Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 267 of 310
Found at i:88157217 original size:119 final size:119
Alignment explanation
Indices: 88157006--88157309 Score: 504
Period size: 119 Copynumber: 2.6 Consensus size: 119
88156996 TTGAATGATG
* * * * * * * *
88157006 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCAATTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
88157069 TTGTGCGAGATACTAATTTCGGGCTAAGCCCGAAGACATTTGCGTGAGTTACTAAA
64 TTGTGCGAGATACTAATTTCGGGCTAAGCCCGAAGACATTTGCGTGAGTTACTAAA
88157125 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
88157190 GTGCGAGATACTAATTTCGGGCTAAGCCCGAAGACATTTGCGTGAGTTACTAAA
66 GTGCGAGATACTAATTTCGGGCTAAGCCCGAAGACATTTGCGTGAGTTACTAAA
88157244 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
88157309 G
66 G
88157310 AATGAGTAGC
Statistics
Matches: 175, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
118 1 0.01
119 168 0.96
120 6 0.03
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
GTGCGAGATACTAATTTCGGGCTAAGCCCGAAGACATTTGCGTGAGTTACTAAA
Found at i:88158020 original size:48 final size:48
Alignment explanation
Indices: 88157949--88158044 Score: 165
Period size: 48 Copynumber: 2.0 Consensus size: 48
88157939 TGACAAGGAT
*
88157949 TGGCCATGGGAATGGTTAATCACTATCATAAATTGTGCTATTTATGCA
1 TGGCCACGGGAATGGTTAATCACTATCATAAATTGTGCTATTTATGCA
* *
88157997 TGGCCACGGGGATGGTTAATCACTTTCATAAATTGTGCTATTTATGCA
1 TGGCCACGGGAATGGTTAATCACTATCATAAATTGTGCTATTTATGCA
88158045 AAAAGGGCTA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (48 bp):
TGGCCACGGGAATGGTTAATCACTATCATAAATTGTGCTATTTATGCA
Found at i:88164070 original size:82 final size:80
Alignment explanation
Indices: 88163932--88164094 Score: 274
Period size: 82 Copynumber: 2.0 Consensus size: 80
88163922 TGCTAGGAAA
88163932 AATAAAATAAGGAGCATGGGCATAAAATAATGAAAGGGAATATGATGGAAAGA-AAAAAAAATGT
1 AATAAAATAAGGAGCATGGGCATAAAATAATGAAAGGGAATATGAT-GAAA-ACAAAAAAAATGT
* *
88163996 GTGTGTTGTTTCCCCCCC
64 GTG-GGTCTTTCCCCCCC
88164014 AATAAAATAAGGAGCATGGGCATAAAATAATGAAAGGGAATATGATGAAAACAAAAAAAATGTGT
1 AATAAAATAAGGAGCATGGGCATAAAATAATGAAAGGGAATATGATGAAAACAAAAAAAATGTGT
88164079 GGGTCTTTCCCCCCC
66 GGGTCTTTCCCCCCC
88164094 A
1 A
88164095 TTGCCGTGAG
Statistics
Matches: 78, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
80 14 0.18
81 18 0.23
82 46 0.59
ACGTcount: A:0.45, C:0.12, G:0.22, T:0.21
Consensus pattern (80 bp):
AATAAAATAAGGAGCATGGGCATAAAATAATGAAAGGGAATATGATGAAAACAAAAAAAATGTGT
GGGTCTTTCCCCCCC
Found at i:88165387 original size:79 final size:81
Alignment explanation
Indices: 88165251--88165435 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
88165241 TTGAATGATG
* *
88165251 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
88165315 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
88165330 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
88165392 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
88165410 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
88165436 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:88165449 original size:40 final size:40
Alignment explanation
Indices: 88165252--88165435 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
88165242 TGAATGATGT
* * * *
88165252 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
88165292 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
88165332 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
88165370 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
88165411 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
88165436 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:88165457 original size:79 final size:79
Alignment explanation
Indices: 88165304--88165468 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
88165294 GGACTAAGAT
* * **
88165304 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
88165369 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
88165383 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
88165446 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
88165462 CCGAAGG
1 CCGAAGG
88165469 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:88167810 original size:19 final size:18
Alignment explanation
Indices: 88167758--88167797 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
88167748 ATAGATCAAA
88167758 ATTTTG-AAAATATTTTG
1 ATTTTGAAAAATATTTTG
88167775 ATTTTGAAAAATATTTTG
1 ATTTTGAAAAATATTTTG
88167793 -TTTTG
1 ATTTTG
88167798 CTAAAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (18 bp):
ATTTTGAAAAATATTTTG
Found at i:88170118 original size:48 final size:48
Alignment explanation
Indices: 88170047--88170165 Score: 229
Period size: 48 Copynumber: 2.5 Consensus size: 48
88170037 AAACAATTTA
88170047 GAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
1 GAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
88170095 GAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
1 GAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
*
88170143 GAATGGCTAGTGTGAAATATGTA
1 GAATGGCTAATGTGAAATATGTA
88170166 GGCGATGTGC
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 70 1.00
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
GAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
Found at i:88170362 original size:37 final size:37
Alignment explanation
Indices: 88170312--88170397 Score: 136
Period size: 37 Copynumber: 2.3 Consensus size: 37
88170302 GGAAATATAT
* * *
88170312 TCCGGGTAAGACCCGATGACTACGTGTGGGGATTTTG
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTATG
*
88170349 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTATG
88170386 TCCGGGTAAGAC
1 TCCGGGTAAGAC
88170398 TTCGTAATAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATAACTACGTGTGGAGATTATG
Found at i:88171926 original size:13 final size:12
Alignment explanation
Indices: 88171908--88171946 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
88171898 TTAATTTTCC
88171908 TTATTATTATTAT
1 TTATTATTATT-T
88171921 TTATTATTATTT
1 TTATTATTATTT
**
88171933 TTATGGTTATTT
1 TTATTATTATTT
88171945 TT
1 TT
88171947 CTTTTGCACG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 13 0.54
13 11 0.46
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (12 bp):
TTATTATTATTT
Found at i:88172536 original size:60 final size:60
Alignment explanation
Indices: 88172472--88172586 Score: 171
Period size: 60 Copynumber: 1.9 Consensus size: 60
88172462 CATGTGACTG
* *
88172472 ATTTGGGCAATTAGGGCTTCC-ACACAGGCGTGTG-TTATGAGACACATGGCCGTGTAACTA
1 ATTTGGGAAATTAGGG-TTCCTACACAGGCGTGTGCTT-TGAGACACAAGGCCGTGTAACTA
*
88172532 ATTTGGGAAATTAGGGTTCCTACACAGGCGTGTGCTTTGGGACACAAGGCCGTGT
1 ATTTGGGAAATTAGGGTTCCTACACAGGCGTGTGCTTTGAGACACAAGGCCGTGT
88172587 GACTGCTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
59 4 0.08
60 44 0.88
61 2 0.04
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.27
Consensus pattern (60 bp):
ATTTGGGAAATTAGGGTTCCTACACAGGCGTGTGCTTTGAGACACAAGGCCGTGTAACTA
Found at i:88194352 original size:18 final size:17
Alignment explanation
Indices: 88194319--88194353 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
88194309 TATAACAGCC
*
88194319 CACATTTTTCTTCCTTT
1 CACATTTTTCTCCCTTT
88194336 CACATTTTTCTACCCTTT
1 CACATTTTTCT-CCCTTT
88194354 TCTACAACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.14, C:0.31, G:0.00, T:0.54
Consensus pattern (17 bp):
CACATTTTTCTCCCTTT
Found at i:88202512 original size:45 final size:46
Alignment explanation
Indices: 88202354--88202535 Score: 258
Period size: 46 Copynumber: 4.0 Consensus size: 46
88202344 CATATATACA
* * * * *
88202354 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATATC
*
88202400 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATATC
* * * *
88202446 CATCTCATACACGTTTTGCATTAGCCATTTGGCTTTA-CTTATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATATC
*
88202491 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATAT
88202536 ATGCATGTTC
Statistics
Matches: 121, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
45 41 0.34
46 80 0.66
ACGTcount: A:0.25, C:0.30, G:0.09, T:0.36
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATATC
Found at i:88202549 original size:45 final size:44
Alignment explanation
Indices: 88202372--88202597 Score: 145
Period size: 46 Copynumber: 4.9 Consensus size: 44
88202362 ACATATCTCA
* * *
88202372 CATTAGCCATTTGGCTTTACCACATATCCATC-TCATACACGTTTCG
1 CATTAGCCATTCGGCTTTACCACATAT--ATCAT-ATTCACATTTCG
* * * *
88202418 CATTAGCCATTCGGCTTTACCTCATATCCATC-TCATACACGTTTTG
1 CATTAGCCATTCGGCTTTACCACATAT--ATCAT-ATTCACATTTCG
* ** *
88202464 CATTAGCCATTTGGCTTTA-CTTATATCCATC-TCATACACATTTCG
1 CATTAGCCATTCGGCTTTACCACATAT--ATCAT-ATTCACATTTCG
* *
88202509 CATTAGCCATTCGGCTTTACCACATATATGCATGTTCACATTCATCA
1 CATTAGCCATTCGGCTTTACCACATATAT-CATATTCACATT--TCG
* * * * *
88202556 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATT
1 CATTAGCCATTCGGCTTTACCACATATAT-CATATTCACATT
88202598 CATCACATTT
Statistics
Matches: 158, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
44 2 0.01
45 49 0.31
46 67 0.42
47 40 0.25
ACGTcount: A:0.24, C:0.29, G:0.11, T:0.36
Consensus pattern (44 bp):
CATTAGCCATTCGGCTTTACCACATATATCATATTCACATTTCG
Found at i:88202585 original size:47 final size:47
Alignment explanation
Indices: 88202509--88202606 Score: 160
Period size: 47 Copynumber: 2.1 Consensus size: 47
88202499 ACACATTTCG
* *
88202509 CATTAGCCATTCGGCTTTACCACATATATGCATGTTCACATTCATCA
1 CATTAGCCATTCGGCCTTACCACACATATGCATGTTCACATTCATCA
* *
88202556 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTAGCCATTCGGCCTTACCACACATATGCATGTTCACATTCATCA
88202603 CATT
1 CATT
88202607 TAATCCTAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.34
Consensus pattern (47 bp):
CATTAGCCATTCGGCCTTACCACACATATGCATGTTCACATTCATCA
Found at i:88206881 original size:14 final size:14
Alignment explanation
Indices: 88206862--88206889 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
88206852 TTGGTCTTAG
88206862 TGCTAGTGGGAGAT
1 TGCTAGTGGGAGAT
88206876 TGCTAGTGGGAGAT
1 TGCTAGTGGGAGAT
88206890 CATCACACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.43, T:0.29
Consensus pattern (14 bp):
TGCTAGTGGGAGAT
Found at i:88213599 original size:18 final size:18
Alignment explanation
Indices: 88213576--88213612 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
88213566 CATTATGACT
88213576 GCCTCTTGACATGCTAAC
1 GCCTCTTGACATGCTAAC
88213594 GCCTCTTGACATGCTAAC
1 GCCTCTTGACATGCTAAC
88213612 G
1 G
88213613 TCAAGAGTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.32, G:0.19, T:0.27
Consensus pattern (18 bp):
GCCTCTTGACATGCTAAC
Found at i:88214666 original size:37 final size:37
Alignment explanation
Indices: 88214607--88214703 Score: 167
Period size: 37 Copynumber: 2.6 Consensus size: 37
88214597 AGCTCAGACG
* *
88214607 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
88214644 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
88214681 TAATCTCCACACGTAGTCATCGG
1 AAATCTCCACACGTAGTCATCGG
88214704 CCATTAGGCC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:88214764 original size:49 final size:49
Alignment explanation
Indices: 88214698--88215470 Score: 1495
Period size: 49 Copynumber: 15.9 Consensus size: 49
88214688 CACACGTAGT
88214698 CATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
1 CATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
88214747 CATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
1 CATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
88214796 CATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
1 CATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
88214845 CATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
1 CATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
88214894 CATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
1 CATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
88214943 CATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
1 CATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
88214992 CATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
1 CATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
88215041 CATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
1 CATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
88215090 CATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
1 CATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
*
88215139 CGTCGG-C--T-GGCCTTATCACATATATATACACTTTCACATTCATCA
1 CATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
88215184 CATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
1 CATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
88215233 CATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
1 CATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
88215282 CATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
1 CATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
88215331 CATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
1 CATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
88215380 CATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
1 CATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
88215429 CATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATT
1 CATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
88215471 TATTCAAATA
Statistics
Matches: 718, Mismatches: 2, Indels: 10
0.98 0.00 0.01
Matches are distributed among these distances:
45 42 0.06
46 2 0.00
47 19 0.03
48 2 0.00
49 653 0.91
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
Found at i:88222104 original size:40 final size:41
Alignment explanation
Indices: 88222010--88222230 Score: 230
Period size: 40 Copynumber: 5.6 Consensus size: 41
88222000 TATTCGAATG
* *
88222010 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTCGTGCTA-GTGACT
* * *
88222051 ATAACCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCCGAAGGCATTCGTGCTAG-TGACT
* *
88222091 ATATCCGGGCTAAGA-CCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTCGTGCTAGTGACT
*
88222131 ATATCCGGGCTAAG-TCCCGAAGGCA-TCTGTGCTAGTGACC
1 ATATCCGGGCTAAGATCCCGAAGGCATTC-GTGCTAGTGACT
* * *
88222171 ATATCCGGGCTAAGA-CCCGAAGGCCTT-GTGCAAGT-AGTT
1 ATATCCGGGCTAAGATCCCGAAGGCATTCGTGCTAGTGA-CT
88222210 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGATCCCGAAG
88222231 ATTACTTGAG
Statistics
Matches: 153, Mismatches: 17, Indels: 23
0.79 0.09 0.12
Matches are distributed among these distances:
37 1 0.01
38 14 0.09
39 15 0.10
40 92 0.60
41 30 0.20
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (41 bp):
ATATCCGGGCTAAGATCCCGAAGGCATTCGTGCTAGTGACT
Found at i:88223850 original size:81 final size:80
Alignment explanation
Indices: 88223765--88223976 Score: 199
Period size: 81 Copynumber: 2.6 Consensus size: 80
88223755 GAACGTATAT
* * * * *
88223765 ACATGTCAGGGGGTAAAACCACTCGCAAGAACCCTTTGTGGGCTCTCTTTGTCTAACAATATACA
1 ACATG-CAAGGGGTAAAACCACTCACGAGAACCCTTCGTGGGCTCTCTTTATCTAACAATATACA
*
88223830 TTATATGGATATACAA
65 TTATACGGATATACAA
* * * * * ** * * * *
88223846 ACATGGGAAGAGATAAAACCACCCACGTGAACAGTTCGTGGGTTCTCTTTATCTTACATTATTCA
1 ACAT-GCAAGGGGTAAAACCACTCACGAGAACCCTTCGTGGGCTCTCTTTATCTAACAATATACA
*
88223911 TTTTACGGATATACAA
65 TTATACGGATATACAA
* ** *
88223927 ACATGCAAAGGGGTATAACCACTCTTGAGAACCCTTCGTGGGCTCCCTTT
1 ACATGC-AAGGGGTAAAACCACTCACGAGAACCCTTCGTGGGCTCTCTTT
88223977 CTGAGATTTA
Statistics
Matches: 99, Mismatches: 30, Indels: 4
0.74 0.23 0.03
Matches are distributed among these distances:
80 1 0.01
81 97 0.98
82 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (80 bp):
ACATGCAAGGGGTAAAACCACTCACGAGAACCCTTCGTGGGCTCTCTTTATCTAACAATATACAT
TATACGGATATACAA
Found at i:88229991 original size:40 final size:40
Alignment explanation
Indices: 88229884--88230086 Score: 261
Period size: 40 Copynumber: 5.1 Consensus size: 40
88229874 CGGATGATAA
* * *
88229884 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATA-T
* *
88229924 CCGGGCTAAG-CCCGAAGGCAATT-GTGCGAATTATTATAT
1 CCGGGCTAAGTCCCGAAGGC-ATTCGTGCGAGTTACTATAT
*
88229963 TCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* *
88230003 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* *
88230043 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATAT
88230083 CCGG
1 CCGG
88230087 TTGAATTCCG
Statistics
Matches: 144, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
39 33 0.23
40 111 0.77
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
Found at i:88233412 original size:25 final size:25
Alignment explanation
Indices: 88233390--88233439 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
88233380 AGTGAATTTG
* *
88233390 CCACAGAGGCTTTCCATGAAATTCA
1 CCACAAAGACTTTCCATGAAATTCA
*
88233415 CCACAAAGACTTTTCATGAAATTCA
1 CCACAAAGACTTTCCATGAAATTCA
88233440 TGTTTACTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.36, C:0.26, G:0.12, T:0.26
Consensus pattern (25 bp):
CCACAAAGACTTTCCATGAAATTCA
Found at i:88237270 original size:14 final size:14
Alignment explanation
Indices: 88237251--88237279 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
88237241 TCTGAATTAC
88237251 CCGCTCAGATTGAT
1 CCGCTCAGATTGAT
88237265 CCGCTCAGATTGAT
1 CCGCTCAGATTGAT
88237279 C
1 C
88237280 GTCAGTTTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.28
Consensus pattern (14 bp):
CCGCTCAGATTGAT
Found at i:88246982 original size:40 final size:39
Alignment explanation
Indices: 88246932--88247019 Score: 113
Period size: 40 Copynumber: 2.2 Consensus size: 39
88246922 CAAATCCAAT
* * *
88246932 CACCACCACAAAACATGCGGTACTTTAAGCCCGGATATAA
1 CACCAGCACAAAACATGCGGGACTTT-AGCCAGGATATAA
* * *
88246972 TACCAGCACAAAGCCTGCGGGACTTTAGCCAGGATATAA
1 CACCAGCACAAAACATGCGGGACTTTAGCCAGGATATAA
88247011 CACCAGCAC
1 CACCAGCAC
88247020 GAATGCCTTC
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
39 20 0.49
40 21 0.51
ACGTcount: A:0.35, C:0.31, G:0.18, T:0.16
Consensus pattern (39 bp):
CACCAGCACAAAACATGCGGGACTTTAGCCAGGATATAA
Found at i:88247033 original size:40 final size:39
Alignment explanation
Indices: 88246932--88247049 Score: 130
Period size: 39 Copynumber: 3.0 Consensus size: 39
88246922 CAAATCCAAT
* * * *
88246932 CACCACCACAAAACATGCGGTACTTTAAGCCCGGATATAA
1 CACCAGCACAAAGCCTGCGGGACTTT-AGCCCGGATATAA
* *
88246972 TACCAGCACAAAGCCTGCGGGACTTTAGCCAGGATATAA
1 CACCAGCACAAAGCCTGCGGGACTTTAGCCCGGATATAA
* * *
88247011 CACCAGCACGAATGCCTTCGGGAC-TTAGCCCGAATATAA
1 CACCAGCAC-AAAGCCTGCGGGACTTTAGCCCGGATATAA
88247050 TTCTCCTTTA
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
39 33 0.50
40 33 0.50
ACGTcount: A:0.34, C:0.29, G:0.19, T:0.18
Consensus pattern (39 bp):
CACCAGCACAAAGCCTGCGGGACTTTAGCCCGGATATAA
Found at i:88255264 original size:49 final size:49
Alignment explanation
Indices: 88255090--88256117 Score: 1701
Period size: 49 Copynumber: 21.3 Consensus size: 49
88255080 CCCTTCGGGA
* * * * * *
88255090 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
* *
88255137 CCTGTCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
88255184 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
88255231 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
88255280 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
88255329 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
88255378 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
88255427 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
* *
88255476 CTTATCACATATAT--ACACTTTCACGTTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
* *
88255523 CTTATCCCATATAT--ACACTTTCACATTCATCACATCGGCCATTACGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
88255570 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
88255619 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
* * * * *
88255666 CTTATCACATATATATACACTTTCAAATTCATCAGATGGGCCATTCGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
* *
88255715 CTTATCGCATATAT--ACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
*
88255762 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
88255811 CTTATCCCATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
*
88255860 CTTATCGCATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
88255907 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
88255956 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
88256005 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
88256054 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
88256103 CTTATCACATATATA
1 CTTATCACATATATA
88256118 TTCACATTTA
Statistics
Matches: 931, Mismatches: 38, Indels: 22
0.94 0.04 0.02
Matches are distributed among these distances:
47 313 0.34
48 1 0.00
49 617 0.66
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:88255346 original size:98 final size:98
Alignment explanation
Indices: 88255090--88256117 Score: 1701
Period size: 96 Copynumber: 10.7 Consensus size: 98
88255080 CCCTTCGGGA
* * * * * * * *
88255090 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATAT--
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
88255151 ACACTTTCACATTCATCACATCGGCCATTAGGC
66 ACACTTTCACATTCATCACATCGGCCATTAGGC
88255184 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
88255247 ACACTTTCACATTCATCACATCGGCCATTAGGC
66 ACACTTTCACATTCATCACATCGGCCATTAGGC
88255280 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
88255345 ACACTTTCACATTCATCACATCGGCCATTAGGC
66 ACACTTTCACATTCATCACATCGGCCATTAGGC
88255378 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
88255443 ACACTTTCACATTCATCACATCGGCCATTAGGC
66 ACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
88255476 CTTATCACATATAT--ACACTTTCACGTTCATCACATCGGCTATTAGGCCTTATCCCATATAT--
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
88255537 ACACTTTCACATTCATCACATCGGCCATTACGC
66 ACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
88255570 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAT--
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
88255633 ACACTTTCACATTCATCACATCGGCCATTAGGC
66 ACACTTTCACATTCATCACATCGGCCATTAGGC
* * * * * *
88255666 CTTATCACATATATATACACTTTCAAATTCATCAGATGGGCCATTCGGCCTTATCGCATATAT--
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
88255729 ACACTTTCACATTCATCACATCGGCTATTAGGC
66 ACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
88255762 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCCCATATATAT
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
88255827 ACACTTTCACATTCATCACATCGGCCATTCGGC
66 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
88255860 CTTATCGCATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
88255923 ACACTTTCACATTCATCACATCGGCCATTAGGC
66 ACACTTTCACATTCATCACATCGGCCATTAGGC
88255956 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
88256021 ACACTTTCACATTCATCACATCGGCCATTAGGC
66 ACACTTTCACATTCATCACATCGGCCATTAGGC
88256054 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
88256118 TTCACATTTA
Statistics
Matches: 888, Mismatches: 34, Indels: 20
0.94 0.04 0.02
Matches are distributed among these distances:
94 96 0.11
95 1 0.00
96 407 0.46
98 384 0.43
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (98 bp):
CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:88256154 original size:18 final size:19
Alignment explanation
Indices: 88256104--88256157 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 19
88256094 CCATTAGGCC
*
88256104 TTATCACATATATATTCACA
1 TTATCACATATA-CTTCACA
*
88256124 TTTATTCAAATATACTTCACA
1 -TTA-TCACATATACTTCACA
88256145 -TATCACATATACT
1 TTATCACATATACT
88256158 ATCATGTACA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 10 0.34
19 2 0.07
21 9 0.31
22 8 0.28
ACGTcount: A:0.39, C:0.20, G:0.00, T:0.41
Consensus pattern (19 bp):
TTATCACATATACTTCACA
Found at i:88265128 original size:47 final size:47
Alignment explanation
Indices: 88265073--88265188 Score: 160
Period size: 47 Copynumber: 2.5 Consensus size: 47
88265063 ATTCAGCCAA
* * *
88265073 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGT
* * * *
88265120 GAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGT
1 GAAAGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGT
*
88265167 GAAAGTGTATAAATGTGATAAG
1 GAAAGTGTATATATGTGATAAG
88265189 TCCTGAAGGG
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 59 1.00
ACGTcount: A:0.33, C:0.09, G:0.32, T:0.27
Consensus pattern (47 bp):
GAAAGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGT
Found at i:88266635 original size:24 final size:25
Alignment explanation
Indices: 88266608--88266684 Score: 70
Period size: 25 Copynumber: 3.1 Consensus size: 25
88266598 GTACATGTAT
*
88266608 GCTCATATAAGC-ATGTAAAC-GGAA
1 GCTCATATAAGCTATAT-AACGGGAA
* *
88266632 GCTCTTCTAAGCTATATAACGGGAA
1 GCTCATATAAGCTATATAACGGGAA
* *
88266657 GCTCATGTGAGCTA-AGTAACGGGAA
1 GCTCATATAAGCTATA-TAACGGGAA
88266682 GCT
1 GCT
88266685 TCTACGAGCT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
24 14 0.32
25 30 0.68
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (25 bp):
GCTCATATAAGCTATATAACGGGAA
Found at i:88266718 original size:25 final size:25
Alignment explanation
Indices: 88266641--88266718 Score: 68
Period size: 25 Copynumber: 3.1 Consensus size: 25
88266631 AGCTCTTCTA
* *
88266641 AGCTATATAACGGGAAGCTCATGTG
1 AGCTATATAACAGGAAGCTTATGTG
* * **
88266666 AGCTA-AGTAACGGGAAGCTTCTACG
1 AGCTATA-TAACAGGAAGCTTATGTG
* *
88266691 AGCTATATATCAGGAAGCTTTTGTG
1 AGCTATATAACAGGAAGCTTATGTG
88266716 AGC
1 AGC
88266719 CAAATATCAA
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
24 1 0.02
25 40 0.95
26 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.26
Consensus pattern (25 bp):
AGCTATATAACAGGAAGCTTATGTG
Found at i:88266743 original size:25 final size:25
Alignment explanation
Indices: 88266697--88266746 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
88266687 TACGAGCTAT
* ** *
88266697 ATATCAGGAAGCTTTTGTGAGCCAA
1 ATATCAAGAAGCTCATGAGAGCCAA
88266722 ATATCAAGAAGCTCATGAGAGCCAA
1 ATATCAAGAAGCTCATGAGAGCCAA
88266747 TGTAACAGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.22
Consensus pattern (25 bp):
ATATCAAGAAGCTCATGAGAGCCAA
Found at i:88276468 original size:13 final size:13
Alignment explanation
Indices: 88276450--88276474 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88276440 ATTTTTAAAA
88276450 TTATTTTCTGTGT
1 TTATTTTCTGTGT
88276463 TTATTTTCTGTG
1 TTATTTTCTGTG
88276475 AATTTATACC
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:0.08, C:0.08, G:0.16, T:0.68
Consensus pattern (13 bp):
TTATTTTCTGTGT
Found at i:88279500 original size:20 final size:20
Alignment explanation
Indices: 88279477--88279524 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
88279467 TAAATTCTAA
*
88279477 AAAGATAAATACAA-TTAATT
1 AAAGATAAATA-AAGATAATT
88279497 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
88279517 AAA-ATAAA
1 AAAGATAAA
88279525 ATCCTAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:88279549 original size:27 final size:26
Alignment explanation
Indices: 88279519--88279580 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
88279509 AGATAATTAA
88279519 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * * *
88279546 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
88279573 AATAAAAT
1 AATAAAAT
88279581 GGAGTCTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.07
27 18 0.62
28 9 0.31
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:88281663 original size:37 final size:37
Alignment explanation
Indices: 88281299--88281662 Score: 683
Period size: 37 Copynumber: 9.8 Consensus size: 37
88281289 ACACTGATCC
88281299 TCTCCACACGTAGTCATCGGGTCTTACCCGGGCAAAA
1 TCTCCACACGTAGTCATCGGGTCTTACCCGGGCAAAA
88281336 TCTCCACACGTAGTCATCGGGTCTTACCCGGGCAAAA
1 TCTCCACACGTAGTCATCGGGTCTTACCCGGGCAAAA
88281373 TCTCCACACGTAGTCATCGGGTCTTACCCGGGCAAAA
1 TCTCCACACGTAGTCATCGGGTCTTACCCGGGCAAAA
88281410 TCTCCACACGTAGTCATCGGGTCTTACCCGGGCAAAA
1 TCTCCACACGTAGTCATCGGGTCTTACCCGGGCAAAA
88281447 TCTCCACACGTAGTCATCGGGTCTTACCCGGGCAAAA
1 TCTCCACACGTAGTCATCGGGTCTTACCCGGGCAAAA
88281484 TCTCCACACGTAGTCATCGGGTCTTACCCGGGCAAAA
1 TCTCCACACGTAGTCATCGGGTCTTACCCGGGCAAAA
88281521 TCTCCACACGTAGTCATCGGGTCTTACCCGGGCAAAA
1 TCTCCACACGTAGTCATCGGGTCTTACCCGGGCAAAA
88281558 TCTCCACACGTAGTCATCGGGTCTTACCCGGGCAAAA
1 TCTCCACACGTAGTCATCGGGTCTTACCCGGGCAAAA
* * *
88281595 TCTCCACACGTAGTCATCGGGTCTTACCCGGACATAC
1 TCTCCACACGTAGTCATCGGGTCTTACCCGGGCAAAA
* *
88281632 TCTCTACACGTAGTCATCGGGTCTCACCCGG
1 TCTCCACACGTAGTCATCGGGTCTTACCCGG
88281663 AATATATTTC
Statistics
Matches: 322, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 322 1.00
ACGTcount: A:0.23, C:0.33, G:0.21, T:0.22
Consensus pattern (37 bp):
TCTCCACACGTAGTCATCGGGTCTTACCCGGGCAAAA
Found at i:88281878 original size:47 final size:47
Alignment explanation
Indices: 88281826--88282199 Score: 523
Period size: 47 Copynumber: 8.0 Consensus size: 47
88281816 TTTCACACTA
* * * * * *
88281826 GCCATTCGGCTTTACCACATATGTGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* *
88281873 GCCATTCGGCCTTATCACACATATGCATGCTCAAATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
*
88281920 GCCATTCGGCCTTATCATATATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* * * *
88281967 GCCATTCGGCCTCATCACATATATACATGTTCACATTCATCACATAG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
88282014 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* * * * *
88282061 GCCATTTGGCCTTATCACATATATACATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* **
88282108 GCCATTCAGCCTTATCACACGTATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* ***
88282155 GCCATTCGGCCTTATCACATATATACACATTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACAT
88282200 AAAATCCTAA
Statistics
Matches: 288, Mismatches: 39, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 288 1.00
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
Found at i:88282126 original size:22 final size:22
Alignment explanation
Indices: 88282101--88282174 Score: 55
Period size: 22 Copynumber: 3.2 Consensus size: 22
88282091 TCATATTCAC
88282101 CACATTGGCCATTCAGCCTTAT
1 CACATTGGCCATTCAGCCTTAT
*
88282123 CACACGTAT-G-CATGCTCA-CATTCAT
1 CACA--T-TGGCCAT--TCAGCCTT-AT
*
88282148 CACATTGGCCATTCGGCCTTAT
1 CACATTGGCCATTCAGCCTTAT
88282170 CACAT
1 CACAT
88282175 ATATACACAT
Statistics
Matches: 40, Mismatches: 3, Indels: 18
0.66 0.05 0.30
Matches are distributed among these distances:
22 14 0.35
23 8 0.20
24 8 0.20
25 10 0.25
ACGTcount: A:0.24, C:0.32, G:0.14, T:0.30
Consensus pattern (22 bp):
CACATTGGCCATTCAGCCTTAT
Found at i:88284940 original size:29 final size:29
Alignment explanation
Indices: 88284908--88284964 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
88284898 CATAATACTT
88284908 TCATGAGC-CAAAACATTCTCATGAGTTCA
1 TCAT-AGCTCAAAACATTCTCATGAGTTCA
* **
88284937 TCATATCTCATGACATTCTCATGAGTTC
1 TCATAGCTCAAAACATTCTCATGAGTTC
88284965 GATGTACACA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (29 bp):
TCATAGCTCAAAACATTCTCATGAGTTCA
Found at i:88285313 original size:21 final size:21
Alignment explanation
Indices: 88285288--88285357 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
88285278 CACACACATC
88285288 ATGAACTCATACCACAACTCA
1 ATGAACTCATACCACAACTCA
* ** *
88285309 ATGAATTCAGATGTCACATATATC-
1 ATGAACTC--ATACCACA-A-CTCA
*
88285333 ATGAACTCAGACCACAACTCA
1 ATGAACTCATACCACAACTCA
88285354 ATGA
1 ATGA
88285358 GTTCAGATCA
Statistics
Matches: 35, Mismatches: 9, Indels: 10
0.65 0.17 0.19
Matches are distributed among these distances:
20 2 0.06
21 12 0.34
22 5 0.14
23 6 0.17
24 8 0.23
25 2 0.06
ACGTcount: A:0.41, C:0.26, G:0.10, T:0.23
Consensus pattern (21 bp):
ATGAACTCATACCACAACTCA
Found at i:88309065 original size:24 final size:24
Alignment explanation
Indices: 88309033--88309081 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
88309023 GCAATTGATA
*
88309033 AAGACGACACCCAAGGAGGAATCC
1 AAGACGACACCCAAGGAGAAATCC
88309057 AAGACGACACCCAAGGAGAAATCC
1 AAGACGACACCCAAGGAGAAATCC
88309081 A
1 A
88309082 CCTAGATTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.45, C:0.29, G:0.22, T:0.04
Consensus pattern (24 bp):
AAGACGACACCCAAGGAGAAATCC
Found at i:88318399 original size:23 final size:23
Alignment explanation
Indices: 88318372--88318429 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
88318362 ACGTTTACCG
*
88318372 CTATTAGCAGCTTTACTGCTTTA
1 CTATTAGCAGCTTTACTACTTTA
* * *
88318395 CTATTAGTAGCTTTGCTATTTTA
1 CTATTAGCAGCTTTACTACTTTA
88318418 CTATTAGCAGCT
1 CTATTAGCAGCT
88318430 ACACTGCGAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.22, C:0.19, G:0.14, T:0.45
Consensus pattern (23 bp):
CTATTAGCAGCTTTACTACTTTA
Found at i:88327230 original size:18 final size:18
Alignment explanation
Indices: 88327206--88327261 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
88327196 AGATAATAAC
88327206 ATTGAAAT-GGAAAATGAT
1 ATTGAAATAGG-AAATGAT
*
88327224 GTTGAAATAGGAAATGAT
1 ATTGAAATAGGAAATGAT
**
88327242 ATTGAAATAACAAATGAT
1 ATTGAAATAGGAAATGAT
88327260 AT
1 AT
88327262 GGAATAGACT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
18 31 0.94
19 2 0.06
ACGTcount: A:0.50, C:0.02, G:0.20, T:0.29
Consensus pattern (18 bp):
ATTGAAATAGGAAATGAT
Found at i:88328349 original size:20 final size:20
Alignment explanation
Indices: 88328324--88328377 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
88328314 CTTTTTCATA
88328324 AAATATTGATACCCAAAAAT
1 AAATATTGATACCCAAAAAT
88328344 AAATATTGATACCCAAAAAT
1 AAATATTGATACCCAAAAAT
88328364 AAATATTGATACCC
1 AAATATTGATACCC
88328378 TTGTTTCTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.52, C:0.17, G:0.06, T:0.26
Consensus pattern (20 bp):
AAATATTGATACCCAAAAAT
Found at i:88330020 original size:37 final size:37
Alignment explanation
Indices: 88329970--88330048 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
88329960 TTATTACGAA
* * *
88329970 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
88330007 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
88330044 GTCTT
1 GTCTT
88330049 TAGAGCTCGG
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:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:88330277 original size:47 final size:47
Alignment explanation
Indices: 88330166--88330386 Score: 370
Period size: 47 Copynumber: 4.6 Consensus size: 47
88330156 GCCCTTTGGG
88330166 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCCTATCAC--ATATATAC
*
88330216 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAT
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
***
88330263 ACTTTCACATTCATCACATCGGCCATTAGGAATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
*
88330310 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
88330357 ACTTTCACATTCATCACATCGGCCATTAGG
1 ACTTTCACATTCATCACATCGGCCATTAGG
88330387 TCATACTATC
Statistics
Matches: 164, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
47 125 0.76
49 35 0.21
50 4 0.02
ACGTcount: A:0.31, C:0.29, G:0.09, T:0.31
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
Found at i:88333996 original size:26 final size:25
Alignment explanation
Indices: 88333964--88334063 Score: 127
Period size: 26 Copynumber: 4.0 Consensus size: 25
88333954 AATGCCCATT
88333964 ATGGAACATTTACCTAAACCATTATC
1 ATGGAACATTTACCT-AACCATTATC
88333990 ATGGAACATTTA-C---CCATTATC
1 ATGGAACATTTACCTAACCATTATC
* *
88334011 ATGGAATATTTCCCTAATCCATTATC
1 ATGGAACATTTACCTAA-CCATTATC
88334037 ATGGAACATTTACCTAACCCATTATC
1 ATGGAACATTTACCTAA-CCATTATC
88334063 A
1 A
88334064 ATTTGTACCA
Statistics
Matches: 64, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
21 18 0.28
22 1 0.02
25 1 0.02
26 44 0.69
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.33
Consensus pattern (25 bp):
ATGGAACATTTACCTAACCATTATC
Found at i:88334008 original size:21 final size:21
Alignment explanation
Indices: 88333982--88334050 Score: 75
Period size: 21 Copynumber: 3.0 Consensus size: 21
88333972 TTTACCTAAA
88333982 CCATTATCATGGAACATTTAC
1 CCATTATCATGGAACATTTAC
* *
88334003 CCATTATCATGGAATATTTCCCTAAT
1 CCATTATCATGGAACA-TT---T-AC
88334029 CCATTATCATGGAACATTTAC
1 CCATTATCATGGAACATTTAC
88334050 C
1 C
88334051 TAACCCATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
21 17 0.44
22 3 0.08
25 3 0.08
26 16 0.41
ACGTcount: A:0.32, C:0.25, G:0.09, T:0.35
Consensus pattern (21 bp):
CCATTATCATGGAACATTTAC
Found at i:88338407 original size:95 final size:94
Alignment explanation
Indices: 88338237--88338431 Score: 345
Period size: 95 Copynumber: 2.1 Consensus size: 94
88338227 ATCAGACTAC
88338237 TTAAGTACCAAGCTCCCTTCGGATCCAATCCTAGACATGCACACCGCCATTGCCACACCTTAACG
1 TTAAGTACCAAGCTCCCTTCGGATCCAATCCTAGACATGCACACCGCCATTGCCACACCTTAACG
* *
88338302 TCATGTATATTTCTAGGAAACCGATTTGA
66 TCATGGATATTTCTAGAAAACCGATTTGA
* *
88338331 TTGAAGTACCAAGCTCCCTTTGGATCCAATCCTAGACATGCATACCGCCATTGCCACACCTTAAC
1 TT-AAGTACCAAGCTCCCTTCGGATCCAATCCTAGACATGCACACCGCCATTGCCACACCTTAAC
88338396 GTCATGGATATTTCTAGAAAACCGATTTGA
65 GTCATGGATATTTCTAGAAAACCGATTTGA
88338426 TTAAGT
1 TTAAGT
88338432 CATTTTTAGG
Statistics
Matches: 96, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
94 6 0.06
95 90 0.94
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (94 bp):
TTAAGTACCAAGCTCCCTTCGGATCCAATCCTAGACATGCACACCGCCATTGCCACACCTTAACG
TCATGGATATTTCTAGAAAACCGATTTGA
Found at i:88339279 original size:26 final size:26
Alignment explanation
Indices: 88339250--88339302 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
88339240 TCAAACATGC
88339250 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
88339276 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
88339302 A
1 A
88339303 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:88340819 original size:26 final size:26
Alignment explanation
Indices: 88340788--88340921 Score: 214
Period size: 26 Copynumber: 5.2 Consensus size: 26
88340778 TGAAATGCCC
*
88340788 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
88340814 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
88340840 ATCATGGAATATTTACCTAATCCGTT
1 ATCATGGAACATTTACCTAACCCATT
* *
88340866 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
88340892 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
88340918 ATCA
1 ATCA
88340922 ATTTGTACCA
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 101 1.00
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:88343600 original size:15 final size:16
Alignment explanation
Indices: 88343569--88343602 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
88343559 TTTCATCTCA
88343569 TTTGAATTTAGGTTAG
1 TTTGAATTTAGGTTAG
*
88343585 TTTGCATTTA-GTTAG
1 TTTGAATTTAGGTTAG
88343600 TTT
1 TTT
88343603 ATTTAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.21, C:0.03, G:0.21, T:0.56
Consensus pattern (16 bp):
TTTGAATTTAGGTTAG
Found at i:88348820 original size:35 final size:35
Alignment explanation
Indices: 88348774--88349160 Score: 774
Period size: 35 Copynumber: 11.1 Consensus size: 35
88348764 GTTTTAAATT
88348774 TAACTCGATTCGTGGAACATGTGGAGAAGCCCATC
1 TAACTCGATTCGTGGAACATGTGGAGAAGCCCATC
88348809 TAACTCGATTCGTGGAACATGTGGAGAAGCCCATC
1 TAACTCGATTCGTGGAACATGTGGAGAAGCCCATC
88348844 TAACTCGATTCGTGGAACATGTGGAGAAGCCCATC
1 TAACTCGATTCGTGGAACATGTGGAGAAGCCCATC
88348879 TAACTCGATTCGTGGAACATGTGGAGAAGCCCATC
1 TAACTCGATTCGTGGAACATGTGGAGAAGCCCATC
88348914 TAACTCGATTCGTGGAACATGTGGAGAAGCCCATC
1 TAACTCGATTCGTGGAACATGTGGAGAAGCCCATC
88348949 TAACTCGATTCGTGGAACATGTGGAGAAGCCCATC
1 TAACTCGATTCGTGGAACATGTGGAGAAGCCCATC
88348984 TAACTCGATTCGTGGAACATGTGGAGAAGCCCATC
1 TAACTCGATTCGTGGAACATGTGGAGAAGCCCATC
88349019 TAACTCGATTCGTGGAACATGTGGAGAAGCCCATC
1 TAACTCGATTCGTGGAACATGTGGAGAAGCCCATC
88349054 TAACTCGATTCGTGGAACATGTGGAGAAGCCCATC
1 TAACTCGATTCGTGGAACATGTGGAGAAGCCCATC
88349089 TAACTCGATTCGTGGAACATGTGGAGAAGCCCATC
1 TAACTCGATTCGTGGAACATGTGGAGAAGCCCATC
88349124 TAACTCGATTCGTGGAACATGTGGAGAAGCCCATC
1 TAACTCGATTCGTGGAACATGTGGAGAAGCCCATC
88349159 TA
1 TA
88349161 CTTAAAGCCT
Statistics
Matches: 352, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 352 1.00
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.23
Consensus pattern (35 bp):
TAACTCGATTCGTGGAACATGTGGAGAAGCCCATC
Found at i:88350526 original size:36 final size:36
Alignment explanation
Indices: 88350479--88350547 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
88350469 AAGCCATCCG
*
88350479 TAGGTCCACAGTCGTCTTGGGTGACCCGTGCAATCT
1 TAGGTCCACAGTCATCTTGGGTGACCCGTGCAATCT
88350515 TAGGTCCACAGTCATCTTGGGTGACCCGTGCAA
1 TAGGTCCACAGTCATCTTGGGTGACCCGTGCAA
88350548 CCATATCAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.19, C:0.28, G:0.28, T:0.26
Consensus pattern (36 bp):
TAGGTCCACAGTCATCTTGGGTGACCCGTGCAATCT
Found at i:88350726 original size:27 final size:27
Alignment explanation
Indices: 88350696--88350826 Score: 131
Period size: 27 Copynumber: 4.9 Consensus size: 27
88350686 GGCAAATCAA
* *
88350696 TCATTTTATCTTACAGGGGTATTATAG
1 TCATTTTACCCTACAGGGGTATTATAG
* *
88350723 TCATTTTACCCTATAGGGGTATTACAG
1 TCATTTTACCCTACAGGGGTATTATAG
* * *
88350750 TCATTTGACCCTATCA-GGGTATTTTGG
1 TCATTTTACCCTA-CAGGGGTATTATAG
* *
88350777 TCATTTTACCTTACAGGGGTATT-TCG
1 TCATTTTACCCTACAGGGGTATTATAG
**
88350803 ATCATTTTACCCTATGGGGGTATT
1 -TCATTTTACCCTACAGGGGTATT
88350827 TCGGTCCAAC
Statistics
Matches: 86, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
26 4 0.05
27 81 0.94
28 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (27 bp):
TCATTTTACCCTACAGGGGTATTATAG
Found at i:88350827 original size:54 final size:54
Alignment explanation
Indices: 88350711--88350832 Score: 147
Period size: 54 Copynumber: 2.3 Consensus size: 54
88350701 TTATCTTACA
* * *
88350711 GGGGTATTATAGTCATTTTACCCTATAGGGGTATTACAGTCATTTGACCCTATC
1 GGGGTATTTTGGTCATTTTACCCTACAGGGGTATTACAGTCATTTGACCCTATC
* * * * *
88350765 AGGGTATTTTGGTCATTTTACCTTACAGGGGTATTTC-GATCATTTTACCCTATG
1 GGGGTATTTTGGTCATTTTACCCTACAGGGGTATTACAG-TCATTTGACCCTATC
*
88350819 GGGGTATTTCGGTC
1 GGGGTATTTTGGTC
88350833 CAACATGGCC
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
53 1 0.02
54 56 0.98
ACGTcount: A:0.20, C:0.17, G:0.23, T:0.39
Consensus pattern (54 bp):
GGGGTATTTTGGTCATTTTACCCTACAGGGGTATTACAGTCATTTGACCCTATC
Found at i:88353971 original size:91 final size:91
Alignment explanation
Indices: 88353812--88354026 Score: 267
Period size: 91 Copynumber: 2.4 Consensus size: 91
88353802 CGGACACTCC
* *
88353812 AGTTTGTGGATGAACCACCAGTG-TTGCTAGTTAATACGTTGCCACTAGGTTGTGAATGCACAAC
1 AGTTTGTGGATAAACCACCAGTGTTTGCTAGTTAATACGCTGCCACTAGGTTGTGAATGCACAAC
88353876 GGGTTTGCAAATAAAAGCTTCT-AGTA
66 GGGTTTGCAAATAAAA-CTTCTCAGTA
* * *
88353902 AGTTTATGGATAAACCACCAGTGTTTGC-AGGTTAATACGCTGCCAGTAGGTTGTGAATGCATAA
1 AGTTTGTGGATAAACCACCAGTGTTTGCTA-GTTAATACGCTGCCACTAGGTTGTGAATGCACAA
* * * * *
88353966 TGGGTTTGTAGATAAAATTTGTCAGTA
65 CGGGTTTGCAAATAAAACTTCTCAGTA
* * *
88353993 AGTGTGTGGATAAGCCACTAGTGTTTG-TAGTTAA
1 AGTTTGTGGATAAACCACCAGTGTTTGCTAGTTAA
88354027 ACTGCCAGTA
Statistics
Matches: 107, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
90 30 0.28
91 77 0.72
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (91 bp):
AGTTTGTGGATAAACCACCAGTGTTTGCTAGTTAATACGCTGCCACTAGGTTGTGAATGCACAAC
GGGTTTGCAAATAAAACTTCTCAGTA
Found at i:88354169 original size:39 final size:39
Alignment explanation
Indices: 88354105--88354232 Score: 102
Period size: 38 Copynumber: 3.3 Consensus size: 39
88354095 AAGTATAGAA
* * * *
88354105 AACAGTAGACATG-CTTAACATGTATTCGGTTTGA-CAAT
1 AACAGTAGGCATGTTTTAACATGTATTCAG-TTCATCAAT
* *
88354143 AACAGTAGGCATGTTTTATCATGTATTCAGTTCATCAGT
1 AACAGTAGGCATGTTTTAACATGTATTCAGTTCATCAAT
* * * *
88354182 AATAGTAGGCATG-TTTAAAATGTAATAAGTTCAAT-AAT
1 AACAGTAGGCATGTTTTAACATGTATTCAGTTC-ATCAAT
* *
88354220 GACGGTAGGCATG
1 AACAGTAGGCATG
88354233 CAACCAGTAA
Statistics
Matches: 72, Mismatches: 15, Indels: 6
0.77 0.16 0.06
Matches are distributed among these distances:
38 42 0.58
39 30 0.42
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.33
Consensus pattern (39 bp):
AACAGTAGGCATGTTTTAACATGTATTCAGTTCATCAAT
Found at i:88357267 original size:32 final size:32
Alignment explanation
Indices: 88357226--88357287 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
88357216 ACATCCAAGG
88357226 CCAGCGTAGGATGCATCGATGTACACCACAGA
1 CCAGCGTAGGATGCATCGATGTACACCACAGA
*
88357258 CCAGTGTAGGATGCATCGATGTACACCACA
1 CCAGCGTAGGATGCATCGATGTACACCACA
88357288 TACTTTATTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.31, C:0.27, G:0.24, T:0.18
Consensus pattern (32 bp):
CCAGCGTAGGATGCATCGATGTACACCACAGA
Found at i:88360011 original size:12 final size:12
Alignment explanation
Indices: 88359994--88360018 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
88359984 ATTAAATAAT
88359994 ATTTAATATTAA
1 ATTTAATATTAA
88360006 ATTTAATATTAA
1 ATTTAATATTAA
88360018 A
1 A
88360019 GTGATTAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
ATTTAATATTAA
Found at i:88361740 original size:18 final size:18
Alignment explanation
Indices: 88361717--88361754 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
88361707 TATCATAAGA
88361717 AAATCAATGCA-AAATAAT
1 AAATCAA-GCATAAATAAT
*
88361735 AAATCAAGCATACATAAT
1 AAATCAAGCATAAATAAT
88361753 AA
1 AA
88361755 CAATTTTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.61, C:0.13, G:0.05, T:0.21
Consensus pattern (18 bp):
AAATCAAGCATAAATAAT
Found at i:88362238 original size:38 final size:38
Alignment explanation
Indices: 88362129--88362238 Score: 100
Period size: 38 Copynumber: 2.9 Consensus size: 38
88362119 TCAGTATAGA
* * *
88362129 AACAATAGACATGCTTAACATGTATTCGGTTTGAT-AGT
1 AACAATAGACATGTTTAACATGTAATCGG-TTCATCAGT
* * *
88362167 AACAATA-AGCATTTTTTATCATGT-ATCTAGTTCATCAGT
1 AACAATAGA-CA-TGTTTAACATGTAATC-GGTTCATCAGT
*
88362206 AACAGTAGACATGTTTAACATGTAATCGGTTCA
1 AACAATAGACATGTTTAACATGTAATCGGTTCA
88362239 ACGGTAACGG
Statistics
Matches: 56, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
37 1 0.02
38 30 0.54
39 24 0.43
40 1 0.02
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (38 bp):
AACAATAGACATGTTTAACATGTAATCGGTTCATCAGT
Found at i:88363148 original size:12 final size:13
Alignment explanation
Indices: 88363127--88363161 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
88363117 AGATGAAGAT
88363127 GGAAAAGAAA-AG
1 GGAAAAGAAATAG
*
88363139 GGAGAAGAAATAG
1 GGAAAAGAAATAG
88363152 GGAAAAGAAA
1 GGAAAAGAAA
88363162 GCAAAAATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.63, C:0.00, G:0.34, T:0.03
Consensus pattern (13 bp):
GGAAAAGAAATAG
Found at i:88364313 original size:30 final size:30
Alignment explanation
Indices: 88364279--88364338 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
88364269 ACTTAATAAG
* *
88364279 CAAATAACTTTAAAATTATAGCAAAATTAA
1 CAAATAACTTTAAAATAATACCAAAATTAA
**
88364309 CAAATGCCTTTAAAATAATACCAAAATTAA
1 CAAATAACTTTAAAATAATACCAAAATTAA
88364339 TAATAAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.55, C:0.13, G:0.03, T:0.28
Consensus pattern (30 bp):
CAAATAACTTTAAAATAATACCAAAATTAA
Found at i:88364464 original size:24 final size:24
Alignment explanation
Indices: 88364432--88364481 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
88364422 CACTAACTCA
88364432 ATCAAAATCTTAAATATAGTAGAG
1 ATCAAAATCTTAAATATAGTAGAG
*
88364456 ATCAAAATCTTAAATATAGTATAG
1 ATCAAAATCTTAAATATAGTAGAG
88364480 AT
1 AT
88364482 AATTCTAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.08, G:0.10, T:0.32
Consensus pattern (24 bp):
ATCAAAATCTTAAATATAGTAGAG
Found at i:88365508 original size:20 final size:20
Alignment explanation
Indices: 88365467--88365509 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
88365457 ATTAACGCTA
* *
88365467 TTAAACAGTAAATTATATTT
1 TTAAACAATAAATTATAATT
88365487 TTAAACAATAAATGT-TAATT
1 TTAAACAATAAAT-TATAATT
88365507 TTA
1 TTA
88365510 TTCCAATTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 19 0.95
21 1 0.05
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.44
Consensus pattern (20 bp):
TTAAACAATAAATTATAATT
Found at i:88368924 original size:18 final size:18
Alignment explanation
Indices: 88368884--88369000 Score: 175
Period size: 18 Copynumber: 6.6 Consensus size: 18
88368874 AATCATATCT
* *
88368884 TCTAAGATTGTATATCATG
1 TCTAAGATTGCA-ATCATA
88368903 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
88368921 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
88368938 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
88368956 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
88368973 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
88368991 TCTAAGATTG
1 TCTAAGATTG
88369001 NNNNNNNNNN
Statistics
Matches: 90, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
17 32 0.36
18 47 0.52
19 11 0.12
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.38
Consensus pattern (18 bp):
TCTAAGATTGCAATCATA
Found at i:88368942 original size:35 final size:35
Alignment explanation
Indices: 88368884--88369000 Score: 207
Period size: 35 Copynumber: 3.3 Consensus size: 35
88368874 AATCATATCT
*
88368884 TCTAAGATTGTATATCATGTCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
88368921 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
88368956 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
88368991 TCTAAGATTG
1 TCTAAGATTG
88369001 NNNNNNNNNN
Statistics
Matches: 79, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
35 69 0.87
37 10 0.13
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.38
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:88372879 original size:14 final size:13
Alignment explanation
Indices: 88372817--88372918 Score: 59
Period size: 14 Copynumber: 7.2 Consensus size: 13
88372807 TTGCTATTAT
88372817 TTTTATGTT-TCTA
1 TTTTAT-TTATCTA
88372830 TTTATATTTAT-T-
1 TTT-TATTTATCTA
88372842 TTGTTATTCTAATACTA
1 TT-TTATT-T-AT-CTA
88372859 TTATTATTTATCTAA
1 TT-TTATTTATCT-A
88372874 TTTTATTTATCTA
1 TTTTATTTATCTA
*
88372887 TTTATATTTCTACTA
1 TTT-TATTTAT-CTA
88372902 TTATTATATT-TCTA
1 TT-TTAT-TTATCTA
88372916 TTT
1 TTT
88372919 ATTATATTTT
Statistics
Matches: 74, Mismatches: 2, Indels: 26
0.73 0.02 0.25
Matches are distributed among these distances:
12 6 0.08
13 13 0.18
14 29 0.39
15 14 0.19
16 5 0.07
17 7 0.09
ACGTcount: A:0.25, C:0.08, G:0.02, T:0.65
Consensus pattern (13 bp):
TTTTATTTATCTA
Found at i:88372891 original size:29 final size:30
Alignment explanation
Indices: 88372814--88372923 Score: 79
Period size: 29 Copynumber: 3.8 Consensus size: 30
88372804 TTATTGCTAT
* * **
88372814 TATTTTTATGTTTCTATTTA-TATTTATTT
1 TATTATTATATTTCTATTTATTATTTATAC
* * * *
88372843 TGTTATTCTAATACTA-TTATTATTTAT-C
1 TATTATTATATTTCTATTTATTATTTATAC
*
88372871 TAATT-TTAT-TTATCTATTTA-TATTTCTAC
1 T-ATTATTATATT-TCTATTTATTATTTATAC
88372900 TATTATTATATTTCTATTTATTAT
1 TATTATTATATTTCTATTTATTAT
88372924 ATTTTTATTT
Statistics
Matches: 61, Mismatches: 12, Indels: 15
0.69 0.14 0.17
Matches are distributed among these distances:
27 1 0.02
28 19 0.31
29 36 0.59
30 5 0.08
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.65
Consensus pattern (30 bp):
TATTATTATATTTCTATTTATTATTTATAC
Found at i:88372920 original size:15 final size:15
Alignment explanation
Indices: 88372888--88372933 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
88372878 ATTTATCTAT
88372888 TTATATTTCTACTATTA
1 TTATATTTCTA-T-TTA
88372905 TTATATTTCTATTTA
1 TTATATTTCTATTTA
*
88372920 TTATATTTTTATTT
1 TTATATTTCTATTT
88372934 CTATTTATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATATTTCTATTTA
Found at i:88372926 original size:23 final size:23
Alignment explanation
Indices: 88372900--88372966 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 23
88372890 ATATTTCTAC
88372900 TATTATTATATTTCTATTTATTA
1 TATTATTATATTTCTATTTATTA
88372923 TATT-TT-TATTTCTATTTATATA
1 TATTATTATATTTCTATTTAT-TA
*
88372945 CTAATATTAT-TTTC-A-TTATTA
1 -TATTATTATATTTCTATTTATTA
88372966 T
1 T
88372967 TTTTCTTATA
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
20 1 0.03
21 15 0.38
22 8 0.21
23 8 0.21
24 6 0.15
25 1 0.03
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (23 bp):
TATTATTATATTTCTATTTATTA
Found at i:88373536 original size:126 final size:125
Alignment explanation
Indices: 88373296--88373556 Score: 357
Period size: 126 Copynumber: 2.1 Consensus size: 125
88373286 AACATAAGGA
* *
88373296 AATATTTCGTGTTGGGGAGTTCGAGGAATCGTGCCCTGTCATGCTGGGTTTCGATTTTTCGTTCA
1 AATATTTCGTGTTGGGGAGTTCGAGGAATCGTGCCCTATCATGCTGGGTTTCGATTTTTCATTCA
* * *
88373361 ACTAAAATACGGAATGTCCTTTGAAAATTTCGTCCATGCTTTTTAAAATTAAAATGAGGC
66 ACTAAAATACGGAATATCCTTTGAAAATTTCATCCATGCTTTTTAAAATTAAAATGAGAC
* * *
88373421 AATATTTCGTGTTTGGGGAGTTTGA-GAGATCGTGTCCTATCGTGCTGGGTTTCGATTTTTCATT
1 AATATTTCGTG-TTGGGGAGTTCGAGGA-ATCGTGCCCTATCATGCTGGGTTTCGATTTTTCATT
* * * *
88373485 CGACTAAGATACGGAATATCCTTTTG-ACATTTCATCCATG-TTTTCTTAAATTAAAATGAGAC
64 CAACTAAAATACGGAATATCC-TTTGAAAATTTCATCCATGCTTTT-TAAAATTAAAATGAGAC
88373547 AATATTTCGT
1 AATATTTCGT
88373557 ATTTAGAAAT
Statistics
Matches: 120, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
125 17 0.14
126 99 0.82
127 4 0.03
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.38
Consensus pattern (125 bp):
AATATTTCGTGTTGGGGAGTTCGAGGAATCGTGCCCTATCATGCTGGGTTTCGATTTTTCATTCA
ACTAAAATACGGAATATCCTTTGAAAATTTCATCCATGCTTTTTAAAATTAAAATGAGAC
Found at i:88375044 original size:19 final size:19
Alignment explanation
Indices: 88375020--88375065 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
88375010 CTTACTTTCT
88375020 TTTGCATT-CATTCCATGCA
1 TTTGCATTGCATTCCAT-CA
*
88375039 TTTGCATTGCATTGCATCA
1 TTTGCATTGCATTCCATCA
*
88375058 TGTGCATT
1 TTTGCATT
88375066 AAACTTCACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.43
Consensus pattern (19 bp):
TTTGCATTGCATTCCATCA
Found at i:88379641 original size:89 final size:89
Alignment explanation
Indices: 88379532--88379739 Score: 330
Period size: 89 Copynumber: 2.3 Consensus size: 89
88379522 ATGGCGAGTT
* * *
88379532 TTATCTCCATATCTCAGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAAGTAGCAAG
1 TTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAAGTAGCAAG
*
88379597 AGAGCAGGTTGAAAA-TTGCAGG-TC
66 AGAGCAGGTT-AAAAGTTAC-GGATC
* *
88379621 TTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAAGTAGCAAG
1 TTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAAGTAGCAAG
88379686 AGAGCAGGTTAAAAGTTACGGATC
66 AGAGCAGGTTAAAAGTTACGGATC
88379710 TTATCTCCATGTATCGGCTATGGAGCAGAT
1 TTATCTCCATGTATCGGCTATGGAGCAGAT
88379740 CGAAAATGGT
Statistics
Matches: 111, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
88 6 0.05
89 105 0.95
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (89 bp):
TTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAAGTAGCAAG
AGAGCAGGTTAAAAGTTACGGATC
Found at i:88379713 original size:134 final size:131
Alignment explanation
Indices: 88379618--88379963 Score: 566
Period size: 134 Copynumber: 2.6 Consensus size: 131
88379608 AAAATTGCAG
* * *
88379618 GTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAAGTAGC
1 GTCTTATCTCCATGTTTCAGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTAGC
88379683 AAGAGAGCAGGTTAAAAGTTACGGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATG
66 AAGAGAGCAGGTTAAAAGTTACGGATCTTATCTCCATGTA-C-GCTATGGAGCAGATCGAAAAT-
88379748 GTGA
128 GTGA
*
88379752 GTCTTATCTCCATGTTTCAGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAAGTAGC
1 GTCTTATCTCCATGTTTCAGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTAGC
88379817 AAGAGAGCAGGTTAAAAGTTACGGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATG
66 AAGAGAGCAGGTTAAAAGTTACGGATCTTATCTCCATGTA-C-GCTATGGAGCAGATCGAAAAT-
88379882 GTGA
128 GTGA
* *
88379886 GTCTTATCTCCATGTTTCAGCTATGGAGCAGATTTTAGCCACCAGTCTTATCTCTCTGAGGTAGC
1 GTCTTATCTCCATGTTTCAGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTAGC
* *
88379951 AAGATAGTAGGTT
66 AAGAGAGCAGGTT
88379964 GAAGATACAA
Statistics
Matches: 203, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
134 203 1.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (131 bp):
GTCTTATCTCCATGTTTCAGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTAGC
AAGAGAGCAGGTTAAAAGTTACGGATCTTATCTCCATGTACGCTATGGAGCAGATCGAAAATGTG
A
Found at i:88379736 original size:45 final size:46
Alignment explanation
Indices: 88379687--88379919 Score: 134
Period size: 45 Copynumber: 5.2 Consensus size: 46
88379677 AGTAGCAAGA
*
88379687 GAGCAGGTTAAAAGTTACGGA-TCTTATCTCCATGTATCGGCTATG
1 GAGCAGATTAAAAGTTACGGAGTCTTATCTCCATGTATCGGCTATG
* * * *
88379732 GAGCAGATCGAAAA--T-GGTGAGTCTTATCTCCATGTTTCAGCTATG
1 GAGCAGAT-TAAAAGTTACG-GAGTCTTATCTCCATGTATCGGCTATG
** ** * * * *
88379777 GAGCAGATT-TTAGCCAC-CAGCCTTATCTCTCTAAAGTA---GC-AAG
1 GAGCAGATTAAAAGTTACGGAGTCTTATCTC-C--ATGTATCGGCTATG
*
88379820 AGAGCAGGTTAAAAGTTACGGA-TCTTATCTCCATGTATCGGCTATG
1 -GAGCAGATTAAAAGTTACGGAGTCTTATCTCCATGTATCGGCTATG
* * * *
88379866 GAGCAGATCGAAAA--T-GGTGAGTCTTATCTCCATGTTTCAGCTATG
1 GAGCAGAT-TAAAAGTTACG-GAGTCTTATCTCCATGTATCGGCTATG
88379911 GAGCAGATT
1 GAGCAGATT
88379920 TTAGCCACCA
Statistics
Matches: 139, Mismatches: 30, Indels: 39
0.67 0.14 0.19
Matches are distributed among these distances:
42 4 0.03
43 5 0.04
44 27 0.19
45 89 0.64
46 11 0.08
47 3 0.02
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.30
Consensus pattern (46 bp):
GAGCAGATTAAAAGTTACGGAGTCTTATCTCCATGTATCGGCTATG
Found at i:88379829 original size:223 final size:223
Alignment explanation
Indices: 88379441--88379873 Score: 694
Period size: 223 Copynumber: 1.9 Consensus size: 223
88379431 ATTTACAGGT
*
88379441 CTTATCTTCTTGAGGTAGCAAGAAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCT
1 CTTATCTTCTTGAAGTAGCAAGAAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCT
*
88379506 ATGAAGCAAATCGAAAATGGCGAGTTTTATCTCCATATCTCAGCTATGGAGCAGATTTTAGCCAC
66 ATGAAGCAAATCGAAAATGGCGAGTCTTATCTCCATATCTCAGCTATGGAGCAGATTTTAGCCAC
*
88379571 CAGCCTTATCTCTCTAAAGTAGCAAGAGAGCAGGTTGAAAA-TTGCAGG-TCTTATCTCCATGTA
131 CAGCCTTATCTCTCTAAAGTAGCAAGAGAGCAGGTT-AAAAGTTAC-GGATCTTATCTCCATGTA
88379634 TCGGCTATGGAGCAGATTTTAGCCACTAGC
194 TCGGCTATGGAGCAGATTTTAGCCACTAGC
* * * *
88379664 CTTATC-TCTCTGAAGTAGCAAGAGAGCAG-GTTAAAAGTTACGGATCTTATCTCCATGTATCGG
1 CTTATCTTCT-TGAAGTAGCAAGAAAGCAGACTGAAAA-TTACAGATCTTATCTCCATGTATCGG
* * * * *
88379727 CTATGGAGCAGATCGAAAATGGTGAGTCTTATCTCCATGTTTCAGCTATGGAGCAGATTTTAGCC
64 CTATGAAGCAAATCGAAAATGGCGAGTCTTATCTCCATATCTCAGCTATGGAGCAGATTTTAGCC
88379792 ACCAGCCTTATCTCTCTAAAGTAGCAAGAGAGCAGGTTAAAAGTTACGGATCTTATCTCCATGTA
129 ACCAGCCTTATCTCTCTAAAGTAGCAAGAGAGCAGGTTAAAAGTTACGGATCTTATCTCCATGTA
88379857 TCGGCTATGGAGCAGAT
194 TCGGCTATGGAGCAGAT
88379874 CGAAAATGGT
Statistics
Matches: 194, Mismatches: 12, Indels: 8
0.91 0.06 0.04
Matches are distributed among these distances:
222 14 0.07
223 180 0.93
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (223 bp):
CTTATCTTCTTGAAGTAGCAAGAAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCT
ATGAAGCAAATCGAAAATGGCGAGTCTTATCTCCATATCTCAGCTATGGAGCAGATTTTAGCCAC
CAGCCTTATCTCTCTAAAGTAGCAAGAGAGCAGGTTAAAAGTTACGGATCTTATCTCCATGTATC
GGCTATGGAGCAGATTTTAGCCACTAGC
Found at i:88380036 original size:178 final size:178
Alignment explanation
Indices: 88379812--88380407 Score: 881
Period size: 178 Copynumber: 3.3 Consensus size: 178
88379802 TCTCTCTAAA
** * *
88379812 GTAGCAA-GAGAGCAGGTTAAAAGTTACGGATCTTATCTCCATGTATCGGCTATGGAGCAGATCG
1 GTAGCAAGGA-AGCAGACTAAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCG
* *
88379876 AAAATGGTGAGTCTTATCTCCATGTTTCAGCTATGGAGCAGATTTTAGCCACCAGTCTTATCTCT
65 AAAATGGTGAGTCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCT
*
88379941 CTGAGGTAGCAAGATAGTAGGTTGAAGATACAAGTCTTATCTTCCTCAG
130 CTGAGGTAGCAAGAGAGTAGGTTGAAGATACAAGTCTTATCTTCCTCAG
* * * * * ** *
88379990 GTAGTAAGGAAGTAGACTAAAAATTACAGATATTATCTCTATGTATCGGCTATAGAATAGATCAA
1 GTAGCAAGGAAGCAGACTAAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGA
* * * * *
88380055 AAATGGCGAGTCTTATCTCCACGTATCGGCTATGGAGTAGATTTTAGCCACTAGCCTTATCTCTC
66 AAATGGTGAGTCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTC
* *
88380120 TAAGGTAGCAAGAGAGTAGGTTGAAGATACAAGTCTTATATTCCTCAG
131 TGAGGTAGCAAGAGAGTAGGTTGAAGATACAAGTCTTATCTTCCTCAG
88380168 GTAGCAAGGAAGCAGACTAAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGAT-GA
1 GTAGCAAGGAAGCAGACTAAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCG-
* *
88380232 AAAATGGTAAGTCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCT
65 AAAATGGTGAGTCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCT
* * * *
88380297 CTGAGGTAGTAAGAGAGCAGGTTGAAGATACAAATCTTATCTTCCTAAG
130 CTGAGGTAGCAAGAGAGTAGGTTGAAGATACAAGTCTTATCTTCCTCAG
* * *
88380346 GTAGCAGGGAAGCAGACTAAAAATTACAGATTTTATCTCCATGTATCGGCTATGGAGTAGAT
1 GTAGCAAGGAAGCAGACTAAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGAT
88380408 TTTAGCCACC
Statistics
Matches: 370, Mismatches: 46, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
178 368 0.99
179 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (178 bp):
GTAGCAAGGAAGCAGACTAAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGA
AAATGGTGAGTCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTC
TGAGGTAGCAAGAGAGTAGGTTGAAGATACAAGTCTTATCTTCCTCAG
Found at i:88380608 original size:133 final size:133
Alignment explanation
Indices: 88380245--88380608 Score: 674
Period size: 133 Copynumber: 2.7 Consensus size: 133
88380235 ATGGTAAGTC
* * * * *
88380245 TTATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAGGTAGTAAG
1 TTATCTCCATGTATCGGCTATGGAGTAGATTTTAGCCACCAGCCTTATCTCTTTGAGGTAGCAAG
88380310 AGAGCAGGTTGAAGATACAAATCTTATCTTCCTAAGGTAGCAGGGAAGCAGACTAAAAATTACAG
66 AGAGCAGGTTGAAGATACAAATCTTATCTTCCTAAGGTAGCAGGGAAGCAGACTAAAAATTACAG
88380375 ATT
131 ATT
88380378 TTATCTCCATGTATCGGCTATGGAGTAGATTTTAGCCACCAGCCTTATCTCTTTGAGGTAGCAAG
1 TTATCTCCATGTATCGGCTATGGAGTAGATTTTAGCCACCAGCCTTATCTCTTTGAGGTAGCAAG
88380443 AGAGCAGGTTGAAGATACAAATCTTATCTTCCTAAGGTAGCAGGGAAGCAGACTAAAAATTACAG
66 AGAGCAGGTTGAAGATACAAATCTTATCTTCCTAAGGTAGCAGGGAAGCAGACTAAAAATTACAG
88380508 ATT
131 ATT
88380511 TTATCTCCATGTATCGGCTATGGAGTAGATTTTAGCCACCAGCCTTATCTCTTTGAGGTAGCAAG
1 TTATCTCCATGTATCGGCTATGGAGTAGATTTTAGCCACCAGCCTTATCTCTTTGAGGTAGCAAG
*
88380576 AGAGCAGGTTGAAGATACAAGTCTTATCTTCCT
66 AGAGCAGGTTGAAGATACAAATCTTATCTTCCT
88380609 TTATCTCTCT
Statistics
Matches: 225, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
133 225 1.00
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.29
Consensus pattern (133 bp):
TTATCTCCATGTATCGGCTATGGAGTAGATTTTAGCCACCAGCCTTATCTCTTTGAGGTAGCAAG
AGAGCAGGTTGAAGATACAAATCTTATCTTCCTAAGGTAGCAGGGAAGCAGACTAAAAATTACAG
ATT
Found at i:88380680 original size:45 final size:45
Alignment explanation
Indices: 88380631--88380907 Score: 203
Period size: 45 Copynumber: 6.2 Consensus size: 45
88380621 AGTAGCAAGA
*
88380631 GAGCAGGTTGAAAATTGCAGGTCTTATCTCCATGTATCGGCTATG
1 GAGCAGATTGAAAATTGCAGGTCTTATCTCCATGTATCGGCTATG
** * *
88380676 GAGCAGATCAAAAATGGC-GAGTCTTATCTCTATGTATCGGCTATG
1 GAGCAGATTGAAAATTGCAG-GTCTTATCTCCATGTATCGGCTATG
** ** * * * *
88380721 GAGCAGATTTTAGCTTCCA-GCCTTATCTCTCTAAAGTA---GC-AAG
1 GAGCAGATTGAAAATTGCAGGTCTTATCTC-C--ATGTATCGGCTATG
* *
88380764 AGAGCA-AGTTGAAAATTGTAGGTCTTATCTCCATGTATCGGCTATA
1 -GAGCAGA-TTGAAAATTGCAGGTCTTATCTCCATGTATCGGCTATG
* * * * *
88380810 GAGCAGACTGAGAATTACAGATCTTATCTCCATGTATCAGCTATG
1 GAGCAGATTGAAAATTGCAGGTCTTATCTCCATGTATCGGCTATG
* * * *
88380855 GAGCAGATCGAAAATGGC-GAGTCTTATCTCCATTTA-CGGATATG
1 GAGCAGATTGAAAATTGCAG-GTCTTATCTCCATGTATCGGCTATG
*
88380899 GAGTAGATT
1 GAGCAGATT
88380908 TTAGCCACCA
Statistics
Matches: 174, Mismatches: 44, Indels: 29
0.70 0.18 0.12
Matches are distributed among these distances:
42 4 0.02
43 3 0.02
44 38 0.22
45 123 0.71
46 2 0.01
47 4 0.02
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (45 bp):
GAGCAGATTGAAAATTGCAGGTCTTATCTCCATGTATCGGCTATG
Found at i:88380743 original size:188 final size:179
Alignment explanation
Indices: 88380511--88380984 Score: 560
Period size: 188 Copynumber: 2.6 Consensus size: 179
88380501 ATTACAGATT
* *
88380511 TTATCTCCATGTATCGGCTATGGAGTAGATTTTAGCCACCAGCCTTATCTCTTTGAGGTAGCAAG
1 TTATCTCCATGTATCGGCTATGGAGTAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTAGCAAG
* * *
88380576 AGAGCAGGTTGAAGA-TACAAGTCTTATCTTCC-TTTATCTCTCTAAAGTAGCAAGAGAGCAGGT
66 AGAGCAGGTTGAAAATTACAAGTCTTATC-TCCATGTATC-CGCTAAAG-AGC---AGA-C----
* * *
88380639 TGAAAATTGCAGGTCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATGGCGAGTC
120 TGAAAATTACAGATCTTATCTCCATGTATCAGCTATGGAGCAGATCAAAAATGGCGAGTC
* * ** *
88380699 TTATCTCTATGTATCGGCTATGGAGCAGATTTTAGCTTCCAGCCTTATCTCTCTAAAGTAGCAAG
1 TTATCTCCATGTATCGGCTATGGAGTAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTAGCAAG
* ** * * * *
88380764 AGAGCAAGTTGAAAATTGTAGGTCTTATCTCCATGTATCGGCTATAGAGCAGACTGAGAATTACA
66 AGAGCAGGTTGAAAATTACAAGTCTTATCTCCATGTATCCGCTAAAGAGCAGACTGAAAATTACA
*
88380829 GATCTTATCTCCATGTATCAGCTATGGAGCAGATCGAAAATGGCGAGTC
131 GATCTTATCTCCATGTATCAGCTATGGAGCAGATCAAAAATGGCGAGTC
* * * * *
88380878 TTATCTCCATTTA-CGGATATGGAGTAGATTTTAGCCACCAACCTTATCTCTCTGAAATAGTAAG
1 TTATCTCCATGTATCGGCTATGGAGTAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTAGCAAG
* * *
88380942 AGAGCAGGTTGAAAGTTACTA-TCTTATCTCCATGTATCGGCTA
66 AGAGCAGGTTGAAAATTACAAGTCTTATCTCCATGTATCCGCTA
88380985 TGGAGAAGAT
Statistics
Matches: 247, Mismatches: 37, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
177 22 0.09
178 58 0.23
179 66 0.27
183 1 0.00
184 3 0.01
187 3 0.01
188 79 0.32
189 15 0.06
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (179 bp):
TTATCTCCATGTATCGGCTATGGAGTAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTAGCAAG
AGAGCAGGTTGAAAATTACAAGTCTTATCTCCATGTATCCGCTAAAGAGCAGACTGAAAATTACA
GATCTTATCTCCATGTATCAGCTATGGAGCAGATCAAAAATGGCGAGTC
Found at i:88380779 original size:89 final size:88
Alignment explanation
Indices: 88380686--88380994 Score: 254
Period size: 89 Copynumber: 3.5 Consensus size: 88
88380676 GAGCAGATCA
*
88380686 AAAATGGCGAGTCTTATCTCTATGTATCGGCTATGGAGCAGATTTTAGCTTCCAGCCTTATCTCT
1 AAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCTTCCAGCCTTATCTCT
88380751 CTAAAGTAGCAAGAGAGCAAGTTG
66 CTAAA-TAGCAAGAGAGCAAGTTG
* * * * * * * *
88380775 AAAATTG-TAGGTCTTATCTCCATGTATCGGCTATAGAGCAGA-CTGAGAATTACAGATCTTATC
1 AAAATGGCGA-GTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAG-CTTCCAG-CCTTATC
** * *
88380838 TC-CATGTATCAGCTATG-GAGC-AGATCG
63 TCTC-TAAAT-AGC-AAGAGAGCAAG-TTG
* * * ** *
88380865 AAAATGGCGAGTCTTATCTCCATTTA-CGGATATGGAGTAGATTTTAGCCACCAACCTTATCTCT
1 AAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCTTCCAGCCTTATCTCT
* *
88380929 CTGAAATAGTAAGAGAGCAGGTTG
66 CT-AAATAGCAAGAGAGCAAGTTG
* ** * *
88380953 AAAGTTACTA-TCTTATCTCCATGTATCGGCTATGGAGAAGAT
1 AAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGAT
88380995 CGAAAATGGC
Statistics
Matches: 166, Mismatches: 40, Indels: 29
0.71 0.17 0.12
Matches are distributed among these distances:
87 16 0.10
88 41 0.25
89 63 0.38
90 43 0.26
91 3 0.02
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.30
Consensus pattern (88 bp):
AAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCTTCCAGCCTTATCTCT
CTAAATAGCAAGAGAGCAAGTTG
Found at i:88380853 original size:134 final size:134
Alignment explanation
Indices: 88380609--88380862 Score: 395
Period size: 134 Copynumber: 1.9 Consensus size: 134
88380599 TTATCTTCCT
*
88380609 TTATCTCTCTAAAGTAGCAAGAGAGCAGGTTGAAAATTGCAGGTCTTATCTCCATGTATCGGCTA
1 TTATCTCTCTAAAGTAGCAAGAGAGCAAGTTGAAAATTGCAGGTCTTATCTCCATGTATCGGCTA
* * * *
88380674 TGGAGCAGATCAAAAATGGCGAGTCTTATCTCTATGTATCGGCTATGGAGCAGATTTTAGCTTCC
66 TAGAGCAGATCAAAAATGACGAGTCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAGCTTCC
88380739 AGCC
131 AGCC
*
88380743 TTATCTCTCTAAAGTAGCAAGAGAGCAAGTTGAAAATTGTAGGTCTTATCTCCATGTATCGGCTA
1 TTATCTCTCTAAAGTAGCAAGAGAGCAAGTTGAAAATTGCAGGTCTTATCTCCATGTATCGGCTA
* * *
88380808 TAGAGCAGA-CTGAGAATTAC-AGATCTTATCTCCATGTATCAGCTATGGAGCAGAT
66 TAGAGCAGATC-AAAAATGACGAG-TCTTATCTCCATGTATCAGCTATGGAGCAGAT
88380863 CGAAAATGGC
Statistics
Matches: 109, Mismatches: 9, Indels: 4
0.89 0.07 0.03
Matches are distributed among these distances:
133 3 0.03
134 106 0.97
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (134 bp):
TTATCTCTCTAAAGTAGCAAGAGAGCAAGTTGAAAATTGCAGGTCTTATCTCCATGTATCGGCTA
TAGAGCAGATCAAAAATGACGAGTCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAGCTTCC
AGCC
Found at i:88380880 original size:179 final size:177
Alignment explanation
Indices: 88380643--88380985 Score: 501
Period size: 179 Copynumber: 1.9 Consensus size: 177
88380633 GCAGGTTGAA
* * * *
88380643 AATTGCAGGTCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATGGCGAGTCTTATCTCTA
1 AATTACAGATCTTATCTCCATGTATCAGCTATGGAGCAGATCAAAAATGGCGAGTCTTATCTCCA
* ** *
88380708 TGTATCGGCTATGGAGCAGATTTTAGCTTCCAGCCTTATCTCTCT-AAAGTAGCAAGAGAGCAAG
66 TGTA-CGGATATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAAA-TAGCAAGAGAGCAAG
*
88380772 TTGAAAATT-GTAGGTCTTATCTCCATGTATCGGCTATAGAGCAGACTGAG
129 TTGAAAATTACTA--TCTTATCTCCATGTATCGGCTATAGAGCAGACTGAG
*
88380822 AATTACAGATCTTATCTCCATGTATCAGCTATGGAGCAGATCGAAAATGGCGAGTCTTATCTCCA
1 AATTACAGATCTTATCTCCATGTATCAGCTATGGAGCAGATCAAAAATGGCGAGTCTTATCTCCA
* * * *
88380887 TTTACGGATATGGAGTAGATTTTAGCCACCAACCTTATCTCTCTGAAATAGTAAGAGAGCAGGTT
66 TGTACGGATATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAAATAGCAAGAGAGCAAGTT
*
88380952 GAAAGTTACTATCTTATCTCCATGTATCGGCTAT
131 GAAAATTACTATCTTATCTCCATGTATCGGCTAT
88380986 GGAGAAGATC
Statistics
Matches: 147, Mismatches: 15, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
177 23 0.16
178 56 0.38
179 68 0.46
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (177 bp):
AATTACAGATCTTATCTCCATGTATCAGCTATGGAGCAGATCAAAAATGGCGAGTCTTATCTCCA
TGTACGGATATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAAATAGCAAGAGAGCAAGTT
GAAAATTACTATCTTATCTCCATGTATCGGCTATAGAGCAGACTGAG
Found at i:88380985 original size:132 final size:133
Alignment explanation
Indices: 88380830--88381087 Score: 392
Period size: 132 Copynumber: 1.9 Consensus size: 133
88380820 AGAATTACAG
*
88380830 ATCTTATCTCCATGTATCAGCTATGGAGCAGATCGAAAATGGCGAGTCTTATCTCCAT-TTACGG
1 ATCTTATCTCCATGTATCAGCTATGGAGAAGATCGAAAATGGCGAGTCTTATCTCCATGTTACGG
* * *
88380894 ATATGGAGTAGATTTTAGCCACCAACCTTATCTCTCTGAAATAGTAAGAGAGCAGGTTGAAAGTT
66 ATATGGAGCAGATTTTAACCACCAACCTTATCTCTCTGAAATAGCAAGAGAGCAGGTTGAAAGTT
88380959 ACT
131 ACT
* * *
88380962 ATCTTATCTCCATGTATCGGCTATGGAGAAGATCGAAAATGGCGAGTCTTATCTCCATGTTTCGT
1 ATCTTATCTCCATGTATCAGCTATGGAGAAGATCGAAAATGGCGAGTCTTATCTCCATGTTACGG
* * * * **
88381027 CTGTGGAGCAGATTTTAACCACCAGCTTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAA
66 ATATGGAGCAGATTTTAACCACCAACCTTATCTCTCTGAAATAGCAAGAGAGCAGGTTGAA
88381088 GATACAAGTC
Statistics
Matches: 112, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
132 56 0.50
133 56 0.50
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.30
Consensus pattern (133 bp):
ATCTTATCTCCATGTATCAGCTATGGAGAAGATCGAAAATGGCGAGTCTTATCTCCATGTTACGG
ATATGGAGCAGATTTTAACCACCAACCTTATCTCTCTGAAATAGCAAGAGAGCAGGTTGAAAGTT
ACT
Found at i:88381134 original size:133 final size:130
Alignment explanation
Indices: 88380825--88381103 Score: 308
Period size: 133 Copynumber: 2.1 Consensus size: 130
88380815 GACTGAGAAT
* * * *
88380825 TACAGATCTTATCTCCATGTATCAGCTATGGAGCAGATCGAAAATGGCGAGTCTTATCTCCATTT
1 TACA-ATCTTATCTCCAAGTA-C-GCTAAGGAGAAGATCAAAAATGGCGAGTCTTATCTCCATTT
* * *
88380890 ACGGATATGGAGTAGATTTTAGCCACCAACCTTATCTCTCTGAAATAGTAAGAGAGCAGGTTGAA
63 ACGGATATGGAGCAGATTTTAACCACCAACCTTATCTCTCTGAAATAGCAAGAGAGCAGGTTGAA
*
88380955 AGT
128 AGA
* * * *
88380958 TACTATCTTATCTCCATGTATCGGCTATGGAGAAGATCGAAAATGGCGAGTCTTATCTCCATGTT
1 TACAATCTTATCTCCAAGTA-C-GCTAAGGAGAAGATCAAAAATGGCGAGTCTTATCTCCAT-TT
* ** * * * **
88381023 TCGTCTGTGGAGCAGATTTTAACCACCAGCTTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTG-A
63 ACGGATATGGAGCAGATTTTAACCACCAACCTTATCTCTCTGAAATAGCAAGAGAGCAGGTTGAA
88381087 AGA
128 AGA
88381090 TACAAGTCTTATCT
1 TACAA-TCTTATCT
88381104 TCCTCAAGTA
Statistics
Matches: 128, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
132 63 0.49
133 65 0.51
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (130 bp):
TACAATCTTATCTCCAAGTACGCTAAGGAGAAGATCAAAAATGGCGAGTCTTATCTCCATTTACG
GATATGGAGCAGATTTTAACCACCAACCTTATCTCTCTGAAATAGCAAGAGAGCAGGTTGAAAGA
Found at i:88381192 original size:178 final size:178
Alignment explanation
Indices: 88380962--88381703 Score: 1081
Period size: 178 Copynumber: 4.2 Consensus size: 178
88380952 GAAAGTTACT
* *
88380962 ATCTTATCTCCATGTATCGGCTATGGAG-AAGATCGAAAATGGCGAGTCTTATCTCCATGTTTCG
1 ATCTTATCTCCATGTATCGGCTATGGAGCAA-ATCAAAAATGGCGAGTCTTATCTCCATGTATCG
* * * *
88381026 TCTGTGGAGCAGATTTTAACCACCAGCTTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAT
65 GCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAT
* * * *
88381091 ACAAGTCTTATCTTCCTCAAGTAGTAAGGAAGTAGACTAAAAATTACAG
130 ACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAAATTACAG
* * *
88381140 ATATTATCTCTATGTATCGGCTATAGAGCAAATCAAAAATGGCGAGTCTTATCTCCATGTATCGG
1 ATCTTATCTCCATGTATCGGCTATGGAGCAAATCAAAAATGGCGAGTCTTATCTCCATGTATCGG
* * *
88381205 CTATAGAGTAGATTTTAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATA
66 CTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATA
* * *
88381270 CAAGTCTTATATTCCTTAGGTAGCAAGGAAGCAGACTAAAAATTATAG
131 CAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAAATTACAG
* * *
88381318 ATCTTATATCCATGTATCGGCTATGGAGCAGATCAAAAATGGCGAGTCTTATCTCTATGTATCGG
1 ATCTTATCTCCATGTATCGGCTATGGAGCAAATCAAAAATGGCGAGTCTTATCTCCATGTATCGG
* * *
88381383 CTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAGGTAGTAAGGGAGCAGGTTGAAGATA
66 CTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATA
* * *
88381448 CAAGTCTTATCTTCCTGACGTAGCAGGGAAGCAGACTGAAAATTACAG
131 CAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAAATTACAG
* * * * * *
88381496 ATTTTATCTCCATGTATCGGCTATGGAGTAGATAAAAAATAGCGAGTCTTATCTCCATATATCGG
1 ATCTTATCTCCATGTATCGGCTATGGAGCAAATCAAAAATGGCGAGTCTTATCTCCATGTATCGG
* * * *
88381561 CTATGGAGTAGATTTTAGCCATCAGCCTTATCTCTTTGAGGTAGCAAGAGAGCAGGTTGAAGAAA
66 CTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATA
* * * * *
88381626 TAAGTCTTATCTTCTTGAGGTACCAAGGAAGCAGACTGAGAATTACAG
131 CAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAAATTACAG
88381674 ATCTTATCTCCATGTATCGGCTATGGAGCA
1 ATCTTATCTCCATGTATCGGCTATGGAGCA
88381704 GATTTTAGCT
Statistics
Matches: 505, Mismatches: 58, Indels: 2
0.89 0.10 0.00
Matches are distributed among these distances:
178 503 1.00
179 2 0.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (178 bp):
ATCTTATCTCCATGTATCGGCTATGGAGCAAATCAAAAATGGCGAGTCTTATCTCCATGTATCGG
CTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATA
CAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAAATTACAG
Found at i:88381332 original size:311 final size:311
Alignment explanation
Indices: 88379618--88381350 Score: 1321
Period size: 311 Copynumber: 5.5 Consensus size: 311
88379608 AAAATTGCAG
* * * *
88379618 GTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAAGTAGC
1 GTCTTATCTCCATGTATCAGCTATAGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAAGTAGC
* * * * *
88379683 AAGAGAGCAGGTTAAAAGTTAC-GGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAAT
66 AAGAGAGCAGGTT-GAAGATACAAG-TCTTATCTCCATGTATCAGCTATGGAGCAGATCAAAAAT
* * * * *
88379747 GGTGAGTCTTATCTCCATGTTTCAGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAA
129 AGAGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAG
* * * * *
88379812 GTAGCAAGAGAGCAGGTTAAAAGTTAC-GGATCTTATC-T-C-CATGTATCGGCTATGG-AGCAG
194 GTAGCAAGAGAGCAGGTT-GAAGATACAAG-TCTTATCTTCCTCAAGTA---GC-AAGGAAGCAG
* * * * *** **** *
88379872 A-TCGAAAATGGT-GAG-TCTTATCTCCATGTTTCAGCTATGGAGCAGAT-TTTAGCCACCA
253 ACT-AAAAAT--TACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATGGCGA
* * * * * ** ** * * *
88379930 GTCTTATCTCTC-TG-AGGT-AGCAAGATAGTAGGTTGAAGATA-CAAGTCTTATCT-TCCTCAG
1 GTCTTATCTC-CATGTA--TCAGCTATAGAGCAGATTTTAGCCACCAA-CCTTATCTCT-CTGAA
* * ** * * * * * * **
88379990 GTAGTAAG-GAAGTAGACTAAAAATTAC-AGATATTATCTCTATGTATCGGCTATAGAATAGATC
61 GTAGCAAGAG-AGCAGGTTGAAGA-TACAAG-TCTTATCTCCATGTATCAGCTATGGAGCAGATC
* * * * *
88380053 AAAAATGGCGAGTCTTATCTCCACGTATCGGCTATGGAGTAGATTTTAGCCACTAGCCTTATCTC
123 AAAAATAGAGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTC
* * *
88380118 TCTAAGGTAGCAAGAGAGTAGGTTGAAGATACAAGTCTTATATTCCTCAGGTAGCAAGGAAGCAG
188 TCTAAGGTAGCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTCAAGTAGCAAGGAAGCAG
* **
88380183 ACTAAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATGAAAAATGGTAA
253 ACTAAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATGGCGA
* * *
88380242 GTCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAGGTAGT
1 GTCTTATCTCCATGTATCAGCTATAGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAAGTAGC
* * * *
88380307 AAGAGAGCAGGTTGAAGATACAAATCTTATCTTCCTAAG-GT-AGC-AGGGAAGCAGA-CTAAAA
66 AAGAGAGCAGGTTGAAGATACAAGTCTTATC-TCC-ATGTATCAGCTATGG-AGCAGATC-AAAA
* * * *
88380368 ATTACAGA-TTTTATCTCCATGTATCGGCTATGGAGTAGATTTTAGCCACCAGCCTTATCTCTTT
127 A-TAGAGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCT
* * *
88380432 GAGGTAGCAAGAGAGCAGGTTGAAGATACAAATCTTATCTTCCT-AAGGTAGCAGGGAAGCAGAC
191 AAGGTAGCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTCAA-GTAGCAAGGAAGCAGAC
* * *** **** *
88380496 TAAAAATTACAGATTTTATCTCCATGTATCGGCTATGGAGTAGAT-TTTAGCCACCA
255 TAAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATGGCGA
* ** * * * * * * **
88380552 GCCTTATCTCTTTG-AGGT-AGCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTTTATCT
1 GTCTTATCTCCATGTA--TCAGCTATAGAGCAGATT-----T--TAG-C-CACCAACC-TTATCT
* * * * *
88380615 CTCTAAAGTAGCAAGAGAGCAGGTTGAAAATTGCAGGTCTTATCTCCATGTATCGGCTATGGAGC
54 CTCTGAAGTAGCAAGAGAGCAGGTTGAAGA-TACAAGTCTTATCTCCATGTATCAGCTATGGAGC
* * * **
88380680 AGATCAAAAATGGCGAGTCTTATCTCTATGTATCGGCTATGGAGCAGATTTTAGCTTCCAGCCTT
118 AGATCAAAAATAGAGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTT
* * * ** * *
88380745 ATCTCTCTAAAGTAGCAAGAGAGCAAGTTGAAAATTGTAGGTCTTATC-T-C-CATGTATCGGCT
183 ATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGA-TACAAGTCTTATCTTCCTCAAGTA---GC-
* * * *
88380807 ATA-G-AGCAGACTGAGAATTACAGATCTTATCTCCATGTATCAGCTATGGAGCAGATCGAAAAT
243 A-AGGAAGCAGACTAAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAAAT
88380870 GGCGA
307 GGCGA
* * * * * * *
88380875 GTCTTATCTCCATTTA-CGGATATGGAGTAGATTTTAGCCACCAACCTTATCTCTCTGAAATAGT
1 GTCTTATCTCCATGTATCAGCTATAGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAAGTAGC
* * * * * *
88380939 AAGAGAGCAGGTTGAAAGTTACTA-TCTTATCTCCATGTATCGGCTATGGAGAAGATCGAAAATG
66 AAGAGAGCAGGTTG-AAGATACAAGTCTTATCTCCATGTATCAGCTATGGAGCAGATCAAAAATA
* * * * * * *
88381003 GCGAGTCTTATCTCCATGTTTCGTCTGTGGAGCAGATTTTAACCACCAGCTTTATCTCTCTGAGG
130 GAGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGG
* *
88381068 TAGCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTCAAGTAGTAAGGAAGTAGACTAAAA
195 TAGCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTCAAGTAGCAAGGAAGCAGACTAAAA
* * * *
88381133 ATTACAGATATTATCTCTATGTATCGGCTATAGAGCAAATCAAAAATGGCGA
260 ATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATGGCGA
* * * * *
88381185 GTCTTATCTCCATGTATCGGCTATAGAGTAGATTTTAGCCACTAGCCTTATCTCTCTGAGGTAGC
1 GTCTTATCTCCATGTATCAGCTATAGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAAGTAGC
* *
88381250 AAGAGAGCAGGTTGAAGATACAAGTCTTATATTCC-T-TAGGT-AGC-AAGGAAGCAGA-CTAAA
66 AAGAGAGCAGGTTGAAGATACAAGTCTTAT-CTCCATGTA--TCAGCTATGG-AGCAGATC-AAA
* *
88381310 AATTATAGA-TCTTATATCCATGTATCGGCTATGGAGCAGAT
126 AA-TAGAGAGTCTTATCTCCATGTATCGGCTATGGAGCAGAT
88381351 CAAAAATGGC
Statistics
Matches: 1114, Mismatches: 236, Indels: 143
0.75 0.16 0.10
Matches are distributed among these distances:
308 1 0.00
309 4 0.00
310 128 0.11
311 451 0.40
312 262 0.24
313 22 0.02
314 6 0.01
315 3 0.00
317 3 0.00
318 1 0.00
319 9 0.01
320 41 0.04
321 96 0.09
322 71 0.06
323 15 0.01
324 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (311 bp):
GTCTTATCTCCATGTATCAGCTATAGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAAGTAGC
AAGAGAGCAGGTTGAAGATACAAGTCTTATCTCCATGTATCAGCTATGGAGCAGATCAAAAATAG
AGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGT
AGCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTCAAGTAGCAAGGAAGCAGACTAAAAA
TTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATGGCGA
Found at i:88381636 original size:133 final size:134
Alignment explanation
Indices: 88381499--88381840 Score: 421
Period size: 133 Copynumber: 2.6 Consensus size: 134
88381489 ATTACAGATT
* * * * *
88381499 TTATCTCCATGTATCGGCTATGGAGTAGA-TAAAAAATAGCGAG-TCTTATCTCCATATATCGGC
1 TTATCTCCATGTATCGGCTATGGAGCAGACTGAGAATTA-CGAGATCTTATCTCCATGTATCGGC
* * * * *
88381562 TATGGAGTAGATTTTAGCCATCAGCCTTATCTCTTTGAGGTAGCAAGAGAGCAGGTTGAAGAAAT
65 TATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAAGTAGCAAGAGAGCAGGTTGAA-AAAT
88381627 -AAGTC
129 CAAGTC
* * * *
88381632 TTATCTTCTTG-A--GGTACCAAGGAAGCAGACTGAGAATTAC-AGATCTTATCTCCATGTATCG
1 TTATCTCCATGTATCGG--CTATGG-AGCAGACTGAGAATTACGAGATCTTATCTCCATGTATCG
* *
88381693 GCTATGGAGCAGATTTTAGCTACCAGCCTTATCTCTCTAAAGTAGCAAGAGAGCAGGTTGAAAAT
63 GCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAAGTAGCAAGAGAGCAGGTTGAAAAA
*
88381758 TGCAGGTC
128 T-CAAGTC
88381766 TTATCTCCATGTATCGGCTATGGAGCAGACTGAGAATTACG-GATCTTATCTCCATGTATCGGCT
1 TTATCTCCATGTATCGGCTATGGAGCAGACTGAGAATTACGAGATCTTATCTCCATGTATCGGCT
88381830 ATGGAGCAGAT
66 ATGGAGCAGAT
88381841 CGAATATGGC
Statistics
Matches: 177, Mismatches: 21, Indels: 21
0.81 0.10 0.10
Matches are distributed among these distances:
130 2 0.01
132 10 0.06
133 88 0.50
134 70 0.40
135 5 0.03
137 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (134 bp):
TTATCTCCATGTATCGGCTATGGAGCAGACTGAGAATTACGAGATCTTATCTCCATGTATCGGCT
ATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAAGTAGCAAGAGAGCAGGTTGAAAAATCA
AGTC
Found at i:88381704 original size:45 final size:45
Alignment explanation
Indices: 88381655--88381884 Score: 165
Period size: 45 Copynumber: 5.1 Consensus size: 45
88381645 GTACCAAGGA
88381655 AGCAGACTGAGAATTACAGATCTTATCTCCATGTATCGGCTATGG
1 AGCAGACTGAGAATTACAGATCTTATCTCCATGTATCGGCTATGG
* * * * * *
88381700 AGCAGATTTTAG--CTACCAG-CCTTATCTCTCTAAAGTA---GC-AAGAG
1 AGCAGA-CTGAGAATTA-CAGATCTTATCTC-C--ATGTATCGGCTATG-G
** * * *
88381744 AGCAGGTTGAAAATTGCAGGTCTTATCTCCATGTATCGGCTATGG
1 AGCAGACTGAGAATTACAGATCTTATCTCCATGTATCGGCTATGG
*
88381789 AGCAGACTGAGAATTACGGATCTTATCTCCATGTATCGGCTATGG
1 AGCAGACTGAGAATTACAGATCTTATCTCCATGTATCGGCTATGG
** * *
88381834 AGCAGA-TCGA-ATATGGCA-AGTCTTATCTCTATTTATCGGCTATGG
1 AGCAGACT-GAGA-ATTACAGA-TCTTATCTCCATGTATCGGCTATGG
88381879 AGCAGA
1 AGCAGA
88381885 TTTTAGCCAC
Statistics
Matches: 144, Mismatches: 25, Indels: 32
0.72 0.12 0.16
Matches are distributed among these distances:
42 4 0.03
43 5 0.03
44 25 0.17
45 101 0.70
46 5 0.03
47 4 0.03
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (45 bp):
AGCAGACTGAGAATTACAGATCTTATCTCCATGTATCGGCTATGG
Found at i:88381932 original size:179 final size:179
Alignment explanation
Indices: 88381675--88382019 Score: 498
Period size: 179 Copynumber: 1.9 Consensus size: 179
88381665 GAATTACAGA
* *
88381675 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCTACCAGCCTTATCTCTCTAAAGTAGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCATTATCTCTCTAAAGTAGCA
* * *
88381740 AGAGAGCAGGTTGAAAATTGCAGG-TCTTATCTCCATGTATCGGCTATGGAGCAGA-CTGAGAAT
66 AGAGAGCAGGTTGAAAATTAC-GGATCTTATCTCCATGTATCAGCTATGGAGCAGATC-GAAAAT
* *
88381803 TAC-GGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAATATGGCAAG
129 TACAAG-TCTTATCTCAATGTATCGGCTATGGAGCAGATCGAATATGGCAAG
* * * *
88381854 TCTTATCTCTATTTATCGGCTATGGAGCAGATTTTAGCCACTAGCATTATCTCTCTGAAGTAGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCATTATCTCTCTAAAGTAGCA
* * * *
88381919 AGAGAGTAGGTTGAAAGTTACGGATCTTATCTCCATGTATCAGCTATGGAGCATATCGAAAATTG
66 AGAGAGCAGGTTGAAAATTACGGATCTTATCTCCATGTATCAGCTATGGAGCAGATCGAAAATTA
*
88381984 CAAGTCTTATCTCAATGTTTCGGCTATGGAGCAGAT
131 CAAGTCTTATCTCAATGTATCGGCTATGGAGCAGAT
88382020 TTTAGCCACC
Statistics
Matches: 147, Mismatches: 16, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
178 2 0.01
179 143 0.97
180 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (179 bp):
TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCATTATCTCTCTAAAGTAGCA
AGAGAGCAGGTTGAAAATTACGGATCTTATCTCCATGTATCAGCTATGGAGCAGATCGAAAATTA
CAAGTCTTATCTCAATGTATCGGCTATGGAGCAGATCGAATATGGCAAG
Found at i:88382064 original size:134 final size:134
Alignment explanation
Indices: 88381802--88382067 Score: 426
Period size: 134 Copynumber: 2.0 Consensus size: 134
88381792 AGACTGAGAA
* * *
88381802 TTACGGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAATATGGCAAGTCTTATCTCTATT
1 TTACGGATCTTATCTCCATGTATCAGCTATGGAGCAGATCGAAAATGGCAAGTCTTATCTCAATT
* * *
88381867 TATCGGCTATGGAGCAGATTTTAGCCACTAGCATTATCTCTCTGAAGTAGCAAGAGAGTAGGTTG
66 TATCGGCTATGGAGCAGATTTTAGCCACCAGCATTATCTCTCTGAAGTAACAAGAGAGCAGGTTG
88381932 AAAG
131 AAAG
* *
88381936 TTACGGATCTTATCTCCATGTATCAGCTATGGAGCATATCGAAAATTGCAAGTCTTATCTCAATG
1 TTACGGATCTTATCTCCATGTATCAGCTATGGAGCAGATCGAAAATGGCAAGTCTTATCTCAAT-
* *
88382001 TT-TCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAACAAGAGAGCAGGTT
65 TTATCGGCTATGGAGCAGATTTTAGCCACCAGCATTATCTCTCTGAAGTAACAAGAGAGCAGGTT
88382065 GAA
130 GAA
88382068 GATACAAGTC
Statistics
Matches: 121, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
134 119 0.98
135 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (134 bp):
TTACGGATCTTATCTCCATGTATCAGCTATGGAGCAGATCGAAAATGGCAAGTCTTATCTCAATT
TATCGGCTATGGAGCAGATTTTAGCCACCAGCATTATCTCTCTGAAGTAACAAGAGAGCAGGTTG
AAAG
Found at i:88382142 original size:980 final size:980
Alignment explanation
Indices: 88380378--88383000 Score: 3957
Period size: 980 Copynumber: 2.7 Consensus size: 980
88380368 ATTACAGATT
* * * * *
88380378 TTATCTCCATGTATCGGCTATGGAGTAGATTTTAGCCACCAGCCTTATCTCTTTGAGGTAGCAAG
1 TTATCTCTATGTATCGGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAGGTAGTAAG
* *
88380443 AGAGCAGGTTGAAGATACAAATCTTATCTTCCTAAGGTAGCAGGGAAGCAGACTAAAAATTACAG
66 AGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAGGGAAGCAGACTAAAAATTACAG
*** *** * * * *
88380508 ATTTTATCTCCATGTATCGGCTATGGAGTAGATTTTAGCCA-CCAGCCTTATCTCTTTGAGGTAG
131 ATTTTATCTCCATGTATCGGCTATGGAGTAGATAAAAAATAGCGAGTCTTATCTCTAT-A--TAT
* * *** * ** * * *
88380572 CAAGAGAGC-A-GGTTGAAGATACAAGTCTTATCTTCCTTTATCTCTCTAAAGTAGCAAGAGAGC
193 C----G-GCTATGG-AGTAGATTTTAG-C-CATCAACC-TTATCTCTTTGAGGTAGCAAGAGAGC
* * * * * * * **
88380635 AGGTTGAA-AATTGCAGGTCTTATCTCCATGTATCGG--CTATGG-AGCAGA-TCAAAAATGGC-
249 AGGTTGAAGAAAT--AAGTCTTATCTTCATG-A--GGTACCAAGGAAGCAGACT-GAGAATTACA
* *
88380694 GAGTCTTATCTCTATGTATCGGCTATGGAGCAGATTTTAGCTTCCAGCCTTATCTCTCTAAAGTA
308 GA-TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCTACCAGCCTTATCTCTCTAAAGTA
* * *
88380759 GCAAGAGAGCAAGTTGAAAATTGTAGGTCTTATCTCCATGTATCGGCTATAGAGCAGACTGAGAA
372 GCAAGAGAGCAGGTTGAAAATTGCAGGTCTTATCTCCATGTATCGGCTATGGAGCAGACTGAGAA
* *
88380824 TTACAGATCTTATCTCCATGTATCAGCTATGGAGCAGATCGAAAATGGCGAGTCTTATCTCCATT
437 TTACGGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATCTCCATT
* * * * *
88380889 TA-CGGATATGGAGTAGATTTTAGCCACCAACCTTATCTCTCTGAAATAGTAAGAGAGCAGGTTG
502 TATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTAGCAAGAGAGCAGGTTG
* * *
88380953 AAAGTTAC-TATCTTATCTCCATGTATCGGCTATGGAGAAGATCGAAAATGGCGAGTCTTATCTC
567 AAAGTTACGGATCTTATCTCCATGTATCGGCTATGGAGAAGATCGAAAATTGCAAGTCTTATCTC
* * * *
88381017 CATGTTTCGTCTGTGGAGCAGATTTTAACCACCAGCTTTATCTCTCTGAGGTAGCAAGAGAGCAG
632 CATGTTTCGGCTATGGAGCAGATTTTAACCACCAGCCTTATCTCTCTGAGGTAACAAGAGAGCAG
*
88381082 GTTGAAGATACAAGTCTTATCTTCCTCAAGTAGTAAGGAAGTAGACTAAAAATTACAGATATTAT
697 GTTGAAGATACAAGTCTTATCTTCCTCAAGTAGTAAGGAAGTAAACTAAAAATTACAGATATTAT
88381147 CTCTATGTATCGGCTATAGAGCAAATCAAAAATGGCGAGTCTTATCTCCATGTATCGGCTATAGA
762 CTCTATGTATCGGCTATAGAGCAAATCAAAAATGGCGAGTCTTATCTCCATGTATCGGCTATAGA
*
88381212 GTAGATTTTAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAAGTCT
827 GTAGATTTTAGCCACTAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATACAAGTCT
*
88381277 TATATTCCTTAGGTAGCAAGGAAGCAGACTAAAAATTATAGATCTTATATCCATGTATCGGCTAT
892 TATATTCCTCAGGTAGCAAGGAAGCAGACTAAAAATTATAGATCTTATATCCATGTATCGGCTAT
*
88381342 GGAGCAGATCAAAAATGGCGAGTC
957 GGAACAGATCAAAAATGGCGAGTC
88381366 TTATCTCTATGTATCGGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAGGTAGTAAG
1 TTATCTCTATGTATCGGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAGGTAGTAAG
* * *
88381431 GGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGACGTAGCAGGGAAGCAGACTGAAAATTACAG
66 AGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAGGGAAGCAGACTAAAAATTACAG
*
88381496 ATTTTATCTCCATGTATCGGCTATGGAGTAGATAAAAAATAGCGAGTCTTATCTCCATATATCGG
131 ATTTTATCTCCATGTATCGGCTATGGAGTAGATAAAAAATAGCGAGTCTTATCTCTATATATCGG
*
88381561 CTATGGAGTAGATTTTAGCCATCAGCCTTATCTCTTTGAGGTAGCAAGAGAGCAGGTTGAAGAAA
196 CTATGGAGTAGATTTTAGCCATCAACCTTATCTCTTTGAGGTAGCAAGAGAGCAGGTTGAAGAAA
*
88381626 TAAGTCTTATCTTCTTGAGGTACCAAGGAAGCAGACTGAGAATTACAGATCTTATCTCCATGTAT
261 TAAGTCTTATCTTCATGAGGTACCAAGGAAGCAGACTGAGAATTACAGATCTTATCTCCATGTAT
88381691 CGGCTATGGAGCAGATTTTAGCTACCAGCCTTATCTCTCTAAAGTAGCAAGAGAGCAGGTTGAAA
326 CGGCTATGGAGCAGATTTTAGCTACCAGCCTTATCTCTCTAAAGTAGCAAGAGAGCAGGTTGAAA
88381756 ATTGCAGGTCTTATCTCCATGTATCGGCTATGGAGCAGACTGAGAATTACGGATCTTATCTCCAT
391 ATTGCAGGTCTTATCTCCATGTATCGGCTATGGAGCAGACTGAGAATTACGGATCTTATCTCCAT
* * *
88381821 GTATCGGCTATGGAGCAGATCGAATATGGCAAGTCTTATCTCTATTTATCGGCTATGGAGCAGAT
456 GTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATCTCCATTTATCGGCTATGGAGCAGAT
* * *
88381886 TTTAGCCACTAGCATTATCTCTCTGAAGTAGCAAGAGAGTAGGTTGAAAGTTACGGATCTTATCT
521 TTTAGCCACCAGCCTTATCTCTCTGAAGTAGCAAGAGAGCAGGTTGAAAGTTACGGATCTTATCT
* * * *
88381951 CCATGTATCAGCTATGGAGCATATCGAAAATTGCAAGTCTTATCTCAATGTTTCGGCTATGGAGC
586 CCATGTATCGGCTATGGAGAAGATCGAAAATTGCAAGTCTTATCTCCATGTTTCGGCTATGGAGC
*
88382016 AGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAACAAGAGAGCAGGTTGAAGATACAAGTCTTA
651 AGATTTTAACCACCAGCCTTATCTCTCTGAGGTAACAAGAGAGCAGGTTGAAGATACAAGTCTTA
*
88382081 TCTTCCTCAGGTAGTAAGGAAGTAAACTAAAAATTACAGATATTATCTCTATGTATCGGCTATAG
716 TCTTCCTCAAGTAGTAAGGAAGTAAACTAAAAATTACAGATATTATCTCTATGTATCGGCTATAG
** * *
88382146 AGCAGGTCAAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGTAGATTTTAGCCATTAGC
781 AGCAAATCAAAAATGGCGAGTCTTATCTCCATGTATCGGCTATAGAGTAGATTTTAGCCACTAGC
*
88382211 CTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGACGATACAAGTCTTATATTCCTCAGGTAGCAA
846 CTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATACAAGTCTTATATTCCTCAGGTAGCAA
*
88382276 GGAAGCAGACTAAAAATTATAGATCTTATCTCCATGTATCGGCTATGGAACAGATCAAAAATGGC
911 GGAAGCAGACTAAAAATTATAGATCTTATATCCATGTATCGGCTATGGAACAGATCAAAAATGGC
88382341 GAGTC
976 GAGTC
*
88382346 TTATCT-TCATGTATCGGCTATGGAGCAGATTTTAGCCACCAACATTATCTCTCTGAGGTAGTAA
1 TTATCTCT-ATGTATCGGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAGGTAGTAA
*
88382410 GAGAGAAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAGGGAAGCAGACTAAAAATTACA
65 GAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAGGGAAGCAGACTAAAAATTACA
* *
88382475 GATTTTATCTCCATGTATCGGCTATGGAGCAGATAAAAAATAGCGAGTCTTATCTCTATGTATCG
130 GATTTTATCTCCATGTATCGGCTATGGAGTAGATAAAAAATAGCGAGTCTTATCTCTATATATCG
* * * *
88382540 GCTATGGAGTAGATTTTAGCCACCAACCTTATCTCTTTGAGGTAGCAAAAGAGCAGGTTAAAGAT
195 GCTATGGAGTAGATTTTAGCCATCAACCTTATCTCTTTGAGGTAGCAAGAGAGCAGGTTGAAGAA
* *
88382605 ACAAGTCTTATCTTCCTGAGGTACCAAGGAAGCAGACTGAGAATTACAGATCTTATCTCCATGTA
260 ATAAGTCTTATCTTCATGAGGTACCAAGGAAGCAGACTGAGAATTACAGATCTTATCTCCATGTA
* * * *
88382670 TCGGCTATGGAACAGATTTTAGCCACCATCCTTATCTCTCTAAAGTAGTAAGAGAGCAGGTTGAA
325 TCGGCTATGGAGCAGATTTTAGCTACCAGCCTTATCTCTCTAAAGTAGCAAGAGAGCAGGTTGAA
* *
88382735 AATTGCAGGTCTTATCTCTATGTATCGGCTATGAAGCAGACTGAGAATTACGGATCTTATCTCCA
390 AATTGCAGGTCTTATCTCCATGTATCGGCTATGGAGCAGACTGAGAATTACGGATCTTATCTCCA
88382800 TGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATCTCCATTTATCGGCTATGGAGCAGA
455 TGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATCTCCATTTATCGGCTATGGAGCAGA
* *
88382865 TTTTAGCCACCAGCCTTATCTCTCTGAAGTAGCAAAAGAGCAGATTGAAAGTTGTA-GG-TCTTA
520 TTTTAGCCACCAGCCTTATCTCTCTGAAGTAGCAAGAGAGCAGGTTGAAAG-T-TACGGATCTTA
* * *
88382928 TCTCCATGTATCGGCTATGGAGTAGA-CTGAGAATT--ATAGATCTTATCTCCATGTATCGGCTA
583 TCTCCATGTATCGGCTATGGAGAAGATC-GAAAATTGCA-AG-TCTTATCTCCATGTTTCGGCTA
88382990 TGGAGCAGATT
645 TGGAGCAGATT
88383001 GAAAATGGCG
Statistics
Matches: 1500, Mismatches: 118, Indels: 42
0.90 0.07 0.03
Matches are distributed among these distances:
975 2 0.00
977 5 0.00
978 209 0.14
979 100 0.07
980 994 0.66
981 6 0.00
982 11 0.01
983 2 0.00
986 3 0.00
988 156 0.10
989 12 0.01
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (980 bp):
TTATCTCTATGTATCGGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAGGTAGTAAG
AGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAGGGAAGCAGACTAAAAATTACAG
ATTTTATCTCCATGTATCGGCTATGGAGTAGATAAAAAATAGCGAGTCTTATCTCTATATATCGG
CTATGGAGTAGATTTTAGCCATCAACCTTATCTCTTTGAGGTAGCAAGAGAGCAGGTTGAAGAAA
TAAGTCTTATCTTCATGAGGTACCAAGGAAGCAGACTGAGAATTACAGATCTTATCTCCATGTAT
CGGCTATGGAGCAGATTTTAGCTACCAGCCTTATCTCTCTAAAGTAGCAAGAGAGCAGGTTGAAA
ATTGCAGGTCTTATCTCCATGTATCGGCTATGGAGCAGACTGAGAATTACGGATCTTATCTCCAT
GTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATCTCCATTTATCGGCTATGGAGCAGAT
TTTAGCCACCAGCCTTATCTCTCTGAAGTAGCAAGAGAGCAGGTTGAAAGTTACGGATCTTATCT
CCATGTATCGGCTATGGAGAAGATCGAAAATTGCAAGTCTTATCTCCATGTTTCGGCTATGGAGC
AGATTTTAACCACCAGCCTTATCTCTCTGAGGTAACAAGAGAGCAGGTTGAAGATACAAGTCTTA
TCTTCCTCAAGTAGTAAGGAAGTAAACTAAAAATTACAGATATTATCTCTATGTATCGGCTATAG
AGCAAATCAAAAATGGCGAGTCTTATCTCCATGTATCGGCTATAGAGTAGATTTTAGCCACTAGC
CTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATACAAGTCTTATATTCCTCAGGTAGCAA
GGAAGCAGACTAAAAATTATAGATCTTATATCCATGTATCGGCTATGGAACAGATCAAAAATGGC
GAGTC
Found at i:88382170 original size:178 final size:177
Alignment explanation
Indices: 88381936--88382686 Score: 1088
Period size: 178 Copynumber: 4.2 Consensus size: 177
88381926 AGGTTGAAAG
* * * * * *
88381936 TTACGGATCTTATCTCCATGTATCAGCTATGGAGCATATCGAAAATTGCAAGTCTTATCTCAATG
1 TTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATGGCGAGTCTTATCTC-ATG
* * *
88382001 TTTCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAACAAGAGAGCAGGTTG
65 TATCGGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTG
* * *
88382066 AAGATACAAGTCTTATCTTCCTCAGGTAGTAAGGAAGTAAACTAAAAA
130 AAGATACAAGTCTTATCTTCCTCAGGTAGCAAGGAAGCAGACTAAAAA
* * * *
88382114 TTACAGATATTATCTCTATGTATCGGCTATAGAGCAGGTCAAAAATGGCGAGTCTTATCTCCATG
1 TTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATGGCGAGTCTTATCT-CATG
* ** * *
88382179 TATCGGCTATGGAGTAGATTTTAGCCATTAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTG
65 TATCGGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTG
* *
88382244 ACGATACAAGTCTTATATTCCTCAGGTAGCAAGGAAGCAGACTAAAAA
130 AAGATACAAGTCTTATCTTCCTCAGGTAGCAAGGAAGCAGACTAAAAA
* *
88382292 TTATAGATCTTATCTCCATGTATCGGCTATGGAACAGATCAAAAATGGCGAGTCTTATCTTCATG
1 TTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATGGCGAGTCTTATC-TCATG
* * *
88382357 TATCGGCTATGGAGCAGATTTTAGCCACCAACATTATCTCTCTGAGGTAGTAAGAGAGAAGGTTG
65 TATCGGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTG
* *
88382422 AAGATACAAGTCTTATCTTCCTGAGGTAGCAGGGAAGCAGACTAAAAA
130 AAGATACAAGTCTTATCTTCCTCAGGTAGCAAGGAAGCAGACTAAAAA
* * *
88382470 TTACAGATTTTATCTCCATGTATCGGCTATGGAGCAGATAAAAAATAGCGAGTCTTATCTCTATG
1 TTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATGGCGAGTCTTATCTC-ATG
* * * *
88382535 TATCGGCTATGGAGTAGATTTTAGCCACCAACCTTATCTCTTTGAGGTAGCAAAAGAGCAGGTTA
65 TATCGGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTG
* * * *
88382600 AAGATACAAGTCTTATCTTCCTGAGGTACCAAGGAAGCAGACTGAGAA
130 AAGATACAAGTCTTATCTTCCTCAGGTAGCAAGGAAGCAGACTAAAAA
*
88382648 TTACAGATCTTATCTCCATGTATCGGCTATGGAACAGAT
1 TTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGAT
88382687 TTTAGCCACC
Statistics
Matches: 513, Mismatches: 57, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
177 2 0.00
178 509 0.99
179 2 0.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (177 bp):
TTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATGGCGAGTCTTATCTCATGT
ATCGGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGA
AGATACAAGTCTTATCTTCCTCAGGTAGCAAGGAAGCAGACTAAAAA
Found at i:88382616 original size:133 final size:135
Alignment explanation
Indices: 88382466--88382820 Score: 399
Period size: 133 Copynumber: 2.7 Consensus size: 135
88382456 AAGCAGACTA
* * * *
88382466 AAAATTAC-AGATTTTATCTCCATGTATCGGCTATGGAGCAGA-TAAAAAATAGCGAG-TCTTAT
1 AAAATTACAAG-TCTTATCTCCATGTATCGGCTATGGAGCAGACTGAGAATTA-CGAGATCTTAT
* * * * *
88382528 CTCTATGTATCGGCTATGGAGTAGATTTTAGCCACCAACCTTATCTCTTTGAGGTAGCAAAAGAG
64 CTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTAAAGTAGCAAAAGAG
88382593 CAGGTT-
129 CAGGTTG
* *
88382599 AAAGA-TACAAGTCTTATCTTCC-TG-A--GGTACCAAGGAAGCAGACTGAGAATTAC-AGATCT
1 AAA-ATTACAAGTCTTATC-TCCATGTATCGG--CTATGG-AGCAGACTGAGAATTACGAGATCT
* * * *
88382658 TATCTCCATGTATCGGCTATGGAACAGATTTTAGCCACCATCCTTATCTCTCTAAAGTAGTAAGA
61 TATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTAAAGTAGCAAAA
88382723 GAGCAGGTTG
126 GAGCAGGTTG
* * * *
88382733 AAAATTGCAGGTCTTATCTCTATGTATCGGCTATGAAGCAGACTGAGAATTACG-GATCTTATCT
1 AAAATTACAAGTCTTATCTCCATGTATCGGCTATGGAGCAGACTGAGAATTACGAGATCTTATCT
88382797 CCATGTATCGGCTATGGAGCAGAT
66 CCATGTATCGGCTATGGAGCAGAT
88382821 CGAAAATGGC
Statistics
Matches: 185, Mismatches: 22, Indels: 29
0.78 0.09 0.12
Matches are distributed among these distances:
130 2 0.01
132 7 0.04
133 92 0.50
134 78 0.42
135 4 0.02
137 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.30
Consensus pattern (135 bp):
AAAATTACAAGTCTTATCTCCATGTATCGGCTATGGAGCAGACTGAGAATTACGAGATCTTATCT
CCATGTATCGGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTAAAGTAGCAAAAGAGCA
GGTTG
Found at i:88382773 original size:45 final size:45
Alignment explanation
Indices: 88382723--88383223 Score: 290
Period size: 45 Copynumber: 11.2 Consensus size: 45
88382713 AGTAGTAAGA
* *
88382723 GAGCAGGTTGAAAATTGCAGGTCTTATCTCTATGTATCGGCTATG
1 GAGCAGATTGAAAATTGCAGGTCTTATCTCCATGTATCGGCTATG
* * * *
88382768 AAGCAGACTGAGAATTAC-GGATCTTATCTCCATGTATCGGCTATG
1 GAGCAGATTGAAAATTGCAGG-TCTTATCTCCATGTATCGGCTATG
* * *
88382813 GAGCAGATCGAAAATGGC-GAGTCTTATCTCCATTTATCGGCTATG
1 GAGCAGATTGAAAATTGCAG-GTCTTATCTCCATGTATCGGCTATG
** ***** * * * * **
88382858 GAGCAGATTTTAGCCACCA-GCCTTATCTCTC-TGAAGT-AGCAAAA
1 GAGCAGATTGAAAATTGCAGGTCTTATCTC-CATGTA-TCGGCTATG
* *
88382902 GAGCAGATTGAAAGTTGTAGGTCTTATCTCCATGTATCGGCTATG
1 GAGCAGATTGAAAATTGCAGGTCTTATCTCCATGTATCGGCTATG
* * * ** *
88382947 GAGTAGACTGAGAATTATAGATCTTATCTCCATGTATCGGCTATG
1 GAGCAGATTGAAAATTGCAGGTCTTATCTCCATGTATCGGCTATG
*
88382992 GAGCAGATTGAAAATGGC-GAGTCTTATCTCCATGTATCGGCTATG
1 GAGCAGATTGAAAATTGCAG-GTCTTATCTCCATGTATCGGCTATG
** ***** * * * *
88383037 GAGCAGATTTTAGCCACCA-GCCTTATCTCTC-TGAAGT-AGC-AAG
1 GAGCAGATTGAAAATTGCAGGTCTTATCTC-CATGTA-TCGGCTATG
* * * * **
88383080 AGAGTAGGTTGAAAGTTGCAGATCTTATCTCCATGTATCGATTATG
1 -GAGCAGATTGAAAATTGCAGGTCTTATCTCCATGTATCGGCTATG
* * * * **
88383126 GAGCAAACT-AAGAATTACAGATCTTATCTCCATGTATCTACTATG
1 GAGCAGATTGAA-AATTGCAGGTCTTATCTCCATGTATCGGCTATG
* * *
88383171 GAGCAGATCGAAAATGGTG-A-GTCCTATCTCCATGTATCGGTTATG
1 GAGCAGATTGAAAAT--TGCAGGTCTTATCTCCATGTATCGGCTATG
*
88383216 GAGAAGAT
1 GAGCAGAT
88383224 CGAAGACAGC
Statistics
Matches: 335, Mismatches: 100, Indels: 42
0.70 0.21 0.09
Matches are distributed among these distances:
43 2 0.01
44 58 0.17
45 268 0.80
46 6 0.02
47 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (45 bp):
GAGCAGATTGAAAATTGCAGGTCTTATCTCCATGTATCGGCTATG
Found at i:88382926 original size:179 final size:179
Alignment explanation
Indices: 88382655--88383223 Score: 895
Period size: 179 Copynumber: 3.2 Consensus size: 179
88382645 GAATTACAGA
* * * *
88382655 TCTTATCTCCATGTATCGGCTATGGAACAGATTTTAGCCACCATCCTTATCTCTCTAAAGTAGTA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTAGCA
* * *
88382720 AGAGAGCAGGTTGAAAATTGCAGGTCTTATCTCTATGTATCGGCTATGAAGCAGACTGAGAATTA
66 AGAGAGCAGGTTGAAAGTTGCAGGTCTTATCTCCATGTATCGGCTATGGAGCAGACTGAGAATTA
*
88382785 CGGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAG
131 CAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAG
*
88382834 TCTTATCTCCATTTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTAGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTAGCA
* * * *
88382899 AAAGAGCAGATTGAAAGTTGTAGGTCTTATCTCCATGTATCGGCTATGGAGTAGACTGAGAATTA
66 AGAGAGCAGGTTGAAAGTTGCAGGTCTTATCTCCATGTATCGGCTATGGAGCAGACTGAGAATTA
* *
88382964 TAGATCTTATCTCCATGTATCGGCTATGGAGCAGATTGAAAATGGCGAG
131 CAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAG
88383013 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTAGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTAGCA
* * ** * *
88383078 AGAGAGTAGGTTGAAAGTTGCAGATCTTATCTCCATGTATCGATTATGGAGCAAACTAAGAATTA
66 AGAGAGCAGGTTGAAAGTTGCAGGTCTTATCTCCATGTATCGGCTATGGAGCAGACTGAGAATTA
** *
88383143 CAGATCTTATCTCCATGTATCTACTATGGAGCAGATCGAAAATGGTGAG
131 CAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAG
* * *
88383192 TCCTATCTCCATGTATCGGTTATGGAGAAGAT
1 TCTTATCTCCATGTATCGGCTATGGAGCAGAT
88383224 CGAAGACAGC
Statistics
Matches: 356, Mismatches: 34, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
179 356 1.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.30
Consensus pattern (179 bp):
TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTAGCA
AGAGAGCAGGTTGAAAGTTGCAGGTCTTATCTCCATGTATCGGCTATGGAGCAGACTGAGAATTA
CAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAG
Found at i:88383366 original size:84 final size:84
Alignment explanation
Indices: 88383234--88383534 Score: 234
Period size: 87 Copynumber: 3.5 Consensus size: 84
88383224 CGAAGACAGC
*
88383234 AAGCCTTAACCCCCTAAGCAGTAGGGTAATAGGCTGGAAAA-TACAGATC-CCCCCTAAACAGTA
1 AAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCT--AAAATTACAGATCTCCCCCTAAACAGTA
88383297 GTGGAGCAGATCAAAAACAGA-
64 GTGGAGCAGATCAAAAACA-AT
* * * * * * * *
88383318 GAGCCTTAACTCCCTGAGCAGTAGGGTAACATGCTAAAGATTAAAGATCTTATCTCCCTAAGCAT
1 AAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAA-ATTACAGATC---TCCCCCTAAACAG
* *
88383383 TAGTGGAGCAGATCGAAGACAAT
62 TAGTGGAGCAGATCAAAAACAAT
* * * *
88383406 AAGCCTT-ACCCCCTAAGTAGTAGGGTAACAGGCTAAAAATTACAGATATTATCTCCCTAAGCAG
1 AAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCT-AAAATTACAG--A-TCTCCCCCTAAACAG
* * * ***
88383470 TAGTGTAGCAGATCGAAGATGGT
62 TAGTGGAGCAGATCAAAAACAAT
* * *
88383493 AAGCCTTATCCCCTTAAGCAGT-GGAGAAACAGGCTGAAAATT
1 AAGCCTTAACCCCCTAAGCAGTAGG-GTAACAGGCT-AAAATT
88383535 GCAAATGTTA
Statistics
Matches: 176, Mismatches: 28, Indels: 22
0.78 0.12 0.10
Matches are distributed among these distances:
82 3 0.02
83 1 0.01
84 37 0.21
87 70 0.40
88 63 0.36
89 1 0.01
90 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (84 bp):
AAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAGATCTCCCCCTAAACAGTAGT
GGAGCAGATCAAAAACAAT
Found at i:88383462 original size:87 final size:88
Alignment explanation
Indices: 88383214--88383569 Score: 350
Period size: 88 Copynumber: 4.1 Consensus size: 88
88383204 GTATCGGTTA
* ** * *
88383214 TGGAGAAGATCGAAGACAGCAAGCCTTAACCCCCTAAGCAGTAGGGTAATAGGCTGGAAAA-TAC
1 TGGAGCAGATCGAAGACAATAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCT-AAAAATTAC
* * *
88383278 AG--A-T-CCCCCCTAAACAGTAG
65 AGATATTATCTCCCTAAGCAGTAG
* * * * * * * *
88383298 TGGAGCAGATCAAAAACAGA-GAGCCTTAACTCCCTGAGCAGTAGGGTAACATGCTAAAGATTAA
1 TGGAGCAGATCGAAGACA-ATAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTAC
* *
88383362 AGATCTTATCTCCCTAAGCATTAG
65 AGATATTATCTCCCTAAGCAGTAG
*
88383386 TGGAGCAGATCGAAGACAATAAGCCTT-ACCCCCTAAGTAGTAGGGTAACAGGCTAAAAATTACA
1 TGGAGCAGATCGAAGACAATAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACA
88383450 GATATTATCTCCCTAAGCAGTAG
66 GATATTATCTCCCTAAGCAGTAG
* *** * * * * *
88383473 TGTAGCAGATCGAAGATGGTAAGCCTTATCCCCTTAAGCAGT-GGAGAAACAGGCTGAAAATTGC
1 TGGAGCAGATCGAAGACAATAAGCCTTAACCCCCTAAGCAGTAGG-GTAACAGGCTAAAAATTAC
* * *
88383537 AAATGTTATCTTCCTAAGCAGTAG
65 AGATATTATCTCCCTAAGCAGTAG
88383561 TGGAGCAGA
1 TGGAGCAGA
88383570 CTGAAGATTA
Statistics
Matches: 221, Mismatches: 42, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
83 3 0.01
84 49 0.22
87 79 0.36
88 90 0.41
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.21
Consensus pattern (88 bp):
TGGAGCAGATCGAAGACAATAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACA
GATATTATCTCCCTAAGCAGTAG
Found at i:88384013 original size:5 final size:5
Alignment explanation
Indices: 88384003--88384029 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
88383993 AAGATATTAT
88384003 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
88384030 ATTAAATTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:88384628 original size:14 final size:13
Alignment explanation
Indices: 88384566--88384667 Score: 59
Period size: 14 Copynumber: 7.2 Consensus size: 13
88384556 TTGCTATTAT
88384566 TTTTATGTT-TCTA
1 TTTTAT-TTATCTA
88384579 TTTATATTTAT-T-
1 TTT-TATTTATCTA
88384591 TTGTTATTCTAATACTA
1 TT-TTATT-T-AT-CTA
88384608 TTATTATTTATCTAA
1 TT-TTATTTATCT-A
88384623 TTTTATTTATCTA
1 TTTTATTTATCTA
*
88384636 TTTATATTTCTACTA
1 TTT-TATTTAT-CTA
88384651 TTATTATATT-TCTA
1 TT-TTAT-TTATCTA
88384665 TTT
1 TTT
88384668 ATTATATTTT
Statistics
Matches: 74, Mismatches: 2, Indels: 26
0.73 0.02 0.25
Matches are distributed among these distances:
12 6 0.08
13 13 0.18
14 29 0.39
15 14 0.19
16 5 0.07
17 7 0.09
ACGTcount: A:0.25, C:0.08, G:0.02, T:0.65
Consensus pattern (13 bp):
TTTTATTTATCTA
Found at i:88384640 original size:29 final size:30
Alignment explanation
Indices: 88384563--88384672 Score: 79
Period size: 29 Copynumber: 3.8 Consensus size: 30
88384553 TTATTGCTAT
* * **
88384563 TATTTTTATGTTTCTATTTA-TATTTATTT
1 TATTATTATATTTCTATTTATTATTTATAC
* * * *
88384592 TGTTATTCTAATACTA-TTATTATTTAT-C
1 TATTATTATATTTCTATTTATTATTTATAC
*
88384620 TAATT-TTAT-TTATCTATTTA-TATTTCTAC
1 T-ATTATTATATT-TCTATTTATTATTTATAC
88384649 TATTATTATATTTCTATTTATTAT
1 TATTATTATATTTCTATTTATTAT
88384673 ATTTTTATTT
Statistics
Matches: 61, Mismatches: 12, Indels: 15
0.69 0.14 0.17
Matches are distributed among these distances:
27 1 0.02
28 19 0.31
29 36 0.59
30 5 0.08
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.65
Consensus pattern (30 bp):
TATTATTATATTTCTATTTATTATTTATAC
Found at i:88384669 original size:15 final size:15
Alignment explanation
Indices: 88384637--88384682 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
88384627 ATTTATCTAT
88384637 TTATATTTCTACTATTA
1 TTATATTTCTA-T-TTA
88384654 TTATATTTCTATTTA
1 TTATATTTCTATTTA
*
88384669 TTATATTTTTATTT
1 TTATATTTCTATTT
88384683 CTATTTATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATATTTCTATTTA
Found at i:88384675 original size:23 final size:23
Alignment explanation
Indices: 88384649--88384715 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 23
88384639 ATATTTCTAC
88384649 TATTATTATATTTCTATTTATTA
1 TATTATTATATTTCTATTTATTA
88384672 TATT-TT-TATTTCTATTTATATA
1 TATTATTATATTTCTATTTAT-TA
*
88384694 CTAATATTAT-TTT-TA-TTATTA
1 -TATTATTATATTTCTATTTATTA
88384715 T
1 T
88384716 TTTTCTTATA
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
20 1 0.03
21 15 0.38
22 8 0.21
23 9 0.23
24 5 0.13
25 1 0.03
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (23 bp):
TATTATTATATTTCTATTTATTA
Found at i:88384681 original size:29 final size:31
Alignment explanation
Indices: 88384649--88384721 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 31
88384639 ATATTTCTAC
* *
88384649 TATTATTATATTTCTAT-TTATTA-TATTTT
1 TATTATTATATTTCTATACTAATATTATTTT
* *
88384678 TA-T-TTCTATTTATATACTAATATTATTTT
1 TATTATTATATTTCTATACTAATATTATTTT
*
88384707 TATTATTATTTTTCT
1 TATTATTATATTTCT
88384722 TATATATGTT
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
27 10 0.30
28 5 0.15
29 10 0.30
30 1 0.03
31 7 0.21
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.67
Consensus pattern (31 bp):
TATTATTATATTTCTATACTAATATTATTTT
Found at i:88388167 original size:20 final size:20
Alignment explanation
Indices: 88388132--88388179 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
88388122 TTTTGAAATA
* *
88388132 TAAAAGTACAAATAAATTCC
1 TAAAAATACGAATAAATTCC
*
88388152 TAGAAATACGAATAAATTCC
1 TAAAAATACGAATAAATTCC
88388172 TAAAAATA
1 TAAAAATA
88388180 AATGTATAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.56, C:0.12, G:0.06, T:0.25
Consensus pattern (20 bp):
TAAAAATACGAATAAATTCC
Found at i:88389582 original size:31 final size:32
Alignment explanation
Indices: 88389544--88389612 Score: 131
Period size: 31 Copynumber: 2.2 Consensus size: 32
88389534 TGACCATCTA
88389544 GGTAATCCTGGTTCAAGTTGGGATTGGACA-T
1 GGTAATCCTGGTTCAAGTTGGGATTGGACATT
88389575 GGTAATCCTGGTTCAAGTTGGGATTGGACATT
1 GGTAATCCTGGTTCAAGTTGGGATTGGACATT
88389607 GGTAAT
1 GGTAAT
88389613 AATATCCATA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 30 0.81
32 7 0.19
ACGTcount: A:0.23, C:0.12, G:0.32, T:0.33
Consensus pattern (32 bp):
GGTAATCCTGGTTCAAGTTGGGATTGGACATT
Found at i:88394418 original size:20 final size:21
Alignment explanation
Indices: 88394375--88394420 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
88394365 ACTGTTTTGT
88394375 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
88394395 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
88394414 TATGGGC
1 TATGGGC
88394421 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:88397645 original size:62 final size:62
Alignment explanation
Indices: 88397578--88397694 Score: 153
Period size: 62 Copynumber: 1.9 Consensus size: 62
88397568 ACGAGCAACG
* * *
88397578 GACACGAGTGTGTGTCTGGGCAATGTAACTCACTGCTTGTGGTATAAAACCACACGGCTGGA
1 GACACGAGTGTGTGCCTAGGCAATGTAACTCACTGCTTATGGTATAAAACCACACGGCTGGA
* ** * * *
88397640 GACACGGGTGTGTGCCTAGGCTGTGTAACTTACTGTTTATGGTATAGAACCACAC
1 GACACGAGTGTGTGCCTAGGCAATGTAACTCACTGCTTATGGTATAAAACCACAC
88397695 AGTCAGTGAC
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
62 46 1.00
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (62 bp):
GACACGAGTGTGTGCCTAGGCAATGTAACTCACTGCTTATGGTATAAAACCACACGGCTGGA
Found at i:88402602 original size:21 final size:21
Alignment explanation
Indices: 88402578--88402684 Score: 151
Period size: 21 Copynumber: 5.1 Consensus size: 21
88402568 CAAACTTCTC
88402578 TTCAGCTCTCACGAGCTTATG
1 TTCAGCTCTCACGAGCTTATG
*
88402599 TTCAGCACTCACGAGCTTATG
1 TTCAGCTCTCACGAGCTTATG
* *
88402620 TTCAGCACTCACGAGCTTATA
1 TTCAGCTCTCACGAGCTTATG
*
88402641 TTCAGCTCTCACGAGCTTCTG
1 TTCAGCTCTCACGAGCTTATG
* * *
88402662 TTCAGCTCTTATGAGCTTCTG
1 TTCAGCTCTCACGAGCTTATG
88402683 TT
1 TT
88402685 GGCATGTTCT
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 79 1.00
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.35
Consensus pattern (21 bp):
TTCAGCTCTCACGAGCTTATG
Found at i:88403505 original size:2 final size:2
Alignment explanation
Indices: 88403500--88403527 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
88403490 GTATGGAAAA
88403500 AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC
88403528 CATCCATCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:88409217 original size:5 final size:5
Alignment explanation
Indices: 88409207--88409231 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
88409197 GATATCAACC
88409207 ATAAA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA
88409232 TTTTTATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:88411141 original size:31 final size:31
Alignment explanation
Indices: 88411103--88411166 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
88411093 CCTTTTCATA
88411103 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
88411134 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
88411165 TT
1 TT
88411167 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:88411410 original size:24 final size:24
Alignment explanation
Indices: 88411379--88411432 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
88411369 GGCCTACCCT
*
88411379 CTTTTAATAACTGGGGCAAAAGTC
1 CTTTTAATAACTGGGGCAAAAGCC
*
88411403 CTTTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCAAAAGCC
88411427 CTTTTA
1 CTTTTA
88411433 CACTTCCTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.33
Consensus pattern (24 bp):
CTTTTAATAACTGGGGCAAAAGCC
Found at i:88411503 original size:9 final size:9
Alignment explanation
Indices: 88411489--88411545 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
88411479 ACATCATGTG
88411489 CATATCATA
1 CATATCATA
*
88411498 CATATCATGTG
1 CATATCA--TA
88411509 CATATCATA
1 CATATCATA
*
88411518 CATATCATGTG
1 CATATCA--TA
88411529 CATATCATA
1 CATATCATA
*
88411538 CATGTCAT
1 CATATCAT
88411546 GTGCATATCA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
9 23 0.59
11 16 0.41
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:88411506 original size:20 final size:20
Alignment explanation
Indices: 88411481--88411567 Score: 147
Period size: 20 Copynumber: 4.3 Consensus size: 20
88411471 TTATGATTAC
88411481 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
88411501 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
88411521 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
88411541 GTCATGTGCATATCATATAT
1 ATCATGTGCATATCATACAT
*
88411561 ACCATGT
1 ATCATGT
88411568 TTATCAAAAT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 63 1.00
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:88411512 original size:11 final size:11
Alignment explanation
Indices: 88411481--88411556 Score: 74
Period size: 11 Copynumber: 7.5 Consensus size: 11
88411471 TTATGATTAC
88411481 ATCATGTGCAT
1 ATCATGTGCAT
*
88411492 ATCA--TACAT
1 ATCATGTGCAT
88411501 ATCATGTGCAT
1 ATCATGTGCAT
*
88411512 ATCA--TACAT
1 ATCATGTGCAT
88411521 ATCATGTGCAT
1 ATCATGTGCAT
*
88411532 ATCA--TACAT
1 ATCATGTGCAT
*
88411541 GTCATGTGCAT
1 ATCATGTGCAT
88411552 ATCAT
1 ATCAT
88411557 ATATACCATG
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
9 23 0.45
11 28 0.55
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:88419189 original size:31 final size:31
Alignment explanation
Indices: 88419151--88419214 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
88419141 CCTTTTCATA
*
88419151 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCAGAAGCCT
**
88419182 TTTCATATTTCATATTACTGGGCAGAAGCCT
1 TTTCATATTTCATAACACTGGGCAGAAGCCT
88419213 TT
1 TT
88419215 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCAGAAGCCT
Done.