Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 70 of 322
Found at i:22408792 original size:24 final size:24
Alignment explanation
Indices: 22408756--22408803 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
22408746 GGGATTAAAG
*
22408756 GACGTCGGGGGCATCGATCACACT
1 GACGTCGGAGGCATCGATCACACT
22408780 GACGTCGGAGGCATCGATCACACT
1 GACGTCGGAGGCATCGATCACACT
22408804 ATCACCTGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.23, C:0.29, G:0.31, T:0.17
Consensus pattern (24 bp):
GACGTCGGAGGCATCGATCACACT
Found at i:22413285 original size:42 final size:42
Alignment explanation
Indices: 22413235--22413373 Score: 152
Period size: 42 Copynumber: 3.3 Consensus size: 42
22413225 GTATGATTTA
22413235 TCATGTAAGACCATATCTGGGATATGGCGTTGATATGAGATT
1 TCATGTAAGACCATATCTGGGATATGGCGTTGATATGAGATT
** * * * * *
22413277 TCATGTAAGACCACGTCTGGGACAAGGCGTTGAAACGAGAAT
1 TCATGTAAGACCATATCTGGGATATGGCGTTGATATGAGATT
* * * * * *
22413319 TCGTATAAGACCATATCTGAGATATGGCATCGATATGAGATC
1 TCATGTAAGACCATATCTGGGATATGGCGTTGATATGAGATT
*
22413361 CCATGTAAGACCA
1 TCATGTAAGACCA
22413374 CCATGGGGTT
Statistics
Matches: 74, Mismatches: 23, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
42 74 1.00
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.26
Consensus pattern (42 bp):
TCATGTAAGACCATATCTGGGATATGGCGTTGATATGAGATT
Found at i:22419589 original size:15 final size:15
Alignment explanation
Indices: 22419569--22419601 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
22419559 TAATTCGAAT
*
22419569 ATACAATTGGTGTAA
1 ATACAATTGATGTAA
22419584 ATACAATTGATGTAA
1 ATACAATTGATGTAA
22419599 ATA
1 ATA
22419602 TCGAATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.45, C:0.06, G:0.15, T:0.33
Consensus pattern (15 bp):
ATACAATTGATGTAA
Found at i:22421539 original size:20 final size:21
Alignment explanation
Indices: 22421501--22421544 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
22421491 TTTTATTTTT
*
22421501 AATTCTTTTTTTAATTAAT-A
1 AATTCTTTATTTAATTAATGA
22421521 AATTCTTTATTT-ATATAATGA
1 AATTCTTTATTTAAT-TAATGA
22421542 AAT
1 AAT
22421545 AATAAGTGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 2 0.10
20 15 0.71
21 4 0.19
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.55
Consensus pattern (21 bp):
AATTCTTTATTTAATTAATGA
Found at i:22422891 original size:20 final size:20
Alignment explanation
Indices: 22422841--22422921 Score: 75
Period size: 18 Copynumber: 4.3 Consensus size: 20
22422831 TTCACTCTTT
*
22422841 CACTCACAATGCTTTTA-T-
1 CACTCACATTGCTTTTATTC
*
22422859 CACTAACCA-TGCTTTTATTC
1 CACTCA-CATTGCTTTTATTC
* *
22422879 CACTCACTTTGCTTTTA-AC
1 CACTCACATTGCTTTTATTC
22422898 C-CTCACATTGCTTTTATT-
1 CACTCACATTGCTTTTATTC
22422916 CACTCA
1 CACTCA
22422922 ATTTTTGTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
18 28 0.55
19 10 0.20
20 13 0.25
ACGTcount: A:0.23, C:0.31, G:0.05, T:0.41
Consensus pattern (20 bp):
CACTCACATTGCTTTTATTC
Found at i:22422892 original size:38 final size:37
Alignment explanation
Indices: 22422839--22422921 Score: 96
Period size: 38 Copynumber: 2.2 Consensus size: 37
22422829 TTTTCACTCT
*
22422839 TTCACTCACAATGCTTTTATCACTAACCA-TGCTTTTA
1 TTCACTCACAATGCTTTTAACACTAA-CATTGCTTTTA
** * *
22422876 TTCCACTCACTTTGCTTTTAACCCTCACATTGCTTTTA
1 TT-CACTCACAATGCTTTTAACACTAACATTGCTTTTA
22422914 TTCACTCA
1 TTCACTCA
22422922 ATTTTTGTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
37 10 0.26
38 29 0.74
ACGTcount: A:0.23, C:0.30, G:0.05, T:0.42
Consensus pattern (37 bp):
TTCACTCACAATGCTTTTAACACTAACATTGCTTTTA
Found at i:22425033 original size:27 final size:27
Alignment explanation
Indices: 22424987--22425097 Score: 136
Period size: 27 Copynumber: 4.1 Consensus size: 27
22424977 TTAGTCATGG
* *
22424987 TGGACTTCCT-GTGTTGAATGTCCCGA
1 TGGACTACCTCGTGTTTAATGTCCCGA
*
22425013 TGGACTACCTCGTGTTTAATGTCCTGA
1 TGGACTACCTCGTGTTTAATGTCCCGA
* *
22425040 TAGACTACCTTC-TGTTTAATGTCCCAA
1 TGGACTACC-TCGTGTTTAATGTCCCGA
* *
22425067 TTGACTACCTTGTGTTTAATGTCCCGA
1 TGGACTACCTCGTGTTTAATGTCCCGA
22425094 TGGA
1 TGGA
22425098 ATCTTTATGT
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
26 10 0.14
27 60 0.83
28 2 0.03
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.37
Consensus pattern (27 bp):
TGGACTACCTCGTGTTTAATGTCCCGA
Found at i:22430076 original size:102 final size:102
Alignment explanation
Indices: 22429919--22430112 Score: 388
Period size: 102 Copynumber: 1.9 Consensus size: 102
22429909 ATTGAGCCGA
22429919 AAATTGGAAAGGTTTAATAAATGTTTTGTGTTTGAGCCTTAGTAACGAAAATAAGATATGGATGT
1 AAATTGGAAAGGTTTAATAAATGTTTTGTGTTTGAGCCTTAGTAACGAAAATAAGATATGGATGT
22429984 GTTATGATTATTGATATATGTGTGCATGAGCATTTGT
66 GTTATGATTATTGATATATGTGTGCATGAGCATTTGT
22430021 AAATTGGAAAGGTTTAATAAATGTTTTGTGTTTGAGCCTTAGTAACGAAAATAAGATATGGATGT
1 AAATTGGAAAGGTTTAATAAATGTTTTGTGTTTGAGCCTTAGTAACGAAAATAAGATATGGATGT
22430086 GTTATGATTATTGATATATGTGTGCAT
66 GTTATGATTATTGATATATGTGTGCAT
22430113 TTGTGCGAGT
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
102 92 1.00
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.39
Consensus pattern (102 bp):
AAATTGGAAAGGTTTAATAAATGTTTTGTGTTTGAGCCTTAGTAACGAAAATAAGATATGGATGT
GTTATGATTATTGATATATGTGTGCATGAGCATTTGT
Found at i:22430164 original size:40 final size:40
Alignment explanation
Indices: 22430109--22430360 Score: 405
Period size: 40 Copynumber: 6.2 Consensus size: 40
22430099 ATATATGTGT
22430109 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
1 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
22430149 GCATTTGTGCGAGTTGATATATATCCGGGCTAAGACCCGAAG
1 GCATTTGTGCGAGTTG--ATATATCCGGGCTAAGACCCGAAG
*
22430191 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGCAG
1 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
*
22430231 GCATTTGTGTGAGTTGATATATCCGGGCTAAGACCCGAAG
1 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
* *
22430271 GCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAG
1 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
* * **
22430311 GCATTCGTGCGAGTTGCTATGCCCGGGCTAAGACCCGAAG
1 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
*
22430351 GCAATTGTGC
1 GCATTTGTGC
22430361 TTGTGGTAAT
Statistics
Matches: 196, Mismatches: 14, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
40 156 0.80
42 40 0.20
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.25
Consensus pattern (40 bp):
GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
Found at i:22438306 original size:200 final size:200
Alignment explanation
Indices: 22437963--22438363 Score: 766
Period size: 200 Copynumber: 2.0 Consensus size: 200
22437953 AGAGCAAAGG
22437963 GGAACTAAATCCGATAAAGGGAAGGAAAAAGTAATTGAATAGCCATTAAAGTTGTTCGACAACAT
1 GGAACTAAATCCGATAAAGGGAAGGAAAAAGTAATTGAATAGCCATTAAAGTTGTTCGACAACAT
22438028 CCGAGGTAAGTCTTCGAGTAATGACCCTACTTGAATTATATTGAAATGATTAGTCATACTATGAC
66 CCGAGGTAAGTCTTCGAGTAATGACCCTACTTGAATTATATTGAAATGATTAGTCATACTATGAC
* *
22438093 GGATAGCCGAATGTGCATAGAGCCTATGTTATAAAGCCAATTGAAATCATGCTCTTTGTGTGTGG
131 GGATAGCCGAATGTGCATAGAGACTATGTTATAAAGCCAATTGAAATCATGCTCTTTGTGTGTAG
22438158 CTATT
196 CTATT
22438163 GGAACTAAATCCGATAAAGGGAAGGAAAAAGTAATTGAATAGCCATTAAAGTTGTTCGACAACAT
1 GGAACTAAATCCGATAAAGGGAAGGAAAAAGTAATTGAATAGCCATTAAAGTTGTTCGACAACAT
22438228 CCGAGGTAAGTCTTCGAGTAATGACCCTACTTGAATTATATTGAAATGATTAGTCATACTATGAC
66 CCGAGGTAAGTCTTCGAGTAATGACCCTACTTGAATTATATTGAAATGATTAGTCATACTATGAC
* *
22438293 GGATAGCCGAATGTGCATAGAGACTATGTTATAAAGTCGATTGAAATCATGCTCTTTGTGTGTAG
131 GGATAGCCGAATGTGCATAGAGACTATGTTATAAAGCCAATTGAAATCATGCTCTTTGTGTGTAG
22438358 CTATT
196 CTATT
22438363 G
1 G
22438364 AGCCGAAATT
Statistics
Matches: 197, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
200 197 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (200 bp):
GGAACTAAATCCGATAAAGGGAAGGAAAAAGTAATTGAATAGCCATTAAAGTTGTTCGACAACAT
CCGAGGTAAGTCTTCGAGTAATGACCCTACTTGAATTATATTGAAATGATTAGTCATACTATGAC
GGATAGCCGAATGTGCATAGAGACTATGTTATAAAGCCAATTGAAATCATGCTCTTTGTGTGTAG
CTATT
Found at i:22439401 original size:80 final size:80
Alignment explanation
Indices: 22438478--22439386 Score: 1773
Period size: 80 Copynumber: 11.4 Consensus size: 80
22438468 TGAATGATAT
22438478 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
22438543 TGCGAGTTGCTATAC
66 TGCGAGTTGCTATAC
22438558 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
22438623 TGCGAGTTGCTATAC
66 TGCGAGTTGCTATAC
22438638 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
22438703 TGCGAGTTGCTATAC
66 TGCGAGTTGCTATAC
22438718 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
22438783 TGCGAGTTGCTATAC
66 TGCGAGTTGCTATAC
22438798 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
22438863 TGCGAGTTGCTATAC
66 TGCGAGTTGCTATAC
22438878 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
22438943 TGCGAGTTGCTATAC
66 TGCGAGTTGCTATAC
22438958 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
22439023 TGCGAGTTGCTATAC
66 TGCGAGTTGCTATAC
22439038 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
22439103 TGCGAGTTGCTATAC
66 TGCGAGTTGCTATAC
22439118 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
22439183 TGCGAGTTGCTATAC
66 TGCGAGTTGCTATAC
22439198 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
*
22439263 TGCGAGTTGCTATAT
66 TGCGAGTTGCTATAC
22439278 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
* *
22439343 TGCGAGTTGATATAT
66 TGCGAGTTGCTATAC
* *
22439358 CCGGGCTAAGACCCGAAGGCATTTGTGCT
1 CCGGGTTAAGACCCGAAGGCAATTGTGCT
22439387 TGTAGTTATA
Statistics
Matches: 825, Mismatches: 4, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 825 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (80 bp):
CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
TGCGAGTTGCTATAC
Found at i:22443416 original size:282 final size:282
Alignment explanation
Indices: 22442912--22443474 Score: 1117
Period size: 282 Copynumber: 2.0 Consensus size: 282
22442902 TCGTGAAAAA
22442912 GCAGGACGGAACCATGAGGTTGTGCATTGACTATCGTCAACTGAATAAAGCGACGATAAAGAATA
1 GCAGGACGGAACCATGAGGTTGTGCATTGACTATCGTCAACTGAATAAAGCGACGATAAAGAATA
22442977 AATATCCGTTACCGCGTATTGATGATTTGTTTGATCAACTAAAAGGAGCCTCAGTGTTCTCAAAA
66 AATATCCGTTACCGCGTATTGATGATTTGTTTGATCAACTAAAAGGAGCCTCAGTGTTCTCAAAA
22443042 ATAGATTTGAGATCGGGCTATTATCAGTTGCGAATTCGAGATTCGGACATACCCAAAACTGCCTT
131 ATAGATTTGAGATCGGGCTATTATCAGTTGCGAATTCGAGATTCGGACATACCCAAAACTGCCTT
*
22443107 CAGAACGAGATATGGTCACTACGAATTCTTAGTGATGCCGTTTGGGCTCACTAATGCCCCTGCGG
196 CAGAACGAGATATGGTCACTACGAATTCTTAGTGATGCCGTTTGGGCTCACTAATGCCCCTACGG
22443172 TATTTATGGATTTGATGAATCG
261 TATTTATGGATTTGATGAATCG
22443194 GCAGGACGGAACCATGAGGTTGTGCATTGACTATCGTCAACTGAATAAAGCGACGATAAAGAATA
1 GCAGGACGGAACCATGAGGTTGTGCATTGACTATCGTCAACTGAATAAAGCGACGATAAAGAATA
22443259 AATATCCGTTACCGCGTATTGATGATTTGTTTGATCAACTAAAAGGAGCCTCAGTGTTCTCAAAA
66 AATATCCGTTACCGCGTATTGATGATTTGTTTGATCAACTAAAAGGAGCCTCAGTGTTCTCAAAA
22443324 ATAGATTTGAGATCGGGCTATTATCAGTTGCGAATTCGAGATTCGGACATACCCAAAACTGCCTT
131 ATAGATTTGAGATCGGGCTATTATCAGTTGCGAATTCGAGATTCGGACATACCCAAAACTGCCTT
22443389 CAGAACGAGATATGGTCACTACGAATTCTTAGTGATGCCGTTTGGGCTCACTAATGCCCCTACGG
196 CAGAACGAGATATGGTCACTACGAATTCTTAGTGATGCCGTTTGGGCTCACTAATGCCCCTACGG
22443454 TATTTATGGATTTGATGAATC
261 TATTTATGGATTTGATGAATC
22443475 AGATCTTCAG
Statistics
Matches: 280, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
282 280 1.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (282 bp):
GCAGGACGGAACCATGAGGTTGTGCATTGACTATCGTCAACTGAATAAAGCGACGATAAAGAATA
AATATCCGTTACCGCGTATTGATGATTTGTTTGATCAACTAAAAGGAGCCTCAGTGTTCTCAAAA
ATAGATTTGAGATCGGGCTATTATCAGTTGCGAATTCGAGATTCGGACATACCCAAAACTGCCTT
CAGAACGAGATATGGTCACTACGAATTCTTAGTGATGCCGTTTGGGCTCACTAATGCCCCTACGG
TATTTATGGATTTGATGAATCG
Found at i:22448262 original size:12 final size:12
Alignment explanation
Indices: 22448245--22448271 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
22448235 ATTCCGAAGT
22448245 ATATATATATAC
1 ATATATATATAC
22448257 ATATATATATAC
1 ATATATATATAC
22448269 ATA
1 ATA
22448272 AGTATGCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:22448784 original size:27 final size:27
Alignment explanation
Indices: 22448753--22448903 Score: 178
Period size: 27 Copynumber: 5.6 Consensus size: 27
22448743 TAAATTGTAC
22448753 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
22448780 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
22448806 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
22448834 GGCACTAAGTGTGCGATTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
22448862 AGCACTAAGTGTGCGATTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
22448889 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
22448904 GACTCAATAT
Statistics
Matches: 105, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
27 82 0.78
28 23 0.22
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:22448869 original size:82 final size:81
Alignment explanation
Indices: 22448754--22448903 Score: 230
Period size: 82 Copynumber: 1.8 Consensus size: 81
22448744 AAATTGTACA
*
22448754 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATAT-ATAGCACTAAGTG
22448818 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** * *
22448835 GCACTAAGTGTGCGATTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATATAGCACTGAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATATAGCACTAAGTG
22448900 TGCG
65 TGCG
22448904 GACTCAATAT
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 17 0.27
82 45 0.73
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATATAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:22449965 original size:58 final size:58
Alignment explanation
Indices: 22449875--22449990 Score: 196
Period size: 58 Copynumber: 2.0 Consensus size: 58
22449865 CGTACCATAT
*
22449875 ATGTACAGATTCCTCACTCAGTCTAGTTTTCATAGAAACAAACGGTATCAGTATTGAA
1 ATGTACAGATTCCTCACTCAGTCTAGTTTTCATAGAAACAAACGGCATCAGTATTGAA
* * *
22449933 ATGTATAGATTCCTCTCTGAGTCTAGTTTTCATAGAAACAAACGGCATCAGTATTGAA
1 ATGTACAGATTCCTCACTCAGTCTAGTTTTCATAGAAACAAACGGCATCAGTATTGAA
22449991 GCCCCGTGCA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (58 bp):
ATGTACAGATTCCTCACTCAGTCTAGTTTTCATAGAAACAAACGGCATCAGTATTGAA
Found at i:22455588 original size:199 final size:198
Alignment explanation
Indices: 22455248--22455644 Score: 670
Period size: 199 Copynumber: 2.0 Consensus size: 198
22455238 TTCACATACA
* *
22455248 TTTCTCTAAATTTCTCTAGAAAGAATTCCCAATTTATCTGCTCATCAGGGGTCACACTTGTCAGC
1 TTTCTCTAAATTTCTCTAGAAAGAATTCCCAATCTATCTACTCATCAGGGGTCACACTTGTCAGC
* * *
22455313 GTTTCGCACCATTGATACGCCTCCCCTACTAGCAAGGAGATTTCACACAAAAGACTGTCCGCCGA
66 ATTTCGCACCATTGATACGCCTCCCCTACTAGCAAGGAGATTTCACAAAAAAGACTGTCCGCAGA
* * *
22455378 CATGCACTTTAACTTATTAATTACCCTAAAAATGCGTGATAACCATTACTCTGCTACTGTGGGGT
131 CATGCACTTTAACTCATTAATTACCC-AAAAACGCGTGATAACCATTACTCTGCTACCGTGGGGT
22455443 CATT
195 CATT
* *
22455447 TTTCTCTAAATTTCTCTAGACAGAATTCCCAATCTATCTACTCATCAGGGGTCACACTTGTTAGC
1 TTTCTCTAAATTTCTCTAGAAAGAATTCCCAATCTATCTACTCATCAGGGGTCACACTTGTCAGC
22455512 ATTTCGCACCATTGATACGCCTCCCCTACTAGCAAGGAGATTTCACAAAAAAGACTGTCCGACAG
66 ATTTCGCACCATTGATACGCCTCCCCTACTAGCAAGGAGATTTCACAAAAAAGACTGTCCG-CAG
*
22455577 -CATGCACTTTAACTCATTAATTACCCAAAAACGCGTGATAACCATTACTCTGCTGCCGTGGGGT
130 ACATGCACTTTAACTCATTAATTACCCAAAAACGCGTGATAACCATTACTCTGCTACCGTGGGGT
22455641 CATT
195 CATT
22455645 GCCCTTATCC
Statistics
Matches: 186, Mismatches: 11, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
198 39 0.21
199 145 0.78
200 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (198 bp):
TTTCTCTAAATTTCTCTAGAAAGAATTCCCAATCTATCTACTCATCAGGGGTCACACTTGTCAGC
ATTTCGCACCATTGATACGCCTCCCCTACTAGCAAGGAGATTTCACAAAAAAGACTGTCCGCAGA
CATGCACTTTAACTCATTAATTACCCAAAAACGCGTGATAACCATTACTCTGCTACCGTGGGGTC
ATT
Found at i:22474222 original size:14 final size:14
Alignment explanation
Indices: 22474203--22474235 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
22474193 TTAACATAAT
22474203 TTCCCAAGAAATTA
1 TTCCCAAGAAATTA
22474217 TTCCCAAGAAATTA
1 TTCCCAAGAAATTA
22474231 TTCCC
1 TTCCC
22474236 TAAATGACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.36, C:0.27, G:0.06, T:0.30
Consensus pattern (14 bp):
TTCCCAAGAAATTA
Found at i:22476705 original size:20 final size:20
Alignment explanation
Indices: 22476677--22476714 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
22476667 ACTATCATTT
*
22476677 TTTTCTTTATTTTATTAACC
1 TTTTATTTATTTTATTAACC
22476697 TTTTATTTATTTTATTAA
1 TTTTATTTATTTTATTAA
22476715 TAAAATAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTATTTATTTTATTAACC
Found at i:22487634 original size:36 final size:35
Alignment explanation
Indices: 22487594--22487664 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 35
22487584 CCCTTCATCT
22487594 CTTTCACTAATTCCTCTCATATCTGTTACATATTC
1 CTTTCACTAATTCCTCTCATATCTGTTACATATTC
*
22487629 NCTTTCCCTAATTCCTCTCATATCTGTTACATATTC
1 -CTTTCACTAATTCCTCTCATATCTGTTACATATTC
22487665 GTTGGTTGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.21, C:0.30, G:0.03, T:0.45
Consensus pattern (35 bp):
CTTTCACTAATTCCTCTCATATCTGTTACATATTC
Found at i:22494293 original size:17 final size:15
Alignment explanation
Indices: 22494259--22494318 Score: 50
Period size: 15 Copynumber: 3.8 Consensus size: 15
22494249 ATGAGATCTA
22494259 CACATATATCAATAT
1 CACATATATCAATAT
*
22494274 CACATATATGCAATTTT
1 CACATATAT-CAA-TAT
* *
22494291 CACAAACATCACA-AT
1 CACATATATCA-ATAT
22494306 CACATAATATCAA
1 CACAT-ATATCAA
22494319 CACATCACAC
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
15 15 0.43
16 10 0.29
17 10 0.29
ACGTcount: A:0.47, C:0.23, G:0.02, T:0.28
Consensus pattern (15 bp):
CACATATATCAATAT
Found at i:22495900 original size:50 final size:50
Alignment explanation
Indices: 22495787--22495986 Score: 206
Period size: 50 Copynumber: 3.9 Consensus size: 50
22495777 ACATTAAGGG
* *
22495787 AATGAGA--TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGA
1 AATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGGCATTGGCA-C--TGA
* ** *
22495838 GATTATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGTGTTGGCACCGA
1 -A--ATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGGCATTGGCACTGA
* *
22495891 AATGAGAGGTCCCCCGTAAGACCATGTCTAGGACATGGCATGGGCACTGA
1 AATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGGCATTGGCACTGA
* ** * * *
22495941 TATGAGAACTCCCACGTAAGACCATATCTGGGATATGGCATTGGCA
1 AATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGGCATTGGCA
22495987 GTATAGAAAA
Statistics
Matches: 126, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
50 81 0.64
52 2 0.02
53 2 0.02
54 6 0.05
55 1 0.01
56 34 0.27
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
AATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGGCATTGGCACTGA
Found at i:22495985 original size:100 final size:104
Alignment explanation
Indices: 22495800--22495986 Score: 238
Period size: 100 Copynumber: 1.8 Consensus size: 104
22495790 GAGATCCCAT
* * ** *
22495800 GTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCCATGTAAGACCA
1 GTAAGACCATGTCTAGGACATGGCATGGGCATCA-T-AGATTATGAGAACTCCCACGTAAGACCA
* **
22495865 TGTCTAGGACATGGTGTTGGCACCGAAATGAGAGGTCCCCC
64 TATCTAGGACATGGCATTGGCACCGAAATGAGAGGTCCCCC
22495906 GTAAGACCATGTCTAGGACATGGCATGGGCA-C-T-GA-TATGAGAACTCCCACGTAAGACCATA
1 GTAAGACCATGTCTAGGACATGGCATGGGCATCATAGATTATGAGAACTCCCACGTAAGACCATA
* *
22495967 TCTGGGATATGGCATTGGCA
66 TCTAGGACATGGCATTGGCA
22495987 GTATAGAAAA
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
100 38 0.54
101 2 0.03
103 1 0.01
105 1 0.01
106 29 0.41
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (104 bp):
GTAAGACCATGTCTAGGACATGGCATGGGCATCATAGATTATGAGAACTCCCACGTAAGACCATA
TCTAGGACATGGCATTGGCACCGAAATGAGAGGTCCCCC
Found at i:22496020 original size:49 final size:49
Alignment explanation
Indices: 22495850--22496045 Score: 144
Period size: 50 Copynumber: 3.9 Consensus size: 49
22495840 TTATGAGAGG
* * ** * * **
22495850 TCCCATGTAAGACCATGTCTAGGACATGGTGTTGGCACCG-AAATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA--GTATATGAAAAC
* * * * *
22495900 TCCCCCGTAAGACCATGTCTAGGACATGGCATGGGCACTGATATGAGAAC
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCAGT-ATATGAAAAC
* *
22495950 TCCCACGTAAGACCATATCTGGGATATGGCATTGGCAGTATA-GAAAAC
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCAGTATATGAAAAC
* * * * *
22495998 ATCTCATGTAAGACTATGTCTGGGACATAGCTTTGGCATGTATTATGA
1 -TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA-GTA-TATGA
22496046 GACAAGAGAC
Statistics
Matches: 117, Mismatches: 23, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
48 5 0.04
49 33 0.28
50 75 0.64
51 2 0.02
52 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (49 bp):
TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCAGTATATGAAAAC
Found at i:22503601 original size:50 final size:50
Alignment explanation
Indices: 22503498--22503690 Score: 179
Period size: 50 Copynumber: 3.7 Consensus size: 50
22503488 GGGAATGAGA
* * **
22503498 TCCCATGTAAGACCATATCCGGGACATGGAATTGGAATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATATCTGGGACATGGCATTGG---CACCGAG---ATGAGAGG
22503554 TCCCATGTAAGACCATATCTGGGACATGGCATTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATATCTGGGACATGGCATTGGCACCGAGATGAGAGG
** ** * * * **
22503604 TCCCCCGTAAGACCATGCCTGGGACATGGCATGGGCACCAATATGAGAAT
1 TCCCATGTAAGACCATATCTGGGACATGGCATTGGCACCGAGATGAGAGG
* ** *
22503654 TCCCATGTAAGACCATATTTGGGGTATGACATTGGCA
1 TCCCATGTAAGACCATATCTGGGACATGGCATTGGCA
22503691 GTACAGAAAA
Statistics
Matches: 115, Mismatches: 22, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
50 77 0.67
53 5 0.04
56 33 0.29
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATATCTGGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:22512526 original size:50 final size:50
Alignment explanation
Indices: 22512465--22512564 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
22512455 TTCAACTAAG
22512465 TATGAAGAAATTTCTTGATTGGGCTGGATTTTGGTTATTGGGCCTCGCTT
1 TATGAAGAAATTTCTTGATTGGGCTGGATTTTGGTTATTGGGCCTCGCTT
*
22512515 TATGAATAAATTTCTTGATTGGGCTGGATTTTGGTTATTGGGCCTCGCTT
1 TATGAAGAAATTTCTTGATTGGGCTGGATTTTGGTTATTGGGCCTCGCTT
22512565 CAAGAATTTG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.18, C:0.12, G:0.27, T:0.43
Consensus pattern (50 bp):
TATGAAGAAATTTCTTGATTGGGCTGGATTTTGGTTATTGGGCCTCGCTT
Found at i:22512822 original size:30 final size:30
Alignment explanation
Indices: 22512787--22512860 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
22512777 AGTTTTTCCC
22512787 AGCTCGATTT-AGCTCACAT-GAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATCGAGCTTAATTT
* *
22512817 AGCTCGTTTGAGCTCAATCTAGCTTAGTTT
1 AGCTCGTTTGAGCTCAATCGAGCTTAATTT
22512847 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
22512861 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 5 0.12
30 35 0.88
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATCGAGCTTAATTT
Found at i:22515858 original size:23 final size:22
Alignment explanation
Indices: 22515807--22515858 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
22515797 CCTCGTCTTT
*
22515807 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
22515829 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
22515852 TTCTTTT
1 TTCTTTT
22515859 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:22521467 original size:14 final size:14
Alignment explanation
Indices: 22521448--22521475 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
22521438 AATATTCAAA
22521448 CCTAATAATATTAG
1 CCTAATAATATTAG
22521462 CCTAATAATATTAG
1 CCTAATAATATTAG
22521476 AAATTAACTT
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:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (14 bp):
CCTAATAATATTAG
Found at i:22522092 original size:3 final size:3
Alignment explanation
Indices: 22522084--22522113 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
22522074 CATTTGTTAC
22522084 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
22522114 AAAATAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:22532800 original size:12 final size:12
Alignment explanation
Indices: 22532783--22532808 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
22532773 AACATCACCA
22532783 AAATAAATGTCC
1 AAATAAATGTCC
22532795 AAATAAATGTCC
1 AAATAAATGTCC
22532807 AA
1 AA
22532809 TGTCTATCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.15, G:0.08, T:0.23
Consensus pattern (12 bp):
AAATAAATGTCC
Found at i:22534267 original size:18 final size:19
Alignment explanation
Indices: 22534236--22534283 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 19
22534226 TTAAAACCAT
22534236 AAAAT-TTATTT-TTTT-A
1 AAAATATTATTTATTTTCA
*
22534252 AAAATATT-TTTATTTTCC
1 AAAATATTATTTATTTTCA
22534270 AAAATATTATTTAT
1 AAAATATTATTTAT
22534284 CGATTTTTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 8 0.30
17 6 0.22
18 8 0.30
19 5 0.19
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (19 bp):
AAAATATTATTTATTTTCA
Found at i:22537775 original size:45 final size:45
Alignment explanation
Indices: 22537667--22537775 Score: 134
Period size: 45 Copynumber: 2.4 Consensus size: 45
22537657 TTGGCTTGAA
* *
22537667 GAAAAATGATTAAGACCATAGTTGAAAGACATTATGGCACTATACC
1 GAAAAATGA-TAAGACCATAGTTGAAAGACACTATGGCACCATACC
22537713 GGAGAAAA--ATAAGACCATAGTTGAAAGACACTATGGCACCATACC
1 -GA-AAAATGATAAGACCATAGTTGAAAGACACTATGGCACCATACC
*
22537758 -AAAAATGAGTAAAACCAT
1 GAAAAATGA-TAAGACCAT
22537776 GACTGAAAGA
Statistics
Matches: 55, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
42 4 0.07
43 1 0.02
44 1 0.02
45 42 0.76
46 1 0.02
47 2 0.04
48 4 0.07
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.19
Consensus pattern (45 bp):
GAAAAATGATAAGACCATAGTTGAAAGACACTATGGCACCATACC
Found at i:22537814 original size:45 final size:45
Alignment explanation
Indices: 22537764--22537920 Score: 208
Period size: 45 Copynumber: 3.5 Consensus size: 45
22537754 TACCAAAAAT
*
22537764 GAGTAAAACCATGACTGAAAGACGTTATGGCATCACAATTCTATC
1 GAGTAAGACCATGACTGAAAGACGTTATGGCATCACAATTCTATC
* * * * * *
22537809 AAGTAAGACCATGACCGAAAGTCGTTATGGCTTTACGATTCTATC
1 GAGTAAGACCATGACTGAAAGACGTTATGGCATCACAATTCTATC
* * *
22537854 GAGTAAGACCATGATTGAAAGACGTTATGGCATCACAATTCGATT
1 GAGTAAGACCATGACTGAAAGACGTTATGGCATCACAATTCTATC
22537899 GAGTAAGACCAT-AGCTGAAAGA
1 GAGTAAGACCATGA-CTGAAAGA
22537921 TGCTATGACA
Statistics
Matches: 94, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
44 1 0.01
45 93 0.99
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (45 bp):
GAGTAAGACCATGACTGAAAGACGTTATGGCATCACAATTCTATC
Found at i:22537829 original size:90 final size:90
Alignment explanation
Indices: 22537735--22537910 Score: 194
Period size: 90 Copynumber: 2.0 Consensus size: 90
22537725 GACCATAGTT
22537735 GAAAGACACTATGGCACCATACCA-AAAAT-GAGTAAAACCATGACTGAAAGACGTTATGGCATC
1 GAAAGACACTATGG--CCATACCATAAAATCGAGTAAAACCATGACTGAAAGACGTTATGGCATC
*
22537798 ACAATTCTATCAAGTAAGACCATGACC
64 ACAATTCGATCAAGTAAGACCATGACC
* ** ** * *** * *
22537825 GAAAGTCGTTATGGCTTTACGATTCTATCGAGTAAGACCATGATTGAAAGACGTTATGGCATCAC
1 GAAAGACACTATGGCCATACCATAAAATCGAGTAAAACCATGACTGAAAGACGTTATGGCATCAC
**
22537890 AATTCGATTGAGTAAGACCAT
66 AATTCGATCAAGTAAGACCAT
22537911 AGCTGAAAGA
Statistics
Matches: 70, Mismatches: 14, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
88 5 0.07
89 2 0.03
90 63 0.90
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (90 bp):
GAAAGACACTATGGCCATACCATAAAATCGAGTAAAACCATGACTGAAAGACGTTATGGCATCAC
AATTCGATCAAGTAAGACCATGACC
Found at i:22537951 original size:90 final size:90
Alignment explanation
Indices: 22537771--22537971 Score: 217
Period size: 90 Copynumber: 2.2 Consensus size: 90
22537761 AATGAGTAAA
* * *
22537771 ACCATGACTGAAAGACGTTATGGCATCACAATTCTATCAAGTAAGACCATGACCGAAAGTCGTTA
1 ACCATGATTGAAAGACGTTATGGCATCACAATTCGATCAAGTAAGACCATGACCGAAAGTCGCTA
* * * * ** * *
22537836 TGGCTTTACGATTCTATCGAGTAAG
66 TGACATCACGAATAAAACGAATAAG
** *
22537861 ACCATGATTGAAAGACGTTATGGCATCACAATTCGATTGAGTAAGACCAT-AGCTGAAAGAT-GC
1 ACCATGATTGAAAGACGTTATGGCATCACAATTCGATCAAGTAAGACCATGA-CCGAAAG-TCGC
*
22537924 TATGACATCCCGAATAAAACGAATAAG
64 TATGACATCACGAATAAAACGAATAAG
* *
22537951 ACCATGGTTGAAAGACATTAT
1 ACCATGATTGAAAGACGTTAT
22537972 TGCAACACGA
Statistics
Matches: 92, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
89 1 0.01
90 90 0.98
91 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (90 bp):
ACCATGATTGAAAGACGTTATGGCATCACAATTCGATCAAGTAAGACCATGACCGAAAGTCGCTA
TGACATCACGAATAAAACGAATAAG
Found at i:22540667 original size:25 final size:25
Alignment explanation
Indices: 22540636--22540698 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
22540626 TTTTGAACTT
22540636 TATATTATTCATTTTAAATTGTTCAA
1 TATATTATTCATTTTAAATT-TTCAA
* * *
22540662 TA-ATTATTTATTTTAAGTTTTCCA
1 TATATTATTCATTTTAAATTTTCAA
22540686 TATATTA-TCATTT
1 TATATTATTCATTT
22540699 CATTTCCTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 11 0.34
25 19 0.59
26 2 0.06
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.57
Consensus pattern (25 bp):
TATATTATTCATTTTAAATTTTCAA
Found at i:22540915 original size:16 final size:16
Alignment explanation
Indices: 22540894--22540935 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
22540884 TAAATTATTT
22540894 TTTATTATATATA-TAC
1 TTTATTAT-TATAGTAC
*
22540910 TTTATTATTTTAGTAC
1 TTTATTATTATAGTAC
22540926 TTTATT-TTAT
1 TTTATTATTAT
22540936 TTTTACTTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (16 bp):
TTTATTATTATAGTAC
Found at i:22545324 original size:16 final size:16
Alignment explanation
Indices: 22545303--22545338 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
22545293 TTTTCAAAAA
22545303 AAAATCAAAAAAAATC
1 AAAATCAAAAAAAATC
22545319 AAAATCAAAAAAAATC
1 AAAATCAAAAAAAATC
22545335 AAAA
1 AAAA
22545339 AATATTCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.78, C:0.11, G:0.00, T:0.11
Consensus pattern (16 bp):
AAAATCAAAAAAAATC
Found at i:22545334 original size:26 final size:27
Alignment explanation
Indices: 22545299--22545349 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
22545289 ATGATTTTCA
22545299 AAAAAAAATCAAAAAA-AATCAAAATC
1 AAAAAAAATCAAAAAATAATCAAAATC
*
22545325 AAAAAAAATCAAAAAATATTCAAAA
1 AAAAAAAATCAAAAAATAATCAAAA
22545350 AAATGAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 16 0.70
27 7 0.30
ACGTcount: A:0.76, C:0.10, G:0.00, T:0.14
Consensus pattern (27 bp):
AAAAAAAATCAAAAAATAATCAAAATC
Found at i:22545347 original size:11 final size:10
Alignment explanation
Indices: 22545299--22545352 Score: 62
Period size: 10 Copynumber: 5.7 Consensus size: 10
22545289 ATGATTTTCA
22545299 AAAAAAAATC
1 AAAAAAAATC
22545309 AAAAAAAATC
1 AAAAAAAATC
22545319 ----AAAATC
1 AAAAAAAATC
22545325 AAAAAAAATC
1 AAAAAAAATC
*
22545335 AAAAAATATTC
1 AAAAAA-AATC
22545346 AAAAAAA
1 AAAAAAA
22545353 TGAAAATGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
6 6 0.16
10 23 0.61
11 9 0.24
ACGTcount: A:0.78, C:0.09, G:0.00, T:0.13
Consensus pattern (10 bp):
AAAAAAAATC
Found at i:22545379 original size:5 final size:5
Alignment explanation
Indices: 22545369--22545412 Score: 61
Period size: 5 Copynumber: 8.4 Consensus size: 5
22545359 TGAAAATGAT
*
22545369 GAAAA GAAAA GGAAAA GAAAA GAAAA GGAAAA GAAAA AAAAA GA
1 GAAAA GAAAA -GAAAA GAAAA GAAAA -GAAAA GAAAA GAAAA GA
22545413 GTAAAAACCC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 25 0.71
6 10 0.29
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:22545385 original size:11 final size:10
Alignment explanation
Indices: 22545369--22545412 Score: 61
Period size: 11 Copynumber: 4.2 Consensus size: 10
22545359 TGAAAATGAT
22545369 GAAAAGAAAA
1 GAAAAGAAAA
22545379 GGAAAAGAAAA
1 -GAAAAGAAAA
22545390 GAAAAGGAAAA
1 GAAAA-GAAAA
*
22545401 GAAAAAAAAA
1 GAAAAGAAAA
22545411 GA
1 GA
22545413 GTAAAAACCC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
10 11 0.35
11 20 0.65
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (10 bp):
GAAAAGAAAA
Found at i:22545390 original size:16 final size:16
Alignment explanation
Indices: 22545369--22545411 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
22545359 TGAAAATGAT
22545369 GAAAAGAAAAGGAAAA
1 GAAAAGAAAAGGAAAA
22545385 GAAAAGAAAAGGAAAA
1 GAAAAGAAAAGGAAAA
*
22545401 GAAAAAAAAAG
1 GAAAAGAAAAG
22545412 AGTAAAAACC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (16 bp):
GAAAAGAAAAGGAAAA
Found at i:22546411 original size:48 final size:48
Alignment explanation
Indices: 22546359--22546454 Score: 147
Period size: 48 Copynumber: 2.0 Consensus size: 48
22546349 AGGGAGAAGG
* * * **
22546359 GACCAAGGTGAAAACCCGCAAAGGGCGCTTTGAGTCTTAAAAATAAAA
1 GACCAAGGTGAAAACCCGAAAAGGACGCATTGAGTCCAAAAAATAAAA
22546407 GACCAAGGTGAAAACCCGAAAAGGACGCATTGAGTCCAAAAAATAAAA
1 GACCAAGGTGAAAACCCGAAAAGGACGCATTGAGTCCAAAAAATAAAA
22546455 ATATAAAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.14
Consensus pattern (48 bp):
GACCAAGGTGAAAACCCGAAAAGGACGCATTGAGTCCAAAAAATAAAA
Found at i:22547330 original size:24 final size:24
Alignment explanation
Indices: 22547298--22547344 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
22547288 AAAGTATAGT
*
22547298 AGATTAAACCTTGAGGATTACAGC
1 AGATTAAACCTTGAAGATTACAGC
22547322 AGATTAAACCTTGAAGATTACAG
1 AGATTAAACCTTGAAGATTACAG
22547345 TGGGAGGCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (24 bp):
AGATTAAACCTTGAAGATTACAGC
Found at i:22547911 original size:44 final size:45
Alignment explanation
Indices: 22547827--22547948 Score: 120
Period size: 44 Copynumber: 2.7 Consensus size: 45
22547817 CAAATTGCAG
* * * * * * *
22547827 CAGATCTTATCTTCCTGAAGTTTCAGTGGAACAGATTGAAGCCAC
1 CAGACCTTATCTCCCTAAAGTTGCAGCGGAACAGACTGAAGACAC
* *
22547872 CAG-CCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGACAG
1 CAGACCTTATCTCCCTAAAGTTGCAGCGGAACAGACTGAAGACAC
* * * *
22547916 CGGATCTTATTTCCCTAAAGTTGCAGTGGAACA
1 CAGACCTTATCTCCCTAAAGTTGCAGCGGAACA
22547949 TATTAAAGCT
Statistics
Matches: 62, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
44 34 0.55
45 28 0.45
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (45 bp):
CAGACCTTATCTCCCTAAAGTTGCAGCGGAACAGACTGAAGACAC
Found at i:22547946 original size:143 final size:143
Alignment explanation
Indices: 22547677--22548667 Score: 1341
Period size: 143 Copynumber: 7.0 Consensus size: 143
22547667 GATTGAAGTT
* * * *
22547677 ATTACGGCGGGTCTTATCTTACTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
1 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAACAGATTGAAGCCACCAGCCTTATCTCC
* * * ** * **
22547742 TTGAAGTTGTAGCGGAGCAGACTAAAGACAGCAAATCTTATTTCTCTGGCGTTGCAGTGGAACAG
66 CTGAAGTTGCAGCGGAGCAGACTGAAGACAGCGGATCTTATTTCCCTGAAGTTGCAGTGGAACAG
22547807 ATTAAAGCTACAA
131 ATTAAAGCTACAA
*** * *
22547820 ATTGCAGCAGATCTTATCTTCCTGAAGTTTCAGTGGAACAGATTGAAGCCACCAGCCTTATCTCC
1 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAACAGATTGAAGCCACCAGCCTTATCTCC
* * *
22547885 CTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGGATCTTATTTCCCTAAAGTTGCAGTGGAACAT
66 CTGAAGTTGCAGCGGAGCAGACTGAAGACAGCGGATCTTATTTCCCTGAAGTTGCAGTGGAACAG
22547950 ATTAAAGCTACAA
131 ATTAAAGCTACAA
*
22547963 ATTATGGCGGATCTTATCTTCCTGAAGTTTCAGT-GAAGCAGATTGAAGCCACCAGCCTTATCTC
1 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAA-CAGATTGAAGCCACCAGCCTTATCTC
* * * *
22548027 CATGAAGTTGCAACGGAGCATACTAAAGACAGCGGATCTTATTTCCCTGAAGTTGCAGTGGAACA
65 CCTGAAGTTGCAGCGGAGCAGACTGAAGACAGCGGATCTTATTTCCCTGAAGTTGCAGTGGAACA
*
22548092 GATTAAAGCTAAAA
130 GATTAAAGCTACAA
* * * *
22548106 ATTATGAC-GATCTTATCTTCTTGAAGTTGCAGTGGAGCAGATTGAAGTCACCAGCCTTATCTCC
1 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAACAGATTGAAGCCACCAGCCTTATCTCC
* * * * *
22548170 TTGAAGTTACAGCAGAGCAGAATGAAGACAGCGGATCTTA-TTCCCTTGAAGTTGCAGTGGAATA
66 CTGAAGTTGCAGCGGAGCAGACTGAAGACAGCGGATCTTATTTCCC-TGAAGTTGCAGTGGAACA
*
22548234 GATTGAAGCTACAA
130 GATTAAAGCTACAA
*
22548248 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGT-GAAGCAGATTGAAGCCACTAGCCTTAT-TC
1 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAA-CAGATTGAAGCCACCAGCCTTATCTC
* * *
22548311 CCTGAAGTTGCAGTGGAGCACACTGAAGACAACGGATCTTA-TTCCCTGAAGTTGCAGTGGAACA
65 CCTGAAGTTGCAGCGGAGCAGACTGAAGACAGCGGATCTTATTTCCCTGAAGTTGCAGTGGAACA
*
22548375 GATTAAAGCTAGAA
130 GATTAAAGCTACAA
* * * *
22548389 GTTACGGCGAATCTTATCTTCTTGAAGTTGCAGT-GAAGCAGATTGAAGCCACCAGCCTTATCTC
1 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAA-CAGATTGAAGCCACCAGCCTTATCTC
* * * *
22548453 CCTGAAGTTGCAGTGGAGCAGACTAAAGACAGCAGATCTTATTTCCCTGAAGTTGTAGTGGAACA
65 CCTGAAGTTGCAGCGGAGCAGACTGAAGACAGCGGATCTTATTTCCCTGAAGTTGCAGTGGAACA
*
22548518 AATTAAAGCTACAA
130 GATTAAAGCTACAA
* * *
22548532 ATTATGGCGGATCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTGAATCCACCAGCCTTATCTCC
1 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAACAGATTGAAGCCACCAGCCTTATCTCC
* * * * * * *
22548597 CTGAAGTTGCAGCGGAGCAGATTGAAGATAGTC-AATCCTATCTCCCTGAAGTTGCAATGGAGCA
66 CTGAAGTTGCAGCGGAGCAGACTGAAGACAG-CGGATCTTATTTCCCTGAAGTTGCAGTGGAACA
22548661 GATTAAA
130 GATTAAA
22548668 ATGATGGATC
Statistics
Matches: 749, Mismatches: 90, Indels: 18
0.87 0.11 0.02
Matches are distributed among these distances:
141 90 0.12
142 203 0.27
143 453 0.60
144 3 0.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (143 bp):
ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAACAGATTGAAGCCACCAGCCTTATCTCC
CTGAAGTTGCAGCGGAGCAGACTGAAGACAGCGGATCTTATTTCCCTGAAGTTGCAGTGGAACAG
ATTAAAGCTACAA
Found at i:22548367 original size:44 final size:45
Alignment explanation
Indices: 22548255--22548706 Score: 209
Period size: 44 Copynumber: 9.8 Consensus size: 45
22548245 CAAATTATGG
* * * *
22548255 CGGATCTTATCTTCCTGAAGTTGCAGTGAAGCAGATTGAAG-CCA
1 CGGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAA
* * *
22548299 C-TAGCCTTAT-TCCCTGAAGTTGCAGTGGAGCACACTGAAGACAA
1 CGGA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAA
* **
22548343 CGGATCTTAT-TCCCTGAAGTTGCAGTGGAACAGATTAAAGCTAGAAGTTACGG
1 CGGATCTTATCTCCCTGAAGTTGCAGTGGAGCAG-----A-CT-GAAG--ACAA
* * * * * * *
22548396 CGAATCTTATCTTCTTGAAGTTGCAGTGAAGCAGATTGAAGCCAC
1 CGGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAA
* * * *
22548441 CAG-CCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGACAG
1 CGGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAA
* * * * * * *
22548485 CAGATCTTATTTCCCTGAAGTTGTAGTGGAACAAATTAAAGCTACAAATTA
1 CGGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG--AC--A--A
* * * ** *
22548536 TGGCGGATCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTGAATCCAC
1 ---CGGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAA
* * * * * *
22548584 CAG-CCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGATAGT
1 CGGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACA-A
* * * * * **
22548629 C-AATCCTATCTCCCTGAAGTTGCAATGGAGCAGA-TTAAAATGA
1 CGGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAA
* * * *
22548672 TGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGA
1 CGGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
22548707 TCGTATCAGA
Statistics
Matches: 307, Mismatches: 75, Indels: 52
0.71 0.17 0.12
Matches are distributed among these distances:
43 27 0.09
44 136 0.44
45 64 0.21
47 6 0.02
48 1 0.00
49 3 0.01
50 3 0.01
51 4 0.01
52 1 0.00
53 11 0.04
54 51 0.17
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (45 bp):
CGGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAA
Found at i:22550362 original size:29 final size:29
Alignment explanation
Indices: 22550330--22550386 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
22550320 TATTAATTTA
22550330 TTTTGAACTTTATAATATTCATTTTAAAC
1 TTTTGAACTTTATAATATTCATTTTAAAC
*
22550359 TTTTGAACTTTATATTATTCATTTTAAA
1 TTTTGAACTTTATAATATTCATTTTAAA
22550387 TTGTTCAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.33, C:0.09, G:0.04, T:0.54
Consensus pattern (29 bp):
TTTTGAACTTTATAATATTCATTTTAAAC
Found at i:22550425 original size:25 final size:26
Alignment explanation
Indices: 22550369--22550431 Score: 78
Period size: 25 Copynumber: 2.5 Consensus size: 26
22550359 TTTTGAACTT
22550369 TATATTATTCATTTTAAATTGTTCAA
1 TATATTATTCATTTTAAATTGTTCAA
* * *
22550395 TA-ATTATTTATTTTAAGTT-TTCCA
1 TATATTATTCATTTTAAATTGTTCAA
22550419 TATATTA-TCATTT
1 TATATTATTCATTT
22550432 CATTTCCTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 11 0.34
25 19 0.59
26 2 0.06
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.57
Consensus pattern (26 bp):
TATATTATTCATTTTAAATTGTTCAA
Found at i:22550635 original size:16 final size:16
Alignment explanation
Indices: 22550616--22550657 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
22550606 TAAATTATTT
22550616 TTTATTATATATA-TAC
1 TTTATTAT-TATAGTAC
*
22550632 TTTATTATTTTAGTAC
1 TTTATTATTATAGTAC
22550648 TTTATT-TTAT
1 TTTATTATTAT
22550658 TTTTACTTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (16 bp):
TTTATTATTATAGTAC
Found at i:22556226 original size:47 final size:47
Alignment explanation
Indices: 22556161--22556751 Score: 867
Period size: 47 Copynumber: 12.4 Consensus size: 47
22556151 CAGCCAAGAG
* *
22556161 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
22556208 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
22556255 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
22556302 AGTGTATGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 A--G--TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
22556353 AGTATATGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AG----TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
22556404 AGTGTATATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * *
22556451 AGTGTATATGTGTGATAATGCCTAATAGCCGACGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
22556498 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
22556545 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
22556592 AGTGTATATATGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
22556639 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTAATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * * *
22556686 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTAATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
22556733 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
22556752 TCCCGAAAGG
Statistics
Matches: 508, Mismatches: 30, Indels: 12
0.92 0.05 0.02
Matches are distributed among these distances:
47 414 0.81
49 2 0.00
51 92 0.18
ACGTcount: A:0.33, C:0.09, G:0.28, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:22556926 original size:37 final size:37
Alignment explanation
Indices: 22556870--22556948 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
22556860 CCGAGCTCTA
* * *
22556870 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
22556907 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
22556944 AAGAC
1 AAGAC
22556949 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:22559947 original size:20 final size:20
Alignment explanation
Indices: 22559915--22559952 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
22559905 ATAAAATTAA
22559915 ATTTTCTAAATAT-ATTTTT
1 ATTTTCTAAATATCATTTTT
22559934 ATTTTCTGAAATATCATTT
1 ATTTTCT-AAATATCATTT
22559953 ATCGATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.41
20 6 0.35
21 4 0.24
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.58
Consensus pattern (20 bp):
ATTTTCTAAATATCATTTTT
Found at i:22560004 original size:22 final size:23
Alignment explanation
Indices: 22559968--22560010 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
22559958 TTTTTTAAAT
22559968 AAAAAATTAAGCTAACTAAATTTA
1 AAAAAATTAAGCTAA-TAAATTTA
22559992 AAAAAATT-A-CTAATAAATT
1 AAAAAATTAAGCTAATAAATT
22560011 CGATTAACTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 4 0.21
23 1 0.05
24 8 0.42
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.30
Consensus pattern (23 bp):
AAAAAATTAAGCTAATAAATTTA
Found at i:22562032 original size:6 final size:6
Alignment explanation
Indices: 22562021--22562098 Score: 66
Period size: 6 Copynumber: 12.2 Consensus size: 6
22562011 ACGTTCCCAC
* *
22562021 TTTCTT TTTCTT TATTCTT TTTGTT TTTGTT TTTCTTT CTTTCTT TTTCTT
1 TTTCTT TTTCTT T-TTCTT TTTCTT TTTCTT TTTC-TT -TTTCTT TTTCTT
* * *
22562072 TATTCCT TTTGTT TTTAATT TTTCTT T
1 T-TTCTT TTTCTT TTT-CTT TTTCTT T
22562099 CTTTCTACCA
Statistics
Matches: 60, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
6 36 0.60
7 20 0.33
8 4 0.07
ACGTcount: A:0.05, C:0.13, G:0.04, T:0.78
Consensus pattern (6 bp):
TTTCTT
Found at i:22562040 original size:13 final size:13
Alignment explanation
Indices: 22562022--22562081 Score: 68
Period size: 14 Copynumber: 4.5 Consensus size: 13
22562012 CGTTCCCACT
22562022 TTCTTTTTCTTTA
1 TTCTTTTTCTTTA
*
22562035 TTCTTTTTGTTT-
1 TTCTTTTTCTTTA
* *
22562047 TTGTTTTTCTTTCT
1 TTCTTTTTCTTT-A
22562061 TTCTTTTTCTTTA
1 TTCTTTTTCTTTA
22562074 TTCCTTTT
1 TT-CTTTT
22562082 GTTTTTAATT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
12 10 0.26
13 13 0.33
14 16 0.41
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.78
Consensus pattern (13 bp):
TTCTTTTTCTTTA
Found at i:22562070 original size:39 final size:40
Alignment explanation
Indices: 22562020--22562104 Score: 145
Period size: 39 Copynumber: 2.1 Consensus size: 40
22562010 CACGTTCCCA
* *
22562020 CTTTCTTTTTCTTTATTCTTTTTGTTTTT-GTTTTTCTTT
1 CTTTCTTTTTCTTTATTCCTTTTGTTTTTAATTTTTCTTT
22562059 CTTTCTTTTTCTTTATTCCTTTTGTTTTTAATTTTTCTTT
1 CTTTCTTTTTCTTTATTCCTTTTGTTTTTAATTTTTCTTT
22562099 CTTTCT
1 CTTTCT
22562105 ACCATTTATA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
39 28 0.65
40 15 0.35
ACGTcount: A:0.05, C:0.15, G:0.04, T:0.76
Consensus pattern (40 bp):
CTTTCTTTTTCTTTATTCCTTTTGTTTTTAATTTTTCTTT
Found at i:22562113 original size:39 final size:38
Alignment explanation
Indices: 22562030--22562113 Score: 98
Period size: 39 Copynumber: 2.2 Consensus size: 38
22562020 CTTTCTTTTT
* * **
22562030 CTTTATTCTTTTTGTTTTTGTTTTTCTTTCTTTCTTTTT
1 CTTTATTCCTTTTGTTTTTATTTTTCTTTCTTTC-TTAC
22562069 CTTTATTCCTTTTGTTTTTAATTTTTCTTTCTTTC-TAC
1 CTTTATTCCTTTTGTTTTT-ATTTTTCTTTCTTTCTTAC
22562107 CATTTAT
1 C-TTTAT
22562114 ATTTGTTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
38 2 0.05
39 23 0.59
40 14 0.36
ACGTcount: A:0.08, C:0.15, G:0.04, T:0.73
Consensus pattern (38 bp):
CTTTATTCCTTTTGTTTTTATTTTTCTTTCTTTCTTAC
Found at i:22562914 original size:43 final size:43
Alignment explanation
Indices: 22562815--22563072 Score: 195
Period size: 43 Copynumber: 6.0 Consensus size: 43
22562805 ACGCTACTAT
* * * * *
22562815 AGATCATGACCTTTAGCGGCGC-TTTCTCCACAAACGTCGCCAT
1 AGATCAAGACCTTTAGCGGCACTTTTC-CCACAAACGCCGCTAA
* * * *
22562858 AGGT-TAGAACCTTTAGCGACACTTTTCCCACAAACGCCGCTAT
1 AGATCAAG-ACCTTTAGCGGCACTTTTCCCACAAACGCCGCTAA
* * *** *
22562901 AGGTCAAGGCCTTTAGCGGCA-TTTTTTTACAAACGCCGCTTTA
1 AGATCAAGACCTTTAGCGGCACTTTTCCCACAAACGCCGC-TAA
* * * * *
22562944 A-ATCAGGACCTTTAGCGACGCTTTTTTCGA-AAACGCCGCTAA
1 AGATCAAGACCTTTAGCGGCAC-TTTTCCCACAAACGCCGCTAA
** *
22562986 AGATCAAGACCTTTAGCGGCA-TTTTTTCGCAAACGCCGCTAA
1 AGATCAAGACCTTTAGCGGCACTTTTCCCACAAACGCCGCTAA
* * * *
22563028 AAATCAAGACCTTTAACGGCGCTTTTCCCACAAACGTCGCTAA
1 AGATCAAGACCTTTAGCGGCACTTTTCCCACAAACGCCGCTAA
22563071 AG
1 AG
22563073 GTCTCAAAAA
Statistics
Matches: 169, Mismatches: 37, Indels: 18
0.75 0.17 0.08
Matches are distributed among these distances:
41 5 0.03
42 63 0.37
43 89 0.53
44 12 0.07
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (43 bp):
AGATCAAGACCTTTAGCGGCACTTTTCCCACAAACGCCGCTAA
Found at i:22562956 original size:42 final size:42
Alignment explanation
Indices: 22562866--22563071 Score: 191
Period size: 42 Copynumber: 4.8 Consensus size: 42
22562856 ATAGGTTAGA
* ** * **
22562866 ACCTTTAGCGACACTTTTCCCACAAACGCCGCTATAGGTCAAG
1 ACCTTTAGCGGCA-TTTTTTCACAAACGCCGCTAAAAATCAAG
* * ** *
22562909 GCCTTTAGCGGCATTTTTTTACAAACGCCGCTTTAAATCAGG
1 ACCTTTAGCGGCATTTTTTCACAAACGCCGCTAAAAATCAAG
*
22562951 ACCTTTAGCGACGC-TTTTTTCGA-AAACGCCGCTAAAGATCAAG
1 ACCTTTAGCG--GCATTTTTTC-ACAAACGCCGCTAAAAATCAAG
*
22562994 ACCTTTAGCGGCATTTTTTCGCAAACGCCGCTAAAAATCAAG
1 ACCTTTAGCGGCATTTTTTCACAAACGCCGCTAAAAATCAAG
* * ** *
22563036 ACCTTTAACGGCGCTTTTCCCACAAACGTCGCTAAA
1 ACCTTTAGCGGC-ATTTTTTCACAAACGCCGCTAAA
22563072 GGTCTCAAAA
Statistics
Matches: 134, Mismatches: 23, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
41 2 0.01
42 68 0.51
43 61 0.46
44 3 0.02
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (42 bp):
ACCTTTAGCGGCATTTTTTCACAAACGCCGCTAAAAATCAAG
Found at i:22562968 original size:85 final size:85
Alignment explanation
Indices: 22562866--22563075 Score: 278
Period size: 85 Copynumber: 2.5 Consensus size: 85
22562856 ATAGGTTAGA
* * * *
22562866 ACCTTTAGCGACACTTTTCCCACAAACGCCGCTATAGGTCAAGGCCTTTAGCGGCATTTTTTTAC
1 ACCTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGGTCAAGACCTTTAGCGGCATTTTTTCAC
** *
22562931 AAACGCCGCTTTAAATCAGG
66 AAACGCCGCTAAAAATCAAG
* * * *
22562951 ACCTTTAGCGACGCTTTTTTCGA-AAACGCCGCTAAAGATCAAGACCTTTAGCGGCATTTTTTCG
1 ACCTTTAGCGACGC-TTTTCCCACAAACGCCGCTAAAGGTCAAGACCTTTAGCGGCATTTTTTCA
22563015 CAAACGCCGCTAAAAATCAAG
65 CAAACGCCGCTAAAAATCAAG
* * *
22563036 ACCTTTAACGGCGCTTTTCCCACAAACGTCGCTAAAGGTC
1 ACCTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGGTC
22563076 TCAAAAACGC
Statistics
Matches: 106, Mismatches: 17, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
84 6 0.06
85 94 0.89
86 6 0.06
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.27
Consensus pattern (85 bp):
ACCTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGGTCAAGACCTTTAGCGGCATTTTTTCAC
AAACGCCGCTAAAAATCAAG
Found at i:22563682 original size:5 final size:5
Alignment explanation
Indices: 22563672--22563697 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
22563662 TGTAATGGCA
22563672 AAAAC AAAAC AAAAC AAAAC AAAAC A
1 AAAAC AAAAC AAAAC AAAAC AAAAC A
22563698 TGCTGACTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:22567292 original size:7 final size:7
Alignment explanation
Indices: 22567280--22567420 Score: 50
Period size: 7 Copynumber: 19.7 Consensus size: 7
22567270 ACTAATTAAT
22567280 CTAAACC
1 CTAAACC
22567287 CTAAACC
1 CTAAACC
* *
22567294 CTTATCC
1 CTAAACC
22567301 CTTAAACC
1 C-TAAACC
* *
22567309 GTAAATC
1 CTAAACC
* *
22567316 ATAAAAC
1 CTAAACC
* *
22567323 ATAACCC
1 CTAAACC
22567330 CTAAACC
1 CTAAACC
*
22567337 CTTAACCC
1 C-TAAACC
22567345 CTAAACC
1 CTAAACC
* *
22567352 TTAAA-T
1 CTAAACC
*
22567358 CTCAACC
1 CTAAACC
*
22567365 CTTAAACA
1 C-TAAACC
*
22567373 ATAAACC
1 CTAAACC
*
22567380 ATAAACC
1 CTAAACC
* *
22567387 GTAATCC
1 CTAAACC
*
22567394 TTAAACC
1 CTAAACC
*
22567401 CATAATCC
1 C-TAAACC
*
22567409 ATAAACC
1 CTAAACC
*
22567416 TTAAA
1 CTAAA
22567421 ATAGTAACTC
Statistics
Matches: 97, Mismatches: 32, Indels: 10
0.70 0.23 0.07
Matches are distributed among these distances:
6 3 0.03
7 75 0.77
8 19 0.20
ACGTcount: A:0.43, C:0.33, G:0.01, T:0.23
Consensus pattern (7 bp):
CTAAACC
Found at i:22567344 original size:15 final size:14
Alignment explanation
Indices: 22567324--22567355 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
22567314 TCATAAAACA
22567324 TAACCCCTAAACCCT
1 TAACCCCTAAA-CCT
22567339 TAACCCCTAAACCT
1 TAACCCCTAAACCT
22567353 TAA
1 TAA
22567356 ATCTCAACCC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.38, C:0.41, G:0.00, T:0.22
Consensus pattern (14 bp):
TAACCCCTAAACCT
Found at i:22567383 original size:64 final size:64
Alignment explanation
Indices: 22567299--22567420 Score: 154
Period size: 64 Copynumber: 1.9 Consensus size: 64
22567289 AAACCCTTAT
** * * *
22567299 CCCTTAAACCGTAAATCATAAAACATAACCCCTAAACCCTTAACCCCTAAACCTTAAATCTCAA
1 CCCTTAAACAATAAACCATAAAACATAACCCCTAAACCCATAACCCATAAACCTTAAATCTCAA
* * * * *
22567363 CCCTTAAACAATAAACCATAAACCGTAATCCTTAAACCCATAATCCATAAACCTTAAA
1 CCCTTAAACAATAAACCATAAAACATAACCCCTAAACCCATAACCCATAAACCTTAAA
22567421 ATAGTAACTC
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
64 48 1.00
ACGTcount: A:0.44, C:0.32, G:0.02, T:0.22
Consensus pattern (64 bp):
CCCTTAAACAATAAACCATAAAACATAACCCCTAAACCCATAACCCATAAACCTTAAATCTCAA
Found at i:22567987 original size:15 final size:15
Alignment explanation
Indices: 22567952--22567989 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
22567942 TCCCAACCCT
*
22567952 TAAA-CCATAATGCC
1 TAAATCCATAATCCC
22567966 T-AATCCATAATCCC
1 TAAATCCATAATCCC
22567980 TAAATCCATA
1 TAAATCCATA
22567990 TATAATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 2 0.10
14 11 0.52
15 8 0.38
ACGTcount: A:0.42, C:0.29, G:0.03, T:0.26
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:22568238 original size:15 final size:14
Alignment explanation
Indices: 22568210--22568310 Score: 66
Period size: 14 Copynumber: 7.2 Consensus size: 14
22568200 CTAGTTAATC
22568210 TAAACCCTAAACCA
1 TAAACCCTAAACCA
22568224 TAAACCCTAAAACCA
1 TAAACCCT-AAACCA
* * *
22568239 AAAACCCTTAACACG
1 TAAACCCTAAAC-CA
*
22568254 T-AA--CTAAACCT
1 TAAACCCTAAACCA
* *
22568265 TAAACCCT-AGCCTT
1 TAAACCCTAAACC-A
*
22568279 TAAACCATAAACCA
1 TAAACCCTAAACCA
*
22568293 TAACCCCTAAACCCA
1 TAAACCCTAAA-CCA
22568308 TAA
1 TAA
22568311 TTCATATACC
Statistics
Matches: 67, Mismatches: 12, Indels: 15
0.71 0.13 0.16
Matches are distributed among these distances:
11 2 0.03
12 7 0.10
13 3 0.04
14 32 0.48
15 23 0.34
ACGTcount: A:0.47, C:0.34, G:0.02, T:0.18
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:22568672 original size:41 final size:41
Alignment explanation
Indices: 22568613--22568847 Score: 319
Period size: 41 Copynumber: 5.7 Consensus size: 41
22568603 AAGAGAATTC
* *
22568613 GCGGCGCTTTCTCAAAAACGCTGCTAAAGCCCTGAGCATTA
1 GCGGTGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * * * *
22568654 GAGGTGCTTCCTCAAAAACGCTGCTAAAGCCATTAGCATTA
1 GCGGTGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * *
22568695 GC-GTCGCTTTGTCAAAAATGCCGCTAAAGCCATGAGCATTA
1 GCGGT-GCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
*
22568736 GCGGTGCTTTCTCAAAAACGCCGCTAAAGCCCTAAGCATTA
1 GCGGTGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
*
22568777 GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
1 GCGGTGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* **
22568818 GCGGCGCTTTCTCAAAAACATCGCTAAAGC
1 GCGGTGCTTTCTCAAAAACGCCGCTAAAGC
22568848 ACCCGAAAGC
Statistics
Matches: 173, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
40 2 0.01
41 169 0.98
42 2 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (41 bp):
GCGGTGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
Found at i:22568721 original size:82 final size:82
Alignment explanation
Indices: 22568613--22568847 Score: 353
Period size: 82 Copynumber: 2.9 Consensus size: 82
22568603 AAGAGAATTC
* * * *
22568613 GCGGCGCTTTCTCAAAAACGCTGCTAAAGCCCTGAGCATTAGAGGTGCTTCCTCAAAAACGCTGC
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGTGCTTTCTCAAAAACGCCGC
*
22568678 TAAAGCCATTAGCATTA
66 TAAAGCCATAAGCATTA
* * * *
22568695 GCGTCGCTTTGTCAAAAATGCCGCTAAAGCCATGAGCATTAGCGGTGCTTTCTCAAAAACGCCGC
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGTGCTTTCTCAAAAACGCCGC
*
22568760 TAAAGCCCTAAGCATTA
66 TAAAGCCATAAGCATTA
* **
22568777 GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTCAAAAACATCGC
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGTGCTTTCTCAAAAACGCCGC
22568842 TAAAGC
66 TAAAGC
22568848 ACCCGAAAGC
Statistics
Matches: 136, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
82 136 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (82 bp):
GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGTGCTTTCTCAAAAACGCCGC
TAAAGCCATAAGCATTA
Found at i:22568791 original size:123 final size:123
Alignment explanation
Indices: 22568570--22568835 Score: 349
Period size: 123 Copynumber: 2.2 Consensus size: 123
22568560 ATCCCTAAGA
* * * * * *
22568570 ATTAGCGGCGCTTT-TTAGAAAACGCCGCTAAA--AAAGAGAATTCGCGGCGCTTTCTCAAAAAC
1 ATTAGCGGCGCTTTCTCA-AAAATGCCGCTAAAGCCATGAGCATTAGCGGCGCTTTCTCAAAAAC
* * * * *
22568632 GCTGCTAAAGCCCTGAGCATTAGAGGTGCTTCCTCAAAAACGCTGCTAAAGCCATTAGC
65 GCCGCTAAAGCCCTAAGCATTAGAGGCGCTTCCTCAAAAACGCCGCTAAAGCCATGAGC
* * *
22568691 ATTAGCGTCGCTTTGTCAAAAATGCCGCTAAAGCCATGAGCATTAGCGGTGCTTTCTCAAAAACG
1 ATTAGCGGCGCTTTCTCAAAAATGCCGCTAAAGCCATGAGCATTAGCGGCGCTTTCTCAAAAACG
* * *
22568756 CCGCTAAAGCCCTAAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGC
66 CCGCTAAAGCCCTAAGCATTAGAGGCGCTTCCTCAAAAACGCCGCTAAAGCCATGAGC
22568814 ATTAGCGGCGCTTTCTCAAAAA
1 ATTAGCGGCGCTTTCTCAAAAA
22568836 CATCGCTAAA
Statistics
Matches: 124, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
121 26 0.21
122 2 0.02
123 96 0.77
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (123 bp):
ATTAGCGGCGCTTTCTCAAAAATGCCGCTAAAGCCATGAGCATTAGCGGCGCTTTCTCAAAAACG
CCGCTAAAGCCCTAAGCATTAGAGGCGCTTCCTCAAAAACGCCGCTAAAGCCATGAGC
Found at i:22568977 original size:40 final size:40
Alignment explanation
Indices: 22568916--22569015 Score: 134
Period size: 40 Copynumber: 2.5 Consensus size: 40
22568906 AAACGCAGCA
* * *
22568916 GCTAATGCT-TATTTTTAGCGGCGTTTTTCATAAAACGC-C-
1 GCTAATGCTCGATCTTTAGCGGCGTTTTCCA-AAAA-GCTCT
22568955 GCTAATGCTCGATCTTTAGCGGCGTTTTCCAAAAAGCTCT
1 GCTAATGCTCGATCTTTAGCGGCGTTTTCCAAAAAGCTCT
22568995 GCTAATGCTCGATCTTTAGCG
1 GCTAATGCTCGATCTTTAGCG
22569016 CCATTTTTTA
Statistics
Matches: 55, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
38 2 0.04
39 14 0.25
40 39 0.71
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (40 bp):
GCTAATGCTCGATCTTTAGCGGCGTTTTCCAAAAAGCTCT
Found at i:22569182 original size:31 final size:31
Alignment explanation
Indices: 22569146--22569204 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
22569136 AGGCAACTTG
* **
22569146 GGTAGGTCGTGTGGGGCACATGGGCTGGTTA
1 GGTAGGCCGTGTGGACCACATGGGCTGGTTA
22569177 GGTAGGCCGTGTGGACCACATGGGCTGG
1 GGTAGGCCGTGTGGACCACATGGGCTGG
22569205 CCAATTAGGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.14, C:0.17, G:0.47, T:0.22
Consensus pattern (31 bp):
GGTAGGCCGTGTGGACCACATGGGCTGGTTA
Found at i:22572692 original size:2 final size:2
Alignment explanation
Indices: 22572685--22572710 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
22572675 GCACAACCTA
22572685 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
22572711 GGATCCATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22585294 original size:10 final size:11
Alignment explanation
Indices: 22585266--22585297 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
22585256 AGTATACTTA
22585266 CTATTTTTAAT
1 CTATTTTTAAT
*
22585277 TTATTTTTAAT
1 CTATTTTTAAT
22585288 CTATTTTTAA
1 CTATTTTTAA
22585298 CTAAATAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (11 bp):
CTATTTTTAAT
Found at i:22585861 original size:32 final size:33
Alignment explanation
Indices: 22585813--22585886 Score: 114
Period size: 32 Copynumber: 2.2 Consensus size: 33
22585803 GGTTTTTAAT
22585813 ATATATATATGCGTGCATGGGTGTTATA-TATA
1 ATATATATATGCGTGCATGGGTGTTATAGTATA
* *
22585845 ATATATATTTGGGTGCATGGGTGTTATATGTATA
1 ATATATATATGCGTGCATGGGTGTTATA-GTATA
22585879 ATATATAT
1 ATATATAT
22585887 GTGTGGGTCT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
32 26 0.68
34 12 0.32
ACGTcount: A:0.31, C:0.04, G:0.22, T:0.43
Consensus pattern (33 bp):
ATATATATATGCGTGCATGGGTGTTATAGTATA
Found at i:22585972 original size:29 final size:28
Alignment explanation
Indices: 22585910--22585985 Score: 91
Period size: 29 Copynumber: 2.7 Consensus size: 28
22585900 ATATACACAG
*
22585910 TACATAT-ATATATATGCGTGGTTTTGC
1 TACATATAATATATATGCGTGGTTTTAC
* *
22585937 TACATATAATATATATGTGTAGGTTTTAT
1 TACATATAATATATATGCGT-GGTTTTAC
* *
22585966 TATATATAATATGTATGCGT
1 TACATATAATATATATGCGT
22585986 TATAGGTTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
27 7 0.17
28 11 0.27
29 23 0.56
ACGTcount: A:0.32, C:0.07, G:0.16, T:0.46
Consensus pattern (28 bp):
TACATATAATATATATGCGTGGTTTTAC
Found at i:22588949 original size:53 final size:53
Alignment explanation
Indices: 22588878--22589010 Score: 142
Period size: 53 Copynumber: 2.5 Consensus size: 53
22588868 TCGTGACCTT
** * * *
22588878 TTACAAGATTTTTGGAATCTTGCAGTTTGTCAATTTATGATCGCAACC-TATAC
1 TTACAAGATTTTCAGAATCTTGCAGCTT-ACAATTTAAGATCGCAACCTTATAC
* * * * *
22588931 TTACAAGGTTTTCAGAATCTTGCGGCTTACGATTTAAGATCGCAACCTTTTGC
1 TTACAAGATTTTCAGAATCTTGCAGCTTACAATTTAAGATCGCAACCTTATAC
* *
22588984 TTACAAGATTTTCATAATCTTGTAGCT
1 TTACAAGATTTTCAGAATCTTGCAGCT
22589011 AGCCGATCTA
Statistics
Matches: 65, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
52 16 0.25
53 49 0.75
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.39
Consensus pattern (53 bp):
TTACAAGATTTTCAGAATCTTGCAGCTTACAATTTAAGATCGCAACCTTATAC
Found at i:22592338 original size:62 final size:62
Alignment explanation
Indices: 22592241--22592366 Score: 216
Period size: 62 Copynumber: 2.0 Consensus size: 62
22592231 AAAAGAGAGA
* *
22592241 AAGCCATTATCATCACTTTCTCCACCGAAACAATAGAAAAGAAACCCTTGTTCTTTCAAGTT
1 AAGCCATTATCATCACTTTCTCCACCAAAAAAATAGAAAAGAAACCCTTGTTCTTTCAAGTT
* *
22592303 AAGCCATTATCATCACTTTCTCCACCAAAAAAATAGAAAAGAAATCCTTGTTCTTTCAATTT
1 AAGCCATTATCATCACTTTCTCCACCAAAAAAATAGAAAAGAAACCCTTGTTCTTTCAAGTT
22592365 AA
1 AA
22592367 ACATTCGGCC
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.38, C:0.24, G:0.08, T:0.30
Consensus pattern (62 bp):
AAGCCATTATCATCACTTTCTCCACCAAAAAAATAGAAAAGAAACCCTTGTTCTTTCAAGTT
Found at i:22593174 original size:28 final size:28
Alignment explanation
Indices: 22593142--22593212 Score: 101
Period size: 28 Copynumber: 2.5 Consensus size: 28
22593132 AATGAGATTG
22593142 GCACTAAGTGTGCGAGTTT-AAT-TGTAAA
1 GCACTAAGTGTGCGAGTTTGAATAT-T-AA
*
22593170 GCACTAAGTGTGTGAGTTTGAATATTAA
1 GCACTAAGTGTGCGAGTTTGAATATTAA
22593198 GCACTAAGTGTGCGA
1 GCACTAAGTGTGCGA
22593213 ACTTGTTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 34 0.87
29 4 0.10
30 1 0.03
ACGTcount: A:0.31, C:0.11, G:0.27, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGAATATTAA
Found at i:22595165 original size:19 final size:19
Alignment explanation
Indices: 22595141--22595181 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
22595131 CGAATCTAAA
** *
22595141 TCAGAAACTTATACAATTT
1 TCAGAAACAGATAAAATTT
22595160 TCAGAAACAGATAAAATTT
1 TCAGAAACAGATAAAATTT
22595179 TCA
1 TCA
22595182 AACTGCAGGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.46, C:0.15, G:0.07, T:0.32
Consensus pattern (19 bp):
TCAGAAACAGATAAAATTT
Found at i:22604378 original size:31 final size:31
Alignment explanation
Indices: 22604340--22604551 Score: 138
Period size: 31 Copynumber: 6.8 Consensus size: 31
22604330 TAAGGGTAAA
22604340 CTCACGAGGTGATCCCATCACGCCTCACCAT
1 CTCACGAGGTGATCCCATCACGCCTCACCAT
* * * * *
22604371 CTCACGAGGCGATCTCACCATGCCACACCAT
1 CTCACGAGGTGATCCCATCACGCCTCACCAT
* * * * *
22604402 CTCGCTAAGTGATCCCACCACGCCTTACCAT
1 CTCACGAGGTGATCCCATCACGCCTCACCAT
* * * *
22604433 CTCACTAAGTGATCCCATCACACCTCACCAC
1 CTCACGAGGTGATCCCATCACGCCTCACCAT
* * * ** *
22604464 CTCATGAGGTAACCCCA-CTGTGCCTTACCAT
1 CTCACGAGGTGATCCCATC-ACGCCTCACCAT
*** * * * *
22604495 CTCGTTAGGTGATCCCATCACACATTACCAC
1 CTCACGAGGTGATCCCATCACGCCTCACCAT
** *
22604526 CTTGCGAGGTGATCCCATCATGCCTC
1 CTCACGAGGTGATCCCATCACGCCTC
22604552 TATCACACAT
Statistics
Matches: 135, Mismatches: 44, Indels: 4
0.74 0.24 0.02
Matches are distributed among these distances:
30 1 0.01
31 133 0.99
32 1 0.01
ACGTcount: A:0.24, C:0.40, G:0.15, T:0.22
Consensus pattern (31 bp):
CTCACGAGGTGATCCCATCACGCCTCACCAT
Found at i:22604538 original size:93 final size:93
Alignment explanation
Indices: 22604340--22604545 Score: 223
Period size: 93 Copynumber: 2.2 Consensus size: 93
22604330 TAAGGGTAAA
* * * * *
22604340 CTCACGAGGTGATCCCATCACGCCTCACCATCTCACGAGGCGATCTCACCATGCCACACCATCTC
1 CTCACGAGGTGATCCCATCACACCTCACCACCTCACGAGGCAACCCCACCATGCCACACCATCTC
* * *
22604405 GCTAAGTGATCCCACCACGCCTTACCAT
66 GCTAAGTGATCCCACCACACATTACCAC
* * * * ** **
22604433 CTCACTAAGTGATCCCATCACACCTCACCACCTCATGAGGTAACCCCACTGTGCCTTACCATCTC
1 CTCACGAGGTGATCCCATCACACCTCACCACCTCACGAGGCAACCCCACCATGCCACACCATCTC
* * *
22604498 GTTAGGTGATCCCATCACACATTACCAC
66 GCTAAGTGATCCCACCACACATTACCAC
**
22604526 CTTGCGAGGTGATCCCATCA
1 CTCACGAGGTGATCCCATCA
22604546 TGCCTCTATC
Statistics
Matches: 90, Mismatches: 23, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
93 90 1.00
ACGTcount: A:0.24, C:0.39, G:0.15, T:0.22
Consensus pattern (93 bp):
CTCACGAGGTGATCCCATCACACCTCACCACCTCACGAGGCAACCCCACCATGCCACACCATCTC
GCTAAGTGATCCCACCACACATTACCAC
Found at i:22608382 original size:30 final size:30
Alignment explanation
Indices: 22608348--22608448 Score: 87
Period size: 30 Copynumber: 3.4 Consensus size: 30
22608338 AGCTCACTCC
*
22608348 TAGCTCATTTTCAACTCACGAGCTAAACCT
1 TAGCTCATTTTCAGCTCACGAGCTAAACCT
** * * * * *
22608378 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCATTTTCAGCTCACGAGCTAAACCT
* * *
22608408 CAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTC-ATTTTCAGCTCACGAGCTAAACCT
22608438 TAGCTCATTTT
1 TAGCTCATTTT
22608449 AGTTTATACT
Statistics
Matches: 51, Mismatches: 19, Indels: 3
0.70 0.26 0.04
Matches are distributed among these distances:
29 4 0.08
30 44 0.86
31 3 0.06
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.32
Consensus pattern (30 bp):
TAGCTCATTTTCAGCTCACGAGCTAAACCT
Found at i:22608869 original size:13 final size:13
Alignment explanation
Indices: 22608851--22608875 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22608841 GTATTGATCA
22608851 TGTGTTCACACCT
1 TGTGTTCACACCT
22608864 TGTGTTCACACC
1 TGTGTTCACACC
22608876 ATGATGACCA
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:0.16, C:0.32, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTGTTCACACCT
Found at i:22610839 original size:15 final size:14
Alignment explanation
Indices: 22610819--22610864 Score: 56
Period size: 16 Copynumber: 3.1 Consensus size: 14
22610809 AAGAAATGAA
22610819 AAGAAAAAGCAAAAG
1 AAGAAAAAG-AAAAG
22610834 AAGAAAAAGAAAATG
1 AAGAAAAAGAAAA-G
*
22610849 AAATAAAAAGAAAAG
1 -AAGAAAAAGAAAAG
22610864 A
1 A
22610865 GCGGCAAGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 5 0.18
15 11 0.39
16 12 0.43
ACGTcount: A:0.76, C:0.02, G:0.17, T:0.04
Consensus pattern (14 bp):
AAGAAAAAGAAAAG
Found at i:22610843 original size:31 final size:30
Alignment explanation
Indices: 22610800--22610864 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 30
22610790 TTCTTGTAAC
22610800 AAGAAAACAAAG-AAATGAAAAGAAAAAGCAA
1 AAGAAAACAAAGAAAATG-AAAGAAAAAG-AA
*
22610831 AAGAAGAA-AAAGAAAATGAAATAAAAAGAA
1 AAGAA-AACAAAGAAAATGAAAGAAAAAGAA
22610861 AAGA
1 AAGA
22610865 GCGGCAAGAG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
30 6 0.19
31 18 0.58
32 7 0.23
ACGTcount: A:0.75, C:0.03, G:0.17, T:0.05
Consensus pattern (30 bp):
AAGAAAACAAAGAAAATGAAAGAAAAAGAA
Found at i:22610992 original size:30 final size:29
Alignment explanation
Indices: 22610945--22611023 Score: 88
Period size: 30 Copynumber: 2.7 Consensus size: 29
22610935 TTGGAAAACA
*
22610945 AAAAAGAAATG-AAAAGAAAATGAGATTG
1 AAAAAGAAATGAAAAAGAAAATGAGAGTG
**
22610973 AAAAAGAGAATGAAAAAGAATTTGAGAGTG
1 AAAAAGA-AATGAAAAAGAAAATGAGAGTG
* *
22611003 AAGAGGAAGATGAAAAAGAAA
1 AAAAAGAA-ATGAAAAAGAAA
22611024 TTGAAACAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
28 7 0.17
29 5 0.12
30 30 0.71
ACGTcount: A:0.62, C:0.00, G:0.25, T:0.13
Consensus pattern (29 bp):
AAAAAGAAATGAAAAAGAAAATGAGAGTG
Found at i:22615110 original size:30 final size:30
Alignment explanation
Indices: 22615076--22615172 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
22615066 TAAACTAAAA
*
22615076 TGAGCTAAGTTTTAGCTCATGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCATGAGCTAAAGT
* * * * * *
22615106 TGAGCTGAGGCTAAACTCCTAAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCATGAGCTAAAGT
* *
22615136 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGGTTTAGCTCATGAGCT-AAAGT
22615166 TGAGCTA
1 TGAGCTA
22615173 GGAGTGAGCT
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
30 48 0.92
31 4 0.08
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCATGAGCTAAAGT
Found at i:22619324 original size:6 final size:5
Alignment explanation
Indices: 22619300--22619356 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
22619290 AAGAGAAAAT
*
22619300 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGAA AAAGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAG-A AAAGA AA-AGA
22619347 AAAGA AAAGA
1 AAAGA AAAGA
22619357 GAGGCAAGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.09
5 24 0.55
6 16 0.36
ACGTcount: A:0.79, C:0.02, G:0.18, T:0.02
Consensus pattern (5 bp):
AAAGA
Found at i:22619349 original size:25 final size:25
Alignment explanation
Indices: 22619304--22619352 Score: 64
Period size: 27 Copynumber: 1.9 Consensus size: 25
22619294 GAAAATAAAG
22619304 AAAAGAAAAGAAAAAGCAAAAGAAGA
1 AAAAGAAAAGAAAAA-CAAAAGAAGA
*
22619330 AAAAGAAAAAGAAATA-AAAAGAA
1 AAAAG-AAAAGAAAAACAAAAGAA
22619353 AAGAGAGGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 7 0.33
26 5 0.24
27 9 0.43
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.02
Consensus pattern (25 bp):
AAAAGAAAAGAAAAACAAAAGAAGA
Found at i:22620973 original size:27 final size:27
Alignment explanation
Indices: 22620943--22621120 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
22620933 ATATTGAGTC
* * * *
22620943 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
22620970 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
22620997 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
22621025 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
22621052 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
22621079 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
22621106 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
22621121 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:22621082 original size:82 final size:81
Alignment explanation
Indices: 22620964--22621119 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
22620954 TGCTATATAA
* *
22620964 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
22621029 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
22621046 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
22621110 CACTTAGTGC
65 CACTTAGTGC
22621120 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:22622512 original size:111 final size:111
Alignment explanation
Indices: 22622318--22622542 Score: 441
Period size: 111 Copynumber: 2.0 Consensus size: 111
22622308 CAAAAATCAC
*
22622318 TTGATAACTCACTCAATATCAACTAAAATTTCAAAAGCTAGTACAAACTTCCTTACCTTAATAGT
1 TTGATAACTCACTCAATATCAACTAAAATTTCAAAAGCCAGTACAAACTTCCTTACCTTAATAGT
22622383 GACCTAAGATGACCGATTGCTTCACTCCCTTCTTCTTCCTTTCAAT
66 GACCTAAGATGACCGATTGCTTCACTCCCTTCTTCTTCCTTTCAAT
22622429 TTGATAACTCACTCAATATCAACTAAAATTTCAAAAGCCAGTACAAACTTCCTTACCTTAATAGT
1 TTGATAACTCACTCAATATCAACTAAAATTTCAAAAGCCAGTACAAACTTCCTTACCTTAATAGT
22622494 GACCTAAGATGACCGATTGCTTCACTCCCTTCTTCTTCCTTTCAAT
66 GACCTAAGATGACCGATTGCTTCACTCCCTTCTTCTTCCTTTCAAT
22622540 TTG
1 TTG
22622543 GCCAAGAAGA
Statistics
Matches: 113, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
111 113 1.00
ACGTcount: A:0.31, C:0.26, G:0.08, T:0.34
Consensus pattern (111 bp):
TTGATAACTCACTCAATATCAACTAAAATTTCAAAAGCCAGTACAAACTTCCTTACCTTAATAGT
GACCTAAGATGACCGATTGCTTCACTCCCTTCTTCTTCCTTTCAAT
Found at i:22624560 original size:45 final size:45
Alignment explanation
Indices: 22624496--22624589 Score: 134
Period size: 45 Copynumber: 2.1 Consensus size: 45
22624486 CCTTATCCAC
* * * * * *
22624496 TAAAGCTGCAAAATCTCACTCCTTCTGTGGAGCTATCAGAACCCT
1 TAAAGCAGCAAAATCTCACTCCCTCTATGAAGCTACCAAAACCCT
22624541 TAAAGCAGCAAAATCTCACTCCCTCTATGAAGCTACCAAAACCCT
1 TAAAGCAGCAAAATCTCACTCCCTCTATGAAGCTACCAAAACCCT
22624586 TAAA
1 TAAA
22624590 CCATCCTTGA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.35, C:0.30, G:0.12, T:0.23
Consensus pattern (45 bp):
TAAAGCAGCAAAATCTCACTCCCTCTATGAAGCTACCAAAACCCT
Found at i:22630742 original size:22 final size:22
Alignment explanation
Indices: 22630717--22630768 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
22630707 TTTTAAATCA
22630717 TTCAAACACATAT-AATAAACAT
1 TTCAAA-ACATATCAATAAACAT
* *
22630739 TTCATATCATATCAATAAACAT
1 TTCAAAACATATCAATAAACAT
22630761 ATT-AAAAC
1 -TTCAAAAC
22630769 CAATTCAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
21 5 0.21
22 17 0.71
23 2 0.08
ACGTcount: A:0.52, C:0.17, G:0.00, T:0.31
Consensus pattern (22 bp):
TTCAAAACATATCAATAAACAT
Found at i:22646779 original size:40 final size:40
Alignment explanation
Indices: 22646702--22646915 Score: 301
Period size: 40 Copynumber: 5.4 Consensus size: 40
22646692 AAACCAAGTA
* *
22646702 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
22646741 CCTTCGGGACTTAGCCCGGTTATAGTGACTCTCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
22646781 CCTTCGGAACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
22646821 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
22646861 CCTTCAGGG-CTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTC-GGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
22646901 CCTTCGGGACTTAGC
1 CCTTCGGGACTTAGC
22646916 TCGGTTATCA
Statistics
Matches: 159, Mismatches: 11, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
39 18 0.11
40 138 0.87
41 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:22653521 original size:28 final size:28
Alignment explanation
Indices: 22653490--22653580 Score: 110
Period size: 28 Copynumber: 3.2 Consensus size: 28
22653480 TGACAGAGTA
* *
22653490 ACCAGATATAGATATTTGTGGCGTAGCC
1 ACCAGAAATAGATATTTGTGGCATAGCC
* * **
22653518 ACCAAAAATAGATATTTTTGGTTTAGCC
1 ACCAGAAATAGATATTTGTGGCATAGCC
* *
22653546 ACCAGAAACAGATAATTGTGGCATAGCC
1 ACCAGAAATAGATATTTGTGGCATAGCC
22653574 ACCAGAA
1 ACCAGAA
22653581 TGCTTCCTCC
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 52 1.00
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (28 bp):
ACCAGAAATAGATATTTGTGGCATAGCC
Found at i:22658665 original size:50 final size:49
Alignment explanation
Indices: 22658515--22659130 Score: 576
Period size: 50 Copynumber: 12.3 Consensus size: 49
22658505 AAATGATATA
* * * * *
22658515 TAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGCAC
1 TAAGTGCAAGCTACTACCTGTACCGGATAATTGGTCACGTGTGTAGTAC
* * * *
22658564 TAAGTGCAGGCTACTATGC-GTACCCGATAACTTTGATCACGTGTGTAGTAC
1 TAAGTGCAAGCTACTA-CCTGTACCGGATAA--TTGGTCACGTGTGTAGTAC
* * * **
22658615 TAAGTGCAAACTACTACCTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TAAGTGCAAGCTACTACCTGTACCGGATAATT-GGTCACGTGTGTAGTAC
* * *
22658665 TAAGTGCAAGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTAC
1 TAAGTGCAAGCTACTACCTGTACCGGATAATTGGTCACGTGTGTAGTAC
* * *
22658714 TAAGTGCAGGCTACTA--TGCATACCTGATAACTTCGATCACGTGTGTAGTAC
1 TAAGTGCAAGCTACTACCTG--TACCGGATAA-TT-GGTCACGTGTGTAGTAC
* * ** **
22658765 TAAGTGCAAGCTACTACGTGTATCAAATGGTTAGGTCACGTGTGTAGTAC
1 TAAGTGCAAGCTACTACCTGTACCGGATAATT-GGTCACGTGTGTAGTAC
* * * * *
22658815 TAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGCAC
1 TAAGTGCAAGCTACTACCTGTACCGGATAATTGGTCACGTGTGTAGTAC
* * * *
22658864 TAAGTGCAGGCTACTATGC-GTACCCGATAACTTTGATCACGTGTGTAGTAC
1 TAAGTGCAAGCTACTA-CCTGTACCGGATAA--TTGGTCACGTGTGTAGTAC
* * * **
22658915 TAAGTGCAAACTACTACCTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TAAGTGCAAGCTACTACCTGTACCGGATAATT-GGTCACGTGTGTAGTAC
* * * * *
22658965 TAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGCAC
1 TAAGTGCAAGCTACTACCTGTACCGGATAATTGGTCACGTGTGTAGTAC
* * * *
22659014 TAAGTGCAGGCTACTATGC-GTACCCGATAACTTTGATCACGTGTGTAGTAC
1 TAAGTGCAAGCTACTA-CCTGTACCGGATAA--TTGGTCACGTGTGTAGTAC
* *
22659065 TAAGTGCAAACTACTACCTGTATCCGGATAATTGGTCACATGTGTAGTAC
1 TAAGTGCAAGCTACTACCTGTA-CCGGATAATTGGTCACGTGTGTAGTAC
*
22659115 TAAGTGCAGGCTACTA
1 TAAGTGCAAGCTACTA
22659131 TGCGTACCAG
Statistics
Matches: 461, Mismatches: 85, Indels: 41
0.79 0.14 0.07
Matches are distributed among these distances:
47 2 0.00
49 149 0.32
50 163 0.35
51 138 0.30
52 7 0.02
53 2 0.00
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.29
Consensus pattern (49 bp):
TAAGTGCAAGCTACTACCTGTACCGGATAATTGGTCACGTGTGTAGTAC
Found at i:22658694 original size:101 final size:99
Alignment explanation
Indices: 22658515--22659143 Score: 622
Period size: 101 Copynumber: 6.3 Consensus size: 99
22658505 AAATGATATA
* * * * * * *
22658515 TAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCGCATGTGTAGCACTAAGTGCAGGCTACT
1 TAAGTGCAGGCTACTACCTGTACCAGATACTTAGGTCACGTGTGTAGTACTAAGTGCAAGCTACT
* * * * *
22658579 ATGCGTACCCGATAACTTTGATCACGTGTGTAGTAC
66 ACGTGTACCGGATAA--TTGGTCACATGTGTAGTAC
** * **
22658615 TAAGTGCAAACTACTACCTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCAAGCTACT
1 TAAGTGCAGGCTACTACCTGTACCAGATACTTAGGTCACGTGTGTAGTACTAAGTGCAAGCTACT
*
22658680 ACGTGTACCGGATAATTGGTCGCATGTGTAGTAC
66 ACGTGTACCGGATAATTGGTCACATGTGTAGTAC
* * *
22658714 TAAGTGCAGGCTACTA--TGCATACCTGATAACTTCGATCACGTGTGTAGTACTAAGTGCAAGCT
1 TAAGTGCAGGCTACTACCTG--TACCAGAT-ACTTAGGTCACGTGTGTAGTACTAAGTGCAAGCT
* ** ** *
22658777 ACTACGTGTATCAAATGGTTAGGTCACGTGTGTAGTAC
63 ACTACGTGTACCGGATAATT-GGTCACATGTGTAGTAC
* * * * * * *
22658815 TAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCGCATGTGTAGCACTAAGTGCAGGCTACT
1 TAAGTGCAGGCTACTACCTGTACCAGATACTTAGGTCACGTGTGTAGTACTAAGTGCAAGCTACT
* * * * *
22658879 ATGCGTACCCGATAACTTTGATCACGTGTGTAGTAC
66 ACGTGTACCGGATAA--TTGGTCACATGTGTAGTAC
** * ** *
22658915 TAAGTGCAAACTACTACCTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACT
1 TAAGTGCAGGCTACTACCTGTACCAGATACTTAGGTCACGTGTGTAGTACTAAGTGCAAGCTACT
* *
22658980 ACGTGTACCGGATAATTGGTCGCATGTGTAGCAC
66 ACGTGTACCGGATAATTGGTCACATGTGTAGTAC
* * * * *
22659014 TAAGTGCAGGCTACTATGC-GTACCCGATAACTTTGATCACGTGTGTAGTACTAAGTGCAAACTA
1 TAAGTGCAGGCTACTA-CCTGTACCAGAT-ACTTAGGTCACGTGTGTAGTACTAAGTGCAAGCTA
*
22659078 CTACCTGTATCCGGATAATTGGTCACATGTGTAGTAC
64 CTACGTGTA-CCGGATAATTGGTCACATGTGTAGTAC
*
22659115 TAAGTGCAGGCTACTATGC-GTACCAGATA
1 TAAGTGCAGGCTACTA-CCTGTACCAGATA
22659144 GCCTTGTCTA
Statistics
Matches: 437, Mismatches: 79, Indels: 26
0.81 0.15 0.05
Matches are distributed among these distances:
97 2 0.00
99 107 0.24
100 153 0.35
101 173 0.40
103 2 0.00
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.29
Consensus pattern (99 bp):
TAAGTGCAGGCTACTACCTGTACCAGATACTTAGGTCACGTGTGTAGTACTAAGTGCAAGCTACT
ACGTGTACCGGATAATTGGTCACATGTGTAGTAC
Found at i:22659138 original size:150 final size:150
Alignment explanation
Indices: 22658515--22659130 Score: 1108
Period size: 150 Copynumber: 4.1 Consensus size: 150
22658505 AAATGATATA
22658515 TAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGCACTAAGTGCAGGCTACTA
1 TAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGCACTAAGTGCAGGCTACTA
22658580 TGCGTACCCGATAACTTTGATCACGTGTGTAGTACTAAGTGCAAACTACTACCTGTATCAGATGG
66 TGCGTACCCGATAACTTTGATCACGTGTGTAGTACTAAGTGCAAACTACTACCTGTATCAGATGG
22658645 TTAGGTCACGTGTGTAGTAC
131 TTAGGTCACGTGTGTAGTAC
* *
22658665 TAAGTGCAAGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGCACTAAGTGCAGGCTACTA
* * * * * *
22658730 TGCATACCTGATAACTTCGATCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAAATGG
66 TGCGTACCCGATAACTTTGATCACGTGTGTAGTACTAAGTGCAAACTACTACCTGTATCAGATGG
22658795 TTAGGTCACGTGTGTAGTAC
131 TTAGGTCACGTGTGTAGTAC
22658815 TAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGCACTAAGTGCAGGCTACTA
1 TAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGCACTAAGTGCAGGCTACTA
22658880 TGCGTACCCGATAACTTTGATCACGTGTGTAGTACTAAGTGCAAACTACTACCTGTATCAGATGG
66 TGCGTACCCGATAACTTTGATCACGTGTGTAGTACTAAGTGCAAACTACTACCTGTATCAGATGG
22658945 TTAGGTCACGTGTGTAGTAC
131 TTAGGTCACGTGTGTAGTAC
22658965 TAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGCACTAAGTGCAGGCTACTA
1 TAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGCACTAAGTGCAGGCTACTA
* *
22659030 TGCGTACCCGATAACTTTGATCACGTGTGTAGTACTAAGTGCAAACTACTACCTGTATCCGGATA
66 TGCGTACCCGATAACTTTGATCACGTGTGTAGTACTAAGTGCAAACTACTACCTGTAT-CAGATG
* *
22659095 ATT-GGTCACATGTGTAGTAC
130 GTTAGGTCACGTGTGTAGTAC
22659115 TAAGTGCAGGCTACTA
1 TAAGTGCAGGCTACTA
22659131 TGCGTACCAG
Statistics
Matches: 445, Mismatches: 20, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
150 439 0.99
151 6 0.01
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.29
Consensus pattern (150 bp):
TAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGCACTAAGTGCAGGCTACTA
TGCGTACCCGATAACTTTGATCACGTGTGTAGTACTAAGTGCAAACTACTACCTGTATCAGATGG
TTAGGTCACGTGTGTAGTAC
Found at i:22664880 original size:49 final size:50
Alignment explanation
Indices: 22664820--22665151 Score: 413
Period size: 49 Copynumber: 6.7 Consensus size: 50
22664810 TCTATTGTGA
*
22664820 GGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAATT-
1 GGTCACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAATTC
* *
22664869 GGTCACATGTGTAGTACTAAGTGCAAGCTACTATGCT-TACCCGATAACTTC
1 GGTCACATGTGTAGTACTAAGTGCAAGCTACTACG-TGTACCGGATAA-TTC
* *
22664920 GATCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAATT-
1 GGTCACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAATTC
* *
22664969 GGTCACATGTGTAGTACTAAGTGCAAGCTACTATGCT-TACCCGATAACTTC
1 GGTCACATGTGTAGTACTAAGTGCAAGCTACTACG-TGTACCGGATAA-TTC
* * * * * * ** *
22665020 GATCACGTGTGTAGTACTAAGTGCAAGCTTCTACATGTATCAGATGGTTA
1 GGTCACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAATTC
* * * *
22665070 GGTCACATGTGTAGTACTATGTGCAGGCTACTACATCTACCGGATAATT-
1 GGTCACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAATTC
22665119 GGTCACATGTGTAGTACTAAGTGCAAGCTACTA
1 GGTCACATGTGTAGTACTAAGTGCAAGCTACTA
22665152 TGCGTACTAG
Statistics
Matches: 242, Mismatches: 33, Indels: 16
0.83 0.11 0.05
Matches are distributed among these distances:
49 114 0.47
50 51 0.21
51 77 0.32
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (50 bp):
GGTCACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAATTC
Found at i:22664995 original size:100 final size:100
Alignment explanation
Indices: 22664822--22665151 Score: 506
Period size: 100 Copynumber: 3.3 Consensus size: 100
22664812 TATTGTGAGG
22664822 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAATTGGTCACATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAATTGGTCACATGTGTAGTACT
22664887 AAGTGCAAGCTACTATGCTTACCCGATAACTTCGA
66 AAGTGCAAGCTACTATGCTTACCCGATAACTTCGA
22664922 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAATTGGTCACATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAATTGGTCACATGTGTAGTACT
22664987 AAGTGCAAGCTACTATGCTTACCCGATAACTTCGA
66 AAGTGCAAGCTACTATGCTTACCCGATAACTTCGA
* * * * **
22665022 TCACGTGTGTAGTACTAAGTGCAAGCTTCTACATGTATCAGATGGTTAGGTCACATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAATT-GGTCACATGTGTAGTAC
* * * *
22665087 TATGTGCAGGCTACTA--CATCTACCGGATAA-TT-GG
65 TAAGTGCAAGCTACTATGC-T-TACCCGATAACTTCGA
*
22665121 TCACATGTGTAGTACTAAGTGCAAGCTACTA
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTA
22665152 TGCGTACTAG
Statistics
Matches: 215, Mismatches: 12, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
99 31 0.14
100 144 0.67
101 40 0.19
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAATTGGTCACATGTGTAGTACT
AAGTGCAAGCTACTATGCTTACCCGATAACTTCGA
Found at i:22665197 original size:150 final size:150
Alignment explanation
Indices: 22664820--22665164 Score: 410
Period size: 150 Copynumber: 2.3 Consensus size: 150
22664810 TCTATTGTGA
* * * * * *
22664820 GGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAA-TT-GGTCACATGTGTAG
1 GGTCACATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCAGATAACTTCGATCACGTGTGTAG
* * * * * ** * * *
22664883 TACTAAGTGCAAGCTACT--ATGCTTACCCGATAACTTCGATCACGTGTGTAGTACTAAGTGCAA
66 AAATAAGTGCAAGCTTCTACATG--TATCAGAT-GGTTAGGTCACATGTGTAGTACTAAGTGCAA
* *
22664946 GCTACTACGTGTACCGGATAATT
128 GCTACTACATCTACCGGATAATT
* *
22664969 GGTCACATGTGTAGTACTAAGTGCAAGCTACTATGCTTACCCGATAACTTCGATCACGTGTGTAG
1 GGTCACATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCAGATAACTTCGATCACGTGTGTAG
* * * *
22665034 TACTAAGTGCAAGCTTCTACATGTATCAGATGGTTAGGTCACATGTGTAGTACTATGTGCAGGCT
66 AAATAAGTGCAAGCTTCTACATGTATCAGATGGTTAGGTCACATGTGTAGTACTAAGTGCAAGCT
22665099 ACTACATCTACCGGATAATT
131 ACTACATCTACCGGATAATT
*
22665119 GGTCACATGTGTAGTACTAAGTGCAAGCTACTATGCGTACTAGATA
1 GGTCACATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCAGATA
22665165 GCCTTGTCTA
Statistics
Matches: 170, Mismatches: 22, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
149 42 0.25
150 90 0.53
151 35 0.21
153 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (150 bp):
GGTCACATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCAGATAACTTCGATCACGTGTGTAG
AAATAAGTGCAAGCTTCTACATGTATCAGATGGTTAGGTCACATGTGTAGTACTAAGTGCAAGCT
ACTACATCTACCGGATAATT
Found at i:22669469 original size:29 final size:29
Alignment explanation
Indices: 22669392--22669539 Score: 133
Period size: 29 Copynumber: 5.2 Consensus size: 29
22669382 GCATGAACAT
* * * *
22669392 AATGTGATTTGGGCCAGATGAGCCATATA
1 AATGTGAATTGGGCCTGATGGGCCATATG
* *
22669421 AATGAG-ATTGGGCCTAATGGGCCATATG
1 AATGTGAATTGGGCCTGATGGGCCATATG
* *
22669449 AATGTGAATTGGGTCTGATGGGCCACATG
1 AATGTGAATTGGGCCTGATGGGCCATATG
* * *
22669478 AACT-TGAATTGGGTCGGATGGGCCATATA
1 AA-TGTGAATTGGGCCTGATGGGCCATATG
*
22669507 AATGAG-ATTGGGCCT-AGTGGGCCATATG
1 AATGTGAATTGGGCCTGA-TGGGCCATATG
*
22669535 CATGT
1 AATGT
22669540 ATGTAGAGGT
Statistics
Matches: 96, Mismatches: 19, Indels: 9
0.77 0.15 0.07
Matches are distributed among these distances:
27 1 0.01
28 43 0.45
29 51 0.53
30 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.32, T:0.27
Consensus pattern (29 bp):
AATGTGAATTGGGCCTGATGGGCCATATG
Found at i:22672419 original size:53 final size:53
Alignment explanation
Indices: 22672339--22672440 Score: 168
Period size: 53 Copynumber: 1.9 Consensus size: 53
22672329 AGAGAACTTA
*
22672339 CCCAATTAGGCCTTGAAAGTTTCTTTTCTCACTCCTAGGGTCTCCATGTGTTT
1 CCCAATTAGGCCTTGAAAGTTTATTTTCTCACTCCTAGGGTCTCCATGTGTTT
* * *
22672392 CCCAATTAGGCCTTGAAAGTTTATTTTCTCTCTCTTAGGGTTTCCATGT
1 CCCAATTAGGCCTTGAAAGTTTATTTTCTCACTCCTAGGGTCTCCATGT
22672441 ATTTTAAGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 45 1.00
ACGTcount: A:0.18, C:0.25, G:0.17, T:0.41
Consensus pattern (53 bp):
CCCAATTAGGCCTTGAAAGTTTATTTTCTCACTCCTAGGGTCTCCATGTGTTT
Found at i:22677568 original size:47 final size:47
Alignment explanation
Indices: 22677517--22677708 Score: 287
Period size: 47 Copynumber: 4.1 Consensus size: 47
22677507 TTTAGGATTG
*
22677517 AATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
*
22677564 AATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
*
22677611 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * * * * *
22677658 AATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCT
1 AATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCC
22677705 AATG
1 AATG
22677709 CGAAATGTGT
Statistics
Matches: 135, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
47 132 0.98
48 3 0.02
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
Found at i:22677571 original size:22 final size:22
Alignment explanation
Indices: 22677544--22677618 Score: 57
Period size: 22 Copynumber: 3.3 Consensus size: 22
22677534 CATGCATATG
22677544 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* *
22677566 TGTGATGAATG-TGAACAT-G-CATA
1 TGTGAT-AAGGCCG-A-ATGGCCA-A
22677589 TGTGTGATAAGGCCGAATGGCCAA
1 --TGTGATAAGGCCGAATGGCCAA
22677613 TGTGAT
1 TGTGAT
22677619 GAATGTGAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 15 0.38
23 8 0.20
24 8 0.20
25 9 0.22
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:22677738 original size:46 final size:46
Alignment explanation
Indices: 22677682--22677864 Score: 276
Period size: 46 Copynumber: 4.0 Consensus size: 46
22677672 GGAAGTGTAT
* * *
22677682 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGAGGTAAAGCCAAATGGCTAATGCGAAACGTGTATGAGATGG
*
22677728 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCAAATGGCTAATGCGAAACGTGTATGAGATGG
*
22677774 ATATGAGGTAAAGCCAAATGGCGAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCAAATGGCTAATGCGAAACGTGTATGAGATGG
* * * **
22677820 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGAGGTAAAGCCAAATGGCTAATGCGAAACGTGTATGAGATG
22677865 TGTATATATA
Statistics
Matches: 127, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 127 1.00
ACGTcount: A:0.35, C:0.09, G:0.32, T:0.24
Consensus pattern (46 bp):
ATATGAGGTAAAGCCAAATGGCTAATGCGAAACGTGTATGAGATGG
Found at i:22686548 original size:30 final size:30
Alignment explanation
Indices: 22686512--22686572 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
22686502 AATCAAAAAC
* *
22686512 AATATTCAATTGAACCCTCAGTCAAGTTTA
1 AATATTCAATTAAACCCTCAATCAAGTTTA
* *
22686542 AATATTCAATTAAATCCTCAATCAATTTTA
1 AATATTCAATTAAACCCTCAATCAAGTTTA
22686572 A
1 A
22686573 GCTCATGTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.36
Consensus pattern (30 bp):
AATATTCAATTAAACCCTCAATCAAGTTTA
Found at i:22687478 original size:20 final size:21
Alignment explanation
Indices: 22687453--22687514 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
22687443 AATTTTAAAA
22687453 TTTCTAAT-TTTTTAAAATTT
1 TTTCTAATATTTTTAAAATTT
* *
22687473 TTTCTATTATTTTTAATATTT
1 TTTCTAATATTTTTAAAATTT
*
22687494 TGT-T-ATA-TTTTATAAATTT
1 TTTCTAATATTTTTA-AAATTT
22687513 TT
1 TT
22687515 AAAAAGCTGT
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
18 5 0.15
19 8 0.24
20 8 0.24
21 13 0.38
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (21 bp):
TTTCTAATATTTTTAAAATTT
Found at i:22687502 original size:19 final size:20
Alignment explanation
Indices: 22687461--22687513 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 20
22687451 AATTTCTAAT
*
22687461 TTTTTAAAATTTTTTCTATTA
1 TTTTT-AAATTTTGTCTATTA
22687482 TTTTTAATATTTTGT-TA-TA
1 TTTTTAA-ATTTTGTCTATTA
22687501 TTTTATAAATTTT
1 TTTT-TAAATTTT
22687514 TAAAAAGCTG
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
19 11 0.38
20 7 0.24
21 11 0.38
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (20 bp):
TTTTTAAATTTTGTCTATTA
Found at i:22689473 original size:18 final size:18
Alignment explanation
Indices: 22689450--22689484 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22689440 GACATCATCC
*
22689450 AAAATTAAAAAATATTAG
1 AAAATTAAAAAAGATTAG
*
22689468 AAAATTTAAAAAGATTA
1 AAAATTAAAAAAGATTA
22689485 ATATATATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.29
Consensus pattern (18 bp):
AAAATTAAAAAAGATTAG
Found at i:22689541 original size:15 final size:16
Alignment explanation
Indices: 22689517--22689546 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
22689507 TATAGTTTTA
22689517 TTTTTATATAAAAATG
1 TTTTTATATAAAAATG
22689533 TTTTT-TATAAAAAT
1 TTTTTATATAAAAAT
22689547 TATATAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTTTATATAAAAATG
Found at i:22689617 original size:19 final size:19
Alignment explanation
Indices: 22689593--22689635 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
22689583 TTAAATTAAT
*
22689593 TAAAAACAT-TTTATTTTTA
1 TAAAAACATACTT-TTTTTA
*
22689612 TAAAAATATACTTTTTTTA
1 TAAAAACATACTTTTTTTA
22689631 TAAAA
1 TAAAA
22689636 TATTATGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (19 bp):
TAAAAACATACTTTTTTTA
Found at i:22690871 original size:14 final size:14
Alignment explanation
Indices: 22690852--22690934 Score: 64
Period size: 14 Copynumber: 5.8 Consensus size: 14
22690842 ATATAATTTA
22690852 ATATTAAAATAATT
1 ATATTAAAATAATT
22690866 ATATTAAAAT-ATT
1 ATATTAAAATAATT
*
22690879 AT-TAAACAATATATT
1 ATATTAA-AATA-ATT
** *
22690894 AT-TTTTATTAAATT
1 ATATTAAAAT-AATT
22690908 ATATTTAATAATAATT
1 ATA-TTAA-AATAATT
22690924 ATATTAAAATA
1 ATATTAAAATA
22690935 TGATTAAAAT
Statistics
Matches: 54, Mismatches: 8, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
12 3 0.06
13 8 0.15
14 21 0.39
15 11 0.20
16 9 0.17
17 2 0.04
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (14 bp):
ATATTAAAATAATT
Found at i:22690903 original size:32 final size:31
Alignment explanation
Indices: 22690867--22690979 Score: 85
Period size: 32 Copynumber: 3.7 Consensus size: 31
22690857 AAAATAATTA
22690867 TATTAAAATATTATTAAACAATATATTATTTT
1 TATTAAAATATTATTAAA-AATATATTATTTT
* *
22690899 TATTAAATTA-TATTTAATAATA-ATTA----
1 TATTAAAATATTA-TTAAAAATATATTATTTT
* *
22690925 TATTAAAATATGATTAAAATATTTATTATTTAT
1 TATTAAAATATTATTAAAA-ATATATTATTT-T
* * *
22690958 TATTAAATTATTTTTAATAATA
1 TATTAAAATATTATTAAAAATA
22690980 ATCCTATTAC
Statistics
Matches: 61, Mismatches: 11, Indels: 18
0.68 0.12 0.20
Matches are distributed among these distances:
26 14 0.23
27 3 0.05
28 4 0.07
30 4 0.07
31 6 0.10
32 15 0.25
33 15 0.25
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (31 bp):
TATTAAAATATTATTAAAAATATATTATTTT
Found at i:22690926 original size:58 final size:59
Alignment explanation
Indices: 22690855--22690981 Score: 197
Period size: 58 Copynumber: 2.2 Consensus size: 59
22690845 TAATTTAATA
*
22690855 TTAA-AATAATTATATTAAAATATTATTAAACA-ATATATTATTT-TTATTAAATTATAT
1 TTAATAATAATTATATTAAAATATGATTAAA-ATATATATTATTTATTATTAAATTATAT
* *
22690912 TTAATAATAATTATATTAAAATATGATTAAAATATTTATTATTTATTATTAAATTATTT
1 TTAATAATAATTATATTAAAATATGATTAAAATATATATTATTTATTATTAAATTATAT
22690971 TTAATAATAAT
1 TTAATAATAAT
22690982 CCTATTACAA
Statistics
Matches: 64, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
57 5 0.08
58 35 0.55
59 24 0.38
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (59 bp):
TTAATAATAATTATATTAAAATATGATTAAAATATATATTATTTATTATTAAATTATAT
Found at i:22692262 original size:50 final size:50
Alignment explanation
Indices: 22692201--22692307 Score: 160
Period size: 50 Copynumber: 2.1 Consensus size: 50
22692191 GAGCCTGAGC
* *
22692201 AAAGAGGTTCCAAGAGACTATTTCAAGTTACATAGATCAAGCTTGGAAAG
1 AAAGAGTTTCCAAGAGACTATTTCAAGCTACATAGATCAAGCTTGGAAAG
* **
22692251 AAAGAGTTTCCAAGAGACTATTTCAAGCTATATAGATTGAGCTTGGAAAG
1 AAAGAGTTTCCAAGAGACTATTTCAAGCTACATAGATCAAGCTTGGAAAG
*
22692301 AATGAGT
1 AAAGAGT
22692308 GTTTGATCAA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.39, C:0.12, G:0.22, T:0.26
Consensus pattern (50 bp):
AAAGAGTTTCCAAGAGACTATTTCAAGCTACATAGATCAAGCTTGGAAAG
Done.