Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 151 of 211
Found at i:44794358 original size:32 final size:32
Alignment explanation
Indices: 44794317--44794409 Score: 177
Period size: 32 Copynumber: 2.9 Consensus size: 32
44794307 TGTCAATCAT
44794317 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
44794349 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
*
44794381 TTCAATATCTAACAAGCTTAAAACATAAT
1 TTCAATATCCAACAAGCTTAAAACATAAT
44794410 CAATATCTAA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 60 1.00
ACGTcount: A:0.52, C:0.18, G:0.03, T:0.27
Consensus pattern (32 bp):
TTCAATATCCAACAAGCTTAAAACATAATAAA
Found at i:44794433 original size:27 final size:27
Alignment explanation
Indices: 44794318--44794436 Score: 78
Period size: 32 Copynumber: 4.0 Consensus size: 27
44794308 GTCAATCATT
* *
44794318 TCAATATCCAACAAGCTTAAAACATAATAAA
1 TCAATATCTAACAAGATTAAAAC---AT-AA
* *
44794349 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 -TCAATATCTAACAAGATTAAAAC---AT-AA
*
44794381 TTCAATATCTAACAAGCTTAAAACATAA
1 -TCAATATCTAACAAGATTAAAACATAA
*
44794409 TCAATATCTAACAA-ATTCAAGACATAA
1 TCAATATCTAACAAGATT-AAAACATAA
44794436 T
1 T
44794437 AATTTCAAAA
Statistics
Matches: 83, Mismatches: 3, Indels: 7
0.89 0.03 0.08
Matches are distributed among these distances:
26 2 0.02
27 23 0.28
28 2 0.02
29 2 0.02
32 54 0.65
ACGTcount: A:0.52, C:0.18, G:0.03, T:0.26
Consensus pattern (27 bp):
TCAATATCTAACAAGATTAAAACATAA
Found at i:44794444 original size:59 final size:62
Alignment explanation
Indices: 44794315--44794454 Score: 171
Period size: 59 Copynumber: 2.3 Consensus size: 62
44794305 ATTGTCAATC
*
44794315 ATTTCAATATCCAACAAGCTTAAAACATAATAAATTCAATATCCAACAAGCTTAAAACATAATA
1 ATTTCAATATCCAACAAGCTTAAAAC--AATAAATTCAATATCCAACAAGATTAAAACATAATA
* * * *
44794379 AATTCAATATCTAACAAGCTTAAAAC-AT-AA-TCAATATCTAACAA-ATTCAAGACATAATA
1 ATTTCAATATCCAACAAGCTTAAAACAATAAATTCAATATCCAACAAGATT-AAAACATAATA
*
44794438 ATTTCAAAATCCAACAA
1 ATTTCAATATCCAACAA
44794455 ACTAAAATTT
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
58 2 0.03
59 37 0.55
60 2 0.03
61 2 0.03
64 24 0.36
ACGTcount: A:0.52, C:0.19, G:0.03, T:0.26
Consensus pattern (62 bp):
ATTTCAATATCCAACAAGCTTAAAACAATAAATTCAATATCCAACAAGATTAAAACATAATA
Found at i:44794645 original size:9 final size:9
Alignment explanation
Indices: 44794633--44794658 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
44794623 ATTCTCTTGC
44794633 TTCTTCTCT
1 TTCTTCTCT
44794642 TTCTTCTCT
1 TTCTTCTCT
44794651 TTCTTCTC
1 TTCTTCTC
44794659 GCTCCGTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (9 bp):
TTCTTCTCT
Found at i:44806000 original size:25 final size:25
Alignment explanation
Indices: 44805972--44806025 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
44805962 AGGCCTTTTG
44805972 CAATAGAACCAGAAGGGGATACTTA
1 CAATAGAACCAGAAGGGGATACTTA
44805997 CAATAGAACCAGAAGGGGATACTTA
1 CAATAGAACCAGAAGGGGATACTTA
44806022 CAAT
1 CAAT
44806026 TACTGATGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.44, C:0.17, G:0.22, T:0.17
Consensus pattern (25 bp):
CAATAGAACCAGAAGGGGATACTTA
Found at i:44809478 original size:20 final size:20
Alignment explanation
Indices: 44809415--44809479 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
44809405 CACATATATG
*
44809415 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGATA
** * * *
44809435 CCCCTGAATGCACATAC-ATG
1 CCCCTGTTTGTAC-TTCGATA
44809455 CCCCTGTTTGTACTTCGATA
1 CCCCTGTTTGTACTTCGATA
44809475 CCCCT
1 CCCCT
44809480 AAATGCACAT
Statistics
Matches: 32, Mismatches: 11, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
19 2 0.06
20 28 0.88
21 2 0.06
ACGTcount: A:0.17, C:0.35, G:0.15, T:0.32
Consensus pattern (20 bp):
CCCCTGTTTGTACTTCGATA
Found at i:44809639 original size:40 final size:40
Alignment explanation
Indices: 44809364--44809668 Score: 288
Period size: 40 Copynumber: 7.7 Consensus size: 40
44809354 TTGAATGAAC
* * * * * *
44809364 GCACATATGTGCCCCTATTTGAACATCGGTACACTTGAAT
1 GCACATATGTGCCCCTGTTTGTACTTCGGTACCCCTAAAT
* *
44809404 GCACATATATGCCCCTGTTTGTACTTCGGTACCCCTGAAT
1 GCACATATGTGCCCCTGTTTGTACTTCGGTACCCCTAAAT
** *
44809444 GCACATACATGCCCCTGTTTGTACTTCGATACCCCTAAAT
1 GCACATATGTGCCCCTGTTTGTACTTCGGTACCCCTAAAT
* * **
44809484 GCACATATGTGCCCTTGTTTGTAATTCAATACCCCTAAAT
1 GCACATATGTGCCCCTGTTTGTACTTCGGTACCCCTAAAT
* * * ** *
44809524 GTACATACGTACCCCTACTTGTACTTCGGTACCCCTGAAT
1 GCACATATGTGCCCCTGTTTGTACTTCGGTACCCCTAAAT
*** * * * * *
44809564 GCACATGCATGCCCCTGGTTGTTCTTTGGTGCCCCTCAAT
1 GCACATATGTGCCCCTGTTTGTACTTCGGTACCCCTAAAT
*** *
44809604 GCACATATGTGCCCCTGTTTGTACTTTTTTACCCCTAAAC
1 GCACATATGTGCCCCTGTTTGTACTTCGGTACCCCTAAAT
* *
44809644 ACACATATGTG-CCCTGTTTATACTT
1 GCACATATGTGCCCCTGTTTGTACTT
44809669 TCGTATCCCA
Statistics
Matches: 219, Mismatches: 46, Indels: 1
0.82 0.17 0.00
Matches are distributed among these distances:
39 13 0.06
40 206 0.94
ACGTcount: A:0.22, C:0.29, G:0.15, T:0.33
Consensus pattern (40 bp):
GCACATATGTGCCCCTGTTTGTACTTCGGTACCCCTAAAT
Found at i:44809650 original size:120 final size:120
Alignment explanation
Indices: 44809422--44809650 Score: 323
Period size: 120 Copynumber: 1.9 Consensus size: 120
44809412 ATGCCCCTGT
*
44809422 TTGTACTTCGGTACCCCTGAATGCACATACATGCCCCTGTTTGTACTTCGATACCCCTAAATGCA
1 TTGTACTTCGGTACCCCTGAATGCACATACATGCCCCTGGTTGTACTTCGATACCCCTAAATGCA
* ***
44809487 CATATGTGCCCTTGTTTGTAATTCAATACCCCTAAATGTACATACGTACCCCTAC
66 CATATGTGCCCCTGTTTGTAATTCAATACCCCTAAACACACATACGTACCCCTAC
* * * * * *
44809542 TTGTACTTCGGTACCCCTGAATGCACATGCATGCCCCTGGTTGTTCTTTGGTGCCCCTCAATGCA
1 TTGTACTTCGGTACCCCTGAATGCACATACATGCCCCTGGTTGTACTTCGATACCCCTAAATGCA
* ***
44809607 CATATGTGCCCCTGTTTGTACTTTTTTACCCCTAAACACACATA
66 CATATGTGCCCCTGTTTGTAATTCAATACCCCTAAACACACATA
44809651 TGTGCCCTGT
Statistics
Matches: 94, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
120 94 1.00
ACGTcount: A:0.22, C:0.30, G:0.15, T:0.33
Consensus pattern (120 bp):
TTGTACTTCGGTACCCCTGAATGCACATACATGCCCCTGGTTGTACTTCGATACCCCTAAATGCA
CATATGTGCCCCTGTTTGTAATTCAATACCCCTAAACACACATACGTACCCCTAC
Found at i:44812712 original size:15 final size:17
Alignment explanation
Indices: 44812684--44812716 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
44812674 TAGATCGTTC
44812684 TTTACATTATTTTTCTA
1 TTTACATTATTTTTCTA
44812701 TTTACA-TA-TTTTCTA
1 TTTACATTATTTTTCTA
44812716 T
1 T
44812717 GCAGGAACCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 2 0.12
17 6 0.38
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTACATTATTTTTCTA
Found at i:44813935 original size:95 final size:95
Alignment explanation
Indices: 44813772--44813943 Score: 274
Period size: 95 Copynumber: 1.8 Consensus size: 95
44813762 GCACCAAATC
* * * * *
44813772 TTTTGCTTCAAAACTAGCATTTGTACCATATTTTCTCAACGGTTTTCTTTTAATTACTGTTTTTG
1 TTTTGCTCCAAAACTAACATTTGTACCATATTTGCTCAACGGTTATCTCTTAATTACTGTTTTTG
44813837 TTTGCTTTGCTTTGACTTAAAGTTGGGGAG
66 TTTGCTTTGCTTTGACTTAAAGTTGGGGAG
*
44813867 TTTTGCTCCAAAACTAACATTTGTACCGTATTTGCTCAA-GGTTCATCTCTTAATTACTGTTTTT
1 TTTTGCTCCAAAACTAACATTTGTACCATATTTGCTCAACGGTT-ATCTCTTAATTACTGTTTTT
44813931 GTTTGCTTTGCTT
65 GTTTGCTTTGCTT
44813944 GAGGATAAGC
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
94 4 0.06
95 66 0.94
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.48
Consensus pattern (95 bp):
TTTTGCTCCAAAACTAACATTTGTACCATATTTGCTCAACGGTTATCTCTTAATTACTGTTTTTG
TTTGCTTTGCTTTGACTTAAAGTTGGGGAG
Found at i:44818030 original size:22 final size:23
Alignment explanation
Indices: 44817981--44818031 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
44817971 ATAAGTGCGA
* * *
44817981 CACTGATATGTAGCCGAGGCTAC
1 CACTGAAATCTAGCCGAAGCTAC
44818004 CACTGAAATCTAGCCGAAGC-AC
1 CACTGAAATCTAGCCGAAGCTAC
44818026 CACTGA
1 CACTGA
44818032 TCAATAACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 8 0.32
23 17 0.68
ACGTcount: A:0.31, C:0.29, G:0.22, T:0.18
Consensus pattern (23 bp):
CACTGAAATCTAGCCGAAGCTAC
Found at i:44823391 original size:40 final size:39
Alignment explanation
Indices: 44823344--44823474 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
44823334 TAACTCATTC
* * *
44823344 AATGCCTTCAGGACTTAACCCGGATTTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAAAACTCGCACA
* *
44823384 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTA-AAACTCGCACA
* *
44823424 AAGGCCTTCGGGACTTAACCCAGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAA-AACTCGCACA
*
44823464 AATACCTTCGG
1 AATGCCTTCGG
44823475 ATCTTAGTCC
Statistics
Matches: 78, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 75 0.96
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGAATTAAAACTCGCACA
Found at i:44823458 original size:80 final size:80
Alignment explanation
Indices: 44823347--44823520 Score: 196
Period size: 80 Copynumber: 2.2 Consensus size: 80
44823337 CTCATTCAAT
* * * * *
44823347 GCCTTCAGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCAGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
44823410 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
44823426 GGCCTTCGGGACTTAACCCAGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCAGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
44823490 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
44823507 GCCTTCGGGACTTA
1 GCCTTCGGGACTTA
44823521 GCCCGGACAG
Statistics
Matches: 81, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
79 7 0.09
80 63 0.78
81 10 0.12
82 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCAGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:44828467 original size:22 final size:23
Alignment explanation
Indices: 44828418--44828468 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
44828408 ATAAGTGCGA
* * *
44828418 CACTGATATGTAGCCGAGGCTAC
1 CACTGAAATCTAGCCGAAGCTAC
44828441 CACTGAAATCTAGCCGAAGC-AC
1 CACTGAAATCTAGCCGAAGCTAC
44828463 CACTGA
1 CACTGA
44828469 TCAATAACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 8 0.32
23 17 0.68
ACGTcount: A:0.31, C:0.29, G:0.22, T:0.18
Consensus pattern (23 bp):
CACTGAAATCTAGCCGAAGCTAC
Found at i:44834541 original size:20 final size:20
Alignment explanation
Indices: 44834516--44834556 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
44834506 ATGCCTAGGT
*
44834516 CATGTG-AGGGTCAACACGCC
1 CATGTGCAGGGAC-ACACGCC
44834536 CATGTGCAGGGACACACGCC
1 CATGTGCAGGGACACACGCC
44834556 C
1 C
44834557 GTGCGGAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.24, C:0.34, G:0.29, T:0.12
Consensus pattern (20 bp):
CATGTGCAGGGACACACGCC
Found at i:44839976 original size:165 final size:165
Alignment explanation
Indices: 44839728--44840027 Score: 501
Period size: 165 Copynumber: 1.8 Consensus size: 165
44839718 TGGCATACCA
* * * * *
44839728 TAGGATTGTGACTCCTCACCCTTGTGTTTTGTGATTTGGGCATTCAGACCTCGTGATAGTTTGGA
1 TAGGATTATGACTCCTCACCCTTGTGTTTTGTGATTTGGACATTCAGACCCCGGGACAGTTTGGA
*
44839793 GAGATAAAGGAATGTGAGCTAAGCTCCATTCACCAGGATATGTTGGTGTGTTGTAGAGAGTTAGC
66 GAGATAAAGGAATGTGAGCTAAGCTCCATTCACCAGGATATGTTGGTGTGTTGGAGAGAGTTAGC
44839858 TATGTGCTAAACTATTAGATATAGTTGAAATGCAC
131 TATGTGCTAAACTATTAGATATAGTTGAAATGCAC
* *
44839893 TAGGATTATGACTCTTCACCCTTGTGTTTTGTGATTTGGACATTCAGGCCCCGGGACAGTTTGGA
1 TAGGATTATGACTCCTCACCCTTGTGTTTTGTGATTTGGACATTCAGACCCCGGGACAGTTTGGA
* * *
44839958 GAGATAAAGGATTGTGAGCTAAGCTCCATTCACCAGGATATGTTGGTGTGTTGGAGAGTGTTGGC
66 GAGATAAAGGAATGTGAGCTAAGCTCCATTCACCAGGATATGTTGGTGTGTTGGAGAGAGTTAGC
44840023 TATGT
131 TATGT
44840028 ACTACACTTT
Statistics
Matches: 124, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
165 124 1.00
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (165 bp):
TAGGATTATGACTCCTCACCCTTGTGTTTTGTGATTTGGACATTCAGACCCCGGGACAGTTTGGA
GAGATAAAGGAATGTGAGCTAAGCTCCATTCACCAGGATATGTTGGTGTGTTGGAGAGAGTTAGC
TATGTGCTAAACTATTAGATATAGTTGAAATGCAC
Found at i:44840440 original size:20 final size:20
Alignment explanation
Indices: 44840415--44840452 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
44840405 ACAACAAGCA
*
44840415 TTCTATTTCTTTTTTTTTTC
1 TTCTATCTCTTTTTTTTTTC
44840435 TTCTATCTCTTTTTTTTT
1 TTCTATCTCTTTTTTTTT
44840453 GTCATAGACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (20 bp):
TTCTATCTCTTTTTTTTTTC
Found at i:44840721 original size:22 final size:22
Alignment explanation
Indices: 44840693--44840740 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
44840683 TTTTTAGTCA
**
44840693 TTTTAAAGGAAAGTTTAAATTT
1 TTTTAAAACAAAGTTTAAATTT
**
44840715 TTTTAAAACAAAGTTTTGATTT
1 TTTTAAAACAAAGTTTAAATTT
44840737 TTTT
1 TTTT
44840741 CAACTATTTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.35, C:0.02, G:0.10, T:0.52
Consensus pattern (22 bp):
TTTTAAAACAAAGTTTAAATTT
Found at i:44843597 original size:22 final size:20
Alignment explanation
Indices: 44843568--44843607 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
44843558 ATGCTTTATG
44843568 ATTTAATTTCTCATTTTTTTC
1 ATTTAATTTCT-ATTTTTTTC
44843589 ATTTGAATTTCT-TTTTTTT
1 ATTT-AATTTCTATTTTTTT
44843608 TACTATCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 4 0.22
22 7 0.39
ACGTcount: A:0.17, C:0.10, G:0.03, T:0.70
Consensus pattern (20 bp):
ATTTAATTTCTATTTTTTTC
Found at i:44843608 original size:22 final size:21
Alignment explanation
Indices: 44843568--44843608 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
44843558 ATGCTTTATG
44843568 ATTTAATTTCTCATTTTTTTC
1 ATTTAATTTCTCATTTTTTTC
*
44843589 ATTTGAATTTCT-TTTTTTTT
1 ATTT-AATTTCTCATTTTTTT
44843609 ACTATCTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.17, C:0.10, G:0.02, T:0.71
Consensus pattern (21 bp):
ATTTAATTTCTCATTTTTTTC
Found at i:44856883 original size:42 final size:42
Alignment explanation
Indices: 44856824--44857168 Score: 278
Period size: 42 Copynumber: 8.2 Consensus size: 42
44856814 AAGGAAAGCA
* * * *
44856824 TTCATTGTATTTAGAGGCTCAGATGTGGACCTTCATTCACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGACCTCCATTCACTT
* * ** *
44856866 TTCATTGCGTTTGGAGGCCCAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGACCTCCATTCACTT
** * * *
44856908 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCAATTTACTA
1 TTCATTGCATTTAGAGGCCCAGGTGTGGACCTCCATTCACTT
* * * ** *
44856950 TTCGTTGCATTTAAAGACCCAGGTGTGGAGGTCGATTCACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGACCTCCATTCACTT
* * * ** *
44856992 TTCATTACATTTAGAAGCCCAAGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGACCTCCATTCACTT
* * ** *
44857034 TT-ATTACATTAAGAGGCCCAGGTGTGGAGGTTCATTCACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGACCTCCATTCACTT
* * ** * *
44857075 TTCATTTCATTTAGAGACCCAGGTGTGGAGGTCCGTTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGACCTCCATTCACTT
* * * ** ** *
44857117 TTCATTGCATTTAAAGACCCAGATGTTAAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGACCTCCATTCACTT
44857159 TTCATTGCAT
1 TTCATTGCAT
44857169 CGTATATGAA
Statistics
Matches: 258, Mismatches: 44, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
41 36 0.14
42 222 0.86
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.37
Consensus pattern (42 bp):
TTCATTGCATTTAGAGGCCCAGGTGTGGACCTCCATTCACTT
Found at i:44857104 original size:125 final size:127
Alignment explanation
Indices: 44856858--44857164 Score: 410
Period size: 125 Copynumber: 2.4 Consensus size: 127
44856848 GTGGACCTTC
* * * * * *
44856858 ATTCACTTTTCATTGCGTTTGGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTGCATTTAGA
1 ATTCACTTTTCATTGCATTTAGAAGCCCAAGTGTGGAGGTCCATTTACTTTTCATTACATTAAGA
* *
44856923 GGCCCAGGTGTGGAGGTCAATTTACTATTCGTTGCATTTAAAGACCCAGGTGTGGAGGT-CG
66 GGCCCAGGTGTGGAGGTCAATTCACTATTCATTGCATTTAAAGACCCAGGTGTGGAGGTCCG
*
44856984 ATTCACTTTTCATTACATTTAGAAGCCCAAGTGTGGAGGTCCATTTACTTTT-ATTACATTAAGA
1 ATTCACTTTTCATTGCATTTAGAAGCCCAAGTGTGGAGGTCCATTTACTTTTCATTACATTAAGA
* * *
44857048 GGCCCAGGTGTGGAGGTTC-ATTCACTTTTCATTTCATTTAGAGACCCAGGTGTGGAGGTCCG
66 GGCCCAGGTGTGGAGG-TCAATTCACTATTCATTGCATTTAAAGACCCAGGTGTGGAGGTCCG
* **
44857110 -TTTACTTTTCATTGCATTTA-AAGACCC-AGATGTTAAGGTCCATTTACTTTTCATT
1 ATTCACTTTTCATTGCATTTAGAAG-CCCAAG-TGTGGAGGTCCATTTACTTTTCATT
44857165 GCATCGTATA
Statistics
Matches: 160, Mismatches: 16, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
124 5 0.03
125 101 0.63
126 54 0.34
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.36
Consensus pattern (127 bp):
ATTCACTTTTCATTGCATTTAGAAGCCCAAGTGTGGAGGTCCATTTACTTTTCATTACATTAAGA
GGCCCAGGTGTGGAGGTCAATTCACTATTCATTGCATTTAAAGACCCAGGTGTGGAGGTCCG
Found at i:44861022 original size:14 final size:15
Alignment explanation
Indices: 44860996--44861024 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
44860986 TTAAATTCAT
44860996 CAAAAAATCACTTAA
1 CAAAAAATCACTTAA
44861011 CAAAAAAT-ACTTAA
1 CAAAAAATCACTTAA
44861025 AAGTAAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.62, C:0.17, G:0.00, T:0.21
Consensus pattern (15 bp):
CAAAAAATCACTTAA
Found at i:44872118 original size:3 final size:3
Alignment explanation
Indices: 44872050--44872103 Score: 54
Period size: 3 Copynumber: 18.0 Consensus size: 3
44872040 ATAAAGGAAT
** * * * *
44872050 ATA ATA ATA ATA ATA ATA ATA ACC ATT ATA ATA ACA TTA ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
44872098 ATA ATA
1 ATA ATA
44872104 TCATGGTAAT
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:44872249 original size:26 final size:24
Alignment explanation
Indices: 44872191--44872249 Score: 57
Period size: 26 Copynumber: 2.4 Consensus size: 24
44872181 ACATAACATG
*
44872191 AAAATATAAAAAATAATAAAATAA
1 AAAATATAAAAAATAACAAAATAA
* *
44872215 AGAGAATA-AAAATGATAGCAAAATAA
1 A-A-AATATAAAA-AATAACAAAATAA
44872241 AAAATATAA
1 AAAATATAA
44872250 TAACGATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
24 5 0.18
25 8 0.29
26 15 0.54
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.19
Consensus pattern (24 bp):
AAAATATAAAAAATAACAAAATAA
Found at i:44872367 original size:15 final size:15
Alignment explanation
Indices: 44872335--44872373 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 15
44872325 AGTAATACAT
44872335 AAATATAAATAGATAA
1 AAATA-AAATAGATAA
44872351 AAATAAAATA-ATAAA
1 AAATAAAATAGAT-AA
44872366 AAATAAAA
1 AAATAAAA
44872374 CAAATAAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 2 0.09
15 15 0.68
16 5 0.23
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (15 bp):
AAATAAAATAGATAA
Found at i:44874086 original size:39 final size:39
Alignment explanation
Indices: 44874032--44874110 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
44874022 CTTCAAGGAG
*
44874032 ATAAGACTTGTTATGGTAGATTTAATCCGACCTACTGCA
1 ATAAGACTTGCTATGGTAGATTTAATCCGACCTACTGCA
44874071 ATAAGACTTGCTATGGTAGATTTAATCCGACCTACTGCA
1 ATAAGACTTGCTATGGTAGATTTAATCCGACCTACTGCA
44874110 A
1 A
44874111 CCCCAGAGAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.32
Consensus pattern (39 bp):
ATAAGACTTGCTATGGTAGATTTAATCCGACCTACTGCA
Found at i:44874298 original size:44 final size:41
Alignment explanation
Indices: 44874240--44874350 Score: 123
Period size: 41 Copynumber: 2.6 Consensus size: 41
44874230 CTTCAATCTA
* *
44874240 CTCCACTGCAACTTCAGAGAGATGAGATTTGTAGCTTTAACCTG
1 CTCCACTGCAACTTCAGAGAGATAAG-GTT-T-GCTTTAACCTG
* * *
44874284 CTCCACAGCAACTTCAGGGAGATAAGGTTTGCTTTAATCTG
1 CTCCACTGCAACTTCAGAGAGATAAGGTTTGCTTTAACCTG
* * *
44874325 CTCCACTGCACCTTCAGGGAAATAAG
1 CTCCACTGCAACTTCAGAGAGATAAG
44874351 ATTCGCTATC
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
41 33 0.56
42 1 0.02
43 2 0.03
44 23 0.39
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (41 bp):
CTCCACTGCAACTTCAGAGAGATAAGGTTTGCTTTAACCTG
Found at i:44874309 original size:89 final size:91
Alignment explanation
Indices: 44874114--44874353 Score: 222
Period size: 96 Copynumber: 2.6 Consensus size: 91
44874104 ACTGCAACCC
* * * *
44874114 CAGAGAAATAGGACTTGTCGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAAC
1 CAGAGAAATAAGATTTG-CTCTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGTAA-
** * *
44874179 TTGTACTTTTAATTTGTTCCACTGCAACTT
64 -TG-ACTTTTAACCTGCTCCACAGCAACTT
* * *
44874209 TAGAGAAATAAGATTTTCTATCTTCAATCTACTCCACTGCAACTTCAGAGAGATGAGATTTGT-A
1 CAGAGAAATAAGATTTGC--TCTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGTAA
44874273 -G-C-TTTAACCTGCTCCACAGCAACTT
64 TGACTTTTAACCTGCTCCACAGCAACTT
* * * * * * *
44874298 CAGGGAGATAAGGTTTGCT-TT-AATCTGCTCCACTGCACCTTCAGGGAAATAAGATT
1 CAGAGAAATAAGATTTGCTCTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATT
44874354 CGCTATCTTC
Statistics
Matches: 122, Mismatches: 21, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
85 30 0.25
86 2 0.02
87 1 0.01
89 32 0.26
90 1 0.01
92 1 0.01
94 1 0.01
95 14 0.11
96 40 0.33
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (91 bp):
CAGAGAAATAAGATTTGCTCTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGTAATG
ACTTTTAACCTGCTCCACAGCAACTT
Found at i:44874330 original size:41 final size:44
Alignment explanation
Indices: 44874128--44874351 Score: 166
Period size: 44 Copynumber: 5.0 Consensus size: 44
44874118 GAAATAGGAC
* * * *
44874128 TTGTCGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGAT
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAG
* * * * * *
44874172 TTGTAACTTGTACTTTTAATTTGTTCCACTGCAACTTTAGAGAAATAAGATT
1 TTGT-A---G--C-TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-G
* * * * * * *
44874224 TTCTATCTTCAATCTACTCCACTGCAACTTCAGAGAGATGAGAT
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAG
* *
44874268 TTGTAGCTTTAACCTGCTCCACAGCAACTTCAGGGAGATAAG-G
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAG
* *
44874311 TT-T-GCTTTAATCTGCTCCACTGCACCTTCAGGGAAATAAGA
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
44874352 TTCGCTATCT
Statistics
Matches: 141, Mismatches: 30, Indels: 20
0.74 0.16 0.10
Matches are distributed among these distances:
41 33 0.23
42 1 0.01
43 2 0.01
44 39 0.28
45 29 0.21
46 1 0.01
48 1 0.01
50 1 0.01
51 30 0.21
52 4 0.03
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.33
Consensus pattern (44 bp):
TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAG
Found at i:44876370 original size:50 final size:50
Alignment explanation
Indices: 44876246--44876494 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
44876236 GATAATAACA
* * ** * *
44876246 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
44876297 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
44876347 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
44876397 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
44876452 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
44876495 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:44876424 original size:100 final size:104
Alignment explanation
Indices: 44876245--44876494 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
44876235 TGATAATAAC
**
44876245 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
44876310 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
44876347 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
44876410 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
44876452 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
44876495 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:44876610 original size:13 final size:13
Alignment explanation
Indices: 44876589--44876620 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
44876579 GCTTGGATCA
*
44876589 TCATCAAATAAAT
1 TCATAAAATAAAT
44876602 TCATAAAATAAAT
1 TCATAAAATAAAT
44876615 TCATAA
1 TCATAA
44876621 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:44876867 original size:30 final size:30
Alignment explanation
Indices: 44876832--44876889 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
44876822 CCTCGACTCT
*
44876832 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
44876862 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
44876890 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:44883960 original size:50 final size:50
Alignment explanation
Indices: 44883836--44884084 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
44883826 GATAATAACA
* * ** * *
44883836 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
44883887 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
44883937 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
44883987 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
44884042 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
44884085 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:44884014 original size:100 final size:104
Alignment explanation
Indices: 44883835--44884084 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
44883825 TGATAATAAC
**
44883835 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
44883900 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
44883937 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
44884000 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
44884042 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
44884085 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:44884200 original size:13 final size:13
Alignment explanation
Indices: 44884179--44884210 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
44884169 GCTTGGATCA
*
44884179 TCATCAAATAAAT
1 TCATAAAATAAAT
44884192 TCATAAAATAAAT
1 TCATAAAATAAAT
44884205 TCATAA
1 TCATAA
44884211 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:44884457 original size:30 final size:29
Alignment explanation
Indices: 44884422--44884478 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
44884412 CCTCGACTCT
*
44884422 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTAC-ATTTTGCCCCTA
* *
44884452 AACTTTTACATAATTACATTTTTCCCC
1 AACTTTTACAAAATTACATTTTGCCCC
44884479 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.32, C:0.25, G:0.02, T:0.42
Consensus pattern (29 bp):
AACTTTTACAAAATTACATTTTGCCCCTA
Found at i:44886900 original size:47 final size:47
Alignment explanation
Indices: 44886834--44887353 Score: 844
Period size: 47 Copynumber: 11.1 Consensus size: 47
44886824 GAAATGATAG
44886834 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
44886881 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
44886928 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
44886975 TAAGGCCAAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
44887022 AAAGGCCAAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
44887069 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
44887116 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
44887163 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
44887210 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
44887257 TAAGGCCTAATGGCCGATGTG-TGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * *
44887303 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
44887350 TAAG
1 TAAG
44887354 TCCCGAAGGG
Statistics
Matches: 449, Mismatches: 23, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
46 40 0.09
47 409 0.91
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:44887065 original size:23 final size:23
Alignment explanation
Indices: 44886944--44887065 Score: 58
Period size: 23 Copynumber: 5.2 Consensus size: 23
44886934 CTAATGGCCG
44886944 ATGTGATGAATGTGAAAGTGTAT
1 ATGTGATGAATGTGAAAGTGTAT
* ***
44886967 ATGTG-TGATAAG-GCCAAA-TGGCCG
1 ATGTGATGA-ATGTG--AAAGT-GTAT
44886991 ATGTGATGAATGTGAAAGTGTAT
1 ATGTGATGAATGTGAAAGTGTAT
* ***
44887014 ATGTG-TGAAAAG-GCCAAA-TGGCCG
1 ATGTGATG-AATGTG--AAAGT-GTAT
44887038 ATGTGATGAATGTGAAAGTGTAT
1 ATGTGATGAATGTGAAAGTGTAT
44887061 ATGTG
1 ATGTG
44887066 TGATAAGGCC
Statistics
Matches: 69, Mismatches: 16, Indels: 28
0.61 0.14 0.25
Matches are distributed among these distances:
22 7 0.10
23 30 0.43
24 25 0.36
25 7 0.10
ACGTcount: A:0.33, C:0.07, G:0.32, T:0.29
Consensus pattern (23 bp):
ATGTGATGAATGTGAAAGTGTAT
Found at i:44887528 original size:37 final size:37
Alignment explanation
Indices: 44887472--44887550 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
44887462 CCGAGCTCTA
* * *
44887472 AAGACCCGATGACTACGTGTGGGGATTTTGTCCAGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCAGGT
*
44887509 AAGACCCGATAACTTCGTGTGGAGATTATGTCCAGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCAGGT
44887546 AAGAC
1 AAGAC
44887551 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCAGGT
Found at i:44888984 original size:51 final size:51
Alignment explanation
Indices: 44888908--44889133 Score: 163
Period size: 51 Copynumber: 4.7 Consensus size: 51
44888898 ACAAATTTGC
* * *
44888908 TCCACTGTAACTTTAGGGAGATAAGATTTGTAACTCGTAGCTTTAATCTGT
1 TCCACTGCAACTTCAGGGAAATAAGATTTGTAACTCGTAGCTTTAATCTGT
* * * * **
44888959 TCCACTACAACTTCAGGGAAATAAGA----T---TCGCATCTTCAATCTAC
1 TCCACTGCAACTTCAGGGAAATAAGATTTGTAACTCGTAGCTTTAATCTGT
* * * * *
44889003 TCCATTGCAGCTTTAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGT
1 TCCACTGCAACTTCAGGGAAATAAGATTTGTAACTCGTAGCTTTAATCTGT
* * * * *
44889054 TCCACTGTAATTTCAGGGAAATAAGA--T-T--CAC-TATCTTCAATCTGT
1 TCCACTGCAACTTCAGGGAAATAAGATTTGTAACTCGTAGCTTTAATCTGT
* * *
44889099 TCCCCTGCAACTTTAGGGAGATAAGATTTGTAACT
1 TCCACTGCAACTTCAGGGAAATAAGATTTGTAACT
44889134 TCAATCTGCT
Statistics
Matches: 127, Mismatches: 36, Indels: 25
0.68 0.19 0.13
Matches are distributed among these distances:
44 33 0.26
45 33 0.26
46 1 0.01
47 2 0.02
48 3 0.02
49 1 0.01
50 1 0.01
51 53 0.42
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (51 bp):
TCCACTGCAACTTCAGGGAAATAAGATTTGTAACTCGTAGCTTTAATCTGT
Found at i:44889043 original size:95 final size:96
Alignment explanation
Indices: 44888907--44889134 Score: 350
Period size: 95 Copynumber: 2.4 Consensus size: 96
44888897 TACAAATTTG
* *
44888907 CTCCACTGTAACTTTAGGGAGATAAGATTTGTAACTCGTAGCTTTAATCTGTTCCACTACAACTT
1 CTCCACTGCAACTTTAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTACAACTT
*
44888972 CAGGGAAATAAGATTCGC-ATCTTCAATCTA
66 CAGGGAAATAAGATTCACTATCTTCAATCTA
* * ** *
44889002 CTCCATTGCAGCTTTAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTGTAATTT
1 CTCCACTGCAACTTTAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTACAACTT
*
44889067 CAGGGAAATAAGATTCACTATCTTCAATCTG
66 CAGGGAAATAAGATTCACTATCTTCAATCTA
* *
44889098 TTCCCCTGCAACTTTAGGGAGATAAGATTTGTAACTT
1 CTCCACTGCAACTTTAGGGAGATAAGATTTGTAACTT
44889135 CAATCTGCTC
Statistics
Matches: 119, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
95 75 0.63
96 44 0.37
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (96 bp):
CTCCACTGCAACTTTAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTACAACTT
CAGGGAAATAAGATTCACTATCTTCAATCTA
Found at i:44889157 original size:44 final size:43
Alignment explanation
Indices: 44889037--44889216 Score: 139
Period size: 44 Copynumber: 4.1 Consensus size: 43
44889027 GATTTGTAAC
* * * *
44889037 TTGTAGCTTTAATCTGTTCCACTGTAA-TTTCAGGGAAATAAGAT
1 TTGTAACTTCAATCTGCTCCACTG-AACTTT-AGGGAGATAAGAT
** * * *
44889081 TCACTATCTTCAATCTGTTCCCCTGCAACTTTAGGGAGATAAGAT
1 T-TGTAACTTCAATCTGCTCCACTG-AACTTTAGGGAGATAAGAT
*
44889126 TTGTAACTTCAATCTGCTCCACTGAACCTTTAGTGAGATAAGAT
1 TTGTAACTTCAATCTGCTCCACTGAA-CTTTAGGGAGATAAGAT
** * * * * *
44889170 TTGTGGCTTTAATCTACTCAAATACAACTTTAGGGAGATAAG-T
1 TTGTAACTTCAATCTGCTCCACT-GAACTTTAGGGAGATAAGAT
44889213 TTGT
1 TTGT
44889217 GAGATAAGAT
Statistics
Matches: 111, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
43 7 0.06
44 66 0.59
45 35 0.32
46 3 0.03
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (43 bp):
TTGTAACTTCAATCTGCTCCACTGAACTTTAGGGAGATAAGAT
Found at i:44896088 original size:17 final size:17
Alignment explanation
Indices: 44896033--44896097 Score: 58
Period size: 18 Copynumber: 3.5 Consensus size: 17
44896023 AAATATCAAA
44896033 AATAATAAAATAAATAAT
1 AATAATAAAATAAA-AAT
*
44896051 AAAATATAGAGAATAAAAAAT
1 AATA-ATA-A-AAT-AAAAAT
*
44896072 GATAATAAAATAAAAAT
1 AATAATAAAATAAAAAT
44896089 ATATAATAA
1 A-ATAATAA
44896098 CGATAATAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
17 6 0.16
18 13 0.34
19 4 0.11
20 4 0.11
21 8 0.21
22 3 0.08
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.25
Consensus pattern (17 bp):
AATAATAAAATAAAAAT
Found at i:44896213 original size:15 final size:15
Alignment explanation
Indices: 44896181--44896219 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 15
44896171 AGTAATACAT
44896181 AAATATAAATAGATAA
1 AAATA-AAATAGATAA
44896197 AAATAAAATA-ATAA
1 AAATAAAATAGATAA
44896211 AAACTAAAA
1 AAA-TAAAA
44896220 CAAATAAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.32
15 10 0.45
16 5 0.23
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (15 bp):
AAATAAAATAGATAA
Found at i:44905802 original size:15 final size:16
Alignment explanation
Indices: 44905773--44905802 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44905763 CAAACATGTT
44905773 TTAACACATTATCAAA
1 TTAACACATTATCAAA
44905789 TTAACACA-TATCAA
1 TTAACACATTATCAA
44905803 CAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:44918075 original size:17 final size:17
Alignment explanation
Indices: 44918050--44918084 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
44918040 TCATTATGAA
*
44918050 TATTTAAAAGATTAAAT
1 TATTAAAAAGATTAAAT
*
44918067 TATTAAAAATATTAAAT
1 TATTAAAAAGATTAAAT
44918084 T
1 T
44918085 TCAATTTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
TATTAAAAAGATTAAAT
Found at i:44922283 original size:5 final size:6
Alignment explanation
Indices: 44922273--44922297 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
44922263 TATAAATGAA
44922273 ATTTTT ATTTTT ATTTTT ATTTTT A
1 ATTTTT ATTTTT ATTTTT ATTTTT A
44922298 AATTAAATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
ATTTTT
Found at i:44923997 original size:20 final size:20
Alignment explanation
Indices: 44923959--44923997 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
44923949 TGAGCAATTT
*
44923959 AATTTTTTTACGTTCTTTTA
1 AATTTTTTTACGTTATTTTA
* *
44923979 AATTTTTTTTCTTTATTTT
1 AATTTTTTTACGTTATTTT
44923998 CCATTCTCTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.08, G:0.03, T:0.72
Consensus pattern (20 bp):
AATTTTTTTACGTTATTTTA
Found at i:44924879 original size:25 final size:25
Alignment explanation
Indices: 44924826--44924874 Score: 75
Period size: 23 Copynumber: 2.0 Consensus size: 25
44924816 TAAAAAGTAT
44924826 TTTTATATTTTTATTAAATTATATA
1 TTTTATATTTTTATTAAATTATATA
*
44924851 TTTTA-ATTTTT-TTAAATTCTATA
1 TTTTATATTTTTATTAAATTATATA
44924874 T
1 T
44924875 CTTTTTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 12 0.52
24 6 0.26
25 5 0.22
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (25 bp):
TTTTATATTTTTATTAAATTATATA
Found at i:44927463 original size:24 final size:24
Alignment explanation
Indices: 44927436--44927482 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
44927426 TCAAGCTGCC
44927436 ATGTAGGTTGTGGACGAAGCCACT
1 ATGTAGGTTGTGGACGAAGCCACT
*
44927460 ATGTAGGTTGTGGACGATGCCAC
1 ATGTAGGTTGTGGACGAAGCCAC
44927483 CAATTCTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.23, C:0.17, G:0.34, T:0.26
Consensus pattern (24 bp):
ATGTAGGTTGTGGACGAAGCCACT
Found at i:44935811 original size:42 final size:40
Alignment explanation
Indices: 44935706--44935813 Score: 94
Period size: 42 Copynumber: 2.6 Consensus size: 40
44935696 CATGGTCGTG
*
44935706 TCACACGCCCGTGTGCCAGGCCGTGTAACATTCGAAATTAC
1 TCACACGCCCGTGTG-CAGGCCGTATAACATTCGAAATTAC
* * * *
44935747 TCCACACACCTGTGTGCTAGGCCTTATAAC-TCTC-AAATTTTCC
1 T-CACACGCCCGTGTGC-AGGCCGTATAACAT-TCGAAA--TTAC
44935790 TCACACGCCCGTGTGTCAGGCCGT
1 TCACACGCCCGTGTG-CAGGCCGT
44935814 GTGTTTGGCC
Statistics
Matches: 53, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
41 6 0.11
42 42 0.79
43 5 0.09
ACGTcount: A:0.21, C:0.33, G:0.19, T:0.26
Consensus pattern (40 bp):
TCACACGCCCGTGTGCAGGCCGTATAACATTCGAAATTAC
Found at i:44938090 original size:49 final size:49
Alignment explanation
Indices: 44938004--44938103 Score: 146
Period size: 49 Copynumber: 2.0 Consensus size: 49
44937994 TCCTATAGAG
* * * *
44938004 AACATATGTAAAGCATTAAACACATTATATTCTTTCCAAAAAGAATTAT
1 AACAAATGGAAAGCATTAAAAACATTATATTCTTTCCAAAAACAATTAT
* *
44938053 AACAAATGGAAAGTATTAAAAACGTTATATTCTTTCCAAAAACAATTAT
1 AACAAATGGAAAGCATTAAAAACATTATATTCTTTCCAAAAACAATTAT
44938102 AA
1 AA
44938104 TTATCATGTT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.49, C:0.13, G:0.07, T:0.31
Consensus pattern (49 bp):
AACAAATGGAAAGCATTAAAAACATTATATTCTTTCCAAAAACAATTAT
Found at i:44940271 original size:22 final size:20
Alignment explanation
Indices: 44940241--44940280 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
44940231 TGTACGAGGG
*
44940241 CGAGTTGCCCTATTGAGTGTAA
1 CGAGGTGCCCT-TT-AGTGTAA
44940263 CGAGGTGCCCTTTAGTGT
1 CGAGGTGCCCTTTAGTGT
44940281 GTTAACGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 2 0.12
22 10 0.59
ACGTcount: A:0.17, C:0.20, G:0.30, T:0.33
Consensus pattern (20 bp):
CGAGGTGCCCTTTAGTGTAA
Found at i:44941649 original size:94 final size:94
Alignment explanation
Indices: 44941414--44941650 Score: 260
Period size: 94 Copynumber: 2.5 Consensus size: 94
44941404 AGTCAATGGG
* * * *
44941414 GACAATAAATATGGGGTTACATATGCGTAAAACCTTAGCTCGACTATGGCAACATATGGAGTCTT
1 GACATTAAATATGGGGTTAC--ATGTGTAAAACCTTAGCTCGACTATGGCAACATATAGAGTCAT
* * * *
44941479 CCGGGATAGTAAACATGGGGTAGTCCACTAG
64 CCGGGATAGTAAACATAGGGAAGTCCACCAA
* ** * * *
44941510 GACATTAAACATGGGGTTACATGTGTAAGCCCTTAGCTCAACTATGGCAACTTGTAGAGTCGAT-
1 GACATTAAATATGGGGTTACATGTGTAAAACCTTAGCTCGACTATGGCAACATATAGAGTC-ATC
* *
44941574 CGGGATAGTAAACATATGGAAGTTCACCAA
65 CGGGATAGTAAACATAGGGAAGTCCACCAA
* * * *
44941604 GACATTAAATATGAGGTTACATGTGTAATACCATAGCTCGGCTATGG
1 GACATTAAATATGGGGTTACATGTGTAAAACCTTAGCTCGACTATGG
44941651 AAGCACGTGA
Statistics
Matches: 117, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
94 98 0.84
95 1 0.01
96 18 0.15
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.26
Consensus pattern (94 bp):
GACATTAAATATGGGGTTACATGTGTAAAACCTTAGCTCGACTATGGCAACATATAGAGTCATCC
GGGATAGTAAACATAGGGAAGTCCACCAA
Found at i:44947891 original size:2 final size:2
Alignment explanation
Indices: 44947884--44947915 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
44947874 GCTTACTTAG
44947884 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
44947916 TTGTCCATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44955616 original size:20 final size:20
Alignment explanation
Indices: 44955580--44955623 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
44955570 CATAATATAG
*
44955580 AATTTAAAAGTGTTATAAAT
1 AATTTAAAAGTGTTATAAAA
*
44955600 AATTTAAAA-TTTGTATAAAA
1 AATTTAAAAGTGT-TATAAAA
44955620 AATT
1 AATT
44955624 ATAATCAGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (20 bp):
AATTTAAAAGTGTTATAAAA
Found at i:44957250 original size:21 final size:21
Alignment explanation
Indices: 44957226--44957268 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
44957216 TTTCAAACAA
* *
44957226 TACAAGAAGTATCAATACCTT
1 TACAAAAAATATCAATACCTT
44957247 TACAAAAAATATCAATACCTT
1 TACAAAAAATATCAATACCTT
44957268 T
1 T
44957269 TACCAGGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.47, C:0.19, G:0.05, T:0.30
Consensus pattern (21 bp):
TACAAAAAATATCAATACCTT
Found at i:44960126 original size:16 final size:16
Alignment explanation
Indices: 44960102--44960134 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
44960092 TTTTATATAT
*
44960102 TAAATTATTATATTAA
1 TAAAATATTATATTAA
44960118 TAAAATATTATATTAA
1 TAAAATATTATATTAA
44960134 T
1 T
44960135 TAGCTAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TAAAATATTATATTAA
Found at i:44960177 original size:13 final size:13
Alignment explanation
Indices: 44960159--44960183 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44960149 TTATAAATTA
44960159 TATTATATTATAT
1 TATTATATTATAT
44960172 TATTATATTATA
1 TATTATATTATA
44960184 AAATAAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TATTATATTATAT
Found at i:44961179 original size:36 final size:35
Alignment explanation
Indices: 44961139--44961221 Score: 96
Period size: 37 Copynumber: 2.3 Consensus size: 35
44961129 TATATGTGTG
44961139 GAATTGAATCGAATAT-TGACTTGAAAATGAAAAAGT
1 GAATTGAATCGAAT-TGTGA-TTGAAAATGAAAAAGT
* *
44961175 GAATTTTGAATCGAATTGTGATTGAAAGTGAAAAGGT
1 GAA--TTGAATCGAATTGTGATTGAAAATGAAAAAGT
44961212 GAAATTGAAT
1 G-AATTGAAT
44961222 TGAAACGTGA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
36 9 0.22
37 16 0.39
38 16 0.39
ACGTcount: A:0.43, C:0.04, G:0.23, T:0.30
Consensus pattern (35 bp):
GAATTGAATCGAATTGTGATTGAAAATGAAAAAGT
Found at i:44961207 original size:37 final size:38
Alignment explanation
Indices: 44961142--44961214 Score: 105
Period size: 37 Copynumber: 1.9 Consensus size: 38
44961132 ATGTGTGGAA
44961142 TTGAATCGAATATTGACTTGAAAATGAAAAAGTGAATT
1 TTGAATCGAATATTGACTTGAAAATGAAAAAGTGAATT
* *
44961180 TTGAATCGAAT-TGTGA-TTGAAAGTGAAAAGGTGAA
1 TTGAATCGAATAT-TGACTTGAAAATGAAAAAGTGAA
44961215 ATTGAATTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
37 18 0.56
38 14 0.44
ACGTcount: A:0.42, C:0.04, G:0.23, T:0.30
Consensus pattern (38 bp):
TTGAATCGAATATTGACTTGAAAATGAAAAAGTGAATT
Found at i:44964087 original size:29 final size:29
Alignment explanation
Indices: 44964053--44964228 Score: 132
Period size: 29 Copynumber: 6.2 Consensus size: 29
44964043 TTCGTTCCAA
* *
44964053 AGATAGCCACATAGCATTCCTTTTAATAG
1 AGATAGCCACAAAGCATTCCTTATAATAG
* * *
44964082 AGATAGCCACTAAG-GTGTCCATT-TAGT-G
1 AGATAGCCACAAAGCAT-TCC-TTATAATAG
** *
44964110 -G-TAGCCACAAAGGTTTTCTTATAATAG
1 AGATAGCCACAAAGCATTCCTTATAATAG
* * *
44964137 AGATAGGCAGAAAGGATTCCTTATAATAG
1 AGATAGCCACAAAGCATTCCTTATAATAG
*
44964166 AGATAGGCACAAAGGC-TTCCTTATAATAG
1 AGATAGCCACAAA-GCATTCCTTATAATAG
* * *
44964195 AGATCGTCATAAAGGC-TTCCTTATAATAG
1 AGATAGCCACAAA-GCATTCCTTATAATAG
44964224 AGATA
1 AGATA
44964229 ATCATACAGG
Statistics
Matches: 121, Mismatches: 18, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
25 2 0.02
26 15 0.12
27 3 0.02
28 3 0.02
29 95 0.79
30 3 0.02
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (29 bp):
AGATAGCCACAAAGCATTCCTTATAATAG
Found at i:44964239 original size:29 final size:29
Alignment explanation
Indices: 44964118--44964228 Score: 159
Period size: 29 Copynumber: 3.8 Consensus size: 29
44964108 TGGTAGCCAC
* * *
44964118 AAAGGTTTTCTTATAATAGAGATAGGCAG
1 AAAGGCTTCCTTATAATAGAGATAGGCAT
* *
44964147 AAAGGATTCCTTATAATAGAGATAGGCAC
1 AAAGGCTTCCTTATAATAGAGATAGGCAT
* *
44964176 AAAGGCTTCCTTATAATAGAGATCGTCAT
1 AAAGGCTTCCTTATAATAGAGATAGGCAT
44964205 AAAGGCTTCCTTATAATAGAGATA
1 AAAGGCTTCCTTATAATAGAGATA
44964229 ATCATACAGG
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 74 1.00
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.29
Consensus pattern (29 bp):
AAAGGCTTCCTTATAATAGAGATAGGCAT
Found at i:44969127 original size:19 final size:19
Alignment explanation
Indices: 44969074--44969128 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
44969064 TAAATGATAT
44969074 TTAGGATGTTTGAAATCGAAA
1 TTAGGATG-TTGAAA-CGAAA
* *
44969095 TTGAGGAT-TAGAAACGAAG
1 TT-AGGATGTTGAAACGAAA
44969114 TTAGGATGTTGAAAC
1 TTAGGATGTTGAAAC
44969129 TTTAATTTCG
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 5 0.17
19 12 0.41
20 5 0.17
21 2 0.07
22 5 0.17
ACGTcount: A:0.38, C:0.05, G:0.27, T:0.29
Consensus pattern (19 bp):
TTAGGATGTTGAAACGAAA
Found at i:44987062 original size:18 final size:17
Alignment explanation
Indices: 44987036--44987083 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
44987026 AAGAAAATTA
44987036 AAAAT-AATAATAATAAT
1 AAAATAAATAATAA-AAT
44987053 AAAATAAATAAATAAAAT
1 AAAATAAAT-AATAAAAT
*
44987071 AAGACTAAATAAT
1 AA-AATAAATAAT
44987084 TATTTTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 5 0.19
18 11 0.41
19 11 0.41
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (17 bp):
AAAATAAATAATAAAAT
Found at i:44987079 original size:19 final size:19
Alignment explanation
Indices: 44987036--44987082 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
44987026 AAGAAAATTA
44987036 AAAAT-AAT-AATAATAAT
1 AAAATAAATAAATAATAAT
44987053 AAAATAAATAAATAA-AAT
1 AAAATAAATAAATAATAAT
*
44987071 AAGACTAAATAA
1 AA-AATAAATAA
44987083 TTATTTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 5 0.19
18 8 0.31
19 13 0.50
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.23
Consensus pattern (19 bp):
AAAATAAATAAATAATAAT
Found at i:44990354 original size:9 final size:9
Alignment explanation
Indices: 44990342--44990374 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
44990332 AAAAATTAAA
44990342 AATAAAAAT
1 AATAAAAAT
44990351 AATAAAAAT
1 AATAAAAAT
*
44990360 AATAAATA-
1 AATAAAAAT
44990368 AATAAAA
1 AATAAAA
44990375 TAAGACTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 6 0.27
9 16 0.73
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
AATAAAAAT
Found at i:44990357 original size:22 final size:21
Alignment explanation
Indices: 44990324--44990377 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
44990314 GTGAACGTGA
*
44990324 AAAAAAAGAAAAATTAA-AAAT
1 AAAAAAATAAAAA-TAATAAAT
44990345 AAAAATAATAAAAATAATAAAT
1 AAAAA-AATAAAAATAATAAAT
44990367 AAATAAAATAA
1 AAA-AAAATAA
44990378 GACTAAATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 8 0.28
22 19 0.66
23 2 0.07
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.19
Consensus pattern (21 bp):
AAAAAAATAAAAATAATAAAT
Found at i:44990377 original size:16 final size:15
Alignment explanation
Indices: 44990326--44990374 Score: 57
Period size: 13 Copynumber: 3.3 Consensus size: 15
44990316 GAACGTGAAA
*
44990326 AAAAAGAAAAAT--T
1 AAAAATAAAAATAAT
44990339 AAAAATAAAAATAAT
1 AAAAATAAAAATAAT
44990354 AAAAATAATAAATAAAT
1 AAAAATAA-AAAT-AAT
44990371 AAAA
1 AAAA
44990375 TAAGACTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
13 11 0.35
15 9 0.29
16 4 0.13
17 7 0.23
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (15 bp):
AAAAATAAAAATAAT
Found at i:44995798 original size:23 final size:24
Alignment explanation
Indices: 44995768--44995828 Score: 79
Period size: 23 Copynumber: 2.5 Consensus size: 24
44995758 AAGAAGTAAC
* *
44995768 TAGACACAATTAATTTGT-CTAAA
1 TAGACACAATTAATATGTCCGAAA
44995791 TAGACACAATTAATATGTCCGAAA
1 TAGACACAATTAATATGTCCGAAA
*
44995815 TAAGACCCAATTAA
1 T-AGACACAATTAA
44995829 ACAAAAAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
23 17 0.52
24 5 0.15
25 11 0.33
ACGTcount: A:0.46, C:0.16, G:0.10, T:0.28
Consensus pattern (24 bp):
TAGACACAATTAATATGTCCGAAA
Found at i:45000256 original size:16 final size:16
Alignment explanation
Indices: 45000231--45000282 Score: 56
Period size: 15 Copynumber: 3.4 Consensus size: 16
45000221 AATTTTATTA
45000231 AATTAT-ATATATTTT
1 AATTATAATATATTTT
45000246 AATTATAATATA-TTT
1 AATTATAATATATTTT
* *
45000261 AATAATAAT-TATGTTA
1 AATTATAATATAT-TTT
45000277 AATTAT
1 AATTAT
45000283 CTTTTATAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
14 2 0.06
15 17 0.55
16 12 0.39
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
AATTATAATATATTTT
Found at i:45000266 original size:18 final size:15
Alignment explanation
Indices: 45000231--45000260 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
45000221 AATTTTATTA
45000231 AATTATATATATTTT
1 AATTATATATATTTT
45000246 AATTATAATATATTT
1 AATTAT-ATATATTT
45000261 AATAATAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
AATTATATATATTTT
Found at i:45000358 original size:122 final size:120
Alignment explanation
Indices: 45000141--45000400 Score: 466
Period size: 122 Copynumber: 2.1 Consensus size: 120
45000131 GGCAGTTGTC
*
45000141 TAATAATTATGTTAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTTATATAAAA
1 TAATAATTATGTTAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAAA
*
45000206 ATATTAGTTATTAAGAATTTTATTAAATTATATATATTTTAATTATAATATATTTAA
66 ATATTAATTATTAAGAATTTTATTAAA-T-TATATATTTTAATTATAATATATTTAA
*
45000263 TAATAATTATGTTAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGA
1 TAATAATTATGTTAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAAA
45000328 ATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAA
66 ATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAA
45000383 TAATAATTATGTTTAAAT
1 TAATAATTATG-TTAAAT
45000401 ATGATTAAAT
Statistics
Matches: 134, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
120 38 0.28
121 7 0.05
122 89 0.66
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.50
Consensus pattern (120 bp):
TAATAATTATGTTAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAAA
ATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAA
Found at i:45000360 original size:59 final size:59
Alignment explanation
Indices: 45000175--45000360 Score: 150
Period size: 66 Copynumber: 3.1 Consensus size: 59
45000165 TATAGTATCA
* *
45000175 TATATTATGATTTGAGTAAATTTATATAAAAATATTAGTTATTAAGAATTTTATTAAAT
1 TATATTATGATTTGAGTAAATTAATATAAAAATATTAATTATTAAGAATTTTATTAAAT
* ** * * *
45000234 TATA-TAT-ATTT---TAATTATAATATATTTAATAATAATTATGTTA-AATTATCTTTTATAGT
1 TATATTATGATTTGAGTAAAT-TAATATA-AAAATATTAATTAT-TAAGAATT-T-TATTA-A--
45000293 AT
58 AT
* *
45000295 CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
1 --TATATTATGATTTGAGTAAATTAATATAAAAATATTAATTATTAAGAATTTTATTAAAT
45000356 TATAT
1 TATAT
45000361 ATTTTAATTA
Statistics
Matches: 96, Mismatches: 15, Indels: 32
0.67 0.10 0.22
Matches are distributed among these distances:
54 4 0.04
55 6 0.06
56 14 0.15
57 7 0.07
58 7 0.07
59 10 0.10
61 4 0.04
63 5 0.05
64 7 0.07
65 7 0.07
66 15 0.16
67 6 0.06
68 4 0.04
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (59 bp):
TATATTATGATTTGAGTAAATTAATATAAAAATATTAATTATTAAGAATTTTATTAAAT
Found at i:45000378 original size:16 final size:16
Alignment explanation
Indices: 45000357--45000398 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
45000347 TTATTAAATT
*
45000357 ATATATTTTAATTATA
1 ATATATTTTAATAATA
45000373 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
45000388 AT-TATGTTTAA
1 ATATAT-TTTAA
45000399 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:45000383 original size:15 final size:15
Alignment explanation
Indices: 45000348--45000389 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
45000338 TTAAGAATTT
*
45000348 TATTAAATTAT-ATA
1 TATTTAATTATAATA
45000362 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
45000376 TATTTAATAATAAT
1 TATTTAATTATAAT
45000390 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:45000569 original size:39 final size:40
Alignment explanation
Indices: 45000526--45000630 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
45000516 TTCCATTATG
45000526 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
45000565 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
45000610 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
45000631 ACACCTCTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 17 0.31
45 17 0.31
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:45000624 original size:45 final size:44
Alignment explanation
Indices: 45000524--45000633 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
45000514 TTTTCCATTA
45000524 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
45000563 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
45000608 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
45000634 CCTCTAATCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 25 0.43
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:45000633 original size:16 final size:16
Alignment explanation
Indices: 45000612--45000649 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
45000602 TTGATTTGCT
*
45000612 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
45000628 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
45000644 AATACA
1 ATTACA
45000650 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:45002728 original size:18 final size:18
Alignment explanation
Indices: 45002701--45002738 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
45002691 AATTTCTGAT
*
45002701 AATTATAATTATAATTTA
1 AATTACAATTATAATTTA
*
45002719 AATTACAATTATTATTTA
1 AATTACAATTATAATTTA
45002737 AA
1 AA
45002739 AGAAGTTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
AATTACAATTATAATTTA
Found at i:45004405 original size:15 final size:13
Alignment explanation
Indices: 45004372--45004398 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
45004362 AGTTTGGCAA
45004372 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
45004385 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
45004398 T
1 T
45004399 TTGCTTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:45011749 original size:98 final size:98
Alignment explanation
Indices: 45011575--45011771 Score: 358
Period size: 98 Copynumber: 2.0 Consensus size: 98
45011565 GTACAATAAA
*
45011575 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* *
45011640 CCTTTAGAATCCCAAACTTGGAATATTTCCTTT
66 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
*
45011673 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTCGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
45011738 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
45011771 A
1 A
45011772 TTATTTTAAA
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.29
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:45014178 original size:218 final size:217
Alignment explanation
Indices: 45013926--45014425 Score: 777
Period size: 218 Copynumber: 2.3 Consensus size: 217
45013916 TGCTTAGGGA
* *
45013926 GATAAGACCTGCTTACTTAGTCTGCTCCACTACAACTTCAGGGAAATAAGACTAGATACGATCTG
1 GATAAGACTTGCTTACTTAGTCTGCTCCACTACAACTTCAGGGAAATAAGACTAGATGCGATCTG
* *
45013991 CTCTCTGCAACTTCAGAGAGATAAG-TTCTGAGATTTTAATCCACTCCACTACAACTTCAGGGAG
66 CTCTCTGCAACTTCAGAGAGATAAGATT-TGAGATTTTAATCCACTCCAATACAACTTCAAGGAG
* *
45014055 ATAGGATTATCGGTTTTAAACTGCTCCACTGCAACTTCAGGGAGATAAGACTTACCATCTTCAGC
130 ATAGGATTATCGGCTTTAAACTACTCCACTGCAACTTCAGGGAGATAAGACTTACCATCTTCAGC
45014120 CTGCCTCACTGCAACTTCAGGAG
195 CTGCCTCACTGCAACTTCAGGAG
* *
45014143 GATAAGAGTTGCTTTGCTTAGTCTGCTCCACTACAACTTCAGGGAAATAAGACTAGATGCGATCT
1 GATAAGACTTGC-TTACTTAGTCTGCTCCACTACAACTTCAGGGAAATAAGACTAGATGCGATCT
* * * *
45014208 GCTCTCTGCAACTTTAGAGAGATAAGATTTGAGGTTTTAATCCGCTCCAATGCAACTTCAAGGAG
65 GCTCTCTGCAACTTCAGAGAGATAAGATTTGAGATTTTAATCCACTCCAATACAACTTCAAGGAG
* * * * *
45014273 ATAGGATTATCGGCTTTAATCTATTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGT
130 ATAGGATTATCGGCTTTAAACTACTCCACTGCAACTTCAGGGAGATAAGACTTACCATCTTCAGC
* *
45014338 CTGCCTCATTGCAACTTTAGGAG
195 CTGCCTCACTGCAACTTCAGGAG
* * *
45014361 GATAAGACTTGCTTACTTAGTCTGCTCCATTGCAACTTCAGGGAGATAAGACTAGATGCGATCTG
1 GATAAGACTTGCTTACTTAGTCTGCTCCACTACAACTTCAGGGAAATAAGACTAGATGCGATCTG
45014426 TTATCTTCAC
Statistics
Matches: 257, Mismatches: 24, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
217 59 0.23
218 196 0.76
219 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (217 bp):
GATAAGACTTGCTTACTTAGTCTGCTCCACTACAACTTCAGGGAAATAAGACTAGATGCGATCTG
CTCTCTGCAACTTCAGAGAGATAAGATTTGAGATTTTAATCCACTCCAATACAACTTCAAGGAGA
TAGGATTATCGGCTTTAAACTACTCCACTGCAACTTCAGGGAGATAAGACTTACCATCTTCAGCC
TGCCTCACTGCAACTTCAGGAG
Found at i:45014180 original size:45 final size:45
Alignment explanation
Indices: 45014075--45014413 Score: 143
Period size: 45 Copynumber: 7.7 Consensus size: 45
45014065 CGGTTTTAAA
45014075 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTACCATCTTCAGC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTACCATCTTCAGC
* * ** *
45014120 CTGC-CTCACTGCAACTTCA-GGAGGATAAGAGTTGCTTTGCTT-AGT
1 CTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTACCAT-CTTCAGC
* * * * *
45014165 CTGCTCCACTACAACTTCAGGGAAATAAGAC-TA-GA--TGC-GAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTACCATCTTCAG-C
* * * * ** * * *
45014206 CTGCT-CTCTGCAACTTTAGAGAGATAAGATTTGA-GGTTTTAATC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTT-ACCATCTTCAGC
* * * * ** * **
45014250 C-GCTCCAATGCAACTTCAAGGAGATAGGA-TTATCGGCTTTAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTACCATCTTCAGC
** * * *
45014293 CTATTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTACCATCTTCAGC
* * * * *
45014338 CTGC-CTCATTGCAACTTTA-GGAGGATAAGACTT-GCTTACTT-AGT
1 CTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTACCAT-CTTCAGC
*
45014382 CTGCTCCATTGCAACTTCAGGGAGATAAGACT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACT
45014414 AGATGCGATC
Statistics
Matches: 219, Mismatches: 54, Indels: 43
0.69 0.17 0.14
Matches are distributed among these distances:
40 21 0.10
41 7 0.03
42 3 0.01
43 10 0.05
44 82 0.37
45 89 0.41
46 7 0.03
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (45 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGACTTACCATCTTCAGC
Found at i:45014263 original size:44 final size:44
Alignment explanation
Indices: 45014214--45014326 Score: 113
Period size: 44 Copynumber: 2.6 Consensus size: 44
45014204 ATCTGCTCTC
* * *
45014214 TGCAACTTTAGAGAGATAAGATTTGAGGTTTTAATCCGCTCCAA
1 TGCAACTTCAGAGAGATAAGATTTGAGGCTTTAATCCACTCCAA
* * * * *
45014258 TGCAACTTCA-AGGAGATAGGATTAT-CGGCTTTAATCTATTCCAC
1 TGCAACTTCAGA-GAGATAAGATT-TGAGGCTTTAATCCACTCCAA
*
45014302 TGCAACTTCAGGGAGATAAGATTTG
1 TGCAACTTCAGAGAGATAAGATTTG
45014327 CCATCTTCAG
Statistics
Matches: 55, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
43 2 0.04
44 52 0.95
45 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (44 bp):
TGCAACTTCAGAGAGATAAGATTTGAGGCTTTAATCCACTCCAA
Found at i:45025902 original size:98 final size:98
Alignment explanation
Indices: 45025728--45025924 Score: 358
Period size: 98 Copynumber: 2.0 Consensus size: 98
45025718 GTACAATAAA
* *
45025728 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCTAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* *
45025793 CCTTTAGAATCCCAAACTTGGAATATTTCCTTT
66 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
45025826 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
45025891 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
45025924 A
1 A
45025925 TTATTTTAAA
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.37, C:0.23, G:0.10, T:0.29
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:45029770 original size:32 final size:30
Alignment explanation
Indices: 45029728--45029811 Score: 107
Period size: 32 Copynumber: 2.7 Consensus size: 30
45029718 AAATTTCTAA
45029728 AAATATTAAAAAATTGTAAAAAAGTATTTT
1 AAATATTAAAAAATTGTAAAAAAGTATTTT
* *
45029758 AAAATTTATAAAAAATT-TATAAAAATTATTTT
1 -AAATAT-TAAAAAATTGTA-AAAAAGTATTTT
*
45029790 AAATATTAAAAAGTTGTAAAAA
1 AAATATTAAAAAATTGTAAAAA
45029812 TGATAACTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
30 12 0.26
31 14 0.30
32 20 0.43
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (30 bp):
AAATATTAAAAAATTGTAAAAAAGTATTTT
Found at i:45029772 original size:11 final size:11
Alignment explanation
Indices: 45029758--45029782 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
45029748 AAAGTATTTT
45029758 AAAATTTATAA
1 AAAATTTATAA
45029769 AAAATTTATAA
1 AAAATTTATAA
45029780 AAA
1 AAA
45029783 TTATTTTAAA
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:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
AAAATTTATAA
Found at i:45029885 original size:19 final size:18
Alignment explanation
Indices: 45029862--45029903 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
45029852 AAAAAAAAAC
45029862 TAAAAATGTTAAAACT-AT
1 TAAAAATGTTAAAA-TGAT
*
45029880 TAAAAATGGTAAAATGAT
1 TAAAAATGTTAAAATGAT
45029898 TAAAAA
1 TAAAAA
45029904 AGTGTTTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 1 0.05
18 21 0.95
ACGTcount: A:0.60, C:0.02, G:0.10, T:0.29
Consensus pattern (18 bp):
TAAAAATGTTAAAATGAT
Found at i:45034279 original size:67 final size:65
Alignment explanation
Indices: 45034143--45034279 Score: 141
Period size: 67 Copynumber: 2.1 Consensus size: 65
45034133 TAGCTAATTC
* * * * * **
45034143 AATCAACTTATCTTTTATATTTAGATATTGAAACTCCTATAAATACCATGCATGACCATCTATTT
1 AATCAACTTACCTTTTATATTTAGATAGTGAAACTCCTATAAATACCATACATGACAACCTATAA
* * * *
45034208 AATCAACTTACCTTTGCTATATTTAGCTAGTGAAATTCCTATAAGTACCATACATGGCAACCT-T
1 AATCAACTTACCTTT--TATATTTAGATAGTGAAACTCCTATAAATACCATACATGACAACCTAT
45034272 CAA
64 -AA
45034275 AATCA
1 AATCA
45034280 TTCAACTAGT
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
65 14 0.24
66 1 0.02
67 43 0.74
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.36
Consensus pattern (65 bp):
AATCAACTTACCTTTTATATTTAGATAGTGAAACTCCTATAAATACCATACATGACAACCTATAA
Found at i:45035034 original size:24 final size:24
Alignment explanation
Indices: 45035002--45035050 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
45034992 GAAAAGCTAA
45035002 CTAAGTGGGCATAACATCCCTTGC
1 CTAAGTGGGCATAACATCCCTTGC
45035026 CTAAGTGGGCATAACATCCCTTGC
1 CTAAGTGGGCATAACATCCCTTGC
45035050 C
1 C
45035051 CAACTTGATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.24
Consensus pattern (24 bp):
CTAAGTGGGCATAACATCCCTTGC
Found at i:45036168 original size:22 final size:20
Alignment explanation
Indices: 45036138--45036182 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
45036128 TTCTTTTCAT
*
45036138 ATTCTAAGCTCAATATCTATCA
1 ATTCCAAGCTCAAT-T-TATCA
*
45036160 ATTCCAAGCTTAATTTATCA
1 ATTCCAAGCTCAATTTATCA
45036180 ATT
1 ATT
45036183 TATCAACAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.38
21 1 0.05
22 12 0.57
ACGTcount: A:0.36, C:0.20, G:0.04, T:0.40
Consensus pattern (20 bp):
ATTCCAAGCTCAATTTATCA
Found at i:45037515 original size:22 final size:22
Alignment explanation
Indices: 45037488--45037530 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
45037478 ATATATATAC
*
45037488 ACATGGTAGCACAATCAACATT
1 ACATGGCAGCACAATCAACATT
* *
45037510 ACATGGCGGCACAGTCAACAT
1 ACATGGCAGCACAATCAACAT
45037531 ATTGTTTGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.19
Consensus pattern (22 bp):
ACATGGCAGCACAATCAACATT
Found at i:45037928 original size:10 final size:10
Alignment explanation
Indices: 45037915--45037977 Score: 67
Period size: 10 Copynumber: 6.5 Consensus size: 10
45037905 ACATGTGGCG
45037915 AAAAA-TAAT
1 AAAAATTAAT
*
45037924 AAAAAATAAT
1 AAAAATTAAT
*
45037934 AAGAATTAAT
1 AAAAATTAAT
*
45037944 AAAATTTAA-
1 AAAAATTAAT
45037953 AAAAATTAAT
1 AAAAATTAAT
**
45037963 AAATTTTAAT
1 AAAAATTAAT
45037973 AAAAA
1 AAAAA
45037978 ATATAAAAGT
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
9 13 0.30
10 30 0.70
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.29
Consensus pattern (10 bp):
AAAAATTAAT
Found at i:45037959 original size:19 final size:20
Alignment explanation
Indices: 45037915--45037977 Score: 76
Period size: 19 Copynumber: 3.2 Consensus size: 20
45037905 ACATGTGGCG
**
45037915 AAAAA-TAATAAAAAATAAT
1 AAAAATTAATAAAATTTAAT
*
45037934 AAGAATTAATAAAATTTAA-
1 AAAAATTAATAAAATTTAAT
*
45037953 AAAAATTAATAAATTTTAAT
1 AAAAATTAATAAAATTTAAT
45037973 AAAAA
1 AAAAA
45037978 ATATAAAAGT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
19 21 0.57
20 16 0.43
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.29
Consensus pattern (20 bp):
AAAAATTAATAAAATTTAAT
Found at i:45037983 original size:19 final size:19
Alignment explanation
Indices: 45037915--45037985 Score: 63
Period size: 19 Copynumber: 3.7 Consensus size: 19
45037905 ACATGTGGCG
**
45037915 AAAAATAATAAAAAATAATA
1 AAAAATAATAAAATTTAA-A
* *
45037935 AGAATTAATAAAATTTAAA
1 AAAAATAATAAAATTTAAA
* *
45037954 AAAATTAATAAATTTTAATA
1 AAAAATAATAAAATTTAA-A
45037974 AAAAAT-ATAAAA
1 AAAAATAATAAAA
45037986 GTTGTTGAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
19 22 0.52
20 20 0.48
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.28
Consensus pattern (19 bp):
AAAAATAATAAAATTTAAA
Found at i:45039028 original size:13 final size:13
Alignment explanation
Indices: 45038992--45039037 Score: 60
Period size: 13 Copynumber: 3.5 Consensus size: 13
45038982 GCATATGGAT
45038992 ATAA-AAATAATA
1 ATAATAAATAATA
45039004 A-AATGAAAATAATA
1 ATAAT--AAATAATA
45039018 ATAATAAATAATA
1 ATAATAAATAATA
45039031 ATAATAA
1 ATAATAA
45039038 TACAATGTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
11 2 0.07
12 1 0.03
13 15 0.50
14 9 0.30
15 3 0.10
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (13 bp):
ATAATAAATAATA
Found at i:45039054 original size:3 final size:3
Alignment explanation
Indices: 45038992--45039039 Score: 55
Period size: 3 Copynumber: 16.0 Consensus size: 3
45038982 GCATATGGAT
*
45038992 ATA AAA ATA ATA A-A ATGA A-A ATA ATA ATA ATAA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA AT-A ATA ATA ATA ATA
45039037 ATA
1 ATA
45039040 CAATGTTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
2 4 0.10
3 30 0.77
4 5 0.13
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:45040239 original size:22 final size:23
Alignment explanation
Indices: 45040205--45040251 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
45040195 GGGCTTGTAC
*
45040205 AAAAGTTATTAAAAATTAGAAAA
1 AAAAGTTATTAAAAATCAGAAAA
* *
45040228 AAAATTTA-TAAAAATCATAAAA
1 AAAAGTTATTAAAAATCAGAAAA
45040250 AA
1 AA
45040252 TTATAAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (23 bp):
AAAAGTTATTAAAAATCAGAAAA
Found at i:45040293 original size:28 final size:28
Alignment explanation
Indices: 45040228--45040315 Score: 83
Period size: 28 Copynumber: 3.1 Consensus size: 28
45040218 AATTAGAAAA
45040228 AAAATTTATAAAAATCATAAAAAATTAT
1 AAAATTTATAAAAATCATAAAAAATTAT
* *
45040256 AAAATATATAGAAAT-ATAGAAAAA-TAT
1 AAAATTTATAAAAATCATA-AAAAATTAT
* * *
45040283 AAAATTT-TATACAGTCGTAAAAAAATTAT
1 AAAATTTATA-AAAATCAT-AAAAAATTAT
45040312 AAAA
1 AAAA
45040316 AAGTAAATAA
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
26 2 0.04
27 14 0.29
28 24 0.50
29 8 0.17
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (28 bp):
AAAATTTATAAAAATCATAAAAAATTAT
Found at i:45041011 original size:10 final size:11
Alignment explanation
Indices: 45040996--45041028 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
45040986 AAATTTAAAT
45040996 ATTTTTCTATA
1 ATTTTTCTATA
45041007 ATTTTT-TATA
1 ATTTTTCTATA
45041017 ATTTTTCTATA
1 ATTTTTCTATA
45041028 A
1 A
45041029 CTTCTATTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (11 bp):
ATTTTTCTATA
Found at i:45046485 original size:20 final size:20
Alignment explanation
Indices: 45046460--45046497 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
45046450 AATTGTTTTG
45046460 AATTTTTATGAGCTTTTTAT
1 AATTTTTATGAGCTTTTTAT
*
45046480 AATTTTTTTGAGCTTTTT
1 AATTTTTATGAGCTTTTT
45046498 TTTAATAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.05, G:0.11, T:0.63
Consensus pattern (20 bp):
AATTTTTATGAGCTTTTTAT
Found at i:45050545 original size:44 final size:44
Alignment explanation
Indices: 45050419--45050864 Score: 610
Period size: 44 Copynumber: 10.1 Consensus size: 44
45050409 AAGACTTGTA
* * *
45050419 TCTTCGATCTA-TT-TCGCCAATATATGGGAAGACAAGATCTACTT
1 TCTTCGATCTACTTCACGCCAATACAT--GAAGACAAGATCTGCTT
* *
45050463 TCTTCGATCTACTTTGC-CCCCAATACATAAAGACAAGATCTGCTT
1 TCTTCGATCTAC-TT-CACGCCAATACATGAAGACAAGATCTGCTT
* * * *
45050508 TCTTCGATCTTCTTCACGCCAATATATGAAAACAAGATCTGCTA
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
*
45050552 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
*
45050596 TTTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* * * *
45050640 TCTTCGATCTACTTCGCCACCAATACATGAAGACAAAATCTGTTT
1 TCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTT
* *
45050685 TCTTCGATCTACTTCATGCCAATACATGAAGACAAGATCTGTTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
**
45050729 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTATTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* *
45050773 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATATGTTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* * *
45050817 TCTTCGATCTACTTCACGTCGATACATGAAGACAAGATTTGCTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
45050861 TCTT
1 TCTT
45050865 TCAACATGCC
Statistics
Matches: 362, Mismatches: 34, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
43 1 0.00
44 284 0.78
45 66 0.18
46 2 0.01
47 9 0.02
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.33
Consensus pattern (44 bp):
TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
Found at i:45050722 original size:177 final size:177
Alignment explanation
Indices: 45050419--45050831 Score: 634
Period size: 177 Copynumber: 2.3 Consensus size: 177
45050409 AAGACTTGTA
* * * * *
45050419 TCTTCGATCTA-TT-TCGCCAATATATGGGAAGACAAGATCTACTTTCTTCGATCTACTTTGCCC
1 TCTTCGATCTACTTCACGCCAATACAT--GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCA
* * *
45050482 CCAATACATAAAGACAAGATCTGCTTTCTTCGATCTTCTTCACGCCAATATATGAAAACAAGATC
64 CCAATACATAAAGACAAAATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAAACAAGATC
45050547 TGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTT
129 TGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTA-TTT
45050597 T-TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACC
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACC
* * * *
45050661 AATACATGAAGACAAAATCTGTTTTCTTCGATCTACTTCATGCCAATACATGAAGACAAGATCTG
66 AATACATAAAGACAAAATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAAACAAGATCTG
* *
45050726 TTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTATTT
131 CTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTATTT
* *
45050773 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATATGTTTTCTTCGATCTACTTC
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC
45050832 ACGTCGATAC
Statistics
Matches: 216, Mismatches: 16, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
176 4 0.02
177 199 0.92
178 3 0.01
179 10 0.05
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.32
Consensus pattern (177 bp):
TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACC
AATACATAAAGACAAAATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAAACAAGATCTG
CTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTATTT
Found at i:45052181 original size:21 final size:21
Alignment explanation
Indices: 45052151--45052196 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
45052141 AGCCTCTCCA
* *
45052151 TTTTACTTTTCCATTTTTTAGT
1 TTTTACTTTT-CACTTTTTAAT
45052173 TTTTA-TTTTCACTTTTTAAT
1 TTTTACTTTTCACTTTTTAAT
45052193 TTTT
1 TTTT
45052197 CATCTCATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 13 0.59
21 4 0.18
22 5 0.23
ACGTcount: A:0.15, C:0.11, G:0.02, T:0.72
Consensus pattern (21 bp):
TTTTACTTTTCACTTTTTAAT
Found at i:45053124 original size:19 final size:19
Alignment explanation
Indices: 45053100--45053138 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
45053090 GGTTTGGCAG
45053100 AAAAATCCAAAAGAATGAA
1 AAAAATCCAAAAGAATGAA
**
45053119 AAAAATCGTAAAGAATGAA
1 AAAAATCCAAAAGAATGAA
45053138 A
1 A
45053139 GAACATTTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.67, C:0.08, G:0.13, T:0.13
Consensus pattern (19 bp):
AAAAATCCAAAAGAATGAA
Found at i:45057291 original size:12 final size:12
Alignment explanation
Indices: 45057274--45057311 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
45057264 TATAGAAAAT
45057274 ATGATAATAATA
1 ATGATAATAATA
*
45057286 ATGATAGTAAATA
1 ATGATAAT-AATA
45057299 ATG-TAATAATA
1 ATGATAATAATA
45057310 AT
1 AT
45057312 AGTAATGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 6 0.26
12 10 0.43
13 7 0.30
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.34
Consensus pattern (12 bp):
ATGATAATAATA
Found at i:45057297 original size:24 final size:24
Alignment explanation
Indices: 45057265--45057311 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
45057255 ATGTATATGT
45057265 ATAGAAAAT-ATGATAATAATAATG
1 ATAGAAAATAATG-TAATAATAATG
*
45057289 ATAGTAAATAATGTAATAATAAT
1 ATAGAAAATAATGTAATAATAAT
45057312 AGTAATGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 18 0.86
25 3 0.14
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.32
Consensus pattern (24 bp):
ATAGAAAATAATGTAATAATAATG
Found at i:45062634 original size:14 final size:16
Alignment explanation
Indices: 45062605--45062637 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
45062595 AATTAAACCG
45062605 AATTCAAAATTAAATA
1 AATTCAAAATTAAATA
45062621 AATT-AAAA-TAAATA
1 AATTCAAAATTAAATA
45062635 AAT
1 AAT
45062638 ATGGGTTGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
15 4 0.24
16 4 0.24
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (16 bp):
AATTCAAAATTAAATA
Found at i:45069540 original size:27 final size:28
Alignment explanation
Indices: 45069510--45069562 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
45069500 TGAAATTCTT
*
45069510 ACTTTAATTA-TAAAATAATTAATTTAC
1 ACTTAAATTATTAAAATAATTAATTTAC
* *
45069537 ACTTAAATTATTAACATATTTAATTT
1 ACTTAAATTATTAAAATAATTAATTT
45069563 TAATTATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 9 0.41
28 13 0.59
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (28 bp):
ACTTAAATTATTAAAATAATTAATTTAC
Found at i:45073619 original size:3 final size:3
Alignment explanation
Indices: 45073613--45073643 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
45073603 ATTATTATTA
45073613 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
45073644 ATTTATTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:45074828 original size:188 final size:187
Alignment explanation
Indices: 45074511--45074872 Score: 706
Period size: 188 Copynumber: 1.9 Consensus size: 187
45074501 ACAATATCAG
*
45074511 GAATTAAAAAAGGATCGTGCTCTAACTTACTGGTCGTGAACCCTTTTTAAATCCAAGATAATTAA
1 GAATTAAAAAAGGATCGTGCCCTAACTTACTGGTCGTGAACCCTTTTTAAATCCAAGATAATTAA
45074576 ATATCTTTTAAATAAGCATTTTTTATTCGCGTATCGGGAATTCGAGACATTGTGTCTTAACTTAC
66 ATATCTTTTAAATAAGCATTTTTTATTCGCGTATCGGGAATTCGAGACATTGTGTCTTAACTTAC
45074641 TAGATATGATTCTCTTTCTCGAATAACGTGAAATATCCCCTTTTTATTCGCGTATCGA
131 TAGATATGATTCTCTTTCTCGAATAACGTGAAATAT-CCCTTTTTATTCGCGTATCGA
45074699 GAATTAAAAAAGGATCGTGCCCTAACTTACTGGTCGTGAACCCTTTTTAAATCCAAGATAATTAA
1 GAATTAAAAAAGGATCGTGCCCTAACTTACTGGTCGTGAACCCTTTTTAAATCCAAGATAATTAA
45074764 ATATCTTTTAAATAAGCATTTTTTATTCGCGTATCGGGAATTCGAGACATTGTGTCTTAACTTAC
66 ATATCTTTTAAATAAGCATTTTTTATTCGCGTATCGGGAATTCGAGACATTGTGTCTTAACTTAC
45074829 TAGATATGATTCTCTTTCTCGAATAACGTGAAATATCCCTTTTT
131 TAGATATGATTCTCTTTCTCGAATAACGTGAAATATCCCTTTTT
45074873 CTTGAAAATT
Statistics
Matches: 173, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
187 8 0.05
188 165 0.95
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (187 bp):
GAATTAAAAAAGGATCGTGCCCTAACTTACTGGTCGTGAACCCTTTTTAAATCCAAGATAATTAA
ATATCTTTTAAATAAGCATTTTTTATTCGCGTATCGGGAATTCGAGACATTGTGTCTTAACTTAC
TAGATATGATTCTCTTTCTCGAATAACGTGAAATATCCCTTTTTATTCGCGTATCGA
Found at i:45076794 original size:17 final size:18
Alignment explanation
Indices: 45076772--45076808 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
45076762 TTATTCTTTT
45076772 ATTCTTTCATCCA-AATC
1 ATTCTTTCATCCATAATC
*
45076789 ATTCTTTCATTCATAATC
1 ATTCTTTCATCCATAATC
45076807 AT
1 AT
45076809 ACTGTGCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.30, C:0.24, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTCTTTCATCCATAATC
Found at i:45077540 original size:9 final size:9
Alignment explanation
Indices: 45077526--45077615 Score: 123
Period size: 9 Copynumber: 10.1 Consensus size: 9
45077516 GTTCAGACTC
*
45077526 AAAAATAAA
1 AAAAATCAA
45077535 AAAAATC-A
1 AAAAATCAA
45077543 AAAAATCAAAA
1 AAAAATC--AA
45077554 AAAAATCAA
1 AAAAATCAA
45077563 AAAAATCAA
1 AAAAATCAA
45077572 AAAAATCAA
1 AAAAATCAA
45077581 AAAAATCAA
1 AAAAATCAA
45077590 AAAAATC--
1 AAAAATCAA
*
45077597 AAAAATAAA
1 AAAAATCAA
45077606 AAAAATCAA
1 AAAAATCAA
45077615 A
1 A
45077616 GTCAAAATAG
Statistics
Matches: 73, Mismatches: 3, Indels: 10
0.85 0.03 0.12
Matches are distributed among these distances:
7 6 0.08
8 8 0.11
9 51 0.70
11 8 0.11
ACGTcount: A:0.80, C:0.09, G:0.00, T:0.11
Consensus pattern (9 bp):
AAAAATCAA
Found at i:45077564 original size:27 final size:27
Alignment explanation
Indices: 45077526--45077615 Score: 132
Period size: 25 Copynumber: 3.4 Consensus size: 27
45077516 GTTCAGACTC
*
45077526 AAAAATAAAAAAAATCAAAAAATCAAAA
1 AAAAATCAAAAAAATCAAAAAATC-AAA
45077554 AAAAATCAAAAAAATCAAAAAAATC-AA
1 AAAAATCAAAAAAATC-AAAAAATCAAA
45077581 AAAAATCAAAAAAATC-AAAAAT-AAA
1 AAAAATCAAAAAAATCAAAAAATCAAA
45077606 AAAAATCAAA
1 AAAAATCAAA
45077616 GTCAAAATAG
Statistics
Matches: 59, Mismatches: 1, Indels: 7
0.88 0.01 0.10
Matches are distributed among these distances:
25 18 0.31
27 18 0.31
28 15 0.25
29 8 0.14
ACGTcount: A:0.80, C:0.09, G:0.00, T:0.11
Consensus pattern (27 bp):
AAAAATCAAAAAAATCAAAAAATCAAA
Found at i:45077650 original size:16 final size:15
Alignment explanation
Indices: 45077627--45077665 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
45077617 TCAAAATAGG
45077627 AAAAAAGAAAAAGAA
1 AAAAAAGAAAAAGAA
45077642 AAAAGAAGAAAAAGAA
1 AAAA-AAGAAAAAGAA
*
45077658 AAGAAAGA
1 AAAAAAGA
45077666 GGAGAGGTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAAAGAA
Found at i:45078480 original size:9 final size:9
Alignment explanation
Indices: 45078468--45078500 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
45078458 CAAAAAAATG
45078468 ATGAAAAAA
1 ATGAAAAAA
45078477 ATG--AAAA
1 ATGAAAAAA
45078484 ATGAAAAAA
1 ATGAAAAAA
45078493 ATGAAAAA
1 ATGAAAAA
45078501 GTAAAAATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 7 0.32
9 15 0.68
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (9 bp):
ATGAAAAAA
Found at i:45078507 original size:16 final size:16
Alignment explanation
Indices: 45078468--45078500 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
45078458 CAAAAAAATG
45078468 ATGAAAAAAATGAAAA
1 ATGAAAAAAATGAAAA
45078484 ATGAAAAAAATGAAAA
1 ATGAAAAAAATGAAAA
45078500 A
1 A
45078501 GTAAAAATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (16 bp):
ATGAAAAAAATGAAAA
Done.