT
*
112933621 TTTTGAAAAGT
1 TTTTAAAAAGT
112933632 TTAGTTTAAA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (13 bp):
TTTTAAAAAGTGT
Found at i:112937787 original size:15 final size:15
Alignment explanation
Indices: 112937763--112937796 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
112937753 AGTAATGTCT
* *
112937763 ATGTATAGAATTATA
1 ATGTACAGAATTAAA
112937778 ATGTACAGAATTAAA
1 ATGTACAGAATTAAA
112937793 ATGT
1 ATGT
112937797 TAAAAGATCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.03, G:0.15, T:0.35
Consensus pattern (15 bp):
ATGTACAGAATTAAA
Found at i:112942346 original size:1 final size:1
Alignment explanation
Indices: 112942340--112942365 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
112942330 CCACCACCGC
112942340 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
112942366 CAAAGAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:112946664 original size:30 final size:29
Alignment explanation
Indices: 112946628--112946707 Score: 83
Period size: 28 Copynumber: 2.7 Consensus size: 29
112946618 GACACCTTAT
*
112946628 TATTTAATTAATTTTT-TGATCTTTTAAAAA
1 TATTTAAATAATTTTTATGAT-TTTT-AAAA
*
112946658 TATTTAAAAATATTTTTTATGATTTTTAAAA
1 TATTT--AAATAATTTTTATGATTTTTAAAA
*
112946689 T-TTTAAATAATTTTAATGA
1 TATTTAAATAATTTTTATGA
112946708 CTTCTAATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
28 13 0.30
30 8 0.19
31 5 0.12
32 13 0.30
33 4 0.09
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (29 bp):
TATTTAAATAATTTTTATGATTTTTAAAA
Found at i:112952699 original size:60 final size:61
Alignment explanation
Indices: 112952574--112952687 Score: 149
Period size: 60 Copynumber: 1.9 Consensus size: 61
112952564 ACTTTAAATG
* * * * * * *
112952574 TAAAAAATTTAATAAATTTAGCTCTTAATATTTACAAAATTTGTTATTTTAGTTTAAGTTC
1 TAAAAAATTTAATAAATTTAACACTCAACATTTACAAAATTTGTCAATTTAATTTAAGTTC
*
112952635 TAAAAAA-TTAATAAATTTAACACTCAACATTTATAAAATTTGTCAATTTAATT
1 TAAAAAATTTAATAAATTTAACACTCAACATTTACAAAATTTGTCAATTTAATT
112952688 ATAATTTTAA
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
60 38 0.84
61 7 0.16
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (61 bp):
TAAAAAATTTAATAAATTTAACACTCAACATTTACAAAATTTGTCAATTTAATTTAAGTTC
Found at i:112957034 original size:38 final size:38
Alignment explanation
Indices: 112956983--112957105 Score: 203
Period size: 38 Copynumber: 3.2 Consensus size: 38
112956973 GTAAAAGAAG
*
112956983 AAATCCGGACTTAAAGTCCGCAAGCTATATGCTGGAAT
1 AAATCCGGACTTAAAGTCCGCAGGCTATATGCTGGAAT
112957021 AAATCCGGACTTAAAGTCCGCAGGCTATATGCTGGAAT
1 AAATCCGGACTTAAAGTCCGCAGGCTATATGCTGGAAT
*
112957059 AAATCCGGACTTAAAGTCCGCAGGCTA-AGTGCTGGAAA
1 AAATCCGGACTTAAAGTCCGCAGGCTATA-TGCTGGAAT
112957097 AATATCCGG
1 AA-ATCCGG
112957106 GTTAAGGACC
Statistics
Matches: 81, Mismatches: 2, Indels: 3
0.94 0.02 0.03
Matches are distributed among these distances:
37 1 0.01
38 74 0.91
39 6 0.07
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (38 bp):
AAATCCGGACTTAAAGTCCGCAGGCTATATGCTGGAAT
Found at i:112957129 original size:76 final size:76
Alignment explanation
Indices: 112956983--112957129 Score: 183
Period size: 76 Copynumber: 1.9 Consensus size: 76
112956973 GTAAAAGAAG
* * *
112956983 AAATCCGGACTTAAAGTCCGCAAGCTATATGCTGGAATAAATCCGGACTTAAAGTCCGCAGGCTA
1 AAATCCGGACTTAAAGTCCGCAAGCTATATGCTGGAAAAAATCCGGACTTAAAGCCCGCAAGCTA
*
112957048 TATGCTGGAAT
66 CATGCTGGAAT
* * *
112957059 AAATCCGGACTTAAAGTCCGCAGGCTA-AGTGCTGGAAAAATATCCGG-GTTAAGGACCCGCAAG
1 AAATCCGGACTTAAAGTCCGCAAGCTATA-TGCTGGAAAAA-ATCCGGACTTAAAG-CCCGCAAG
112957122 CT-CATGCT
63 CTACATGCT
112957130 AGTAATGTAT
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
75 1 0.02
76 46 0.75
77 14 0.23
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (76 bp):
AAATCCGGACTTAAAGTCCGCAAGCTATATGCTGGAAAAAATCCGGACTTAAAGCCCGCAAGCTA
CATGCTGGAAT
Found at i:112963528 original size:38 final size:38
Alignment explanation
Indices: 112963474--112963596 Score: 185
Period size: 38 Copynumber: 3.2 Consensus size: 38
112963464 GTAAAAGAAG
*
112963474 AAATCCGGACTTAAAGTCCGCAAGCTATATGCTGGAAT
1 AAATCCGGACTTAAAGTCCGCAGGCTATATGCTGGAAT
*
112963512 AAGTCCGGACTTAAAGTCCGCAGGCTATATGCTGGAAT
1 AAATCCGGACTTAAAGTCCGCAGGCTATATGCTGGAAT
* *
112963550 AAATCCGGGCTTAAAGTCCGCAGGCTA-AGTGCTGGAAA
1 AAATCCGGACTTAAAGTCCGCAGGCTATA-TGCTGGAAT
112963588 AATATCCGG
1 AA-ATCCGG
112963597 GTTAAGGACC
Statistics
Matches: 78, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
37 1 0.01
38 71 0.91
39 6 0.08
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.22
Consensus pattern (38 bp):
AAATCCGGACTTAAAGTCCGCAGGCTATATGCTGGAAT
Found at i:112963610 original size:39 final size:38
Alignment explanation
Indices: 112963474--112963614 Score: 151
Period size: 38 Copynumber: 3.7 Consensus size: 38
112963464 GTAAAAGAAG
* * * *
112963474 AAATCCGGACTTAAAGTCCGCAAGCTATATGCTGGAAT
1 AAATCCGGGCTTAAAGCCCGCAGGCTATATGCTGGAAA
* * * *
112963512 AAGTCCGGACTTAAAGTCCGCAGGCTATATGCTGGAAT
1 AAATCCGGGCTTAAAGCCCGCAGGCTATATGCTGGAAA
*
112963550 AAATCCGGGCTTAAAGTCCGCAGGCTA-AGTGCTGGAAA
1 AAATCCGGGCTTAAAGCCCGCAGGCTATA-TGCTGGAAA
*
112963588 AATATCCGGG-TTAAGGACCCGCAGGCT
1 AA-ATCCGGGCTTAAAG-CCCGCAGGCT
112963615 CATGCTAGTA
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
37 1 0.01
38 76 0.82
39 16 0.17
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.21
Consensus pattern (38 bp):
AAATCCGGGCTTAAAGCCCGCAGGCTATATGCTGGAAA
Found at i:112963620 original size:76 final size:76
Alignment explanation
Indices: 112963474--112963620 Score: 174
Period size: 76 Copynumber: 1.9 Consensus size: 76
112963464 GTAAAAGAAG
* * *
112963474 AAATCCGGACTTAAAGTCCGCAAGCTATATGCTGGAATAAGTCCGGACTTAAAGTCCGCAGGCTA
1 AAATCCGGACTTAAAGTCCGCAAGCTATATGCTGGAAAAAATCCGGACTTAAAGCCCGCAGGCTA
*
112963539 TATGCTGGAAT
66 CATGCTGGAAT
* * * *
112963550 AAATCCGGGCTTAAAGTCCGCAGGCTA-AGTGCTGGAAAAATATCCGG-GTTAAGGACCCGCAGG
1 AAATCCGGACTTAAAGTCCGCAAGCTATA-TGCTGGAAAAA-ATCCGGACTTAAAG-CCCGCAGG
112963613 CT-CATGCT
63 CTACATGCT
112963621 AGTAATGTAT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
75 1 0.02
76 45 0.75
77 14 0.23
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (76 bp):
AAATCCGGACTTAAAGTCCGCAAGCTATATGCTGGAAAAAATCCGGACTTAAAGCCCGCAGGCTA
CATGCTGGAAT
Found at i:112964612 original size:25 final size:25
Alignment explanation
Indices: 112964584--112964653 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
112964574 CTCTTTTAAT
*
112964584 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
112964609 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
112964634 AACTGGGGAAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
112964654 GCACTTCCTC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:112964729 original size:20 final size:21
Alignment explanation
Indices: 112964704--112964751 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
112964694 AAATGGATAC
* *
112964704 ATCATGTGCATATCATA-CAT
1 ATCATGTGCAAATCATATCAA
112964724 ATCATGTGCAAATCATATCAA
1 ATCATGTGCAAATCATATCAA
112964745 ATCATGT
1 ATCATGT
112964752 ATATCAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (21 bp):
ATCATGTGCAAATCATATCAA
Found at i:112968648 original size:42 final size:42
Alignment explanation
Indices: 112968601--112968750 Score: 156
Period size: 42 Copynumber: 3.6 Consensus size: 42
112968591 CGAAGGCTGT
* * *
112968601 ACAGAAGCACATAAGTGCTAAACGGAAACCCGTAAGGGTTAA
1 ACAGAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTAA
* * * * * *
112968643 ACAGAAGCTTATAAGAGTTGAACGAAAATCTATAAGGGTTAA
1 ACAGAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTAA
* * **
112968685 ATAGAAGCTCAAAAGAGCTAAACGGAAACCCATTGGGGTTAA
1 ACAGAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTAA
* * *
112968727 ACTGAAACTCATGAGAGCTAAACG
1 ACAGAAGCTCATAAGAGCTAAACG
112968751 TAAAGTAAAC
Statistics
Matches: 84, Mismatches: 24, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
42 84 1.00
ACGTcount: A:0.43, C:0.16, G:0.23, T:0.18
Consensus pattern (42 bp):
ACAGAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTAA
Found at i:112968657 original size:21 final size:22
Alignment explanation
Indices: 112968633--112968694 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 22
112968623 CGGAAACCCG
112968633 TAAGGGTTAAACAGAAGCT-TA
1 TAAGGGTTAAACAGAAGCTCTA
* * **
112968654 TAAGAGTTGAAC-GAAAATCTA
1 TAAGGGTTAAACAGAAGCTCTA
*
112968675 TAAGGGTTAAATAGAAGCTC
1 TAAGGGTTAAACAGAAGCTC
112968695 AAAAGAGCTA
Statistics
Matches: 30, Mismatches: 9, Indels: 3
0.71 0.21 0.07
Matches are distributed among these distances:
20 4 0.13
21 21 0.70
22 5 0.17
ACGTcount: A:0.44, C:0.10, G:0.23, T:0.24
Consensus pattern (22 bp):
TAAGGGTTAAACAGAAGCTCTA
Found at i:112968748 original size:21 final size:22
Alignment explanation
Indices: 112968698--112968750 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
112968688 GAAGCTCAAA
112968698 AGAGCTAAACGGAAACCCATTG
1 AGAGCTAAACGGAAACCCATTG
* * * *
112968720 -GGGTTAAACTGAAACTCA-TG
1 AGAGCTAAACGGAAACCCATTG
112968740 AGAGCTAAACG
1 AGAGCTAAACG
112968751 TAAAGTAAAC
Statistics
Matches: 23, Mismatches: 7, Indels: 3
0.70 0.21 0.09
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.40, C:0.19, G:0.25, T:0.17
Consensus pattern (22 bp):
AGAGCTAAACGGAAACCCATTG
Found at i:112970927 original size:46 final size:44
Alignment explanation
Indices: 112970875--112970960 Score: 136
Period size: 46 Copynumber: 1.9 Consensus size: 44
112970865 CAGAACGAAA
*
112970875 TGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGAT
1 TGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAGACAGGAT
*
112970921 TGAGCCATGTAAGTCCATATTATATATGGCATTGGAGACA
1 TGAGCCATGTAAGTCCATATTAAATATGGCATTGGAGACA
112970961 AGAATAATTC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
44 17 0.45
46 21 0.55
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (44 bp):
TGAGCCATGTAAGTCCATATTAAATATGGCATTGGAGACAGGAT
Found at i:112970974 original size:44 final size:45
Alignment explanation
Indices: 112970877--112971001 Score: 135
Period size: 44 Copynumber: 2.8 Consensus size: 45
112970867 GAACGAAATG
* * * *
112970877 AGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGATTG
1 AGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAAGAATA
*
112970923 AGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAAGAATA
1 AGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAAGAATA
** * * *
112970967 ATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
112971002 CAGGATATTG
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
44 35 0.53
45 1 0.02
46 30 0.45
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.28
Consensus pattern (45 bp):
AGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAAGAATA
Found at i:112972759 original size:46 final size:47
Alignment explanation
Indices: 112972699--112972926 Score: 322
Period size: 46 Copynumber: 5.0 Consensus size: 47
112972689 TTTGACGTGA
* * * * * *
112972699 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
** * *
112972745 TGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
*
112972791 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
112972837 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
112972883 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAG
112972927 AGAGCACACT
Statistics
Matches: 169, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
45 5 0.03
46 164 0.97
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.39
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
Found at i:112975206 original size:11 final size:11
Alignment explanation
Indices: 112975190--112975214 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
112975180 CTTTCTTTAT
112975190 ATAATAATAAA
1 ATAATAATAAA
112975201 ATAATAATAAA
1 ATAATAATAAA
112975212 ATA
1 ATA
112975215 TCTTATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
ATAATAATAAA
Found at i:112982955 original size:5 final size:5
Alignment explanation
Indices: 112982945--112982970 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
112982935 GCTCTTACTT
112982945 CTCAC CTCAC CTCAC CTCAC CTCAC C
1 CTCAC CTCAC CTCAC CTCAC CTCAC C
112982971 AACTGTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.62, G:0.00, T:0.19
Consensus pattern (5 bp):
CTCAC
Found at i:112990370 original size:2 final size:2
Alignment explanation
Indices: 112990365--112990395 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
112990355 AGAGCCATTA
112990365 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
112990396 AATTAAGAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:112992813 original size:23 final size:25
Alignment explanation
Indices: 112992783--112992837 Score: 80
Period size: 24 Copynumber: 2.3 Consensus size: 25
112992773 TTGTTTTTTT
*
112992783 TTTTATAATT-TTAATTTTT-AATA
1 TTTTATAATTATAAATTTTTGAATA
112992806 TTTTATAATTATAAATTTTTGAATA
1 TTTTATAATTATAAATTTTTGAATA
112992831 -TTTATAA
1 TTTTATAA
112992838 CAATAATTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 10 0.34
24 15 0.52
25 4 0.14
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (25 bp):
TTTTATAATTATAAATTTTTGAATA
Found at i:112992843 original size:24 final size:24
Alignment explanation
Indices: 112992795--112992843 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
112992785 TTATAATTTT
**
112992795 AATTTTTAATATTTTATAATTATA
1 AATTTTTAATATTTTATAACAATA
112992819 AATTTTTGAATA-TTTATAACAATA
1 AATTTTT-AATATTTTATAACAATA
112992843 A
1 A
112992844 TTGAGTTGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (24 bp):
AATTTTTAATATTTTATAACAATA
Found at i:112993871 original size:17 final size:18
Alignment explanation
Indices: 112993849--112993884 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
112993839 TATAAAAACC
*
112993849 ATCATTAATAAT-TAAAA
1 ATCATTAAAAATATAAAA
112993866 ATCATTAAAAATATAAAA
1 ATCATTAAAAATATAAAA
112993884 A
1 A
112993885 AATATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.31
Consensus pattern (18 bp):
ATCATTAAAAATATAAAA
Found at i:112994394 original size:18 final size:18
Alignment explanation
Indices: 112994371--112994408 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
112994361 AAGATAAAAT
112994371 TTCTGGATTGAGATTGGA
1 TTCTGGATTGAGATTGGA
112994389 TTCTGGATTGAGATTGGA
1 TTCTGGATTGAGATTGGA
112994407 TT
1 TT
112994409 TTCGTATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.05, G:0.32, T:0.42
Consensus pattern (18 bp):
TTCTGGATTGAGATTGGA
Found at i:112996828 original size:3 final size:3
Alignment explanation
Indices: 112996820--112996854 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
112996810 AAACAAAGCA
112996820 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
112996855 TTTTTCTGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:113000269 original size:22 final size:23
Alignment explanation
Indices: 113000225--113000269 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
113000215 TCATTGTCAC
113000225 CCTCAACCGAGTCATCAACTTGG
1 CCTCAACCGAGTCATCAACTTGG
*
113000248 CCTCAATCGAGTCAT-AACTTGG
1 CCTCAACCGAGTCATCAACTTGG
113000270 TTAGGAAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (23 bp):
CCTCAACCGAGTCATCAACTTGG
Found at i:113001581 original size:32 final size:33
Alignment explanation
Indices: 113001534--113001605 Score: 110
Period size: 32 Copynumber: 2.2 Consensus size: 33
113001524 ACATTATTAT
*
113001534 AAAACAGATTGATGGAAACTCAATTCAGAAGCTA
1 AAAACAGA-TGATGGAAACTCAATTCAAAAGCTA
*
113001568 AAAACAG-TGATGGAATCTCAATTCAAAAGCTA
1 AAAACAGATGATGGAAACTCAATTCAAAAGCTA
113001600 AAAACA
1 AAAACA
113001606 ATATTGGACG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
32 29 0.81
34 7 0.19
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.19
Consensus pattern (33 bp):
AAAACAGATGATGGAAACTCAATTCAAAAGCTA
Found at i:113003771 original size:23 final size:23
Alignment explanation
Indices: 113003744--113003792 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
113003734 GAATTATATA
113003744 GATTGAGATGT-AAATAAATTAGT
1 GATTGAGAT-TCAAATAAATTAGT
**
113003767 GATTGTTATTCAAATAAATTAGT
1 GATTGAGATTCAAATAAATTAGT
113003790 GAT
1 GAT
113003793 AGGAAAGTCC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 1 0.04
23 22 0.96
ACGTcount: A:0.41, C:0.02, G:0.18, T:0.39
Consensus pattern (23 bp):
GATTGAGATTCAAATAAATTAGT
Found at i:113005419 original size:47 final size:47
Alignment explanation
Indices: 113005347--113005478 Score: 158
Period size: 48 Copynumber: 2.8 Consensus size: 47
113005337 CTTAATCGAT
* * * *
113005347 AAGTACCTATATCATGGCCTGTAGCCAAATCAAGGTAACT-TACCCCG
1 AAGTACCTATACCATGGCCCGTAGCCAAATAAAGGTAACTCT-CCCCA
* * * *
113005394 AAGTACCTATACCATAGCCCATAGCCAAATTAAGGTAACTCCTCTCCA
1 AAGTACCTATACCATGGCCCGTAGCCAAATAAAGGTAACT-CTCCCCA
*
113005442 AAATACCTATACCATGGCCCGTAGCCAAATAAAGGTA
1 AAGTACCTATACCATGGCCCGTAGCCAAATAAAGGTA
113005479 TAACTCGCAC
Statistics
Matches: 72, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
47 35 0.49
48 36 0.50
49 1 0.01
ACGTcount: A:0.36, C:0.28, G:0.14, T:0.22
Consensus pattern (47 bp):
AAGTACCTATACCATGGCCCGTAGCCAAATAAAGGTAACTCTCCCCA
Found at i:113007796 original size:2 final size:2
Alignment explanation
Indices: 113007789--113007814 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
113007779 TTGTTATTAT
113007789 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
113007815 GTAAATAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:113009874 original size:20 final size:18
Alignment explanation
Indices: 113009839--113009876 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
113009829 AACCTTCAAC
113009839 TTTCCCTTTCTTCTTTCT
1 TTTCCCTTTCTTCTTTCT
113009857 TTTCTCCTTTCTTTCTTTCT
1 TTTC-CCTTTC-TTCTTTCT
113009877 GTCCCTGCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
19 6 0.33
20 8 0.44
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTCCCTTTCTTCTTTCT
Found at i:113010626 original size:2 final size:2
Alignment explanation
Indices: 113010619--113010646 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
113010609 CGAATTATGA
113010619 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
113010647 GATTGTTGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:113010906 original size:6 final size:6
Alignment explanation
Indices: 113010895--113010927 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
113010885 TGTGTATCGC
*
113010895 TACTGT TACTGT TACTGT TACTGT TACCGT TAC
1 TACTGT TACTGT TACTGT TACTGT TACTGT TAC
113010928 GGTGTATTCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.18, C:0.21, G:0.15, T:0.45
Consensus pattern (6 bp):
TACTGT
Found at i:113011069 original size:18 final size:18
Alignment explanation
Indices: 113011035--113011069 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
113011025 TAAATAAAGG
*
113011035 TACTGAATAATTAACTGC
1 TACTGAATAACTAACTGC
*
113011053 TACTGAATAACTGACTG
1 TACTGAATAACTAACTG
113011070 TTATTAGATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.31
Consensus pattern (18 bp):
TACTGAATAACTAACTGC
Found at i:113012620 original size:55 final size:55
Alignment explanation
Indices: 113012559--113012671 Score: 217
Period size: 55 Copynumber: 2.1 Consensus size: 55
113012549 TTTTATTTGC
113012559 TTTTGGCAGGTTTTTATAGTTTATGAATAGAAGAAACCCATCAGGACCTCTACTT
1 TTTTGGCAGGTTTTTATAGTTTATGAATAGAAGAAACCCATCAGGACCTCTACTT
*
113012614 TTTTGGCAGGTTTTTATAGTTTATGACTAGAAGAAACCCATCAGGACCTCTACTT
1 TTTTGGCAGGTTTTTATAGTTTATGAATAGAAGAAACCCATCAGGACCTCTACTT
113012669 TTT
1 TTT
113012672 AACAGAAAAA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (55 bp):
TTTTGGCAGGTTTTTATAGTTTATGAATAGAAGAAACCCATCAGGACCTCTACTT
Found at i:113015681 original size:18 final size:19
Alignment explanation
Indices: 113015644--113015681 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
113015634 TGTGTTCTGA
113015644 CACACGAGCGTGTTGGAGAC
1 CACACGAGCGTG-TGGAGAC
113015664 CACACGAGCGTG-GGAGAC
1 CACACGAGCGTGTGGAGAC
113015682 GAGAACAACG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
20 12 0.67
ACGTcount: A:0.26, C:0.26, G:0.37, T:0.11
Consensus pattern (19 bp):
CACACGAGCGTGTGGAGAC
Found at i:113030719 original size:2 final size:2
Alignment explanation
Indices: 113030714--113030743 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
113030704 ACAAGCATGC
113030714 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
113030744 GCATGGTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:113038793 original size:33 final size:33
Alignment explanation
Indices: 113038753--113038875 Score: 86
Period size: 33 Copynumber: 3.5 Consensus size: 33
113038743 AAATTATTAT
113038753 ATATAAAAAATATTAAAATTATATTTATATTGA
1 ATATAAAAAATATTAAAATTATATTTATATTGA
*
113038786 ATATAAAATAAATTTATCCTAATATTATATTTATATTGA
1 ATAT-AAA-AAA--TAT--TAAAATTATATTTATATTGA
* * * * * *
113038825 TTAGTAACATATATTAAAA-TAAATTTATTTTAA
1 ATA-TAAAAAATATTAAAATTATATTTATATTGA
**
113038858 ATAATAATTAATATTAAA
1 AT-ATAAAAAATATTAAA
113038876 TGAAAAAATA
Statistics
Matches: 70, Mismatches: 12, Indels: 16
0.71 0.12 0.16
Matches are distributed among these distances:
33 27 0.39
34 8 0.11
35 3 0.04
36 3 0.04
37 3 0.04
38 2 0.03
39 23 0.33
40 1 0.01
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (33 bp):
ATATAAAAAATATTAAAATTATATTTATATTGA
Found at i:113042399 original size:16 final size:16
Alignment explanation
Indices: 113042373--113042410 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
113042363 GTTTTCTTTT
*
113042373 TTTTGGATTTAGGGTTA
1 TTTT-GATTTAAGGTTA
113042390 TTTTGATTTAAGGTTA
1 TTTTGATTTAAGGTTA
113042406 TTTTG
1 TTTTG
113042411 GGTTAGTTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.18, C:0.00, G:0.24, T:0.58
Consensus pattern (16 bp):
TTTTGATTTAAGGTTA
Found at i:113042436 original size:6 final size:6
Alignment explanation
Indices: 113042427--113042485 Score: 100
Period size: 6 Copynumber: 9.7 Consensus size: 6
113042417 TTCGATTTCA
*
113042427 ATTTTG ATTTTA ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
113042475 ATTTTGG ATTT
1 ATTTT-G ATTT
113042486 AGGGTTATTT
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
6 45 0.90
7 5 0.10
ACGTcount: A:0.19, C:0.00, G:0.15, T:0.66
Consensus pattern (6 bp):
ATTTTG
Found at i:113044807 original size:22 final size:22
Alignment explanation
Indices: 113044778--113044845 Score: 84
Period size: 22 Copynumber: 3.0 Consensus size: 22
113044768 TGCACAAACG
113044778 AACAGAGAGCACTAAAGTGCTA
1 AACAGAGAGCACTAAAGTGCTA
* *
113044800 TACAGAGAGCAC-AGATGTGCTA
1 AACAGAGAGCACTA-AAGTGCTA
*
113044822 AACAGAGAGCACTTAACGTGCTA
1 AACAGAGAGCAC-TAAAGTGCTA
113044845 A
1 A
113044846 TAATAGTACA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
21 1 0.03
22 29 0.74
23 8 0.21
24 1 0.03
ACGTcount: A:0.41, C:0.19, G:0.24, T:0.16
Consensus pattern (22 bp):
AACAGAGAGCACTAAAGTGCTA
Found at i:113047549 original size:80 final size:79
Alignment explanation
Indices: 113047330--113047559 Score: 295
Period size: 79 Copynumber: 2.9 Consensus size: 79
113047320 CTAATCTATT
* * * * *
113047330 TGTGTATGATTGTTGGTAGGGTTGGTCACATGCTGTTGACTGATTTTCAATATACATGCAGTG--
1 TGTGTATGATTGTTGATGGGGATGGTCACATGCTGTTGACT-ATTTTTAATATGCATGCAGTGAC
* **
113047393 T-TTTTTAATTTGTC
65 TGTTTTTTAGATGTC
* *
113047407 TGTGTATGATTATTGATGGGGATGGTCATATGCTGTTGACTATTTTTAATATGCATGCAGTGACT
1 TGTGTATGATTGTTGATGGGGATGGTCACATGCTGTTGACTATTTTTAATATGCATGCAGTGACT
*
113047472 GTTTTTTAGATGTG
66 GTTTTTTAGATGTC
* * *
113047486 TGTGTATGATTGTTGCTGGGGATGGTCACATGCTATTGACTATTTTTTAATTTGCATGCAGTGAC
1 TGTGTATGATTGTTGATGGGGATGGTCACATGCTGTTGACTA-TTTTTAATATGCATGCAGTGAC
113047551 TGTTTTTTA
65 TGTTTTTTA
113047560 TGGGTGTATG
Statistics
Matches: 133, Mismatches: 16, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
76 19 0.14
77 36 0.27
78 1 0.01
79 47 0.35
80 30 0.23
ACGTcount: A:0.20, C:0.10, G:0.25, T:0.45
Consensus pattern (79 bp):
TGTGTATGATTGTTGATGGGGATGGTCACATGCTGTTGACTATTTTTAATATGCATGCAGTGACT
GTTTTTTAGATGTC
Found at i:113048285 original size:20 final size:20
Alignment explanation
Indices: 113048256--113048326 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
113048246 AAGAGAGTAC
* * *
113048256 CCCAATTCAGTAAGAAACTG
1 CCCAACTCAGTAACAAACTA
*
113048276 CCCAACTCAGTTACAAACTA
1 CCCAACTCAGTAACAAACTA
*
113048296 CCCGAACTCATTAA-AAATCTA
1 CCC-AACTCAGTAACAAA-CTA
113048317 CCCTAACTCA
1 CCC-AACTCA
113048327 CTAAAAAGAT
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
20 22 0.52
21 20 0.48
ACGTcount: A:0.39, C:0.32, G:0.07, T:0.21
Consensus pattern (20 bp):
CCCAACTCAGTAACAAACTA
Found at i:113048305 original size:21 final size:19
Alignment explanation
Indices: 113048256--113048333 Score: 66
Period size: 21 Copynumber: 3.8 Consensus size: 19
113048246 AAGAGAGTAC
* * *
113048256 CCCAATTCAGTAAGAAACTG
1 CCCAACTCATTAA-AAACTA
*
113048276 CCCAACTCAGTTACAAACTA
1 CCCAACTCA-TTAAAAACTA
113048296 CCCGAACTCATTAAAAATCTA
1 CCC-AACTCATTAAAAA-CTA
*
113048317 CCCTAACTCACTAAAAA
1 CCC-AACTCATTAAAAA
113048334 GATGATGCCC
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
20 22 0.46
21 26 0.54
ACGTcount: A:0.42, C:0.31, G:0.06, T:0.21
Consensus pattern (19 bp):
CCCAACTCATTAAAAACTA
Found at i:113051223 original size:78 final size:79
Alignment explanation
Indices: 113051116--113051287 Score: 229
Period size: 78 Copynumber: 2.2 Consensus size: 79
113051106 GCCTACGGGA
* * * * * * *
113051116 CTTTAAGCCCGGATATAGTACCAGTACGAAGCCTACGAACCTTAAGTCCGGATATAGTACCAGCA
1 CTTTAAGCCCGGATACAATTCCTGCACGAAGCCTACGAACCTTAAGTCCGGATACAATACCAGCA
113051181 CGAAGCCTGCGGAT
66 CGAAGCCTGCGGAT
* * * *
113051195 C-TTAAGTCCGGATACAATTCCTGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCA
1 CTTTAAGCCCGGATACAATTCCTGCACGAAGCCTACGAACCTTAAGTCCGGATACAATACCAGCA
*
113051259 CGAAGCCTGCGGGT
66 CGAAGCCTGCGGAT
113051273 CTTTAAGCCCGGATA
1 CTTTAAGCCCGGATA
113051288 TATTTCCAGC
Statistics
Matches: 79, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
78 66 0.84
79 13 0.16
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (79 bp):
CTTTAAGCCCGGATACAATTCCTGCACGAAGCCTACGAACCTTAAGTCCGGATACAATACCAGCA
CGAAGCCTGCGGAT
Found at i:113051295 original size:40 final size:40
Alignment explanation
Indices: 113051104--113051327 Score: 206
Period size: 39 Copynumber: 5.7 Consensus size: 40
113051094 CACCAACACA
* * * *
113051104 AAGCCTACGGGACTTTAAGCCCGGATATAGTACCAGTACG
1 AAGCCTGCGGGACTTTAAGCCCGGATATAATTCCAGCACG
* * * * * *
113051144 AAGCCTAC-GAACCTTAAGTCCGGATATAGTACCAGCACG
1 AAGCCTGCGGGACTTTAAGCCCGGATATAATTCCAGCACG
* * *
113051183 AAGCCTGC-GGA-TCTTAAGTCCGGATACAATTCCTGCACG
1 AAGCCTGCGGGACT-TTAAGCCCGGATATAATTCCAGCACG
* * *
113051222 AAGCCTGC-GGACCTTAAGTCCGGATACAATTCCAGCACG
1 AAGCCTGCGGGACTTTAAGCCCGGATATAATTCCAGCACG
* * *
113051261 AAGCCTGCGGGTCTTTAAGCCCGGATATATTTCCAGCA-T
1 AAGCCTGCGGGACTTTAAGCCCGGATATAATTCCAGCACG
* *
113051300 ATAGCCTGCAGGTCTTTAAGCCCGGATA
1 A-AGCCTGCGGGACTTTAAGCCCGGATA
113051328 CACATCAAAT
Statistics
Matches: 160, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
39 103 0.64
40 57 0.36
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.22
Consensus pattern (40 bp):
AAGCCTGCGGGACTTTAAGCCCGGATATAATTCCAGCACG
Found at i:113056115 original size:40 final size:40
Alignment explanation
Indices: 113056061--113056254 Score: 214
Period size: 39 Copynumber: 4.9 Consensus size: 40
113056051 AAATTCAATC
* * *
113056061 ACCAACACAAAGCCTACGGGACTTTAAGCCCGGATATAGT
1 ACCAGCACGAAGCCTGCGGGACTTTAAGCCCGGATATAGT
* * *
113056101 ACCAGTACGAAGCCTGC-GGACCTTAAGTCCGGATATAGT
1 ACCAGCACGAAGCCTGCGGGACTTTAAGCCCGGATATAGT
* * * *
113056140 ACCAGCACGAAGCCTGC-GGACCTTAAGTCCGGATACAAT
1 ACCAGCACGAAGCCTGCGGGACTTTAAGCCCGGATATAGT
* * *
113056179 TCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATATATT
1 ACCAGCACGAAGCCTGCGGGACTTTAAGCCCGGATATAGT
* * *
113056219 TCCAGCA-TATAGCCTGCGGGTCTTTAAGCCCGGATA
1 ACCAGCACGA-AGCCTGCGGGACTTTAAGCCCGGATA
113056255 CACATCAAAT
Statistics
Matches: 136, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 73 0.54
40 63 0.46
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.21
Consensus pattern (40 bp):
ACCAGCACGAAGCCTGCGGGACTTTAAGCCCGGATATAGT
Found at i:113058210 original size:75 final size:75
Alignment explanation
Indices: 113058121--113058527 Score: 487
Period size: 75 Copynumber: 5.4 Consensus size: 75
113058111 TGGTCACATA
* * * * * ** *
113058121 ATCGTCGGTTTATCCGACTAGCGCTGGGTTCAATTACCGTTGACTTATCCAATTAGAGCTAGGCT
1 ATCGTCGGTATATCCGACTAGCACTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTAGGCT
*
113058186 AACAATTATT
66 CACAATTATT
* * *
113058196 ATCGTCGGTATATCCGACTAGCACTGGGTGCAAATATTGTTGGTTTATCCAACCAGAGCTTGGCT
1 ATCGTCGGTATATCCGACTAGCACTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTAGGCT
113058261 CACAATTATT
66 CACAATTATT
* * ** * * * *
113058271 ATCATCGGTATATCCAACTAGCTTTAGGTGCAAATATGGTTGGTTTATCCAACTAGAGTTGGGCT
1 ATCGTCGGTATATCCGACTAGCACTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTAGGCT
*
113058336 CACAAGTATT
66 CACAATTATT
* * * *
113058346 ATCGTCGGTATATCCGACTAGTACT-GGTGTAAATATTGTTGGTTTATCCAACTAGAGCTGGGCT
1 ATCGTCGGTATATCCGACTAGCACTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTAGGCT
113058410 CACAATTATT
66 CACAATTATT
* * * *
113058420 ATCGTCGATATATCCGACTAGCACTGGGTGCAGATATCGTTGGATTATTCAACTAGAGCTAGGCT
1 ATCGTCGGTATATCCGACTAGCACTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTAGGCT
*
113058485 CAC-ATTCAAT
66 CACAATT-ATT
* *
113058495 ATCGTCGAT-TAATCCGACTAGCGCTGGGTGCAA
1 ATCGTCGGTAT-ATCCGACTAGCACTGGGTGCAA
113058528 CCTCCTCTGC
Statistics
Matches: 287, Mismatches: 42, Indels: 6
0.86 0.13 0.02
Matches are distributed among these distances:
74 72 0.25
75 215 0.75
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (75 bp):
ATCGTCGGTATATCCGACTAGCACTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTAGGCT
CACAATTATT
Found at i:113058440 original size:149 final size:150
Alignment explanation
Indices: 113058165--113058527 Score: 480
Period size: 149 Copynumber: 2.4 Consensus size: 150
113058155 TACCGTTGAC
* * *
113058165 TTATCCAATTAGAGCTAGGCTAACAATTATTATCGTCGGTATATCCGACTAGCACTGGGTGCAAA
1 TTATCCAACTAGAGCTAGGCTCACAAGTATTATCGTCGGTATATCCGACTAGCACTGGGTGCAAA
* * **
113058230 TATTGTTGGTTTATCCAACCAGAGCTTGGCTCACAATTATTATCATCGGTATATCCAACTAGCTT
66 TATTGTTGGTTTATCCAACCAGAGCTGGGCTCACAATTATTATCATCGATATATCCAACTAGCAC
* *
113058295 TAGGTGCAAATATGGTTGGT
131 TAGGTGCAAATATCGTTGGA
* * * *
113058315 TTATCCAACTAGAGTTGGGCTCACAAGTATTATCGTCGGTATATCCGACTAGTACT-GGTGTAAA
1 TTATCCAACTAGAGCTAGGCTCACAAGTATTATCGTCGGTATATCCGACTAGCACTGGGTGCAAA
* * *
113058379 TATTGTTGGTTTATCCAACTAGAGCTGGGCTCACAATTATTATCGTCGATATATCCGACTAGCAC
66 TATTGTTGGTTTATCCAACCAGAGCTGGGCTCACAATTATTATCATCGATATATCCAACTAGCAC
* *
113058444 TGGGTGCAGATATCGTTGGA
131 TAGGTGCAAATATCGTTGGA
* * * * *
113058464 TTATTCAACTAGAGCTAGGCTCAC-ATTCAATATCGTCGAT-TAATCCGACTAGCGCTGGGTGCA
1 TTATCCAACTAGAGCTAGGCTCACAAGT-ATTATCGTCGGTAT-ATCCGACTAGCACTGGGTGCA
113058527 A
64 A
113058528 CCTCCTCTGC
Statistics
Matches: 183, Mismatches: 27, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
148 3 0.02
149 124 0.68
150 56 0.31
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (150 bp):
TTATCCAACTAGAGCTAGGCTCACAAGTATTATCGTCGGTATATCCGACTAGCACTGGGTGCAAA
TATTGTTGGTTTATCCAACCAGAGCTGGGCTCACAATTATTATCATCGATATATCCAACTAGCAC
TAGGTGCAAATATCGTTGGA
Found at i:113058447 original size:40 final size:38
Alignment explanation
Indices: 113058182--113058447 Score: 123
Period size: 40 Copynumber: 7.1 Consensus size: 38
113058172 ATTAGAGCTA
*
113058182 GGCTAACAATTATTATCGTCGGTATATCCGACTAGCACTG
1 GGCTCACAA-TATTATCGTCGGTATATCCGACTAG-ACTG
* * * * *
113058222 GG-TGCA-AATA-T-T-GTTGGTTTATCCAACCAGAGCTT
1 GGCT-CACAATATTATCGTCGGTATATCCGACTAGA-CTG
* * *
113058257 GGCTCACAATTATTATCATCGGTATATCCAACTAG-CTTTA
1 GGCTCACAA-TATTATCGTCGGTATATCCGACTAGAC--TG
* * * * * *
113058297 GG-T-GCAA-A-TATGGTTGGTTTATCCAACTAGAGTTG
1 GGCTCACAATATTATCGTCGGTATATCCGACTAGA-CTG
113058332 GGCTCACAAGTATTATCGTCGGTATATCCGACTAGTACTG
1 GGCTCACAA-TATTATCGTCGGTATATCCGACTAG-ACTG
* * *
113058372 GTG-T-A-AATA-T-T-GTTGGTTTATCCAACTAGAGCTG
1 G-GCTCACAATATTATCGTCGGTATATCCGACTAGA-CTG
*
113058406 GGCTCACAATTATTATCGTCGATATATCCGACTAGCACTG
1 GGCTCACAA-TATTATCGTCGGTATATCCGACTAG-ACTG
113058446 GG
1 GG
113058448 TGCAGATATC
Statistics
Matches: 167, Mismatches: 31, Indels: 56
0.66 0.12 0.22
Matches are distributed among these distances:
33 2 0.01
34 21 0.13
35 43 0.26
36 9 0.05
37 10 0.06
38 10 0.06
39 8 0.05
40 61 0.37
41 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (38 bp):
GGCTCACAATATTATCGTCGGTATATCCGACTAGACTG
Found at i:113062825 original size:30 final size:29
Alignment explanation
Indices: 113062770--113062851 Score: 87
Period size: 29 Copynumber: 2.8 Consensus size: 29
113062760 TTGGGTTAAA
*
113062770 ACTAAAATTTA-AAATTTTGAAAAGTAAAGTG
1 ACTAAAATTGATAAA-TTT-AAAAGTAAAG-G
*
113062801 ACTAAAATTGATAAATTTAAAAGTATAGG
1 ACTAAAATTGATAAATTTAAAAGTAAAGG
*
113062830 ACTAAATTTGATCAAA-TTAAAA
1 ACTAAAATTGAT-AAATTTAAAA
113062852 TATGTGGACT
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
29 18 0.39
30 12 0.26
31 13 0.28
32 3 0.07
ACGTcount: A:0.52, C:0.05, G:0.11, T:0.32
Consensus pattern (29 bp):
ACTAAAATTGATAAATTTAAAAGTAAAGG
Found at i:113062840 original size:29 final size:29
Alignment explanation
Indices: 113062789--113062865 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 29
113062779 TAAAATTTTG
* *
113062789 AAAAGTAAAGTGACTAAAATTGAT-AAATTT
1 AAAAGTATAG-GACTAAATTTGATCAAA-TT
113062819 AAAAGTATAGGACTAAATTTGATCAAATT
1 AAAAGTATAGGACTAAATTTGATCAAATT
*
113062848 AAAA-TATGTGGACTAAAT
1 AAAAGTAT-AGGACTAAAT
113062866 CTACAACTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
28 3 0.07
29 27 0.64
30 12 0.29
ACGTcount: A:0.51, C:0.05, G:0.14, T:0.30
Consensus pattern (29 bp):
AAAAGTATAGGACTAAATTTGATCAAATT
Found at i:113078041 original size:24 final size:24
Alignment explanation
Indices: 113078014--113078062 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
113078004 TTGATTACCG
113078014 TATGTGGACTACCATTTGACTTGT
1 TATGTGGACTACCATTTGACTTGT
113078038 TATGTGGACTACCATTTGACTTGT
1 TATGTGGACTACCATTTGACTTGT
113078062 T
1 T
113078063 TTTTTATCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.43
Consensus pattern (24 bp):
TATGTGGACTACCATTTGACTTGT
Found at i:113080649 original size:2 final size:2
Alignment explanation
Indices: 113080642--113080693 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
113080632 GATCTGAAGG
113080642 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
113080684 GA GA GA GA GA
1 GA GA GA GA GA
113080694 AGCTAAACTA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:113083087 original size:2 final size:2
Alignment explanation
Indices: 113083080--113083107 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
113083070 TCCCCACTAT
113083080 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
113083108 TGTGTGTGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:113086025 original size:2 final size:2
Alignment explanation
Indices: 113086018--113086052 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
113086008 TAAAAGTTAG
113086018 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
113086053 GACAATGAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:113087108 original size:27 final size:27
Alignment explanation
Indices: 113087068--113087126 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
113087058 ATGTTGATAT
*
113087068 TTTTAGATAAATATTATTTG-ATTAATA
1 TTTTAGATAAATATT-TTAGTATTAATA
*
113087095 TTTTA-ATAAGATATTTTAGTATTATTA
1 TTTTAGATAA-ATATTTTAGTATTAATA
113087122 TTTTA
1 TTTTA
113087127 TTTTATTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (27 bp):
TTTTAGATAAATATTTTAGTATTAATA
Found at i:113087130 original size:19 final size:20
Alignment explanation
Indices: 113087106--113087144 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
113087096 TTTAATAAGA
113087106 TATTTTAGTATTA-TTATTT
1 TATTTTAGTATTATTTATTT
*
113087125 TATTTTATTATTATTTATTT
1 TATTTTAGTATTATTTATTT
113087145 AGTATAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (20 bp):
TATTTTAGTATTATTTATTT
Found at i:113087135 original size:16 final size:15
Alignment explanation
Indices: 113087114--113087144 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
113087104 GATATTTTAG
113087114 TATTATTATTTTATTT
1 TATTATTA-TTTATTT
113087130 TATTATTATTTATTT
1 TATTATTATTTATTT
113087145 AGTATAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TATTATTATTTATTT
Found at i:113089099 original size:45 final size:46
Alignment explanation
Indices: 113088991--113089161 Score: 209
Period size: 46 Copynumber: 3.7 Consensus size: 46
113088981 ATGAAATGTG
** * *
113088991 TAAGACCATGGTTGAAAGATACCATGGCAATGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
* **
113089037 TAAGACCATGGTGGAAAGATACCATGGCAACATGAC-GGGGATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
* * *
113089082 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACAGAAAATGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
* * * *
113089128 TAAGACCATAGTTGAAAGACACTATGGCATCATG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATG
113089162 TCAAAGATAA
Statistics
Matches: 106, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
45 39 0.37
46 67 0.63
ACGTcount: A:0.40, C:0.16, G:0.25, T:0.19
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
Found at i:113089146 original size:91 final size:91
Alignment explanation
Indices: 113088991--113089161 Score: 254
Period size: 91 Copynumber: 1.9 Consensus size: 91
113088981 ATGAAATGTG
** *
113088991 TAAGACCATGGTTGAAAGATACCATGGCAATGTGACATGAAAAGAATAAGACCATGGTGGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAAGAATAAGACCATAGTGGAAAGA
*
113089056 TACCATGGCAACATGACGGGGATGAA
66 CACCATGGCAACATGACGGGGATGAA
* *
113089082 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACA-GAAAATGAGTAAGACCATAGTTGAAAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAA-GAATAAGACCATAGTGGAAAG
* *
113089146 ACACTATGGCATCATG
65 ACACCATGGCAACATG
113089162 TCAAAGATAA
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
90 5 0.07
91 66 0.93
ACGTcount: A:0.40, C:0.16, G:0.25, T:0.19
Consensus pattern (91 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAAGAATAAGACCATAGTGGAAAGA
CACCATGGCAACATGACGGGGATGAA
Found at i:113094874 original size:26 final size:26
Alignment explanation
Indices: 113094837--113094920 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
113094827 TGATACAAAT
* *
113094837 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
113094863 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
113094889 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
113094915 TGATAA
1 TGATAA
113094921 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:113096404 original size:28 final size:26
Alignment explanation
Indices: 113096362--113096436 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
113096352 AAAAGTAGCT
* *
113096362 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTGTTATACCCCTA-G-ATGGA
* *
113096390 AAATTACTGTTATACCCCTAGGTGTA
1 AAATTACTGTTATACCCCTAGATGGA
*
113096416 AAATTACCGTTATACCCCTAG
1 AAATTACTGTTATACCCCTAG
113096437 GGTTAATTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 23 0.55
27 1 0.02
28 18 0.43
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGATGGA
Found at i:113096581 original size:27 final size:27
Alignment explanation
Indices: 113096542--113096666 Score: 142
Period size: 27 Copynumber: 4.6 Consensus size: 27
113096532 GGAAGCGTTT
*
113096542 TGGTGGCTATGCCACAAATATCTGATC
1 TGGTGGCTCTGCCACAAATATCTGATC
*
113096569 TGGTGGCTCTGCCACAAATATTTGATC
1 TGGTGGCTCTGCCACAAATATCTGATC
* * *
113096596 TGGTGGCTTTGCCACATATATCTGTTC
1 TGGTGGCTCTGCCACAAATATCTGATC
* * * *
113096623 TGGTGGCCCTGTCACGATTATCTGTATC
1 TGGTGGCTCTGCCACAAATATCTG-ATC
* *
113096651 TGGTGACTCTGTCACA
1 TGGTGGCTCTGCCACA
113096667 TTATCTGTTA
Statistics
Matches: 81, Mismatches: 16, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
27 66 0.81
28 15 0.19
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.34
Consensus pattern (27 bp):
TGGTGGCTCTGCCACAAATATCTGATC
Found at i:113097630 original size:5 final size:5
Alignment explanation
Indices: 113097611--113097656 Score: 65
Period size: 5 Copynumber: 8.6 Consensus size: 5
113097601 TTGTGTGTTC
113097611 TTTATT TTTATT TTTATT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTA-T TTTA-T TTTA-T TTTAT TTTAT TTTAT TTTAT TTTAT TTT
113097657 TTCTCAAATT
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 24 0.60
6 16 0.40
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTAT
Found at i:113104174 original size:5 final size:5
Alignment explanation
Indices: 113104150--113104188 Score: 53
Period size: 5 Copynumber: 7.6 Consensus size: 5
113104140 TTGTGTGTTC
113104150 TTTATT TTTAT TTT-T ATTTAT TTTAT TTTAT TTTAT TTT
1 TTTA-T TTTAT TTTAT -TTTAT TTTAT TTTAT TTTAT TTT
113104189 TCTCAAGCAC
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
4 1 0.03
5 25 0.81
6 5 0.16
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:113104245 original size:22 final size:22
Alignment explanation
Indices: 113104194--113104285 Score: 76
Period size: 22 Copynumber: 4.0 Consensus size: 22
113104184 ATTTTTCTCA
* *
113104194 AGCACGTTAGTGCTCTCCGATTATT
1 AGCACATTAGTGCTCTCTG--T-TT
* * *
113104219 AGCACGTTAGTACTCTTTGTTT
1 AGCACATTAGTGCTCTCTGTTT
* *
113104241 AGCACATTTGTGCTCTCTGTAT
1 AGCACATTAGTGCTCTCTGTTT
* *
113104263 AGCACTTTAGTGCTCTCTATTT
1 AGCACATTAGTGCTCTCTGTTT
113104285 A
1 A
113104286 TTAGCGTATA
Statistics
Matches: 55, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
22 38 0.69
23 1 0.02
25 16 0.29
ACGTcount: A:0.20, C:0.22, G:0.17, T:0.41
Consensus pattern (22 bp):
AGCACATTAGTGCTCTCTGTTT
Found at i:113105133 original size:13 final size:13
Alignment explanation
Indices: 113105115--113105156 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
113105105 TTTATTTAAG
113105115 TTATATATAAATA
1 TTATATATAAATA
*
113105128 TTATATATATATAA
1 TTATATATAAAT-A
*
113105142 TTAT-TATAATTA
1 TTATATATAAATA
113105154 TTA
1 TTA
113105157 ACCATTATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
12 4 0.16
13 16 0.64
14 5 0.20
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TTATATATAAATA
Found at i:113105138 original size:17 final size:17
Alignment explanation
Indices: 113105116--113105149 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
113105106 TTATTTAAGT
113105116 TATATATAAATATTATA
1 TATATATAAATATTATA
*
113105133 TATATATAATTATTATA
1 TATATATAAATATTATA
113105150 ATTATTAACC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TATATATAAATATTATA
Found at i:113105156 original size:3 final size:3
Alignment explanation
Indices: 113105126--113105206 Score: 67
Period size: 3 Copynumber: 26.7 Consensus size: 3
113105116 TATATATAAA
* * * * **
113105126 TAT TAT ATAT ATAT AAT TAT TAT AAT TAT TAAC CAT TAT TAT GGT T-T
1 TAT TAT -TAT -TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT
113105173 TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
113105207 AATAAAGTAA
Statistics
Matches: 63, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
2 4 0.06
3 51 0.81
4 8 0.13
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:113108108 original size:46 final size:46
Alignment explanation
Indices: 113108056--113108367 Score: 417
Period size: 46 Copynumber: 7.0 Consensus size: 46
113108046 AGTGTGCTCT
113108056 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
113108102 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
113108148 C-----TG---TGTGTCAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
113108186 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
113108232 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATATCATGGCAAA
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * **
113108278 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
113108324 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
113108368 TCACGTCAAA
Statistics
Matches: 238, Mismatches: 19, Indels: 18
0.87 0.07 0.07
Matches are distributed among these distances:
38 35 0.15
41 2 0.01
43 2 0.01
45 1 0.00
46 198 0.83
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:113108208 original size:84 final size:87
Alignment explanation
Indices: 113108066--113108323 Score: 378
Period size: 84 Copynumber: 2.9 Consensus size: 87
113108056 CTGATATGAA
113108066 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTG
113108131 AAAGATACCATGGCAACC-T-G
66 AAAGATACCATGGCAACCATAG
*
113108151 -TGTGTCAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTG
113108215 AAAGATACCATGGCAACCTGATATGAG
66 AAAGATACCATGGCAACC----AT-AG
* ** * * **
113108242 ATGTGTAAGACCATGGTTGAAAGATATCATGGCAAAGTGACATGAAAAGAATAAGACCATGGTTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTG
113108307 AAAGATACCATGGCAAC
66 AAAGATACCATGGCAAC
113108324 ATGACAGAAA
Statistics
Matches: 156, Mismatches: 9, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
84 81 0.52
89 1 0.01
91 1 0.01
92 73 0.47
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.23
Consensus pattern (87 bp):
ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTG
AAAGATACCATGGCAACCATAG
Found at i:113109238 original size:21 final size:23
Alignment explanation
Indices: 113109212--113109260 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
113109202 GCAATTGTAA
113109212 TAAAATTAT-TG-GT-ACAAATG
1 TAAAATTATATGTGTGACAAATG
113109232 TAGAAA-TATATGTGTGACAAATG
1 TA-AAATTATATGTGTGACAAATG
113109255 TAAAAT
1 TAAAAT
113109261 GAATATTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
20 5 0.21
21 5 0.21
22 5 0.21
23 9 0.38
ACGTcount: A:0.47, C:0.04, G:0.16, T:0.33
Consensus pattern (23 bp):
TAAAATTATATGTGTGACAAATG
Found at i:113111441 original size:46 final size:46
Alignment explanation
Indices: 113111366--113111494 Score: 204
Period size: 46 Copynumber: 2.8 Consensus size: 46
113111356 TGTAACCCGC
* * * *
113111366 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
113111412 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
113111458 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
113111495 TGCTCAACCA
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:113111513 original size:46 final size:45
Alignment explanation
Indices: 113111374--113111513 Score: 140
Period size: 46 Copynumber: 3.0 Consensus size: 45
113111364 GCCCATAAGC
* ** *
113111374 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCATGAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCC-T-AGT
** **
113111420 GAACTCGGACTCAACTCAACGAGTTCGGACATT-TGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCC-T-AGT
*
113111466 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGTTC-ACCATCCTAGT
113111512 GA
1 GA
113111514 CATGTCACTT
Statistics
Matches: 82, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
46 76 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCCTAGT
Found at i:113112984 original size:13 final size:14
Alignment explanation
Indices: 113112961--113112990 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
113112951 TTTGAGAAGG
113112961 GATTTGGAGATG-T
1 GATTTGGAGATGCT
113112974 GATTTGGAGATGCT
1 GATTTGGAGATGCT
113112988 GAT
1 GAT
113112991 GTTTATATCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.23, C:0.03, G:0.37, T:0.37
Consensus pattern (14 bp):
GATTTGGAGATGCT
Found at i:113113084 original size:28 final size:29
Alignment explanation
Indices: 113113031--113113092 Score: 108
Period size: 29 Copynumber: 2.2 Consensus size: 29
113113021 CACTCTGTGC
*
113113031 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTGGGATGGATTATAT
113113060 TATTCTGGTGTGTTTGGGA-GGATTATAT
1 TATTCTGGTGTGTTTGGGATGGATTATAT
113113088 TATTC
1 TATTC
113113093 AACGTAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 14 0.44
29 18 0.56
ACGTcount: A:0.18, C:0.05, G:0.27, T:0.50
Consensus pattern (29 bp):
TATTCTGGTGTGTTTGGGATGGATTATAT
Found at i:113113496 original size:17 final size:16
Alignment explanation
Indices: 113113461--113113492 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
113113451 TGAGTTTTTT
*
113113461 TTTTTAAATAAAAAAA
1 TTTTAAAATAAAAAAA
113113477 TTTTAAAATAAAAAAA
1 TTTTAAAATAAAAAAA
113113493 ATTTGGAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
TTTTAAAATAAAAAAA
Found at i:113118463 original size:21 final size:21
Alignment explanation
Indices: 113118426--113118465 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
113118416 AAAAAAAACT
*
113118426 AAAAAAAAACAAGATATATGC
1 AAAAAAAAACAAAATATATGC
113118447 AAAAAGAAAA-AAAATATAT
1 AAAAA-AAAACAAAATATAT
113118466 TGAAGACGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.72, C:0.05, G:0.07, T:0.15
Consensus pattern (21 bp):
AAAAAAAAACAAAATATATGC
Found at i:113120573 original size:17 final size:18
Alignment explanation
Indices: 113120546--113120580 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
113120536 TTAAAACATA
*
113120546 TAAAAACTAAATAAAAAG
1 TAAAAACTAAAGAAAAAG
113120564 TAAAAA-TAAAGAAAAAG
1 TAAAAACTAAAGAAAAAG
113120581 AGGCAACTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.74, C:0.03, G:0.09, T:0.14
Consensus pattern (18 bp):
TAAAAACTAAAGAAAAAG
Found at i:113121132 original size:3 final size:3
Alignment explanation
Indices: 113121124--113121195 Score: 144
Period size: 3 Copynumber: 24.0 Consensus size: 3
113121114 CTTTAATTTT
113121124 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
113121172 TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA
113121196 CTTCTAATGT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 69 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:113121526 original size:18 final size:18
Alignment explanation
Indices: 113121505--113121539 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
113121495 TATATTTCCC
*
113121505 TTATTTATTTTTTATTAG
1 TTATATATTTTTTATTAG
*
113121523 TTATATGTTTTTTATTA
1 TTATATATTTTTTATTA
113121540 TTTCATGTAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (18 bp):
TTATATATTTTTTATTAG
Found at i:113121637 original size:24 final size:26
Alignment explanation
Indices: 113121592--113121639 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
113121582 TTAATACATG
113121592 TTTTATATATGTATATATTATGTATA
1 TTTTATATATGTATATATTATGTATA
113121618 TTTTA-ATAT-TATAT-TATATGTA
1 TTTTATATATGTATATAT-TATGTA
113121640 CGTATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 1 0.05
24 11 0.52
25 4 0.19
26 5 0.24
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (26 bp):
TTTTATATATGTATATATTATGTATA
Found at i:113127836 original size:35 final size:35
Alignment explanation
Indices: 113127790--113127859 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
113127780 ATGGCAAGGG
113127790 TTAGGCTTCTCGTGGGTACTAAATAGCACAAATCT
1 TTAGGCTTCTCGTGGGTACTAAATAGCACAAATCT
113127825 TTAGGCTTCTCGTGGGTACTAAATAGCACAAATCT
1 TTAGGCTTCTCGTGGGTACTAAATAGCACAAATCT
113127860 AAGTATAAGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (35 bp):
TTAGGCTTCTCGTGGGTACTAAATAGCACAAATCT
Found at i:113131832 original size:26 final size:26
Alignment explanation
Indices: 113131794--113131929 Score: 245
Period size: 26 Copynumber: 5.2 Consensus size: 26
113131784 CATGATATTC
*
113131794 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
113131820 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
113131846 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
113131872 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
113131898 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
113131924 TTATCA
1 TTATCA
113131930 ATTTGTATCA
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 106 1.00
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.32
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:113134386 original size:20 final size:21
Alignment explanation
Indices: 113134358--113134397 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
113134348 TTGAGTTTTC
*
113134358 TTTTCATTTA-ATTTTGTTTA
1 TTTTAATTTAGATTTTGTTTA
*
113134378 TTTTAATTTAGGTTTTGTTT
1 TTTTAATTTAGATTTTGTTT
113134398 GTTAGGCCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.17, C:0.03, G:0.10, T:0.70
Consensus pattern (21 bp):
TTTTAATTTAGATTTTGTTTA
Found at i:113134684 original size:37 final size:36
Alignment explanation
Indices: 113134643--113134724 Score: 94
Period size: 37 Copynumber: 2.2 Consensus size: 36
113134633 TTTTAAATAA
* *
113134643 AATTATTTTTAA-TATAGATATGATCTTAATAATATTT
1 AATTATTTTTAACCATA-ATATAATCTTAA-AATATTT
*
113134680 AATTATTATTTAACCATAATATAATTTTAAAATATTT
1 AATTATT-TTTAACCATAATATAATCTTAAAATATTT
*
113134717 TATTATTT
1 AATTATTT
113134725 AATGTAAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
36 1 0.03
37 20 0.51
38 15 0.38
39 3 0.08
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.52
Consensus pattern (36 bp):
AATTATTTTTAACCATAATATAATCTTAAAATATTT
Found at i:113138680 original size:26 final size:26
Alignment explanation
Indices: 113138644--113138753 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 26
113138634 TGATACAAAT
*
113138644 TGATAAAAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
113138670 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* * *
113138696 TGATAATGGGTTAGATAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
113138722 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
113138748 TGATAA
1 TGATAA
113138754 GAATTTTGTC
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:113141944 original size:129 final size:128
Alignment explanation
Indices: 113141787--113142042 Score: 503
Period size: 129 Copynumber: 2.0 Consensus size: 128
113141777 TTTCCTTTGC
113141787 ATGTTTTCTCTAAAAAAATGTTAAGAGAAAATCAATTGAAGGAAAAAAAAATAAGAGAGTGATAA
1 ATGTTTTCTCTAAAAAAATGTTAAGAGAAAATCAATTGAAGGAAAAAAAAATAAGAGAGTGATAA
113141852 ACTTATCCGAGTAAGAAACTAAAACATGGGATGTTTTGGACTAGAGGTGTGCATGGGCCGGGT
66 ACTTATCCGAGTAAGAAACTAAAACATGGGATGTTTTGGACTAGAGGTGTGCATGGGCCGGGT
113141915 ATGTTTTCTCTAAAAAAAATGTTAAGAGAAAATCAATTGAAGGAAAAAAAAATAAGAGAGTGATA
1 ATGTTTTCTCT-AAAAAAATGTTAAGAGAAAATCAATTGAAGGAAAAAAAAATAAGAGAGTGATA
113141980 AACTTATCCGAGTAAGAAACTAAAACATGGGATGTTTTGGACTAGAGGTGTGCATGGGCCGGG
65 AACTTATCCGAGTAAGAAACTAAAACATGGGATGTTTTGGACTAGAGGTGTGCATGGGCCGGG
113142043 CCACCCGGCC
Statistics
Matches: 127, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
128 11 0.09
129 116 0.91
ACGTcount: A:0.42, C:0.09, G:0.24, T:0.25
Consensus pattern (128 bp):
ATGTTTTCTCTAAAAAAATGTTAAGAGAAAATCAATTGAAGGAAAAAAAAATAAGAGAGTGATAA
ACTTATCCGAGTAAGAAACTAAAACATGGGATGTTTTGGACTAGAGGTGTGCATGGGCCGGGT
Found at i:113142247 original size:11 final size:11
Alignment explanation
Indices: 113142233--113142273 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
113142223 TGTTTTCTCC
113142233 CTATTTTGCTA
1 CTATTTTGCTA
*
113142244 CTATTTTACTA
1 CTATTTTGCTA
* *
113142255 TTATGTTGCTA
1 CTATTTTGCTA
113142266 CTATTTTG
1 CTATTTTG
113142274 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:113142344 original size:30 final size:30
Alignment explanation
Indices: 113142310--113142372 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
113142300 ATTTATTTTA
*
113142310 TTGTTAATTTTTTTATTATTTTA-AACACAT
1 TTGTTAATTTTGTTATTATTTTAGAA-ACAT
113142340 TTGTTAATTTTGTTATTATTTTAGAAACAT
1 TTGTTAATTTTGTTATTATTTTAGAAACAT
113142370 TTG
1 TTG
113142373 CTTGTTAAGT
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:0.29, C:0.05, G:0.08, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAGAAACAT
Found at i:113142516 original size:12 final size:12
Alignment explanation
Indices: 113142495--113142528 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
113142485 TATATATTTT
*
113142495 AAAATTATATAA
1 AAAATAATATAA
113142507 AAAATAATATAA
1 AAAATAATATAA
*
113142519 AAATTAATAT
1 AAAATAATAT
113142529 GGGCGGGCCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:113143766 original size:43 final size:42
Alignment explanation
Indices: 113143689--113143773 Score: 102
Period size: 43 Copynumber: 2.0 Consensus size: 42
113143679 GTAAAATTTA
*
113143689 ATTTGAATATAATATATATTTTAAATATTATTAAAATATAATT
1 ATTTGAATATAATATATATGTTAAATATTATTAAAATA-AATT
* *
113143732 ATTTTAATATAAATATATAATGTTATATA-T-TTAAAATAAATT
1 ATTTGAATAT-AATATAT-ATGTTAAATATTATTAAAATAAATT
113143774 TCAATAGAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
42 4 0.11
43 17 0.46
44 8 0.22
45 8 0.22
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.48
Consensus pattern (42 bp):
ATTTGAATATAATATATATGTTAAATATTATTAAAATAAATT
Found at i:113146361 original size:18 final size:18
Alignment explanation
Indices: 113146346--113146523 Score: 176
Period size: 18 Copynumber: 9.9 Consensus size: 18
113146336 CATCAGTATT
*
113146346 AATCAGTTATTCAGTAAT
1 AATCAGTTATTCAGTAAC
*
113146364 AATCATTTATTCAGTAAC
1 AATCAGTTATTCAGTAAC
* * *
113146382 AGTCATTTATTCAGTCAC
1 AATCAGTTATTCAGTAAC
* * * * *
113146400 AGTCAATTTTTCAATAAA
1 AATCAGTTATTCAGTAAC
113146418 AATCAGTTATTCAGTAAC
1 AATCAGTTATTCAGTAAC
* *
113146436 AATCATTTATTCAGTCAC
1 AATCAGTTATTCAGTAAC
* * *
113146454 AGTCAATTATTCAGTAAT
1 AATCAGTTATTCAGTAAC
*
113146472 AATCAGTTATTCAATAAC
1 AATCAGTTATTCAGTAAC
* * *
113146490 AGTCATTTATTCAGTAGC
1 AATCAGTTATTCAGTAAC
*
113146508 AGTCAGTTATTCAGTA
1 AATCAGTTATTCAGTA
113146524 CCATTATTTT
Statistics
Matches: 131, Mismatches: 29, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 131 1.00
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.38
Consensus pattern (18 bp):
AATCAGTTATTCAGTAAC
Found at i:113146422 original size:54 final size:54
Alignment explanation
Indices: 113146352--113146523 Score: 265
Period size: 54 Copynumber: 3.2 Consensus size: 54
113146342 TATTAATCAG
*
113146352 TTATTCAGTAATAATCATTTATTCAGTAACAGTCATTTATTCAGTCACAGTCAA
1 TTATTCAGTAATAATCAGTTATTCAGTAACAGTCATTTATTCAGTCACAGTCAA
* * * *
113146406 TTTTTCAATAAAAATCAGTTATTCAGTAACAATCATTTATTCAGTCACAGTCAA
1 TTATTCAGTAATAATCAGTTATTCAGTAACAGTCATTTATTCAGTCACAGTCAA
* *
113146460 TTATTCAGTAATAATCAGTTATTCAATAACAGTCATTTATTCAGT-AGCAGTCAG
1 TTATTCAGTAATAATCAGTTATTCAGTAACAGTCATTTATTCAGTCA-CAGTCAA
113146514 TTATTCAGTA
1 TTATTCAGTA
113146524 CCATTATTTT
Statistics
Matches: 106, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
53 1 0.01
54 105 0.99
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (54 bp):
TTATTCAGTAATAATCAGTTATTCAGTAACAGTCATTTATTCAGTCACAGTCAA
Found at i:113146652 original size:12 final size:12
Alignment explanation
Indices: 113146635--113146659 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
113146625 TACACCGTAT
113146635 CGGTAACAGTAA
1 CGGTAACAGTAA
113146647 CGGTAACAGTAA
1 CGGTAACAGTAA
113146659 C
1 C
113146660 AATAGCAGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:113146930 original size:17 final size:18
Alignment explanation
Indices: 113146896--113146930 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
113146886 TCAGCTAATC
*
113146896 ATATATATTTTCAGTTCA
1 ATATATATTTTCAATTCA
113146914 ATATATA-TTTCAATTCA
1 ATATATATTTTCAATTCA
113146931 CTTTACATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.37, C:0.11, G:0.03, T:0.49
Consensus pattern (18 bp):
ATATATATTTTCAATTCA
Done.