Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008926.1 Hibiscus syriacus cultivar Beakdansim tig00112231_pilon, whole genome shotgun sequence
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: 4069050
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 20
Found at i:2466539 original size:22 final size:22
Alignment explanation
Indices: 2466439--2466539 Score: 69
Period size: 22 Copynumber: 4.6 Consensus size: 22
2466429 TACACGGAAA
*
2466439 TGCCTTAGCACTGGTACTAAAA-
1 TGCCTTAGCACTGATAC-AAAAG
* * *
2466461 TGTCTCAGTACTGATACAAAAG
1 TGCCTTAGCACTGATACAAAAG
* * * *
2466483 TGCATTTGCAATGATTCAAAAG
1 TGCCTTAGCACTGATACAAAAG
* * * *
2466505 TACATTTGCACTGATACTAAAG
1 TGCCTTAGCACTGATACAAAAG
*
2466527 TGCCTTAGTACTG
1 TGCCTTAGCACTG
2466540 CAACCACATA
Statistics
Matches: 59, Mismatches: 19, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
21 4 0.07
22 55 0.93
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.31
Consensus pattern (22 bp):
TGCCTTAGCACTGATACAAAAG
Found at i:2470149 original size:22 final size:22
Alignment explanation
Indices: 2470103--2470166 Score: 69
Period size: 22 Copynumber: 2.9 Consensus size: 22
2470093 TTTAATAAAA
* *
2470103 ATATTTAAAATATAT-TTATTC
1 ATATTTATAATATATAATATTC
2470124 ATATTTATAATAATATAATATT-
1 ATATTTATAAT-ATATAATATTC
*
2470146 ATATTTTTAATATAATAATAT
1 ATATTTATAATAT-ATAATAT
2470167 AATCAATCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
21 12 0.32
22 21 0.57
23 4 0.11
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
ATATTTATAATATATAATATTC
Found at i:2470364 original size:23 final size:23
Alignment explanation
Indices: 2470338--2470383 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
2470328 CTAATAAATT
2470338 TTAATAAAGATATTTAAAATATA
1 TTAATAAAGATATTTAAAATATA
* * *
2470361 TTAATTAATATTTTTAAAATATA
1 TTAATAAAGATATTTAAAATATA
2470384 ATATAATACT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (23 bp):
TTAATAAAGATATTTAAAATATA
Found at i:2470504 original size:14 final size:14
Alignment explanation
Indices: 2470458--2470505 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
2470448 GTACTAATCT
*
2470458 TAATATTTTTATTAA
1 TAATA-TTTTAATAA
* *
2470473 TAAAATTTTAAAAA
1 TAATATTTTAATAA
2470487 TAATATTTTAATAA
1 TAATATTTTAATAA
2470501 TAATA
1 TAATA
2470506 AATAAATTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 24 0.86
15 4 0.14
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TAATATTTTAATAA
Found at i:2470522 original size:20 final size:21
Alignment explanation
Indices: 2470484--2470533 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
2470474 AAAATTTTAA
2470484 AAATAATATTTTAATAATAAT
1 AAATAATATTTTAATAATAAT
*
2470505 AAATAA-ATTATT-ATAATATT
1 AAATAATATT-TTAATAATAAT
2470525 AAAATAATA
1 -AAATAATA
2470534 ATAATATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 10 0.40
21 14 0.56
22 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AAATAATATTTTAATAATAAT
Found at i:2470542 original size:17 final size:17
Alignment explanation
Indices: 2470485--2470543 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
2470475 AAATTTTAAA
**
2470485 AATAATATTTTAATAAT
1 AATAATATTAAAATAAT
*
2470502 AATAA-A-T-AAATTAT
1 AATAATATTAAAATAAT
*
2470516 TATAATATTAAAATAAT
1 AATAATATTAAAATAAT
2470533 AATAATATTAA
1 AATAATATTAA
2470544 GTTTTGATGA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
14 9 0.26
15 2 0.06
16 2 0.06
17 21 0.62
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AATAATATTAAAATAAT
Found at i:2471014 original size:31 final size:31
Alignment explanation
Indices: 2470979--2471040 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
2470969 TCTAATTTTC
* *
2470979 ATAAAAATAAAATAAA-AACTATTTTCAAAAA
1 ATAAAAACAAAA-AAACAAATATTTTCAAAAA
*
2471010 ATAAAAACAAAAAAACAAATATTTTCCAAAA
1 ATAAAAACAAAAAAACAAATATTTTCAAAAA
2471041 CCAAACGTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 3 0.11
31 24 0.89
ACGTcount: A:0.68, C:0.10, G:0.00, T:0.23
Consensus pattern (31 bp):
ATAAAAACAAAAAAACAAATATTTTCAAAAA
Found at i:2471016 original size:26 final size:26
Alignment explanation
Indices: 2470973--2471022 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
2470963 ATGTTTTCTA
*
2470973 ATTTTCATAAAAATAAAATAAAAACT
1 ATTTTCATAAAAATAAAACAAAAACT
2470999 ATTTTCA-AAAAATAAAAACAAAAA
1 ATTTTCATAAAAAT-AAAACAAAAA
2471023 AACAAATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 6 0.27
26 16 0.73
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (26 bp):
ATTTTCATAAAAATAAAACAAAAACT
Found at i:2476665 original size:4 final size:4
Alignment explanation
Indices: 2476656--2480478 Score: 6829
Period size: 4 Copynumber: 970.0 Consensus size: 4
2476646 CGAATCAATA
2476656 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2476704 TATG TATG TATG TATG TATG T-TG TATG TATG T-TG TATG --TG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2476748 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * *
2476796 TATG TATA TATG TATG TATG TGTG TATG TATG TGTG TATG TATG TGTG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * *
2476844 TATG TGTG TGTG TATG TGTG TGTG TATG TGTG TGTG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2476892 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2476940 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2476988 TATG TATG TATG --TG TATG T-TG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2477033 TATG TATG TATG TATG TATG --TG TATG TATG -ATG TATG --TG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
2477076 TATG TATG TATG TATG TATG TATG TATG TATG TGTA TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
2477124 TATG TA-G GATG TATG TATG TATG TATG TGTG TTATG TATG --TG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG -TATG TATG TATG TATG
* * *
2477170 TATG --TG TATG TATG TGTG TATG -ATG TGTG TATG TATG TGTG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
2477215 TATG TATG TATG TGTG TATGG TATG TGTG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TAT-G TATG TATG TATG TATG TATG TATG TATG
* *
2477264 TATG TATG TATG TATG TATG TGTG TATG TGTG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
2477312 TATG TGGATG TATG T-TG TGTG TATG TATG TGTG TATG TATG --TG TATG
1 TATG T--ATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * *
2477359 TATG TGTG TATG TGTG TATG --TG TGTG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
2477405 TATG TATG TATG TGTG TATG TATG TATG TATG TATG --TG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * *
2477451 TATG TATG TATG TGTG TATG TTTG GATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2477499 TATG TATG TATG TATG TATG TATG -ATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2477546 TATG TATG TATG TATG TATG TATG TATG TATG TATG TA-G TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2477593 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2477641 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2477689 TATG TATG TA-G TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2477736 TATG TATG TATG --TG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
2477782 TGTG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATGG ATATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT-G -TATG
2477832 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2477880 TATG TATG TATG --TG TATG TATG TATG TATG TATG --TG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2477924 --TG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2477970 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG --TG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
2478016 GATG TATG TA-- TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2478062 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2478110 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2478158 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2478206 TA-- TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2478252 TATG TATG TATG TATG TATG TATG TATG TATG TATG TA-G TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
2478299 TATG TATG TAGG TATG TATG TATG TATG TATG TATG TATG TATG TA-G
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2478346 TATG TATG TATG TA-G TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
2478393 TATG TATG TATG TATG TATG TATG TATG TA-G TATG TAGG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2478440 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2478488 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2478536 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATTG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TA-TG TATG TATG
2478585 --TG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2478631 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2478679 TATG TATG TATG TATG TATG TA-G TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2478726 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2478774 TATG TATG TATG TATG TA-G TATG TATG TATG TATG TA-G TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2478820 TATG TATG TA-G TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2478867 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2478915 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2478963 TATG TATG TATG TATG TATG TA-G TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2479010 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TA-G TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2479057 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2479105 TATG TATG TATG TATG TATG TATG TATG TA-G TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2479152 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2479200 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2479248 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2479296 TATG TATG TATG TATG T-TG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2479343 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2479391 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2479439 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2479487 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2479535 TATG TATG TATG TATG TA-G TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2479582 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG --TG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2479628 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2479676 TATG TATG TATG TATG TATG TATG TATG TATG TATG TA-G TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2479723 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2479771 TATG TATG TATG TATG TATG TATG TATG TATG TATG TA-G TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2479818 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2479866 TATG TATG TATG T-TG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2479913 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2479961 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2480009 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2480057 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2480105 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2480153 TATG TATG TATG TATG TATG -ATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2480200 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2480248 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2480296 TATG TATG TATG TATG TATG TATG TATG TATG TATG TA-G TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2480343 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2480391 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2480439 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
2480479 AATGAAGAAA
Statistics
Matches: 3688, Mismatches: 60, Indels: 142
0.95 0.02 0.04
Matches are distributed among these distances:
2 36 0.01
3 83 0.02
4 3549 0.96
5 13 0.00
6 7 0.00
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:2481631 original size:14 final size:14
Alignment explanation
Indices: 2481608--2481637 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2481598 TCCTCTACTT
*
2481608 AAACCCTAAACCTA
1 AAACCATAAACCTA
2481622 AAACCATAAACCTA
1 AAACCATAAACCTA
2481636 AA
1 AA
2481638 CAATAACATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.30, G:0.00, T:0.13
Consensus pattern (14 bp):
AAACCATAAACCTA
Found at i:2481631 original size:21 final size:22
Alignment explanation
Indices: 2481607--2481659 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
2481597 TTCCTCTACT
*
2481607 TAAACCCTAAAC-CTAAAACCA
1 TAAACCCTAAACAATAAAACCA
* *
2481628 TAAA-CCTAAACAATAACATCA
1 TAAACCCTAAACAATAAAACCA
2481649 TAAACCCTAAA
1 TAAACCCTAAA
2481660 TTATAAACCC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 7 0.26
21 14 0.52
22 6 0.22
ACGTcount: A:0.55, C:0.28, G:0.00, T:0.17
Consensus pattern (22 bp):
TAAACCCTAAACAATAAAACCA
Found at i:2481667 original size:14 final size:14
Alignment explanation
Indices: 2481648--2481768 Score: 100
Period size: 14 Copynumber: 8.4 Consensus size: 14
2481638 CAATAACATC
2481648 ATAAACCCTAAATT
1 ATAAACCCTAAATT
2481662 ATAAACCCTAAATT
1 ATAAACCCTAAATT
*
2481676 ATAAACCATAAATT
1 ATAAACCCTAAATT
* * * *
2481690 TTAAATCATAAA-C
1 ATAAACCCTAAATT
*
2481703 ATCAAACCCTAAAAACCTC
1 AT-AAACCCT--AAA--TT
*
2481722 ATAAACCCTAAACT
1 ATAAACCCTAAATT
*
2481736 ATAAATCCTAAATT
1 ATAAACCCTAAATT
*
2481750 ATAAACCATAAATT
1 ATAAACCCTAAATT
*
2481764 TTAAA
1 ATAAA
2481769 TCATAAACAT
Statistics
Matches: 87, Mismatches: 14, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
13 1 0.01
14 70 0.80
16 6 0.07
18 7 0.08
19 3 0.03
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.27
Consensus pattern (14 bp):
ATAAACCCTAAATT
Found at i:2481686 original size:21 final size:20
Alignment explanation
Indices: 2481662--2481715 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
2481652 ACCCTAAATT
*
2481662 ATAAACCCTAAATTATAAACC
1 ATAAACCCTAAATCATAAA-C
***
2481683 ATAAATTTTAAATCATAAAC
1 ATAAACCCTAAATCATAAAC
2481703 ATCAAACCCTAAA
1 AT-AAACCCTAAA
2481716 AACCTCATAA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
20 3 0.12
21 22 0.88
ACGTcount: A:0.54, C:0.20, G:0.00, T:0.26
Consensus pattern (20 bp):
ATAAACCCTAAATCATAAAC
Found at i:2481732 original size:74 final size:74
Alignment explanation
Indices: 2481646--2481809 Score: 280
Period size: 74 Copynumber: 2.3 Consensus size: 74
2481636 AACAATAACA
*
2481646 TCATAAACCCTAAATTATAAACCCTAAATTATAAACCATAAATTTTAAATCATAAACATCAAACC
1 TCATAAACCCTAAACTATAAACCCTAAATTATAAACCATAAATTTTAAATCATAAACATCAAACC
2481711 CTAAAAACC
66 CTAAAAACC
*
2481720 TCATAAACCCTAAACTATAAATCCTAAATTATAAACCATAAATTTTAAATCATAAACATCAAACC
1 TCATAAACCCTAAACTATAAACCCTAAATTATAAACCATAAATTTTAAATCATAAACATCAAACC
2481785 CTAAAAA-C
66 CTAAAAACC
*
2481793 -C-TACACCCTAAACTATA
1 TCATAAACCCTAAACTATA
2481810 CTCATAAACT
Statistics
Matches: 87, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
71 15 0.17
72 1 0.01
73 1 0.01
74 70 0.80
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.26
Consensus pattern (74 bp):
TCATAAACCCTAAACTATAAACCCTAAATTATAAACCATAAATTTTAAATCATAAACATCAAACC
CTAAAAACC
Found at i:2481754 original size:21 final size:20
Alignment explanation
Indices: 2481730--2481789 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
2481720 TCATAAACCC
*
2481730 TAAACTATAAATCCTAAATTA
1 TAAAC-ATAAATCCTAAATCA
**
2481751 TAAACCATAAATTTTAAATCA
1 TAAA-CATAAATCCTAAATCA
*
2481772 TAAACATCAAACCCTAAA
1 TAAACAT-AAATCCTAAA
2481790 AACCTACACC
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
20 3 0.10
21 27 0.87
22 1 0.03
ACGTcount: A:0.53, C:0.18, G:0.00, T:0.28
Consensus pattern (20 bp):
TAAACATAAATCCTAAATCA
Found at i:2482008 original size:22 final size:22
Alignment explanation
Indices: 2481948--2481994 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
2481938 ATGAGGCATT
*
2481948 AAATCACAAATC-TTAAATCTTA
1 AAATCACAAA-CACTAAATCTTA
2481970 AAATCACAAACACTAAATCTTA
1 AAATCACAAACACTAAATCTTA
2481992 AAA
1 AAA
2481995 CCATACATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 1 0.04
22 22 0.96
ACGTcount: A:0.55, C:0.19, G:0.00, T:0.26
Consensus pattern (22 bp):
AAATCACAAACACTAAATCTTA
Found at i:2482187 original size:21 final size:21
Alignment explanation
Indices: 2482135--2482188 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
2482125 ATTATAACTT
*
2482135 TAAATCCTAAATTTTAATCCA
1 TAAATCCTAAATTTGAATCCA
*
2482156 TAAACCCTAAACTTTGAA-CCA
1 TAAATCCTAAA-TTTGAATCCA
*
2482177 TAAATCATAAAT
1 TAAATCCTAAAT
2482189 CCTAATTCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 1 0.04
21 22 0.79
22 5 0.18
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.31
Consensus pattern (21 bp):
TAAATCCTAAATTTGAATCCA
Found at i:2490583 original size:20 final size:21
Alignment explanation
Indices: 2490558--2490609 Score: 79
Period size: 22 Copynumber: 2.5 Consensus size: 21
2490548 AGAGGGAACT
*
2490558 GATTCCCCC-AAGTGGGTACC
1 GATTCCCCCTAAGGGGGTACC
2490578 GATTCCCCCCTAAGGGGGTACC
1 GATT-CCCCCTAAGGGGGTACC
2490600 GATTCCCCCT
1 GATTCCCCCT
2490610 GAATGGTTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 4 0.14
21 11 0.38
22 14 0.48
ACGTcount: A:0.17, C:0.38, G:0.23, T:0.21
Consensus pattern (21 bp):
GATTCCCCCTAAGGGGGTACC
Found at i:2492616 original size:2 final size:2
Alignment explanation
Indices: 2492609--2492649 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
2492599 AGATTGGAGA
2492609 AT AT AT AT AT 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 AT AT AT AT AT A
2492650 AACTTCTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2495491 original size:28 final size:27
Alignment explanation
Indices: 2495460--2495522 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 27
2495450 AGTTGATACA
*
2495460 ATATTTTAAAAGAATAAATTTAAGATTT
1 ATATTTTAAAA-AATAAATTTAAGAATT
** * *
2495488 ATATATTTTTAAACTAAATTTAATAATT
1 ATAT-TTTAAAAAATAAATTTAAGAATT
2495516 ATATTTT
1 ATATTTT
2495523 TCATATTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 3 0.10
28 21 0.72
29 5 0.17
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (27 bp):
ATATTTTAAAAAATAAATTTAAGAATT
Found at i:2495623 original size:16 final size:18
Alignment explanation
Indices: 2495602--2495635 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
2495592 ATTTCTTATT
2495602 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
2495618 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
2495636 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:2495782 original size:21 final size:21
Alignment explanation
Indices: 2495758--2495800 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
2495748 TATTACCTTA
2495758 AATTGAAGTATTTTAGAATTT
1 AATTGAAGTATTTTAGAATTT
2495779 AATTGAAGTATTTTAGAATTT
1 AATTGAAGTATTTTAGAATTT
2495800 A
1 A
2495801 GGGTTTAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.47
Consensus pattern (21 bp):
AATTGAAGTATTTTAGAATTT
Found at i:2495818 original size:35 final size:35
Alignment explanation
Indices: 2495769--2495854 Score: 100
Period size: 35 Copynumber: 2.5 Consensus size: 35
2495759 ATTGAAGTAT
** * *
2495769 TTTAGAATTTAATTGAAGTATTTTAGAATTTAGGG
1 TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
* * *
2495804 TTTAGAATAAAATTGAATTACTTTGGAAATTGGGG
1 TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
*
2495839 TTTAGAATGAAATTGA
1 TTTAGAATAAAATTGA
2495855 TGACTGTTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.37, C:0.01, G:0.21, T:0.41
Consensus pattern (35 bp):
TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
Found at i:2496037 original size:29 final size:29
Alignment explanation
Indices: 2495985--2496044 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
2495975 GCAAACGGAA
* *
2495985 TAAATGTTGGGGGACTGTATTGCAAGTTT
1 TAAATGTTGGGGGACTGAAATGCAAGTTT
2496014 TAAATGTTGGGGGACCT-AAATGCAAGTTT
1 TAAATGTTGGGGGA-CTGAAATGCAAGTTT
2496043 TA
1 TA
2496045 GAAATGTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 26 0.93
30 2 0.07
ACGTcount: A:0.28, C:0.08, G:0.28, T:0.35
Consensus pattern (29 bp):
TAAATGTTGGGGGACTGAAATGCAAGTTT
Found at i:2501101 original size:40 final size:40
Alignment explanation
Indices: 2501046--2501133 Score: 176
Period size: 40 Copynumber: 2.2 Consensus size: 40
2501036 TAACGGTTAG
2501046 TGACAAGATTGAATGAATTTAATTAGTTGGGCGGTCTGAT
1 TGACAAGATTGAATGAATTTAATTAGTTGGGCGGTCTGAT
2501086 TGACAAGATTGAATGAATTTAATTAGTTGGGCGGTCTGAT
1 TGACAAGATTGAATGAATTTAATTAGTTGGGCGGTCTGAT
2501126 TGACAAGA
1 TGACAAGA
2501134 ATCCAAAAGT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.32, C:0.08, G:0.27, T:0.33
Consensus pattern (40 bp):
TGACAAGATTGAATGAATTTAATTAGTTGGGCGGTCTGAT
Found at i:2503741 original size:23 final size:22
Alignment explanation
Indices: 2503715--2503783 Score: 58
Period size: 23 Copynumber: 3.2 Consensus size: 22
2503705 ACTCTGACTC
2503715 AAAAGTGAGTATCTAAGATTCAT
1 AAAAGTGAGTATCT-AGATTCAT
* *
2503738 AAAA--GA-CA-CTAGAACTCA-
1 AAAAGTGAGTATCTAG-ATTCAT
2503756 AAAAGTGAGTATCTTAGATTCAT
1 AAAAGTGAGTATC-TAGATTCAT
2503779 AAAAG
1 AAAAG
2503784 AAACTATAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 14
0.66 0.08 0.26
Matches are distributed among these distances:
18 6 0.17
19 6 0.17
20 3 0.09
21 3 0.09
22 5 0.14
23 12 0.34
ACGTcount: A:0.48, C:0.12, G:0.16, T:0.25
Consensus pattern (22 bp):
AAAAGTGAGTATCTAGATTCAT
Found at i:2503767 original size:41 final size:41
Alignment explanation
Indices: 2503711--2503815 Score: 176
Period size: 41 Copynumber: 2.6 Consensus size: 41
2503701 TGGAACTCTG
*
2503711 ACTC-AAAAGTGAGTATCTAAGATTCATAAAAGACACTAGA
1 ACTCAAAAAGTGAGTATCTAAGATTCATAAAAGAAACTAGA
* *
2503751 ACTCAAAAAGTGAGTATCTTAGATTCATAAAAGAAACTATA
1 ACTCAAAAAGTGAGTATCTAAGATTCATAAAAGAAACTAGA
2503792 ACTCAAAAAGTGAGTATCTAAGAT
1 ACTCAAAAAGTGAGTATCTAAGAT
2503816 CCATGATCAG
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
40 4 0.07
41 56 0.93
ACGTcount: A:0.48, C:0.13, G:0.14, T:0.25
Consensus pattern (41 bp):
ACTCAAAAAGTGAGTATCTAAGATTCATAAAAGAAACTAGA
Found at i:2506758 original size:19 final size:20
Alignment explanation
Indices: 2506724--2506772 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
2506714 AATTGTGTTA
*
2506724 TTTAAATTATTGTGAAATT-
1 TTTAAATTTTTGTGAAATTG
* *
2506743 TTTAAATTTTTTTGAATTTG
1 TTTAAATTTTTGTGAAATTG
*
2506763 TTTATATTTT
1 TTTAAATTTT
2506773 AATTCATATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (20 bp):
TTTAAATTTTTGTGAAATTG
Found at i:2508917 original size:26 final size:26
Alignment explanation
Indices: 2508888--2509016 Score: 72
Period size: 26 Copynumber: 5.4 Consensus size: 26
2508878 ACATTAAGGC
2508888 ATGAAAGGATGCCATAACTAAAATGT
1 ATGAAAGGATGCCATAACTAAAATGT
* * *
2508914 ATGAACA-AATG-CAT---T--AAGGC
1 ATGAA-AGGATGCCATAACTAAAATGT
*
2508934 ATGAAAGGATGCCATAACCAAAATGCT
1 ATGAAAGGATGCCATAACTAAAATG-T
*
2508961 -TGAACA-GATG-CAT---T--AAGGT
1 ATGAA-AGGATGCCATAACTAAAATGT
2508980 ATGAAAGGATGCCATAACTAAAATGT
1 ATGAAAGGATGCCATAACTAAAATGT
*
2509006 ATGAACGGATG
1 ATGAAAGGATG
2509017 TATTAAGGTA
Statistics
Matches: 74, Mismatches: 11, Indels: 36
0.61 0.09 0.30
Matches are distributed among these distances:
19 3 0.04
20 22 0.30
21 6 0.08
22 1 0.01
24 1 0.01
25 6 0.08
26 33 0.45
27 2 0.03
ACGTcount: A:0.43, C:0.13, G:0.22, T:0.22
Consensus pattern (26 bp):
ATGAAAGGATGCCATAACTAAAATGT
Found at i:2508974 original size:228 final size:230
Alignment explanation
Indices: 2508562--2509031 Score: 678
Period size: 228 Copynumber: 2.1 Consensus size: 230
2508552 ATGTTATCAG
* * *
2508562 TAAGGCATGAAAGGATGCCATAAGTAAAATGCATGAACAGATGCATTAAGGCATGAAAGGATGCC
1 TAAGGCATGAAAGGATACCAAAAATAAAATGCATGAACAGATGCATTAAGGCATGAAAGGATGCC
* * * *
2508627 ATAAGTAAAATCCATAAACGGATGCATTAAGGCATGAAATGATGCCATAACTAAAATGCATGAAC
66 ATAACTAAAATCCAGAAACGGATACATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAC
** * *
2508692 GGATGCATTAAGGCATGAAAGAATGCTATAACAAAAATGCATGAATGAATGCATTAAGGCATGAA
131 AAATGCATTAAGGCATGAAAGAATGCCATAACAAAAATGCATGAAAGAATGCATTAAGGCATGAA
*
2508757 AGGATGTCATAACTAAAATGCATGAACGGATGCAT
196 AGGATGCCATAACTAAAATGCATGAACGGATGCAT
* *
2508792 TAAGGGATGAAAGGATACCAAAAATAAAATGCATGAACGGATGCATTAAGG-ATGAAAGGATGCC
1 TAAGGCATGAAAGGATACCAAAAATAAAATGCATGAACAGATGCATTAAGGCATGAAAGGATGCC
* * *
2508856 ATAACT-AAATGCAGGAA-GGAATACATTAAGGCATGAAAGGATGCCATAACTAAAATGTATGAA
66 ATAACTAAAATCCAGAAACGG-ATACATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAA
* * * *
2508919 CAAATGCATTAAGGCATGAAAGGATGCCATAACCAAAATGCTTGAACAG-ATGCATTAAGGTATG
130 CAAATGCATTAAGGCATGAAAGAATGCCATAACAAAAATGCATGAA-AGAATGCATTAAGGCATG
* *
2508983 AAAGGATGCCATAACTAAAATGTATGAACGGATGTAT
194 AAAGGATGCCATAACTAAAATGCATGAACGGATGCAT
*
2509020 TAAGGTATGAAA
1 TAAGGCATGAAA
2509032 AGAGGCCATA
Statistics
Matches: 214, Mismatches: 24, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
227 2 0.01
228 147 0.69
229 19 0.09
230 46 0.21
ACGTcount: A:0.44, C:0.13, G:0.23, T:0.21
Consensus pattern (230 bp):
TAAGGCATGAAAGGATACCAAAAATAAAATGCATGAACAGATGCATTAAGGCATGAAAGGATGCC
ATAACTAAAATCCAGAAACGGATACATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAC
AAATGCATTAAGGCATGAAAGAATGCCATAACAAAAATGCATGAAAGAATGCATTAAGGCATGAA
AGGATGCCATAACTAAAATGCATGAACGGATGCAT
Found at i:2509056 original size:46 final size:46
Alignment explanation
Indices: 2508562--2509042 Score: 662
Period size: 46 Copynumber: 10.5 Consensus size: 46
2508552 ATGTTATCAG
* *
2508562 TAAGGCATGAAAGGATGCCATAAGTAAAATGCATGAACAGATGCAT
1 TAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCAT
* * *
2508608 TAAGGCATGAAAGGATGCCATAAGTAAAATCCATAAACGGATGCAT
1 TAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCAT
*
2508654 TAAGGCATGAAATGATGCCATAACTAAAATGCATGAACGGATGCAT
1 TAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCAT
* * * * *
2508700 TAAGGCATGAAAGAATGCTATAACAAAAATGCATGAATGAATGCAT
1 TAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCAT
*
2508746 TAAGGCATGAAAGGATGTCATAACTAAAATGCATGAACGGATGCAT
1 TAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCAT
* * * *
2508792 TAAGGGATGAAAGGATACCAAAAATAAAATGCATGAACGGATGCAT
1 TAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCAT
* *
2508838 TAAGG-ATGAAAGGATGCCATAACT-AAATGCAGGAA-GGAATACAT
1 TAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGG-ATGCAT
* **
2508882 TAAGGCATGAAAGGATGCCATAACTAAAATGTATGAACAAATGCAT
1 TAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCAT
* * *
2508928 TAAGGCATGAAAGGATGCCATAACCAAAATGCTTGAACAGATGCAT
1 TAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCAT
* * *
2508974 TAAGGTATGAAAGGATGCCATAACTAAAATGTATGAACGGATGTAT
1 TAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCAT
* * *
2509020 TAAGGTATGAAAAGAGGCCATAA
1 TAAGGCATGAAAGGATGCCATAA
2509043 TTGAAATTAA
Statistics
Matches: 385, Mismatches: 46, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
43 2 0.01
44 20 0.05
45 35 0.09
46 328 0.85
ACGTcount: A:0.44, C:0.13, G:0.23, T:0.21
Consensus pattern (46 bp):
TAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCAT
Found at i:2511879 original size:11 final size:11
Alignment explanation
Indices: 2511863--2511887 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2511853 ATAATGGTAA
2511863 AAACAGTAAAT
1 AAACAGTAAAT
2511874 AAACAGTAAAT
1 AAACAGTAAAT
2511885 AAA
1 AAA
2511888 ATGAAAAGAA
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:0.68, C:0.08, G:0.08, T:0.16
Consensus pattern (11 bp):
AAACAGTAAAT
Found at i:2514427 original size:22 final size:23
Alignment explanation
Indices: 2514401--2514448 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
2514391 GCTATTCAGG
2514401 GGTGT-CAGAACAGTGCGGATCA
1 GGTGTACAGAACAGTGCGGATCA
* *
2514423 GGTGTCACAGAACGGTGCTGATCA
1 GGTGT-ACAGAACAGTGCGGATCA
2514447 GG
1 GG
2514449 AGTTGGGTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 5 0.23
24 17 0.77
ACGTcount: A:0.25, C:0.19, G:0.38, T:0.19
Consensus pattern (23 bp):
GGTGTACAGAACAGTGCGGATCA
Found at i:2520298 original size:21 final size:21
Alignment explanation
Indices: 2520272--2520313 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
2520262 CGAGCTATGG
*
2520272 CTTTGAAGTAAGGCGCCTTGA
1 CTTTGAAGTAAAGCGCCTTGA
*
2520293 CTTTGAAGTAAAGCTCCTTGA
1 CTTTGAAGTAAAGCGCCTTGA
2520314 TTCTTAATTG
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:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (21 bp):
CTTTGAAGTAAAGCGCCTTGA
Found at i:2527014 original size:19 final size:20
Alignment explanation
Indices: 2526990--2527038 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 20
2526980 TGTCAAAATG
*
2526990 GTATCGATACTGAAAGGA-A
1 GTATCGATACTGAAAGAAGA
*
2527009 GTATCGATACTGAGAGAAGA
1 GTATCGATACTGAAAGAAGA
2527029 GTATCGATAC
1 GTATCGATAC
2527039 CATGTTGCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.39, C:0.12, G:0.27, T:0.22
Consensus pattern (20 bp):
GTATCGATACTGAAAGAAGA
Found at i:2527548 original size:46 final size:46
Alignment explanation
Indices: 2527473--2527915 Score: 564
Period size: 46 Copynumber: 9.6 Consensus size: 46
2527463 TGGTATTAGC
*
2527473 AAGGCATGAAAGGATACCAT-ACTTAAAATGCATGAACGGATGCATT
1 AAGGCATGAAAGGATGCCATAAC-TAAAATGCATGAACGGATGCATT
* * *
2527519 AAGGCATGAAATGATGCCATAAGTGAAATGCATGAACGGATGCATT
1 AAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATT
* *
2527565 AAGGCATGAAAGGATGCCATAACTAAAATACATGAACGTATGCATT
1 AAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATT
*
2527611 AAGGCATGAAAAGATGCCATAACTAAAATGCATGAACGGATGCATT
1 AAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATT
* *
2527657 AAGGCATGAAAGGATGTCATAACTAAAATGCAGGAACGGATGCATT
1 AAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATT
* * *
2527703 AAGGCATGAAAGGATGTCATAACTAAAATGTATGAACGGATGAATT
1 AAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATT
* ** *
2527749 AAGACATGAAAGGATATCATAACTAAAATGTATGAACGGATGCATT
1 AAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATT
* * * * ** *
2527795 AAGGCATGAAAAGAGGCAATAACCAAAATGCATGAAAAGATCCATT
1 AAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATT
* * ** * *
2527841 AAGGTATGAGAGGATGTTATAACTAAAATGTATGAACGGATGTATT
1 AAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATT
* * * * *
2527887 AAAGCATGAAAAGAGGCCATTACTGAAAT
1 AAGGCATGAAAGGATGCCATAACTAAAAT
2527916 TAATGAATAA
Statistics
Matches: 343, Mismatches: 53, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
46 342 1.00
47 1 0.00
ACGTcount: A:0.43, C:0.12, G:0.23, T:0.22
Consensus pattern (46 bp):
AAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATT
Found at i:2527560 original size:26 final size:24
Alignment explanation
Indices: 2527476--2527744 Score: 101
Period size: 26 Copynumber: 11.5 Consensus size: 24
2527466 TATTAGCAAG
* *
2527476 GCATGAAAGGATACCATACTTAAAAT
1 GCATGAAAGGATGCCATA-AT-AAAT
* *
2527502 GCATGAACGGATG-CAT--T-AAG
1 GCATGAAAGGATGCCATAATAAAT
*
2527522 GCATGAAATGATGCCATAAGTGAAAT
1 GCATGAAAGGATGCCATAA-T-AAAT
* *
2527548 GCATGAACGGATG-CAT--T-AAG
1 GCATGAAAGGATGCCATAATAAAT
2527568 GCATGAAAGGATGCCATAACTAAAAT
1 GCATGAAAGGATGCCATAA-T-AAAT
* * * *
2527594 ACATGAACGTATG-CAT--T-AAG
1 GCATGAAAGGATGCCATAATAAAT
*
2527614 GCATGAAAAGATGCCATAACTAAAAT
1 GCATGAAAGGATGCCATAA-T-AAAT
* *
2527640 GCATGAACGGATG-CAT--T-AAG
1 GCATGAAAGGATGCCATAATAAAT
*
2527660 GCATGAAAGGATGTCATAACTAAAAT
1 GCATGAAAGGATGCCATAA-T-AAAT
* * *
2527686 GCAGGAACGGATG-CAT--T-AAG
1 GCATGAAAGGATGCCATAATAAAT
*
2527706 GCATGAAAGGATGTCATAACTAAAAT
1 GCATGAAAGGATGCCATAA-T-AAAT
* *
2527732 GTATGAACGGATG
1 GCATGAAAGGATG
2527745 AATTAAGACA
Statistics
Matches: 180, Mismatches: 33, Indels: 60
0.66 0.12 0.22
Matches are distributed among these distances:
20 65 0.36
21 15 0.08
22 5 0.03
24 5 0.03
25 15 0.08
26 75 0.42
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (24 bp):
GCATGAAAGGATGCCATAATAAAT
Found at i:2530025 original size:19 final size:19
Alignment explanation
Indices: 2529987--2530025 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
2529977 ACAAACAAAA
* *
2529987 TAAGTAAAAAGTTCATAAT
1 TAAGTAAAAACTTCACAAT
*
2530006 TAAGTAAAAACTTTACAAT
1 TAAGTAAAAACTTCACAAT
2530025 T
1 T
2530026 GATGGTAAAC
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:0.51, C:0.08, G:0.08, T:0.33
Consensus pattern (19 bp):
TAAGTAAAAACTTCACAAT
Found at i:2531154 original size:2 final size:2
Alignment explanation
Indices: 2531147--2531179 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2531137 ACTAAAACAA
2531147 AT 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 AT A
2531180 ATTCTTATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2532153 original size:18 final size:18
Alignment explanation
Indices: 2532132--2532166 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2532122 TAACATAAAT
2532132 TAAAATATAAACAAATAC
1 TAAAATATAAACAAATAC
* *
2532150 TAAAATTTAAATAAATA
1 TAAAATATAAACAAATA
2532167 AAAATTCACA
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:0.66, C:0.06, G:0.00, T:0.29
Consensus pattern (18 bp):
TAAAATATAAACAAATAC
Found at i:2539872 original size:18 final size:18
Alignment explanation
Indices: 2539849--2539892 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
2539839 AACATTCTTA
*
2539849 GTAATCTTATTCCCGTCG
1 GTAATCTTATTCCCGCCG
2539867 GTAATCTTATTCCCGCCG
1 GTAATCTTATTCCCGCCG
*
2539885 GTATTCTT
1 GTAATCTT
2539893 GCATTCCGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.16, C:0.27, G:0.16, T:0.41
Consensus pattern (18 bp):
GTAATCTTATTCCCGCCG
Found at i:2543980 original size:47 final size:48
Alignment explanation
Indices: 2543929--2544041 Score: 126
Period size: 47 Copynumber: 2.4 Consensus size: 48
2543919 TAATAGACTA
* *
2543929 GTTCATCCTTATTGGATGAG-AATGTCCAATAACCGAAT-AGAA-GATTG
1 GTTCATCCTTATTGGATGAGTAACGTCCAATAACCGAATAACAAGGA--G
* * *
2543976 GTTCATCCTTAGTGGATG-GTAACGTTCAATAACCTAATAACAAGGAG
1 GTTCATCCTTATTGGATGAGTAACGTCCAATAACCGAATAACAAGGAG
*
2544023 GTTCATCCTTATCGGATGA
1 GTTCATCCTTATTGGATGA
2544042 TAATATCTAA
Statistics
Matches: 55, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
46 1 0.02
47 49 0.89
48 3 0.05
49 2 0.04
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (48 bp):
GTTCATCCTTATTGGATGAGTAACGTCCAATAACCGAATAACAAGGAG
Found at i:2544255 original size:20 final size:20
Alignment explanation
Indices: 2544230--2544275 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
2544220 CTTAATTGTT
2544230 AGGATCGTTTTGATACTTGA
1 AGGATCGTTTTGATACTTGA
2544250 AGGATCGTTTTGATACTTGA
1 AGGATCGTTTTGATACTTGA
2544270 AGGATC
1 AGGATC
2544276 ATCAAGTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.26, C:0.11, G:0.26, T:0.37
Consensus pattern (20 bp):
AGGATCGTTTTGATACTTGA
Found at i:2546315 original size:16 final size:16
Alignment explanation
Indices: 2546294--2546324 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
2546284 ATAAATAAAT
2546294 GAACATAAACGAACAC
1 GAACATAAACGAACAC
2546310 GAACATAAACGAACA
1 GAACATAAACGAACA
2546325 ATTTTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.23, G:0.13, T:0.06
Consensus pattern (16 bp):
GAACATAAACGAACAC
Found at i:2546417 original size:16 final size:16
Alignment explanation
Indices: 2546396--2546457 Score: 70
Period size: 16 Copynumber: 3.9 Consensus size: 16
2546386 TAAATAAACA
*
2546396 AACATAAGCAAACACG
1 AACATAAACAAACACG
2546412 AACATAAACAAACACG
1 AACATAAACAAACACG
* ** *
2546428 AATATAAATGAACAGG
1 AACATAAACAAACACG
*
2546444 AACATAAACGAACA
1 AACATAAACAAACA
2546458 TAAACGTTGG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.60, C:0.19, G:0.11, T:0.10
Consensus pattern (16 bp):
AACATAAACAAACACG
Found at i:2547574 original size:24 final size:24
Alignment explanation
Indices: 2547538--2547606 Score: 111
Period size: 24 Copynumber: 2.9 Consensus size: 24
2547528 GATTGGGTTA
**
2547538 AACATAAATGAATGAACATAAACG
1 AACATAACCGAATGAACATAAACG
2547562 AACATAACCGAATGAACATAAACG
1 AACATAACCGAATGAACATAAACG
*
2547586 AACATAACCGAACGAACATAA
1 AACATAACCGAATGAACATAA
2547607 CCAAACGTTC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.57, C:0.19, G:0.12, T:0.13
Consensus pattern (24 bp):
AACATAACCGAATGAACATAAACG
Found at i:2547578 original size:14 final size:14
Alignment explanation
Indices: 2547558--2547613 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
2547548 AATGAACATA
2547558 AACGAACATAACCG
1 AACGAACATAACCG
*
2547572 AATGAACAT-A---
1 AACGAACATAACCG
2547582 AACGAACATAACCG
1 AACGAACATAACCG
*
2547596 AACGAACATAACCA
1 AACGAACATAACCG
2547610 AACG
1 AACG
2547614 TTCACGAATG
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
10 8 0.23
11 1 0.03
13 1 0.03
14 25 0.71
ACGTcount: A:0.54, C:0.25, G:0.12, T:0.09
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:2555920 original size:49 final size:49
Alignment explanation
Indices: 2555838--2555936 Score: 137
Period size: 49 Copynumber: 2.0 Consensus size: 49
2555828 AAAACTAAAT
*
2555838 ACAGAAATCAAAATGAGGATTAAGCCACACGTAGAGGATCCTAGTAGAA
1 ACAGAAATCAAAATGAGGATTAAGCCACACGTAGAGGATCCCAGTAGAA
* * * *
2555887 ACAGAAATCAAAATGGGGATTTAGTCATC-CGTAGATGATCCCAGTAGAA
1 ACAGAAATCAAAATGAGGATTAAGCCA-CACGTAGAGGATCCCAGTAGAA
2555936 A
1 A
2555937 TATAACGAGG
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
49 43 0.98
50 1 0.02
ACGTcount: A:0.42, C:0.16, G:0.22, T:0.19
Consensus pattern (49 bp):
ACAGAAATCAAAATGAGGATTAAGCCACACGTAGAGGATCCCAGTAGAA
Found at i:2555991 original size:30 final size:29
Alignment explanation
Indices: 2555952--2556052 Score: 112
Period size: 30 Copynumber: 3.4 Consensus size: 29
2555942 CGAGGATATA
* *
2555952 ATCCTATGCAGATGTCAGAATAGGAAATTT
1 ATCCCATGCAGATGTCAGAACAGG-AATTT
* * * *
2555982 ACCCCATGCATATGCCAGAACAAGAATTT
1 ATCCCATGCAGATGTCAGAACAGGAATTT
*
2556011 ATCCCATGCATATGTCAGAACATGGAATTT
1 ATCCCATGCAGATGTCAGAACA-GGAATTT
*
2556041 ATCCAATGCAGA
1 ATCCCATGCAGA
2556053 ATCAGGACGG
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
29 25 0.42
30 34 0.58
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.26
Consensus pattern (29 bp):
ATCCCATGCAGATGTCAGAACAGGAATTT
Found at i:2556016 original size:29 final size:30
Alignment explanation
Indices: 2555977--2556050 Score: 105
Period size: 29 Copynumber: 2.5 Consensus size: 30
2555967 CAGAATAGGA
*
2555977 AATTTACCCCATGCATATGCCAGAACA-AG
1 AATTTATCCCATGCATATGCCAGAACATAG
* *
2556006 AATTTATCCCATGCATATGTCAGAACATGG
1 AATTTATCCCATGCATATGCCAGAACATAG
*
2556036 AATTTATCCAATGCA
1 AATTTATCCCATGCA
2556051 GAATCAGGAC
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 25 0.62
30 15 0.38
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (30 bp):
AATTTATCCCATGCATATGCCAGAACATAG
Found at i:2556090 original size:30 final size:29
Alignment explanation
Indices: 2556046--2556152 Score: 101
Period size: 30 Copynumber: 3.7 Consensus size: 29
2556036 AATTTATCCA
2556046 ATGCAGAATCAGGACGGGGAACGAGGTCC
1 ATGCAGAATCAGGACGGGGAACGAGGTCC
* * * *
2556075 TATGTAGAATTAGGACGGTGAACGGGGTCC
1 -ATGCAGAATCAGGACGGGGAACGAGGTCC
* * *
2556105 ATGCAAAATCAGGACGGTG-A-GTAAGTCC
1 ATGCAGAATCAGGACGGGGAACG-AGGTCC
* *
2556133 ATGTAGAATCAGGATGGGGA
1 ATGCAGAATCAGGACGGGGA
2556153 TTAAGCCCAT
Statistics
Matches: 62, Mismatches: 13, Indels: 5
0.77 0.16 0.06
Matches are distributed among these distances:
27 1 0.02
28 20 0.32
29 16 0.26
30 25 0.40
ACGTcount: A:0.32, C:0.15, G:0.36, T:0.18
Consensus pattern (29 bp):
ATGCAGAATCAGGACGGGGAACGAGGTCC
Found at i:2556124 original size:29 final size:30
Alignment explanation
Indices: 2556046--2556124 Score: 106
Period size: 30 Copynumber: 2.7 Consensus size: 30
2556036 AATTTATCCA
*
2556046 ATGCAGAATCAGGACGGGGAACGAGGTCCT
1 ATGCAGAATCAGGACGGTGAACGAGGTCCT
* * *
2556076 ATGTAGAATTAGGACGGTGAACGGGGTCC-
1 ATGCAGAATCAGGACGGTGAACGAGGTCCT
*
2556105 ATGCAAAATCAGGACGGTGA
1 ATGCAGAATCAGGACGGTGA
2556125 GTAAGTCCAT
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
29 17 0.40
30 25 0.60
ACGTcount: A:0.32, C:0.16, G:0.35, T:0.16
Consensus pattern (30 bp):
ATGCAGAATCAGGACGGTGAACGAGGTCCT
Found at i:2556142 original size:28 final size:28
Alignment explanation
Indices: 2556101--2556176 Score: 89
Period size: 28 Copynumber: 2.7 Consensus size: 28
2556091 GGTGAACGGG
* *
2556101 GTCCATGCAAAATCAGGACGGTGAGTAA
1 GTCCATGCAGAATCAGGACGGGGAGTAA
* * *
2556129 GTCCATGTAGAATCAGGATGGGGATTAA
1 GTCCATGCAGAATCAGGACGGGGAGTAA
* *
2556157 GCCCATACAGAATCAGGACG
1 GTCCATGCAGAATCAGGACG
2556177 AAGACTAAGC
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.18
Consensus pattern (28 bp):
GTCCATGCAGAATCAGGACGGGGAGTAA
Found at i:2556805 original size:13 final size:14
Alignment explanation
Indices: 2556777--2556805 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2556767 GTTTTTGGAA
2556777 AAAGTCAATGGGTC
1 AAAGTCAATGGGTC
2556791 AAAGTCAAT-GGTC
1 AAAGTCAATGGGTC
2556804 AA
1 AA
2556806 CGGGTCGGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (14 bp):
AAAGTCAATGGGTC
Found at i:2560058 original size:30 final size:30
Alignment explanation
Indices: 2559993--2560059 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
2559983 GAGGATATAG
* *
2559993 TCCCATGTAGATGTCAGAAAAGAGAATTTA
1 TCCCATGCAGATGTCAGAAAAGAGAAGTTA
* ** *
2560023 CCCCATGCAGATGTCAGAACGGGGAAGTTA
1 TCCCATGCAGATGTCAGAAAAGAGAAGTTA
2560053 TCCCATG
1 TCCCATG
2560060 TAGAATCAGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (30 bp):
TCCCATGCAGATGTCAGAAAAGAGAAGTTA
Found at i:2562595 original size:22 final size:22
Alignment explanation
Indices: 2562561--2562641 Score: 99
Period size: 22 Copynumber: 3.7 Consensus size: 22
2562551 ATATGCCAAA
2562561 AGTGCTAAGGCACTTTAGTATC
1 AGTGCTAAGGCACTTTAGTATC
* * *
2562583 AATGCTAATGCACTTTCGTATC
1 AGTGCTAAGGCACTTTAGTATC
* * *
2562605 AGTTCTGAGGCACTTTAGTACC
1 AGTGCTAAGGCACTTTAGTATC
*
2562627 AGTGCTAAGGGACTT
1 AGTGCTAAGGCACTT
2562642 CCATGTATTG
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (22 bp):
AGTGCTAAGGCACTTTAGTATC
Found at i:2565979 original size:56 final size:55
Alignment explanation
Indices: 2565704--2565964 Score: 378
Period size: 55 Copynumber: 4.7 Consensus size: 55
2565694 CCCACTACCA
* *
2565704 ATACGGAAATTCATATACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
1 ATACGGAAATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
* * * *
2565759 ATAAGGAAATTCATAAAATTATTATGAATTTCTTAGCTTTGCACACAAAGTGCCC
1 ATACGGAAATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
* * * *
2565814 ATACAGAAATTCATAAAATCGTTATGAATTTATTAGTTTTGCACACAAAGTGCCC
1 ATACGGAAATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
* * *
2565869 ATACGGAAATTCATAAACTCATTATGAATTTTTTAGTTTTTGCAAATAAAGTGCCC
1 ATACGGAAATTCATAAACTCATTATGAATTTCTTAG-TTTTGCACACAAAGTGCCC
* *
2565925 ATACGGAAATTAATAAACTCATTATAAATTTCTTAGTTTT
1 ATACGGAAATTCATAAACTCATTATGAATTTCTTAGTTTT
2565965 TGCATACTCA
Statistics
Matches: 186, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
55 136 0.73
56 50 0.27
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (55 bp):
ATACGGAAATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
Found at i:2572373 original size:56 final size:55
Alignment explanation
Indices: 2572148--2572408 Score: 387
Period size: 55 Copynumber: 4.7 Consensus size: 55
2572138 CCAATATGGG
* * ** * *
2572148 AATTCATATACTTATTAAAAATTTCTTTGTTTTGCACACAAAGTTCCCATACAGA
1 AATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACAGA
* * *
2572203 AATTCATAAACTTATTATGAATTTCTTAGCTTTGCACACAAAGTGCCCATACGGA
1 AATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACAGA
2572258 AATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACAGA
1 AATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACAGA
* * *
2572313 AATTCATAAACTCATTATGAATTTATTAGTTTTTGCACACAAAGTGACCATACGGA
1 AATTCATAAACTCATTATGAATTTCTTAG-TTTTGCACACAAAGTGCCCATACAGA
*
2572369 AATTCATAAACTCATTATGAATCTCTTAGTTTTTGCACAC
1 AATTCATAAACTCATTATGAATTTCTTAG-TTTTGCACAC
2572409 TCAATTTCAT
Statistics
Matches: 190, Mismatches: 15, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
55 128 0.67
56 62 0.33
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.35
Consensus pattern (55 bp):
AATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACAGA
Found at i:2573899 original size:20 final size:20
Alignment explanation
Indices: 2573874--2573922 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
2573864 CTCAAGAGAT
*
2573874 TATCGATACCCAGGGTTGAG
1 TATCGATACCCAGGGTAGAG
2573894 TATCGATACCCAGGGTAGAG
1 TATCGATACCCAGGGTAGAG
2573914 TATCGATAC
1 TATCGATAC
2573923 TCCCCTTAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (20 bp):
TATCGATACCCAGGGTAGAG
Found at i:2574735 original size:15 final size:15
Alignment explanation
Indices: 2574715--2574744 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2574705 AGAGGGCTTG
2574715 TATTATTTGTAGACC
1 TATTATTTGTAGACC
2574730 TATTATTTGTAGACC
1 TATTATTTGTAGACC
2574745 GTTGTATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.47
Consensus pattern (15 bp):
TATTATTTGTAGACC
Found at i:2577806 original size:21 final size:22
Alignment explanation
Indices: 2577781--2577822 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
2577771 TATTTATTTA
2577781 TTTAAG-ATATCAGAAAAAAAC
1 TTTAAGAATATCAGAAAAAAAC
2577802 TTTAAGAATATCAGAAAAAAA
1 TTTAAGAATATCAGAAAAAAA
2577823 ACTTCTAGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.60, C:0.07, G:0.10, T:0.24
Consensus pattern (22 bp):
TTTAAGAATATCAGAAAAAAAC
Found at i:2578036 original size:21 final size:20
Alignment explanation
Indices: 2577993--2578044 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
2577983 TATGACTACA
*
2577993 TAATATA-ATAACAATATAAT
1 TAATATATA-AACAATAAAAT
2578013 TAATATATAAACATATAAAAT
1 TAATATATAAACA-ATAAAAT
*
2578034 TAAAATATAAA
1 TAATATATAAA
2578045 TAACAATGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 11 0.39
21 17 0.61
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (20 bp):
TAATATATAAACAATAAAAT
Found at i:2578912 original size:29 final size:29
Alignment explanation
Indices: 2578870--2578927 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
2578860 GAATGGAGGC
2578870 TCCGGCGACTGTGTAGTGTCTTCGGTGGT
1 TCCGGCGACTGTGTAGTGTCTTCGGTGGT
2578899 TCCGGCGACTGTGTAGTGTCTTCGGTGGT
1 TCCGGCGACTGTGTAGTGTCTTCGGTGGT
2578928 AAGTCTCCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.07, C:0.21, G:0.38, T:0.34
Consensus pattern (29 bp):
TCCGGCGACTGTGTAGTGTCTTCGGTGGT
Found at i:2579483 original size:3 final size:3
Alignment explanation
Indices: 2579475--2579563 Score: 90
Period size: 3 Copynumber: 29.7 Consensus size: 3
2579465 ATTTTTTATT
* * * * *
2579475 TAA TAA TAA TAA TGA TAA TAA TAT TAT TAT TAA TAA TAG TAA TATA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
* * *
2579521 TAA TAA TAA T-A TAG CAA TAA TAA TAA TAA TAA TAG TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
2579564 TGATGAAAAA
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
2 2 0.03
3 67 0.93
4 3 0.04
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:2579851 original size:75 final size:74
Alignment explanation
Indices: 2579723--2579861 Score: 233
Period size: 75 Copynumber: 1.9 Consensus size: 74
2579713 TGAATGACCT
* *
2579723 GAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGTCCCGAAGGTTTTGAAAATATCAA
1 GAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAA
2579788 AAAGCTCCC
66 AAAGCTCCC
* *
2579797 GAAGGCTTTTGAAAACATCATGCATTGAAGGGCTTATAGATGACCCGAAGGTTTTGAAAACATCA
1 GAAGG-TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCA
2579862 TGCACTGAAG
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
74 5 0.08
75 55 0.92
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.25
Consensus pattern (74 bp):
GAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAA
AAAGCTCCC
Found at i:2579860 original size:45 final size:45
Alignment explanation
Indices: 2579794--2579947 Score: 281
Period size: 45 Copynumber: 3.4 Consensus size: 45
2579784 TCAAAAAGCT
*
2579794 CCCGAAGGCTTTTGAAAACATCATGCATTGAAGGGCTTATAGATGA
1 CCCGAAGG-TTTTGAAAACATCATGCACTGAAGGGCTTATAGATGA
2579840 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTATAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTATAGATGA
*
2579885 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTATAGATGA
2579930 CCCGAAGGTTTTGAAAAC
1 CCCGAAGGTTTTGAAAAC
2579948 TTCAAAAAGC
Statistics
Matches: 106, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
45 98 0.92
46 8 0.08
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (45 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTATAGATGA
Found at i:2579972 original size:120 final size:119
Alignment explanation
Indices: 2579843--2580067 Score: 405
Period size: 120 Copynumber: 1.9 Consensus size: 119
2579833 TAGATGACCC
*
2579843 GAAGGTTTTGAAAACATCATGCACTGAAGGGCTTATAGATGACCCGAAGGTTTTGAAAACATCAT
1 GAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAT
*
2579908 GCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACTTCAAAAAGCTCCT
66 GCACTAAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACTTCAAAAAGCTCCT
* *
2579962 GAAGGCTTTTGAAAACATCATGCATTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAATATCA
1 GAAGG-TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCA
2580027 TGCACTAAAGGGCTTACAGATGACCCGAAGGTTTTGAAAAC
65 TGCACTAAAGGGCTTACAGATGACCCGAAGGTTTTGAAAAC
2580068 ATCATGCACT
Statistics
Matches: 101, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
119 5 0.05
120 96 0.95
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (119 bp):
GAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAT
GCACTAAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACTTCAAAAAGCTCCT
Found at i:2579995 original size:165 final size:166
Alignment explanation
Indices: 2579716--2580251 Score: 770
Period size: 165 Copynumber: 3.2 Consensus size: 166
2579706 GGTCTTATGA
* *
2579716 ATGACCTGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGTCCCGAAGGTTTTGAAA
1 ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAA
* *
2579781 A-TATCAAAAAGCTCCCGAAGGCTTTTGAAAACATCATGCATTGAAGGGCTTATAGATGACCCGA
66 ACTATCAAAAAGCTCCTGAAGGCTTTTGAAAACATCATGCATTGAAGGGCTTACAGATGACCCGA
*
2579845 AGGTTTTGAAAACATCATGCACTGAAGGGCTTATAG
131 AGGTTTTGAAAACATCATGCACTGAAGGGCTTACAG
2579881 ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAA
1 ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAA
2579946 ACT-TCAAAAAGCTCCTGAAGGCTTTTGAAAACATCATGCATTGAAGGGCTTACAGATGACCCGA
66 ACTATCAAAAAGCTCCTGAAGGCTTTTGAAAACATCATGCATTGAAGGGCTTACAGATGACCCGA
* *
2580010 AGGTTTTGAAAATATCATGCACTAAAGGGCTTACAG
131 AGGTTTTGAAAACATCATGCACTGAAGGGCTTACAG
*
2580046 ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGTTTACAGATGACCCGAAGGTTTTGAAA
1 ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAA
** * * * * *
2580111 ACATCATGCACTGAAGGGCTTACAGATGACCTGTAGGTTTTGAAAACATCATGCACTGAAGGTCT
66 AC-T-AT-CA---AAAAGC-T-C--CTGA--AG--GCTTTTGAAAACATCATGCATTGAAGGGCT
* *
2580176 TACAGATAACCCGATGGTTTTGAAAACATCATGCACTGAAGGGCTTACAG
117 TACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAG
*
2580226 ATGACCCGAAAGTTTTGAAAACATCA
1 ATGACCCGAAGGTTTTGAAAACATCA
2580252 AAAAGCTCCC
Statistics
Matches: 335, Mismatches: 20, Indels: 17
0.90 0.05 0.05
Matches are distributed among these distances:
165 222 0.66
166 2 0.01
168 1 0.00
169 2 0.01
172 4 0.01
173 1 0.00
174 1 0.00
176 3 0.01
178 1 0.00
180 98 0.29
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (166 bp):
ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAA
ACTATCAAAAAGCTCCTGAAGGCTTTTGAAAACATCATGCATTGAAGGGCTTACAGATGACCCGA
AGGTTTTGAAAACATCATGCACTGAAGGGCTTACAG
Found at i:2580027 original size:45 final size:45
Alignment explanation
Indices: 2579962--2580251 Score: 481
Period size: 45 Copynumber: 6.4 Consensus size: 45
2579952 AAAAGCTCCT
*
2579962 GAAGGCTTTTGAAAACATCATGCATTGAAGGGCTTACAGATGACCC
1 GAAGG-TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCC
* *
2580008 GAAGGTTTTGAAAATATCATGCACTAAAGGGCTTACAGATGACCC
1 GAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCC
*
2580053 GAAGGTTTTGAAAACATCATGCACTGAAGGGTTTACAGATGACCC
1 GAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCC
*
2580098 GAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCT
1 GAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCC
* * *
2580143 GTAGGTTTTGAAAACATCATGCACTGAAGGTCTTACAGATAACCC
1 GAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCC
*
2580188 GATGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCC
1 GAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCC
*
2580233 GAAAGTTTTGAAAACATCA
1 GAAGGTTTTGAAAACATCA
2580252 AAAAGCTCCC
Statistics
Matches: 226, Mismatches: 18, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
45 221 0.98
46 5 0.02
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (45 bp):
GAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCC
Found at i:2580325 original size:45 final size:46
Alignment explanation
Indices: 2580259--2580349 Score: 166
Period size: 45 Copynumber: 2.0 Consensus size: 46
2580249 TCAAAAAGCT
2580259 CCCGAAGGCTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGC-TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
2580306 CCCGAAGG-TTTTGAAAACATCATGCACTGAAGGGCTTACAGATG
1 CCCGAAGGCTTTTGAAAACATCATGCACTGAAGGGCTTACAGATG
2580350 TGGGAAATAG
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
45 36 0.82
47 8 0.18
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (46 bp):
CCCGAAGGCTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
Found at i:2581511 original size:54 final size:54
Alignment explanation
Indices: 2581445--2581672 Score: 234
Period size: 54 Copynumber: 4.2 Consensus size: 54
2581435 ACATGTGACA
* * * *
2581445 ATTCATCTTTTCTCGTGGCTTCTGCCTGGAT-TTTCGTAAAGCTTTTGATAACAC
1 ATTCATCCTTTCTCGTGGCTTCTGCC-AGATGTTTCGTAAAGCATTTGACAACAC
*
2581499 ATTCATCCTTTCTTGTGGCTTCTGGCCAGATG-TTCGTAAAGCATTTGACAACAC
1 ATTCATCCTTTCTCGTGGCTTCT-GCCAGATGTTTCGTAAAGCATTTGACAACAC
* * * * * *
2581553 CTTCAT-CTTTTTATGTGACTTCTGCACAGATGTTT-GTAAAACATTTGACAACAT
1 ATTCATCCTTTCT-CGTGGCTTCTGC-CAGATGTTTCGTAAAGCATTTGACAACAC
* * *
2581607 ATTCATCCTTT-TCTGTGGTTTCTGCTCAGATGTTTCGTAAA-TATTTGACAACAT
1 ATTCATCCTTTCTC-GTGGCTTCTGC-CAGATGTTTCGTAAAGCATTTGACAACAC
2581661 ATTCATCCTTTC
1 ATTCATCCTTTC
2581673 CTATGGATTC
Statistics
Matches: 149, Mismatches: 16, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
53 7 0.05
54 128 0.86
55 14 0.09
ACGTcount: A:0.22, C:0.21, G:0.15, T:0.41
Consensus pattern (54 bp):
ATTCATCCTTTCTCGTGGCTTCTGCCAGATGTTTCGTAAAGCATTTGACAACAC
Found at i:2581684 original size:54 final size:54
Alignment explanation
Indices: 2581476--2581694 Score: 214
Period size: 54 Copynumber: 4.0 Consensus size: 54
2581466 CTGCCTGGAT
* * * * *
2581476 TTTCGTAAAGCTTTTGATAACACATTCATCCTTTCTTGTGGCTTCTGGC-CAGATG
1 TTTCGTAAA-CATTTGACAACACATTCATCCTTTCCTATGGATTCT-GCTCAGATG
* * *
2581531 -TTCGTAAAGCATTTGACAACACCTTCAT-CTTT-TTATGTGACTTCTGCACAGATG
1 TTTCGTAAA-CATTTGACAACACATTCATCCTTTCCTATG-GA-TTCTGCTCAGATG
* * * *
2581585 TTT-GTAAAACATTTGACAACATATTCATCCTTTTCTGTGGTTTCTGCTCAGATG
1 TTTCGT-AAACATTTGACAACACATTCATCCTTTCCTATGGATTCTGCTCAGATG
* * *
2581639 TTTCGTAAATATTTGACAACATATTCATCCTTTCCTATGGATTCTGCTCATATG
1 TTTCGTAAACATTTGACAACACATTCATCCTTTCCTATGGATTCTGCTCAGATG
2581693 TT
1 TT
2581695 CAATTATTGA
Statistics
Matches: 140, Mismatches: 16, Indels: 17
0.81 0.09 0.10
Matches are distributed among these distances:
52 4 0.03
53 7 0.05
54 114 0.81
55 12 0.09
56 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.41
Consensus pattern (54 bp):
TTTCGTAAACATTTGACAACACATTCATCCTTTCCTATGGATTCTGCTCAGATG
Found at i:2581684 original size:108 final size:108
Alignment explanation
Indices: 2581488--2581694 Score: 253
Period size: 108 Copynumber: 1.9 Consensus size: 108
2581478 TCGTAAAGCT
*
2581488 TTTGATAACACATTCATCCTTTCTTGTGGCTTCTGGCCAGATGTTCGTAAAGCATTTGACAACAC
1 TTTGACAACACATTCATCCTTTCTTGTGGCTTCTGGCCAGATGTTCGTAAAGCATTTGACAACAC
* *
2581553 CTTCATCTTTTTATGTGACTTCTGCACAGATGTTTGTAAAACA
66 ATTCATCTTTCTATGTGACTTCTGCACAGATGTTTGTAAAACA
* * *
2581596 TTTGACAACATATTCATCCTTT-TCTGTGGTTTCT-GCTCAGATGTTTCGTAAA-TATTTGACAA
1 TTTGACAACACATTCATCCTTTCT-TGTGGCTTCTGGC-CAGATG-TTCGTAAAGCATTTGACAA
* * *
2581658 CATATTCATCCTTTCCTATG-GA-TTCTGCTCATATGTT
63 CACATTCAT-CTTT-CTATGTGACTTCTGCACAGATGTT
2581695 CAATTATTGA
Statistics
Matches: 85, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
107 3 0.04
108 64 0.75
109 14 0.16
110 4 0.05
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.41
Consensus pattern (108 bp):
TTTGACAACACATTCATCCTTTCTTGTGGCTTCTGGCCAGATGTTCGTAAAGCATTTGACAACAC
ATTCATCTTTCTATGTGACTTCTGCACAGATGTTTGTAAAACA
Found at i:2585928 original size:16 final size:16
Alignment explanation
Indices: 2585907--2585942 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
2585897 CTTGATTCAA
2585907 TTTTTTCCT-TTTTTCT
1 TTTTTTCCTCTTTTT-T
2585923 TTTTTTCCTCTTTTTT
1 TTTTTTCCTCTTTTTT
2585939 TTTT
1 TTTT
2585943 GATGGATGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTTTCCTCTTTTTT
Found at i:2591010 original size:2 final size:2
Alignment explanation
Indices: 2590997--2591028 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
2590987 TTTTTAGAAA
2590997 AT AT AT -T A- 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
2591029 CTTTATTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 26 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2592909 original size:3 final size:3
Alignment explanation
Indices: 2592901--2593007 Score: 133
Period size: 3 Copynumber: 34.7 Consensus size: 3
2592891 ATTTTTTATT
* * * * *
2592901 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAT TAT TAA TAA TAG TAA TATG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
*
2592950 TAA TAA TAA TAA TAA TAA TAA TATA TCAA TAA TAA TAA TAA TAA TGA
1 TAA TAA TAA TAA TAA TAA TAA TA-A T-AA TAA TAA TAA TAA TAA TAA
2592997 TAA TAA TAA TA
1 TAA TAA TAA TA
2593008 TGATGAAAAA
Statistics
Matches: 91, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
3 84 0.92
4 6 0.07
5 1 0.01
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:2594072 original size:197 final size:198
Alignment explanation
Indices: 2593737--2594127 Score: 775
Period size: 197 Copynumber: 2.0 Consensus size: 198
2593727 ACCATCTAAA
2593737 TCCTAGTATATGAATCTATTAAGAACAAAACCCCAACCTTATGTGTATGCATTATTCACTGTACA
1 TCCTAGTATATGAATCTATTAAGAACAAAACCCCAACCTTATGTGTATGCATTATTCACTGTACA
2593802 AATAGGTAAAAATGTACATCATGAGTCTTCCCATAACTTCTTTTAACCACATTAAAGACTAAATT
66 AATAGGTAAAAATGTACATCATGAGTCTTCCCATAACTTCTTTTAACCACATTAAAGACTAAATT
2593867 AAATGGTCAATCATGAATTCATCAA-TTAATGGGCTTAAGATTCATTTCCCTTGAAGAATCATGA
131 AAATGGTCAATCATGAATTCATCAATTTAATGGGCTTAAGATTCATTTCCCTTGAAGAATCATGA
2593931 ACC
196 ACC
2593934 TCCTAGTATATGAATCTATTAAGAACAAAACCCCAACCTTATGTGTATGCATTATTCACTGTACA
1 TCCTAGTATATGAATCTATTAAGAACAAAACCCCAACCTTATGTGTATGCATTATTCACTGTACA
2593999 AATAGGTAAAAATGTACATCATGAGTCTTCCCATAACTTCTTTTAACCACATTAAAGACTAAATT
66 AATAGGTAAAAATGTACATCATGAGTCTTCCCATAACTTCTTTTAACCACATTAAAGACTAAATT
2594064 AAATGGTCAATCATGAATTCATCAATTTAATGGGCTTAAGATTCATTTCCCTTGAAGAATCATG
131 AAATGGTCAATCATGAATTCATCAATTTAATGGGCTTAAGATTCATTTCCCTTGAAGAATCATG
2594128 GTTTTGTGGG
Statistics
Matches: 193, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
197 155 0.80
198 38 0.20
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.32
Consensus pattern (198 bp):
TCCTAGTATATGAATCTATTAAGAACAAAACCCCAACCTTATGTGTATGCATTATTCACTGTACA
AATAGGTAAAAATGTACATCATGAGTCTTCCCATAACTTCTTTTAACCACATTAAAGACTAAATT
AAATGGTCAATCATGAATTCATCAATTTAATGGGCTTAAGATTCATTTCCCTTGAAGAATCATGA
ACC
Found at i:2595180 original size:32 final size:33
Alignment explanation
Indices: 2595120--2595194 Score: 109
Period size: 32 Copynumber: 2.3 Consensus size: 33
2595110 ACATGAATCG
*
2595120 AAAGCAACTCAAACCGAATTTTAACTCGATCC-A
1 AAAGCAACCCAAACCGAATTTTAACTCGA-CCTA
*
2595153 AAAGCAACCCAAACTGAA-TTTAACTCGACCTA
1 AAAGCAACCCAAACCGAATTTTAACTCGACCTA
2595185 AAAGCAACCC
1 AAAGCAACCC
2595195 GAACAAATTG
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
31 2 0.05
32 21 0.54
33 16 0.41
ACGTcount: A:0.44, C:0.29, G:0.09, T:0.17
Consensus pattern (33 bp):
AAAGCAACCCAAACCGAATTTTAACTCGACCTA
Found at i:2595467 original size:23 final size:23
Alignment explanation
Indices: 2595396--2595472 Score: 66
Period size: 23 Copynumber: 3.2 Consensus size: 23
2595386 TTGTTATAAA
2595396 AATATTAGATTTATAATAAAAAT
1 AATATTAGATTTATAATAAAAAT
* *** *
2595419 AATA-TAAAACAACTAACAAAGGAAAT
1 AATATTAGATTTA-TAA-TAA--AAAT
2595445 AATATTAGATTTATAATAAAAAT
1 AATATTAGATTTATAATAAAAAT
2595468 AATAT
1 AATAT
2595473 AAAGTTTACT
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 4 0.10
23 16 0.41
24 2 0.05
25 2 0.05
26 11 0.28
27 4 0.10
ACGTcount: A:0.60, C:0.04, G:0.05, T:0.31
Consensus pattern (23 bp):
AATATTAGATTTATAATAAAAAT
Found at i:2596694 original size:15 final size:16
Alignment explanation
Indices: 2596669--2596699 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
2596659 ATAATTAATA
2596669 TTATAAACATAAAAAT
1 TTATAAACATAAAAAT
2596685 TTAT-AACATAAAAAT
1 TTATAAACATAAAAAT
2596700 ATTTTGAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.32
Consensus pattern (16 bp):
TTATAAACATAAAAAT
Found at i:2601107 original size:13 final size:13
Alignment explanation
Indices: 2601077--2601115 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
2601067 TTACCCGACA
* *
2601077 CGACCCGTTTACA
1 CGACCCGTTGACC
*
2601090 TGACCCGTTGACC
1 CGACCCGTTGACC
2601103 CGACCCGTTGACC
1 CGACCCGTTGACC
2601116 ATTGACCGGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.18, C:0.41, G:0.21, T:0.21
Consensus pattern (13 bp):
CGACCCGTTGACC
Found at i:2603573 original size:24 final size:24
Alignment explanation
Indices: 2603556--2603670 Score: 160
Period size: 24 Copynumber: 4.8 Consensus size: 24
2603546 TTGATTTGAT
*
2603556 TTCTGATCTGATACTTGACATGGA
1 TTCTGATCTGATACTTGACTTGGA
**
2603580 TTCTGATCTGATA-TCTGAAATGGA
1 TTCTGATCTGATACT-TGACTTGGA
2603604 TTCTGATCTGATACTTGACTTGGA
1 TTCTGATCTGATACTTGACTTGGA
*
2603628 TTCTGATCTGATACTAGACTTGGA
1 TTCTGATCTGATACTTGACTTGGA
* *
2603652 TTTTGATATGATACTTGAC
1 TTCTGATCTGATACTTGAC
2603671 GTGAATTATG
Statistics
Matches: 82, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
23 1 0.01
24 80 0.98
25 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (24 bp):
TTCTGATCTGATACTTGACTTGGA
Found at i:2603682 original size:24 final size:24
Alignment explanation
Indices: 2603559--2603687 Score: 134
Period size: 24 Copynumber: 5.4 Consensus size: 24
2603549 ATTTGATTTC
* *
2603559 TGATCTGATACTTGACATGGATTC
1 TGATCTGATACTTGACTTGGATTA
** *
2603583 TGATCTGATA-TCTGAAATGGATTC
1 TGATCTGATACT-TGACTTGGATTA
*
2603607 TGATCTGATACTTGACTTGGATTC
1 TGATCTGATACTTGACTTGGATTA
* *
2603631 TGATCTGATACTAGACTTGGATTT
1 TGATCTGATACTTGACTTGGATTA
* * *
2603655 TGATATGATACTTGACGTGAATTA
1 TGATCTGATACTTGACTTGGATTA
*
2603679 TGATTTGAT
1 TGATCTGAT
2603688 TTTTGATATA
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
23 1 0.01
24 90 0.98
25 1 0.01
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.40
Consensus pattern (24 bp):
TGATCTGATACTTGACTTGGATTA
Found at i:2603806 original size:35 final size:35
Alignment explanation
Indices: 2603759--2603859 Score: 184
Period size: 35 Copynumber: 2.9 Consensus size: 35
2603749 AATACCTGGA
*
2603759 GGTTCCTTGGCTGTGTGCTCAGGGCCTTACTTACC
1 GGTTCCTCGGCTGTGTGCTCAGGGCCTTACTTACC
2603794 GGTTCCTCGGCTGTGTGCTCAGGGCCTTACTTACC
1 GGTTCCTCGGCTGTGTGCTCAGGGCCTTACTTACC
*
2603829 GGTTCCTCGGCTGTGTTCTCAGGGCCTTACT
1 GGTTCCTCGGCTGTGTGCTCAGGGCCTTACT
2603860 GGACGTGACG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 64 1.00
ACGTcount: A:0.08, C:0.30, G:0.29, T:0.34
Consensus pattern (35 bp):
GGTTCCTCGGCTGTGTGCTCAGGGCCTTACTTACC
Found at i:2605863 original size:10 final size:10
Alignment explanation
Indices: 2605848--2605877 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
2605838 CACGTTGACT
2605848 CGTTGACCGG
1 CGTTGACCGG
2605858 CGTTGACCGG
1 CGTTGACCGG
*
2605868 CTTTGACCGG
1 CGTTGACCGG
2605878 GCATTAAACG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.10, C:0.30, G:0.37, T:0.23
Consensus pattern (10 bp):
CGTTGACCGG
Found at i:2608305 original size:24 final size:24
Alignment explanation
Indices: 2608291--2608419 Score: 161
Period size: 24 Copynumber: 5.4 Consensus size: 24
2608281 ATTTGATTTC
* *
2608291 TGATCTGATACTTGACATGGATTC
1 TGATCTGATACTTGACTTGGATTA
*
2608315 TGATCTGATA-TCTGACATGGATTA
1 TGATCTGATACT-TGACTTGGATTA
*
2608339 TGATATGATACTTGACTTGGATTA
1 TGATCTGATACTTGACTTGGATTA
*
2608363 TGATCTGATACTTGACTTGGATTT
1 TGATCTGATACTTGACTTGGATTA
* * *
2608387 TGATATGATACTTGACGTGAATTA
1 TGATCTGATACTTGACTTGGATTA
*
2608411 TGATTTGAT
1 TGATCTGAT
2608420 TTTTGATATA
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
23 1 0.01
24 91 0.98
25 1 0.01
ACGTcount: A:0.27, C:0.11, G:0.21, T:0.41
Consensus pattern (24 bp):
TGATCTGATACTTGACTTGGATTA
Found at i:2610569 original size:18 final size:18
Alignment explanation
Indices: 2610541--2610582 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
2610531 GTCATAACCC
*
2610541 GACCTGACCCGACCCGTT
1 GACCCGACCCGACCCGTT
* *
2610559 TACCCGACCCGGCCCGTT
1 GACCCGACCCGACCCGTT
2610577 GACCCG
1 GACCCG
2610583 TTGACCGGCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.14, C:0.48, G:0.24, T:0.14
Consensus pattern (18 bp):
GACCCGACCCGACCCGTT
Found at i:2613137 original size:24 final size:24
Alignment explanation
Indices: 2613006--2613120 Score: 160
Period size: 24 Copynumber: 4.8 Consensus size: 24
2612996 TCGATTTAAT
2613006 TTCTGATCTGATACTTGACATGGA
1 TTCTGATCTGATACTTGACATGGA
* *
2613030 TTCTGATATGATA-TCTGACATGAA
1 TTCTGATCTGATACT-TGACATGGA
*
2613054 TTCTGATCTGATACTTGACTTGGA
1 TTCTGATCTGATACTTGACATGGA
*
2613078 TTCTGATCTGATACTTGACTTGGA
1 TTCTGATCTGATACTTGACATGGA
* *
2613102 TTTTGATATGATACTTGAC
1 TTCTGATCTGATACTTGAC
2613121 GTGAATTATG
Statistics
Matches: 82, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
23 1 0.01
24 80 0.98
25 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.41
Consensus pattern (24 bp):
TTCTGATCTGATACTTGACATGGA
Found at i:2613348 original size:2 final size:2
Alignment explanation
Indices: 2613336--2613378 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
2613326 CAGATGGGGG
*
2613336 TA TA CA TA TA TA TA TA 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 TA TA TA TA TA TA TA TA
2613378 T
1 T
2613379 GTTTTAAAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:2614005 original size:24 final size:24
Alignment explanation
Indices: 2613978--2614026 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
2613968 CGTTCATTTA
2613978 CGTTC-GTGAACGTTCGGTTATGTT
1 CGTTCGGTGAA-GTTCGGTTATGTT
* *
2614002 CGTTCGGTTAAGTTCGTTTATGTT
1 CGTTCGGTGAAGTTCGGTTATGTT
2614026 C
1 C
2614027 ATTCATTTAT
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:0.12, C:0.16, G:0.27, T:0.45
Consensus pattern (24 bp):
CGTTCGGTGAAGTTCGGTTATGTT
Found at i:2614007 original size:14 final size:14
Alignment explanation
Indices: 2613988--2614019 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
2613978 CGTTCGTGAA
*
2613988 CGTTCGGTTATGTT
1 CGTTCGGTTAAGTT
2614002 CGTTCGGTTAAGTT
1 CGTTCGGTTAAGTT
2614016 CGTT
1 CGTT
2614020 TATGTTCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.16, G:0.28, T:0.47
Consensus pattern (14 bp):
CGTTCGGTTAAGTT
Found at i:2614918 original size:12 final size:12
Alignment explanation
Indices: 2614897--2614964 Score: 86
Period size: 12 Copynumber: 5.8 Consensus size: 12
2614887 TGTCGAGCTT
*
2614897 GAATCAAGCTCA
1 GAATCGAGCTCA
*
2614909 GAATCGAGCT-T
1 GAATCGAGCTCA
*
2614920 TAATCGAGCTCA
1 GAATCGAGCTCA
*
2614932 GAATCGAGCT-T
1 GAATCGAGCTCA
2614943 GAATCGAGCTCA
1 GAATCGAGCTCA
2614955 GAATCGAGCT
1 GAATCGAGCT
2614965 TCAATAGAGC
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
11 19 0.40
12 28 0.60
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (12 bp):
GAATCGAGCTCA
Found at i:2614919 original size:23 final size:23
Alignment explanation
Indices: 2614889--2614975 Score: 138
Period size: 23 Copynumber: 3.8 Consensus size: 23
2614879 TGGGGCAATG
*
2614889 TCGAGCTTGAATCAAGCTCAGAA
1 TCGAGCTTGAATCGAGCTCAGAA
*
2614912 TCGAGCTTTAATCGAGCTCAGAA
1 TCGAGCTTGAATCGAGCTCAGAA
2614935 TCGAGCTTGAATCGAGCTCAGAA
1 TCGAGCTTGAATCGAGCTCAGAA
* *
2614958 TCGAGCTTCAATAGAGCT
1 TCGAGCTTGAATCGAGCT
2614976 TGAGTCTCGA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 59 1.00
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (23 bp):
TCGAGCTTGAATCGAGCTCAGAA
Found at i:2614924 original size:11 final size:11
Alignment explanation
Indices: 2614889--2614978 Score: 90
Period size: 11 Copynumber: 7.9 Consensus size: 11
2614879 TGGGGCAATG
2614889 TCGAGCTTGAA
1 TCGAGCTTGAA
* *
2614900 TCAAGCTCAGAA
1 TCGAGCT-TGAA
*
2614912 TCGAGCTTTAA
1 TCGAGCTTGAA
*
2614923 TCGAGCTCAGAA
1 TCGAGCT-TGAA
2614935 TCGAGCTTGAA
1 TCGAGCTTGAA
*
2614946 TCGAGCTCAGAA
1 TCGAGCT-TGAA
*
2614958 TCGAGCTTCAA
1 TCGAGCTTGAA
*
2614969 TAGAGCTTGA
1 TCGAGCTTGA
2614979 GTCTCGAGTT
Statistics
Matches: 63, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
11 35 0.56
12 28 0.44
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.24
Consensus pattern (11 bp):
TCGAGCTTGAA
Found at i:2614947 original size:34 final size:32
Alignment explanation
Indices: 2614909--2615000 Score: 85
Period size: 34 Copynumber: 2.7 Consensus size: 32
2614899 ATCAAGCTCA
*
2614909 GAATCGAGCTTTAATCGAGCTCAGAATCGAGCTT
1 GAATCGAGCTTTAATCGAGCTC--AATAGAGCTT
**
2614943 GAATCGAGCTCAGAATCGAGCTTCAATAGAGCTT
1 GAATCGAGCT-TTAATCGAGC-TCAATAGAGCTT
* *
2614977 GAGTCTCGAGTTTTAATCGAGCTC
1 GA--ATCGAGCTTTAATCGAGCTC
2615001 TTAATTTTTT
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
34 23 0.49
35 16 0.34
36 8 0.17
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (32 bp):
GAATCGAGCTTTAATCGAGCTCAATAGAGCTT
Found at i:2615215 original size:32 final size:32
Alignment explanation
Indices: 2615095--2615215 Score: 104
Period size: 32 Copynumber: 3.7 Consensus size: 32
2615085 TAAGCTCGCG
2615095 GTTTTCGAG-TCGAGTCGAGCTGACTTTGAAA
1 GTTTTCGAGTTCGAGTCGAGCTGACTTTGAAA
**
2615126 -TATTTCGAGTTCGAGTCGAGCTTGA-TAATTTTAA
1 GT-TTTCGAGTTCGAGTCGAGC-TGACT--TTGAAA
* ** *
2615160 GCTCGCGAGTTTTCAAGTCGAGCTGACTTTGAAA
1 GTTTTCGAG--TTCGAGTCGAGCTGACTTTGAAA
*
2615194 GTTTTCGAGTTTGAGTCGAGCT
1 GTTTTCGAGTTCGAGTCGAGCT
2615216 CAGCAATACT
Statistics
Matches: 68, Mismatches: 13, Indels: 17
0.69 0.13 0.17
Matches are distributed among these distances:
30 1 0.01
31 7 0.10
32 23 0.34
33 3 0.04
34 19 0.28
35 3 0.04
36 12 0.18
ACGTcount: A:0.22, C:0.16, G:0.26, T:0.36
Consensus pattern (32 bp):
GTTTTCGAGTTCGAGTCGAGCTGACTTTGAAA
Found at i:2615215 original size:68 final size:69
Alignment explanation
Indices: 2615057--2615215 Score: 243
Period size: 72 Copynumber: 2.3 Consensus size: 69
2615047 AATATTATAA
2615057 TTCGAGTTCGAGTCGAGCTTGATAATTTTAAGCTCGCGGTTTTCGAGTCGAGTCGAGCTGACTTT
1 TTCGAGTTCGAGTCGAGCTTGATAATTTTAAGCTCGCGGTTTTCGA---GAGTCGAGCTGACTTT
2615122 GAAATAT
63 GAAATAT
2615129 TTCGAGTTCGAGTCGAGCTTGATAATTTTAAGCTCGCGAGTTTTC-A-AGTCGAGCTGACTTTGA
1 TTCGAGTTCGAGTCGAGCTTGATAATTTTAAGCTCGCG-GTTTTCGAGAGTCGAGCTGACTTTGA
2615192 AAGT-T
65 AA-TAT
*
2615197 TTCGAGTTTGAGTCGAGCT
1 TTCGAGTTCGAGTCGAGCT
2615216 CAGCAATACT
Statistics
Matches: 84, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
68 38 0.45
69 1 0.01
72 39 0.46
73 6 0.07
ACGTcount: A:0.22, C:0.16, G:0.26, T:0.35
Consensus pattern (69 bp):
TTCGAGTTCGAGTCGAGCTTGATAATTTTAAGCTCGCGGTTTTCGAGAGTCGAGCTGACTTTGAA
ATAT
Found at i:2615301 original size:16 final size:16
Alignment explanation
Indices: 2615276--2615348 Score: 96
Period size: 16 Copynumber: 4.7 Consensus size: 16
2615266 CCAACGTTTA
* *
2615276 TGTTCTTTTATTTTCG
1 TGTTCATTTATGTTCG
2615292 TGTTCATTTATGTTCG
1 TGTTCATTTATGTTCG
*
2615308 TGTTCGTTTATGTTCG
1 TGTTCATTTATGTTCG
*
2615324 TGTTCGTTTATGTTCG
1 TGTTCATTTATGTTCG
2615340 T-TT-ATTTAT
1 TGTTCATTTAT
2615349 TAAATGAACG
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
14 5 0.09
15 2 0.04
16 46 0.87
ACGTcount: A:0.10, C:0.11, G:0.18, T:0.62
Consensus pattern (16 bp):
TGTTCATTTATGTTCG
Found at i:2616958 original size:6 final size:6
Alignment explanation
Indices: 2616949--2616977 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
2616939 TTCTTCTTCA
2616949 ATATAC ATATAC ATATAC ATATAC ATATA
1 ATATAC ATATAC ATATAC ATATAC ATATA
2616978 GCTGATGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (6 bp):
ATATAC
Found at i:2618262 original size:16 final size:16
Alignment explanation
Indices: 2618241--2618275 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
2618231 CCACCCCACC
*
2618241 TCTTTCTTCTTTTTCT
1 TCTTTCTTCTTATTCT
2618257 TCTTTCTTCTTATTCT
1 TCTTTCTTCTTATTCT
2618273 TCT
1 TCT
2618276 CTCACACACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.03, C:0.26, G:0.00, T:0.71
Consensus pattern (16 bp):
TCTTTCTTCTTATTCT
Found at i:2619925 original size:6 final size:6
Alignment explanation
Indices: 2619914--2619939 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
2619904 TTAAACGAAC
2619914 GAACAT GAACAT GAACAT GAACAT GA
1 GAACAT GAACAT GAACAT GAACAT GA
2619940 TTTTGTGTTC
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:0.50, C:0.15, G:0.19, T:0.15
Consensus pattern (6 bp):
GAACAT
Found at i:2619971 original size:40 final size:40
Alignment explanation
Indices: 2619926--2620017 Score: 184
Period size: 40 Copynumber: 2.3 Consensus size: 40
2619916 ACATGAACAT
2619926 GAACATGAACATGATTTTGTGTTCGTTTAATTAAATGAAC
1 GAACATGAACATGATTTTGTGTTCGTTTAATTAAATGAAC
2619966 GAACATGAACATGATTTTGTGTTCGTTTAATTAAATGAAC
1 GAACATGAACATGATTTTGTGTTCGTTTAATTAAATGAAC
2620006 GAACATGAACAT
1 GAACATGAACAT
2620018 ATGACTCGTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (40 bp):
GAACATGAACATGATTTTGTGTTCGTTTAATTAAATGAAC
Found at i:2620108 original size:38 final size:38
Alignment explanation
Indices: 2620057--2620152 Score: 174
Period size: 38 Copynumber: 2.5 Consensus size: 38
2620047 CCGTTCAATA
2620057 TTATGTTCGTTCATTTATGTACATTTACTTTCGTTCGT
1 TTATGTTCGTTCATTTATGTACATTTACTTTCGTTCGT
* *
2620095 TTATGTTAGTTCATTTTTGTACATTTACTTTCGTTCGT
1 TTATGTTCGTTCATTTATGTACATTTACTTTCGTTCGT
2620133 TTATGTTCGTTCATTTATGT
1 TTATGTTCGTTCATTTATGT
2620153 TTAGCTCAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 54 1.00
ACGTcount: A:0.16, C:0.14, G:0.14, T:0.57
Consensus pattern (38 bp):
TTATGTTCGTTCATTTATGTACATTTACTTTCGTTCGT
Found at i:2620153 original size:14 final size:13
Alignment explanation
Indices: 2620057--2620150 Score: 56
Period size: 14 Copynumber: 7.3 Consensus size: 13
2620047 CCGTTCAATA
2620057 TTATGTTCGTTCAT
1 TTAT-TTCGTTCAT
*
2620071 TTA--T-GTACAT
1 TTATTTCGTTCAT
*
2620081 TTACTTTCGTTCGT
1 TTA-TTTCGTTCAT
*
2620095 TTATGTTAGTTCA-
1 TTAT-TTCGTTCAT
*
2620108 TT-TTT-GTACAT
1 TTATTTCGTTCAT
*
2620119 TTACTTTCGTTCGT
1 TTA-TTTCGTTCAT
2620133 TTATGTTCGTTCAT
1 TTAT-TTCGTTCAT
2620147 TTAT
1 TTAT
2620151 GTTTAGCTCA
Statistics
Matches: 61, Mismatches: 9, Indels: 20
0.68 0.10 0.22
Matches are distributed among these distances:
10 12 0.20
11 5 0.08
12 1 0.02
13 8 0.13
14 35 0.57
ACGTcount: A:0.16, C:0.14, G:0.13, T:0.57
Consensus pattern (13 bp):
TTATTTCGTTCAT
Found at i:2620248 original size:17 final size:19
Alignment explanation
Indices: 2620216--2620252 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
2620206 TCTGATACCC
2620216 ATTAATATTTTAAAATTCA
1 ATTAATATTTTAAAATTCA
2620235 ATTAAT-TTTT-AAATTCA
1 ATTAATATTTTAAAATTCA
2620252 A
1 A
2620253 ATAAAAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.44
18 4 0.22
19 6 0.33
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (19 bp):
ATTAATATTTTAAAATTCA
Found at i:2620401 original size:10 final size:10
Alignment explanation
Indices: 2620340--2620405 Score: 51
Period size: 10 Copynumber: 6.3 Consensus size: 10
2620330 TATTGTTATG
2620340 GTTTATGTTC
1 GTTTATGTTC
* *
2620350 ATTTGTGTTC
1 GTTTATGTTC
* *
2620360 CTTTACGTTC
1 GTTTATGTTC
*
2620370 GTTTATATTC
1 GTTTATGTTC
*
2620380 ATTTATTGTGTTC
1 GTTTA---TGTTC
2620393 GTTTATGTTC
1 GTTTATGTTC
2620403 GTT
1 GTT
2620406 CGTTTGTGTT
Statistics
Matches: 42, Mismatches: 11, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
10 34 0.81
13 8 0.19
ACGTcount: A:0.12, C:0.12, G:0.17, T:0.59
Consensus pattern (10 bp):
GTTTATGTTC
Found at i:2622066 original size:95 final size:95
Alignment explanation
Indices: 2621941--2622158 Score: 276
Period size: 95 Copynumber: 2.3 Consensus size: 95
2621931 GACGAGGTAT
* * * *
2621941 TATCGATACCATGGTAAGGGTATCAATACCAGGCCACGTCGAATCTAAAATGGGTATCGATACCG
1 TATCGATACCATGGAAAGGGTATCAATACCAGGCAACATCGAATCAAAAATGGGTATCGATACCG
2622006 GAAAGGAGTAGCGATACCATAATATAGTAG
66 GAAAGGAGTAGCGATACCATAATATAGTAG
* * * * * *
2622036 TATCGATACTATGGAAAGGGTATCGATACCATGCAATATTGAATCAAAAATTGGTATCGATACCG
1 TATCGATACCATGGAAAGGGTATCAATACCAGGCAACATCGAATCAAAAATGGGTATCGATACCG
* * * *
2622101 GAAGGGAGTATCGGTACCATAGTATAGTAG
66 GAAAGGAGTAGCGATACCATAATATAGTAG
* *
2622131 TATTGATACCATGG-TAGGTGTATCAATA
1 TATCGATACCATGGAAAGG-GTATCAATA
2622159 TTATAGAGCC
Statistics
Matches: 104, Mismatches: 18, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
94 3 0.03
95 101 0.97
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (95 bp):
TATCGATACCATGGAAAGGGTATCAATACCAGGCAACATCGAATCAAAAATGGGTATCGATACCG
GAAAGGAGTAGCGATACCATAATATAGTAG
Found at i:2622636 original size:54 final size:56
Alignment explanation
Indices: 2622498--2622651 Score: 188
Period size: 56 Copynumber: 2.8 Consensus size: 56
2622488 TAGGTGTGCA
* * * ** * *
2622498 AAAATTTAAGAAATTCATACTAAGCGTATGAATTTCTGTATGGGCACTTTGTGTTC
1 AAAATATAAGAAATTCATACTAAGTGTATGAATTTCAGTATGGGCACCATGGGTAC
2622554 AAAATATAAGAAATTCATACTAAGTGTATGAATTTCAGTATGGGCACCATGGGTAC
1 AAAATATAAGAAATTCATACTAAGTGTATGAATTTCAGTATGGGCACCATGGGTAC
* * *
2622610 -GAA-CTGAGAAATTCATACTAAGTGTATGAATTTCCA-TATGGG
1 AAAATATAAGAAATTCATACTAAGTGTATGAATTT-CAGTATGGG
2622652 AAATAGATGT
Statistics
Matches: 87, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
54 34 0.39
55 4 0.05
56 49 0.56
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.32
Consensus pattern (56 bp):
AAAATATAAGAAATTCATACTAAGTGTATGAATTTCAGTATGGGCACCATGGGTAC
Found at i:2622967 original size:68 final size:68
Alignment explanation
Indices: 2622859--2623315 Score: 664
Period size: 68 Copynumber: 6.7 Consensus size: 68
2622849 AGATTACAGA
* * * *
2622859 CCTAACTATGGAAATGACAGAAAGGTGTCATTTATTCCAGTTAGATGAAAGGTTGAGTGCCTTTG
1 CCTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTGAGTGCCTTTG
*
2622924 AGA
66 AGG
* *
2622927 CCTAACTTTGCAAATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGTTGAGTGCCTTTG
1 CCTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTGAGTGCCTTTG
2622992 AGG
66 AGG
* * *
2622995 CCTAACTGTGCAAATGACAGAAAGGTTTCATTTATGCCAGTAAGATGAAAGGCTGAGTGCCTTTT
1 CCTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTGAGTGCCTTTG
2623060 AGG
66 AGG
*
2623063 CCTAACTGTGCAAATGACAGAAAGGTGTCATTTATGTCAGTTAGATGAAAGGCTGAGTGCCTTTG
1 CCTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTGAGTGCCTTTG
*
2623128 GGG
66 AGG
* * * * *
2623131 CCTAACTATGCAAATGGCA-AGAAGGTGTCATTTATACCAGTTATATGAAAGGCTCAGTGCCTTT
1 CCTAACTGTGCAAATGACAGA-AAGGTGTCATTTATGCCAGTTAGATGAAAGGCTGAGTGCCTTT
2623195 GAGG
65 GAGG
* * *
2623199 CCTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCTAGTTAAATGAAAGGCTGAGTGCCTTTA
1 CCTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTGAGTGCCTTTG
2623264 AGG
66 AGG
* ** * * *
2623267 CCTAACGGTGCATTTGATAGAAAGGTGTCAATTATGCTAGTTAGATGAA
1 CCTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAA
2623316 CGGTTAAATA
Statistics
Matches: 353, Mismatches: 34, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
67 1 0.00
68 351 0.99
69 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.29
Consensus pattern (68 bp):
CCTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTGAGTGCCTTTG
AGG
Found at i:2627465 original size:20 final size:20
Alignment explanation
Indices: 2627437--2627510 Score: 121
Period size: 20 Copynumber: 3.7 Consensus size: 20
2627427 TAATATAGTA
*
2627437 GTATTAATACCATGGAAAGG
1 GTATCAATACCATGGAAAGG
2627457 GTATCAATACCATGGAAAGG
1 GTATCAATACCATGGAAAGG
*
2627477 GTATCGATACCATGGAAAGG
1 GTATCAATACCATGGAAAGG
*
2627497 GTATCGATACCATG
1 GTATCAATACCATG
2627511 CAATATCGAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (20 bp):
GTATCAATACCATGGAAAGG
Found at i:2627564 original size:135 final size:135
Alignment explanation
Indices: 2627342--2627601 Score: 371
Period size: 135 Copynumber: 1.9 Consensus size: 135
2627332 CGATGAGGTA
* * *
2627342 GTATCGATACCATGGTAAGGGTATCGAAACCAGGCCACATCGAATCTAAAATGGGTACCGATACC
1 GTATCGATACCATGGAAAGGGTATCGAAACCAGGCAACATCGAATCAAAAATGGGTACCGATACC
*
2627407 GGAAAGGGGTATCGATACCATAATATAGTAGTAT-TAATACCATGGAAAGGGTATCAATACCATG
66 GGAAAGGGGTATCGATACCATAATATAGTAGTATCT-ATACAATGGAAAGGGTATCAATACCATG
2627471 GAAAGG
130 GAAAGG
* * * * *
2627477 GTATCGATACCATGGAAAGGGTATCGATACCATGCAATATCGAATCAAAAATTGGTATCGATACC
1 GTATCGATACCATGGAAAGGGTATCGAAACCAGGCAACATCGAATCAAAAATGGGTACCGATACC
* * * *
2627542 GG-AAGGGAGTATCGGTACCATAATATAGTAGTATCTATACAATGGTAGGGGTATCGATAC
66 GGAAAGGG-GTATCGATACCATAATATAGTAGTATCTATACAATGGAAAGGGTATCAATAC
2627602 TATAGAGCCA
Statistics
Matches: 110, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
134 5 0.05
135 104 0.95
136 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.23
Consensus pattern (135 bp):
GTATCGATACCATGGAAAGGGTATCGAAACCAGGCAACATCGAATCAAAAATGGGTACCGATACC
GGAAAGGGGTATCGATACCATAATATAGTAGTATCTATACAATGGAAAGGGTATCAATACCATGG
AAAGG
Found at i:2628090 original size:54 final size:56
Alignment explanation
Indices: 2627939--2628092 Score: 204
Period size: 56 Copynumber: 2.8 Consensus size: 56
2627929 TAGGTGTTTA
* * * ** *
2627939 AAAATTTAAGAAATTTATACTAAGTGTATGAATTTCTGTATGGGCACTTTGTGTGC
1 AAAATATAAGAAATTCATACTAAGTGTATGAATTTCAGTATGGGCACCATGGGTGC
2627995 AAAATATAAGAAATTCATACTAAGTGTATGAATTTCAGTATGGGCACCATGGGTGC
1 AAAATATAAGAAATTCATACTAAGTGTATGAATTTCAGTATGGGCACCATGGGTGC
* * * *
2628051 -GAA-CTGAGAAATTCATACTAAGTGTATGAATTTCCGTATGGG
1 AAAATATAAGAAATTCATACTAAGTGTATGAATTTCAGTATGGG
2628093 AAATAGATGT
Statistics
Matches: 88, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
54 36 0.41
55 2 0.02
56 50 0.57
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (56 bp):
AAAATATAAGAAATTCATACTAAGTGTATGAATTTCAGTATGGGCACCATGGGTGC
Found at i:2628417 original size:68 final size:68
Alignment explanation
Indices: 2628306--2628759 Score: 642
Period size: 68 Copynumber: 6.7 Consensus size: 68
2628296 GATTACAGGT
* * * *
2628306 CTAACTATGCAAATGTCAGAAAGGTGTCATTTATGCCAATTAGATGAAAGACTGAGTGCCTTTGA
1 CTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTGAGTGCCTTTGA
2628371 GGC
66 GGC
** *
2628374 CTAACTGTGCAAATGACAGAAAGGTGTCATCCATGCCAGTTAGATGAAAGGCTCAGTGCCTTTGA
1 CTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTGAGTGCCTTTGA
2628439 GGC
66 GGC
* * * *
2628442 CTAACTGTGCAAATGAAAAAAAGGTGTCATTTATGCCAGTAAGATGAAAGGCTGAGTTCCTTTGA
1 CTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTGAGTGCCTTTGA
2628507 GGC
66 GGC
* * *
2628510 CTAACTGTGCAAATGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAGGTTGAGTTCCTTTGA
1 CTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTGAGTGCCTTTGA
2628575 GGC
66 GGC
* * * * **
2628578 CTAACTCTGCAAATGACAAAAAGGTGTCAGTTATGCCAGTTAGATGAAAGG-TTAGTGATTTTGA
1 CTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTGAGTGCCTTTGA
2628642 GGC
66 GGC
* * *
2628645 CTAACTGTGCAAATGACATAAAGGTGTCATTTATGCCAGTTAGATGAAAGGTTGAGTG-CTTTAA
1 CTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTGAGTGCCTTTGA
2628709 GGC
66 GGC
* ** * *
2628712 CTAACAGTGCATTTGACAGAAAGGTGTCAATTATGCTAGTTAGATGAA
1 CTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAA
2628760 CGGTTAACTA
Statistics
Matches: 346, Mismatches: 39, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
67 109 0.32
68 237 0.68
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (68 bp):
CTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTGAGTGCCTTTGA
GGC
Found at i:2628842 original size:81 final size:81
Alignment explanation
Indices: 2628707--2628953 Score: 399
Period size: 81 Copynumber: 3.0 Consensus size: 81
2628697 TGAGTGCTTT
*
2628707 AAGGCCTAAC-AGTGCATTTGACAGAAAGGTGTCAATTATGCTAGTTAGATGAACGGTTAACTAC
1 AAGGCCTAACTA-TGCATTTGACAGAAAGGTGTCAATTATGCTAGTTAGATGAACGGTTAAATAC
2628771 CATTGGGTAAAAGAATA
65 CATTGGGTAAAAGAATA
*
2628788 AAGGCCTAACTATGCATTTGACAGAAAGGTGTCAATTATGCTGGTTAGATGAACGGTTAAATACC
1 AAGGCCTAACTATGCATTTGACAGAAAGGTGTCAATTATGCTAGTTAGATGAACGGTTAAATACC
* *
2628853 GTTGAGTAAAAGAATA
66 ATTGGGTAAAAGAATA
* **
2628869 AAGGCCTAACTGTGCATTTGACAGAAAAATGTCAATTATGCTAGTTAGATGAACGGTTAAATACC
1 AAGGCCTAACTATGCATTTGACAGAAAGGTGTCAATTATGCTAGTTAGATGAACGGTTAAATACC
2628934 A-TGGAGTAAAAGAATA
66 ATTGG-GTAAAAGAATA
2628950 AAGG
1 AAGG
2628954 AATTATATTG
Statistics
Matches: 154, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
80 2 0.01
81 151 0.98
82 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.26
Consensus pattern (81 bp):
AAGGCCTAACTATGCATTTGACAGAAAGGTGTCAATTATGCTAGTTAGATGAACGGTTAAATACC
ATTGGGTAAAAGAATA
Found at i:2631043 original size:20 final size:22
Alignment explanation
Indices: 2631018--2631058 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
2631008 AGGGGAGATG
2631018 GAGGGAGAG-AA-CAGGGTGAT
1 GAGGGAGAGAAAGCAGGGTGAT
2631038 GAGGGAGAGAAAGCAGGGTGA
1 GAGGGAGAGAAAGCAGGGTGA
2631059 CGGGGGAGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.47
21 2 0.11
22 8 0.42
ACGTcount: A:0.37, C:0.05, G:0.51, T:0.07
Consensus pattern (22 bp):
GAGGGAGAGAAAGCAGGGTGAT
Found at i:2631065 original size:22 final size:20
Alignment explanation
Indices: 2631018--2631066 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 20
2631008 AGGGGAGATG
*
2631018 GAGGGAGAGAACAGGGTGAT
1 GAGGGAGAGAACAGGGTGAC
2631038 GAGGGAGAGAAAGCAGGGTGAC
1 GAGGGAGAG-AA-CAGGGTGAC
*
2631060 GGGGGAG
1 GAGGGAG
2631067 GAGATGGCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 9 0.36
21 2 0.08
22 14 0.56
ACGTcount: A:0.33, C:0.06, G:0.55, T:0.06
Consensus pattern (20 bp):
GAGGGAGAGAACAGGGTGAC
Found at i:2631156 original size:20 final size:20
Alignment explanation
Indices: 2631118--2631157 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
2631108 ATTCTTTTCC
* *
2631118 TTTTAAAAATAATATTTTTA
1 TTTTAAAAATAAAAATTTTA
*
2631138 TTTTAAAAGTAAAAATTTTA
1 TTTTAAAAATAAAAATTTTA
2631158 AAAAATATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (20 bp):
TTTTAAAAATAAAAATTTTA
Found at i:2631626 original size:24 final size:26
Alignment explanation
Indices: 2631599--2631655 Score: 75
Period size: 24 Copynumber: 2.3 Consensus size: 26
2631589 CTTTTGATAA
2631599 ATTAACTTTAAGAAATAT-TTTTA-T
1 ATTAACTTTAAGAAATATATTTTATT
**
2631623 ATTAAC-TTATTAAATATATTTTATT
1 ATTAACTTTAAGAAATATATTTTATT
2631648 ATTAACTT
1 ATTAACTT
2631656 AATTTAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 9 0.32
24 11 0.39
25 7 0.25
26 1 0.04
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (26 bp):
ATTAACTTTAAGAAATATATTTTATT
Found at i:2631650 original size:25 final size:26
Alignment explanation
Indices: 2631611--2631670 Score: 81
Period size: 27 Copynumber: 2.4 Consensus size: 26
2631601 TAACTTTAAG
2631611 AAATAT-TTTTATATTAACTT-A-TT
1 AAATATATTTTATATTAACTTAATTT
2631634 AAATATATTTTATTATTAACTTAATTT
1 AAATATATTTTA-TATTAACTTAATTT
*
2631661 AAAAATATTT
1 AAATATATTT
2631671 AACTTAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 6 0.19
24 5 0.16
25 9 0.28
26 1 0.03
27 11 0.34
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (26 bp):
AAATATATTTTATATTAACTTAATTT
Found at i:2631674 original size:20 final size:20
Alignment explanation
Indices: 2631649--2631692 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
2631639 TATTTTATTA
2631649 TTAACTTAATTTAAAAATAT
1 TTAACTTAATTTAAAAATAT
*
2631669 TTAACTTAATTTATAAATAT
1 TTAACTTAATTTAAAAATAT
2631689 TTAA
1 TTAA
2631693 TTTTAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (20 bp):
TTAACTTAATTTAAAAATAT
Done.