Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 135 of 172
Found at i:44510640 original size:49 final size:49
Alignment explanation
Indices: 44510529--44510632 Score: 133
Period size: 48 Copynumber: 2.1 Consensus size: 49
44510519 CATGGGTAGT
* * *
44510529 TCACACGCCCGTGTCTATTTAACAGATTGCAACATGGCCTAAGCCACAC
1 TCACACGACCGTGTCTATTTAACAGATTGAAACACGGCCTAAGCCACAC
*
44510578 T-ACACAACCGTGTCTATTTAACAGACTCT-AAACACGGCCTAAGCCAC-C
1 TCACACGACCGTGTCTATTTAACAGA-T-TGAAACACGGCCTAAGCCACAC
44510626 TCACACG
1 TCACACG
44510633 GGCGTGTCCC
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
48 24 0.51
49 22 0.47
50 1 0.02
ACGTcount: A:0.31, C:0.34, G:0.14, T:0.21
Consensus pattern (49 bp):
TCACACGACCGTGTCTATTTAACAGATTGAAACACGGCCTAAGCCACAC
Found at i:44512580 original size:44 final size:44
Alignment explanation
Indices: 44512532--44512616 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
44512522 TTGCTTAGGG
** *
44512532 AGATAAGA-TCACAATCCTCAGTCTGCTTTCTTGCTACCTCAGGA
1 AGATAAGACT-ACAATCCTCAACCTGCTCTCTTGCTACCTCAGGA
* *
44512576 AGATAAGACTACAATCTTCAACCTGCTCTCTTGTTACCTCA
1 AGATAAGACTACAATCCTCAACCTGCTCTCTTGCTACCTCA
44512617 AAGAGATAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 34 0.97
45 1 0.03
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.31
Consensus pattern (44 bp):
AGATAAGACTACAATCCTCAACCTGCTCTCTTGCTACCTCAGGA
Found at i:44512624 original size:44 final size:43
Alignment explanation
Indices: 44512531--44512625 Score: 102
Period size: 44 Copynumber: 2.2 Consensus size: 43
44512521 ATTGCTTAGG
** * *
44512531 GAGATAAGATCACAATCCTCAGTCTGCTTTCTTGCTACCTCAG
1 GAGATAAGATCACAATCCTCAACCTGCTCTCTTGCTACCTCAA
* *
44512574 GAAGATAAGA-CTACAATCTTCAACCTGCTCTCTTGTTACCTCAAA
1 G-AGATAAGATC-ACAATCCTCAACCTGCTCTCTTGCTACCTC-AA
44512619 GAGATAA
1 GAGATAA
44512626 TGTTGGTGGC
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
43 2 0.05
44 39 0.91
45 2 0.05
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (43 bp):
GAGATAAGATCACAATCCTCAACCTGCTCTCTTGCTACCTCAA
Found at i:44512690 original size:176 final size:176
Alignment explanation
Indices: 44512386--44512895 Score: 711
Period size: 176 Copynumber: 2.9 Consensus size: 176
44512376 GTCTGATCAT
* *
44512386 TTGCTACCTCAAGAAGATAAGACTACAATCTTCAACCTGCTTTCTTTCTACCTCAGAGAGATAAG
1 TTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTTT-TACCTCAGAGAGATAAG
* * * *
44512451 GCTGGAGGCTAAAATGTACTCCCCTACTATCTTGGGAAGATAAGATTCGCTATCTTCGATCTGCT
65 GCTGGAGGCTAAAATCTACTCCCCTACTACCTTGGGAAGATAAGATTCGCCATCTTTGATCTGCT
* *
44512516 CCACTATTGCTTAGGGAGATAAGATC-ACAATCCTCAGTCTGCTTTC
130 CCACTACTGCTTAGGGAGATAAGATCTACAATCCTCAGTCTGCTTCC
* *
44512562 TTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTTGTTACCTCAAAGAGATAAT
1 TTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTT-TTACCTCAGAGAGATAAG
* * * * ** *
44512627 GTTGGTGGCTAAAATCTACTCCCCTGCTACCTCGAAAAGATAAGATTCGCCACCTTTGATCTGCT
65 GCTGGAGGCTAAAATCTACTCCCCTACTACCTTGGGAAGATAAGATTCGCCATCTTTGATCTGCT
* * *
44512692 CCACTACTGCTTAGGGAGATAAGATCTATAATCTTTAGTCTGCTTCC
130 CCACTACTGCTTAGGGAGATAAGATCTACAATCCTCAGTCTGCTTCC
* *
44512739 TTGCT-CTTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTTACTACCTCAGAGAGATAAG
1 TTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTT-TTACCTCAGAGAGATAAG
* * *
44512803 GCTGGCA-GCTAAAATCTGCTCCCCTACTACCTTGGGATGATAAGATTCGCCATTTTTCGATCTG
65 GCTGG-AGGCTAAAATCTACTCCCCTACTACCTTGGGAAGATAAGATTCGCCATCTTT-GATCTG
* *
44512867 CTCCTCTACTACTTAGGGAGATAAGATCT
128 CTCCACTACTGCTTAGGGAGATAAGATCT
44512896 GACTTCACCG
Statistics
Matches: 293, Mismatches: 37, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
176 238 0.81
177 55 0.19
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.30
Consensus pattern (176 bp):
TTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTTTTACCTCAGAGAGATAAGG
CTGGAGGCTAAAATCTACTCCCCTACTACCTTGGGAAGATAAGATTCGCCATCTTTGATCTGCTC
CACTACTGCTTAGGGAGATAAGATCTACAATCCTCAGTCTGCTTCC
Found at i:44525134 original size:24 final size:22
Alignment explanation
Indices: 44525107--44525150 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
44525097 AAAAACTAAA
44525107 AAAATAAATGATATAAAAAAGATT
1 AAAATAAAT-A-ATAAAAAAGATT
*
44525131 AAAATAAGTAATAAAAAAGA
1 AAAATAAATAATAAAAAAGA
44525151 GAAAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 1 0.05
24 8 0.42
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.20
Consensus pattern (22 bp):
AAAATAAATAATAAAAAAGATT
Found at i:44525158 original size:24 final size:24
Alignment explanation
Indices: 44525104--44525158 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
44525094 AAAAAAAACT
*
44525104 AAAAAAATAAATGATATAAAAAAG
1 AAAAAAATAAATAATATAAAAAAG
** *
44525128 ATTAAAATAAGTAATA-AAAAAGAG
1 AAAAAAATAAATAATATAAAAA-AG
44525152 AAAAAAA
1 AAAAAAA
44525159 AATAAAGGTT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.75, C:0.00, G:0.09, T:0.16
Consensus pattern (24 bp):
AAAAAAATAAATAATATAAAAAAG
Found at i:44525209 original size:19 final size:19
Alignment explanation
Indices: 44525152--44525214 Score: 64
Period size: 19 Copynumber: 3.5 Consensus size: 19
44525142 TAAAAAAGAG
*
44525152 AAAAAA-AAATAAAGGTTT
1 AAAAAACAAATAAAAGTTT
44525170 AAAACAACGAAATAAAA----
1 AAAA-AAC-AAATAAAAGTTT
44525187 AAAAAACAAATAAAAGTTT
1 AAAAAACAAATAAAAGTTT
44525206 AAAAAACAA
1 AAAAAACAA
44525215 CTATTGTAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
15 8 0.22
16 3 0.08
17 4 0.11
18 4 0.11
19 11 0.30
21 7 0.19
ACGTcount: A:0.73, C:0.06, G:0.06, T:0.14
Consensus pattern (19 bp):
AAAAAACAAATAAAAGTTT
Found at i:44528307 original size:30 final size:30
Alignment explanation
Indices: 44528271--44528330 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
44528261 TACTAGGGCG
44528271 ACACAAACAGCGAGAAGAAAAAAGAATTCT
1 ACACAAACAGCGAGAAGAAAAAAGAATTCT
*
44528301 ACACAAACAGCGAGAAGAAAATAGAATTCT
1 ACACAAACAGCGAGAAGAAAAAAGAATTCT
44528331 TCTTTTGCAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.55, C:0.17, G:0.17, T:0.12
Consensus pattern (30 bp):
ACACAAACAGCGAGAAGAAAAAAGAATTCT
Found at i:44530692 original size:26 final size:26
Alignment explanation
Indices: 44530655--44530738 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
44530645 TGATACAAAT
* *
44530655 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
44530681 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
44530707 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
44530733 TGATAA
1 TGATAA
44530739 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:44537101 original size:137 final size:137
Alignment explanation
Indices: 44536855--44537141 Score: 502
Period size: 137 Copynumber: 2.1 Consensus size: 137
44536845 GAGTAGTCTC
44536855 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
44536920 TGTTATCTGAATAAGGTGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
44536985 ACTGTTA
131 ACTGTTA
* * *
44536992 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCGTGTTTTTTGAAATGGGCCTATGGGCCATAT
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* *
44537057 TGTTATCTGAATAAGGGGCTAAGGCCTAGTTTATTGTAATCTGAAAAGGGCTTTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
44537122 ACTGTTA
131 ACTGTTA
**
44537129 CCTGAATGGGCTT
1 CCCAAATGGGCTT
44537142 AGGCCCAATA
Statistics
Matches: 142, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
137 142 1.00
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:44540072 original size:21 final size:22
Alignment explanation
Indices: 44540023--44540065 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
44540013 AGAAATTTGG
44540023 TAGAGAAAAGAAAGAAAAAGGAA
1 TAGAGAAAAGAAAGAAAAA-GAA
*
44540046 TAGAGAAAAGAAAAAAAAAG
1 TAGAGAAAAGAAAGAAAAAG
44540066 TCAGAGAGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 1 0.05
23 18 0.95
ACGTcount: A:0.72, C:0.00, G:0.23, T:0.05
Consensus pattern (22 bp):
TAGAGAAAAGAAAGAAAAAGAA
Found at i:44543048 original size:23 final size:24
Alignment explanation
Indices: 44543005--44543053 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
44542995 ATGGTTTTTT
* *
44543005 AATATTATTTGATAAAGTTTC-AA
1 AATATTATTTCATAAACTTTCTAA
44543028 AATATT-TTTCATAAATCTTTCTAA
1 AATATTATTTCATAAA-CTTTCTAA
44543052 AA
1 AA
44543054 ATAATAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 8 0.36
23 10 0.45
24 4 0.18
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.45
Consensus pattern (24 bp):
AATATTATTTCATAAACTTTCTAA
Found at i:44543742 original size:5 final size:5
Alignment explanation
Indices: 44543732--44543767 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
44543722 TGTGTTCTTA
*
44543732 ATTTT ATTTT ATTTT AATTTT ATTTT ATATT ATTTT
1 ATTTT ATTTT ATTTT -ATTTT ATTTT ATTTT ATTTT
44543768 CACTAATTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (5 bp):
ATTTT
Found at i:44543750 original size:16 final size:16
Alignment explanation
Indices: 44543729--44543759 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
44543719 CTGTGTGTTC
44543729 TTAATTTTATTTTATT
1 TTAATTTTATTTTATT
44543745 TTAATTTTATTTTAT
1 TTAATTTTATTTTAT
44543760 ATTATTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TTAATTTTATTTTATT
Found at i:44549494 original size:18 final size:18
Alignment explanation
Indices: 44549468--44549506 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
44549458 CTCAGGAAAC
*
44549468 TTTATATCCTTGAGGGAT
1 TTTAAATCCTTGAGGGAT
**
44549486 TTTAAATCCTTTTGGGAT
1 TTTAAATCCTTGAGGGAT
44549504 TTT
1 TTT
44549507 CATATAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.10, G:0.18, T:0.51
Consensus pattern (18 bp):
TTTAAATCCTTGAGGGAT
Found at i:44553356 original size:25 final size:25
Alignment explanation
Indices: 44553322--44553372 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
44553312 TAGTGTCTTA
44553322 GTGTCGAAACTTTGAAAACTTCAAG
1 GTGTCGAAACTTTGAAAACTTCAAG
* *
44553347 GTGTTGAAACTTTGAAAACTTGAAG
1 GTGTCGAAACTTTGAAAACTTCAAG
44553372 G
1 G
44553373 ACTTTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (25 bp):
GTGTCGAAACTTTGAAAACTTCAAG
Found at i:44554267 original size:3 final size:3
Alignment explanation
Indices: 44554259--44554499 Score: 137
Period size: 3 Copynumber: 80.7 Consensus size: 3
44554249 GGGTAAAAAT
44554259 ATA ATA AT- ATA A-A AGTA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
44554303 ATA ATG ATA ATA ATG ATA A-A TATA GTA ATA ATA ATA GTA ATA A-A
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
44554347 A-A AT- AGA ACA ACAA ATA ATA ATA CATTA ATA AAA ATA ATA AGA AT-
1 ATA ATA ATA ATA A-TA ATA ATA ATA -A-TA ATA ATA ATA ATA ATA ATA
* * * *
44554392 GTG TTA ATA ATA ATA A-A TTA ATGA ATTA ATA ATA A-A ATAA ATAA ATA
1 ATA ATA ATA ATA ATA ATA ATA AT-A A-TA ATA ATA ATA AT-A AT-A ATA
* * * * *
44554439 A-A CACA AAA ATA A-A TATA ATT ATA ATA GTA ATA CTA A-A ATA ATA
1 ATA -ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
44554483 ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA AT
44554500 GTGATAAAAC
Statistics
Matches: 187, Mismatches: 30, Indels: 42
0.72 0.12 0.16
Matches are distributed among these distances:
2 18 0.10
3 146 0.78
4 20 0.11
5 3 0.02
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:44554481 original size:23 final size:24
Alignment explanation
Indices: 44554396--44554494 Score: 70
Period size: 23 Copynumber: 4.3 Consensus size: 24
44554386 AAGAATGTGT
*
44554396 TAATAATAATAAAT-TAATGAATTAA
1 TAATAATACTAAATATAAT-AA-TAA
*
44554421 TAATAA-AATAAATA-AATAA-ACA
1 TAATAATACTAAATATAATAATA-A
* *
44554443 CAA-AA-A-TAAATATAATTATAA
1 TAATAATACTAAATATAATAATAA
*
44554464 TAGTAATACTAAA-ATAATAATAA
1 TAATAATACTAAATATAATAATAA
44554487 TAATAATA
1 TAATAATA
44554495 ATAATGTGAT
Statistics
Matches: 61, Mismatches: 6, Indels: 16
0.73 0.07 0.19
Matches are distributed among these distances:
20 6 0.10
21 10 0.16
22 6 0.10
23 19 0.31
24 14 0.23
25 6 0.10
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (24 bp):
TAATAATACTAAATATAATAATAA
Found at i:44558483 original size:97 final size:95
Alignment explanation
Indices: 44558164--44558497 Score: 361
Period size: 97 Copynumber: 3.5 Consensus size: 95
44558154 TAAAATATGC
* *
44558164 CTTAAATCCAAACCCTCATTACAAGAAATAAATTAATGAATAAAATTTACCATTTTAGTGGCTAT
1 CTTAAATCCAAACCCTCATTACAAGAAATAAATTAATAAATAAAATTTACCATTTTAG-GGCCAT
* * **
44558229 GTCCACTAAGTTTCCAGTACGCCCCACTACTG
65 GTCCACTAGGTTTCCAGTACG-CTCACTGTTG
* * * * * * *
44558261 CTTAAATCCAAACCTTTATTACAAGAAATAAATTCATGAATAAAACTTATCATTTTAGGGGCATG
1 CTTAAATCCAAACCCTCATTACAAGAAATAAATTAATAAATAAAATTTACCATTTTAGGGCCATG
* * **
44558326 -CCTCCTAGGTTTCTAGTACATTC-C-GTCACTG
66 TCC-ACTAGGTTTCCAGTACGCTCACTGT---TG
* * *
44558357 CTGAAATCCAAACTCTCATTACAAGAAATAAATTAGTAAATAAAATTTACCATTTTAGGGACCAT
1 CTTAAATCCAAACCCTCATTACAAGAAATAAATTAATAAATAAAATTTACCATTTTAGGG-CCAT
44558422 GTCC-CTTAGGTTTCCAGTACGCTCAACTGTTG
65 GTCCAC-TAGGTTTCCAGTACGCTC-ACTGTTG
* *
44558454 CTTAAATCCAAACCCTTATTACAATAAATAAATTAATAAATAAA
1 CTTAAATCCAAACCCTCATTACAAGAAATAAATTAATAAATAAA
44558498 TCCTTAAACT
Statistics
Matches: 194, Mismatches: 33, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
94 1 0.01
95 3 0.02
96 72 0.37
97 113 0.58
98 2 0.01
99 1 0.01
100 2 0.01
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.31
Consensus pattern (95 bp):
CTTAAATCCAAACCCTCATTACAAGAAATAAATTAATAAATAAAATTTACCATTTTAGGGCCATG
TCCACTAGGTTTCCAGTACGCTCACTGTTG
Found at i:44565496 original size:64 final size:64
Alignment explanation
Indices: 44565416--44565549 Score: 169
Period size: 64 Copynumber: 2.1 Consensus size: 64
44565406 AGTGCAGGGT
* * * * * * *
44565416 TCACACAAGCCAAGGACACGGACGTGTGTCTAGGCTATGCAACTCACTGATTACAAGATAAGGA
1 TCACACAAGCCAAGGACACGAACATATGTCCAGGCCATGCAACACACTGATTACAAAATAAGGA
* * *
44565480 TCACACAGGCCAAGGACACGAATATATGTCCAGGCCATGTAACACACTGATTACAAAATAAGGA
1 TCACACAAGCCAAGGACACGAACATATGTCCAGGCCATGCAACACACTGATTACAAAATAAGGA
*
44565544 CCACAC
1 TCACAC
44565550 GGGTGGAGGA
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.37, C:0.25, G:0.20, T:0.17
Consensus pattern (64 bp):
TCACACAAGCCAAGGACACGAACATATGTCCAGGCCATGCAACACACTGATTACAAAATAAGGA
Found at i:44566802 original size:577 final size:577
Alignment explanation
Indices: 44565709--44566867 Score: 2185
Period size: 577 Copynumber: 2.0 Consensus size: 577
44565699 ACCGAGCATC
*
44565709 GTTGGAGTAAAATACGAGCCTTCTCTGAAGTCGTTTGAACTGAATTTGATTGCATAAATTGATAT
1 GTTGGAGTAAAATACGAGCCTTCTCTAAAGTCGTTTGAACTGAATTTGATTGCATAAATTGATAT
44565774 TTTATGATCAAGAATTTGAATACTGATTATCAATGTGCGTATTGTGTTTGACAAAAATCATTGGA
66 TTTATGATCAAGAATTTGAATACTGATTATCAATGTGCGTATTGTGTTTGACAAAAATCATTGGA
*
44565839 ATTTATCTACTATATACGAACACGAGTATATCTGTATATTTACATATAAATCTGTGTTAATTGTC
131 ATTTATCTACTATATACGAACACGAGTATATCTGCATATTTACATATAAATCTGTGTTAATTGTC
*
44565904 ATGTGAAGTATGTGTATACATTGGATGGGAATTGAATCAAGAGGAAGTATTCTATTCTGAACCAG
196 ATGTGAAGTATGTGTATACATTGGATGGGAATTGAATCAAGAGGAAGTATTCTATTCTGAACAAG
44565969 TGGTTAAATCCCTAGTATTTGTATACTAATCTGGCAGCTAGTTTGCAATCTTTAAAACATGTCAG
261 TGGTTAAATCCCTAGTATTTGTATACTAATCTGGCAGCTAGTTTGCAATCTTTAAAACATGTCAG
*
44566034 ACAGACACTGAGTGGTGTGTAGGGCTGGATGGATAATGAATACCCTATTTAGTGTGTTGGGTTGG
326 ACAGACACTGAGTGGTGTGTAGGGCTGGATGGATAATGAATACCCTATTTAGTATGTTGGGTTGG
44566099 TCGGAGATGGTATATTGTAGTTGGTATTAAATAATTGTATTTATTTTGTTCTATTTTGCATTTGA
391 TCGGAGATGGTATATTGTAGTTGGTATTAAATAATTGTATTTATTTTGTTCTATTTTGCATTTGA
*
44566164 TTATGGCTTGATCTGTTATCCGTCTGTATGACTCTGATCTGTAACTAAATGAACTATTTCTTGAT
456 TTATGGCTTGATCTATTATCCGTCTGTATGACTCTGATCTGTAACTAAATGAACTATTTCTTGAT
44566229 TCTACATAAACATCTTGGATATCTTAGTTTTCCGATAATCTTTTGAATATGTAAATA
521 TCTACATAAACATCTTGGATATCTTAGTTTTCCGATAATCTTTTGAATATGTAAATA
44566286 GTTGGAGTAAAATACGAGCCTTCTCTAAAGTCGTTTGAACTGAATTTGATTGCATAAATTGATAT
1 GTTGGAGTAAAATACGAGCCTTCTCTAAAGTCGTTTGAACTGAATTTGATTGCATAAATTGATAT
**
44566351 TTTATGATTTAGAATTTGAATACTGATTATCAATGTGCGTATTGTGTTTGACAAAAATCATTGGA
66 TTTATGATCAAGAATTTGAATACTGATTATCAATGTGCGTATTGTGTTTGACAAAAATCATTGGA
* * *
44566416 ATTTATCTACTATATACGAACACGAGTATATCTGCATATTTGCATATAACTTTGTGTTAATTGTC
131 ATTTATCTACTATATACGAACACGAGTATATCTGCATATTTACATATAAATCTGTGTTAATTGTC
* *
44566481 ATGTGAAGTATGTGTATACATTGGATGGGAATTGAATCAATAGGAAGTATTCTATTTTGAACAAG
196 ATGTGAAGTATGTGTATACATTGGATGGGAATTGAATCAAGAGGAAGTATTCTATTCTGAACAAG
44566546 TGGTTAAATCCCTAGTATTTGTATACTAATCTGGCAGCTAGTTTGCAATCTTTAAAACATGTCAG
261 TGGTTAAATCCCTAGTATTTGTATACTAATCTGGCAGCTAGTTTGCAATCTTTAAAACATGTCAG
*
44566611 ACAGACACTGAGTGGTGTGTAGGGTTGGATGGATAATGAATACCCTATTTAGTATGTTGGGTTGG
326 ACAGACACTGAGTGGTGTGTAGGGCTGGATGGATAATGAATACCCTATTTAGTATGTTGGGTTGG
44566676 TCGGAGATGGTATATT-TCAGTTGGTATTAAATAATTGTATTTATTTTGTTCTATTTTGCATTTG
391 TCGGAGATGGTATATTGT-AGTTGGTATTAAATAATTGTATTTATTTTGTTCTATTTTGCATTTG
44566740 ATTATGGCTTGATCTATTATCCGTCTGTATGACTCTGATCTGTAACTAAATGAACTATTTCTTGA
455 ATTATGGCTTGATCTATTATCCGTCTGTATGACTCTGATCTGTAACTAAATGAACTATTTCTTGA
44566805 TTCTACATAAACATCTTGGATATCTTAGTTTTCCGATAATCTTTTGAATATGTAAATA
520 TTCTACATAAACATCTTGGATATCTTAGTTTTCCGATAATCTTTTGAATATGTAAATA
44566863 GTTGG
1 GTTGG
44566868 GTCCTTTTTG
Statistics
Matches: 568, Mismatches: 13, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
576 1 0.00
577 567 1.00
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (577 bp):
GTTGGAGTAAAATACGAGCCTTCTCTAAAGTCGTTTGAACTGAATTTGATTGCATAAATTGATAT
TTTATGATCAAGAATTTGAATACTGATTATCAATGTGCGTATTGTGTTTGACAAAAATCATTGGA
ATTTATCTACTATATACGAACACGAGTATATCTGCATATTTACATATAAATCTGTGTTAATTGTC
ATGTGAAGTATGTGTATACATTGGATGGGAATTGAATCAAGAGGAAGTATTCTATTCTGAACAAG
TGGTTAAATCCCTAGTATTTGTATACTAATCTGGCAGCTAGTTTGCAATCTTTAAAACATGTCAG
ACAGACACTGAGTGGTGTGTAGGGCTGGATGGATAATGAATACCCTATTTAGTATGTTGGGTTGG
TCGGAGATGGTATATTGTAGTTGGTATTAAATAATTGTATTTATTTTGTTCTATTTTGCATTTGA
TTATGGCTTGATCTATTATCCGTCTGTATGACTCTGATCTGTAACTAAATGAACTATTTCTTGAT
TCTACATAAACATCTTGGATATCTTAGTTTTCCGATAATCTTTTGAATATGTAAATA
Found at i:44568890 original size:26 final size:27
Alignment explanation
Indices: 44568851--44568914 Score: 85
Period size: 26 Copynumber: 2.4 Consensus size: 27
44568841 TCAGATTGTT
* * *
44568851 TTATGTATATATTTTCTTTTAAATCTA
1 TTATATATATATTTCCTTTCAAATCTA
44568878 -TATATATATATTTCCTTTCAAATCTA
1 TTATATATATATTTCCTTTCAAATCTA
*
44568904 TTATGTATATA
1 TTATATATATA
44568915 GTTTATTCTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 23 0.72
27 9 0.28
ACGTcount: A:0.33, C:0.09, G:0.03, T:0.55
Consensus pattern (27 bp):
TTATATATATATTTCCTTTCAAATCTA
Found at i:44568979 original size:22 final size:21
Alignment explanation
Indices: 44568953--44569002 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 21
44568943 TATATGCTTT
*
44568953 TATTATTTAAAACTCTTTTATA
1 TATTATTT-AAACCCTTTTATA
*
44568975 TATTA-TT-ATCCCTTTTATA
1 TATTATTTAAACCCTTTTATA
44568994 TATTATTTA
1 TATTATTTA
44569003 TATTAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 15 0.62
20 2 0.08
21 2 0.08
22 5 0.21
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.58
Consensus pattern (21 bp):
TATTATTTAAACCCTTTTATA
Found at i:44569293 original size:52 final size:52
Alignment explanation
Indices: 44569215--44569418 Score: 408
Period size: 52 Copynumber: 3.9 Consensus size: 52
44569205 ACATTTGATA
44569215 TTTTTTAAATTGTTTTTATATCGTATTGATTCCAAGTTTCCCGTCTTTATAG
1 TTTTTTAAATTGTTTTTATATCGTATTGATTCCAAGTTTCCCGTCTTTATAG
44569267 TTTTTTAAATTGTTTTTATATCGTATTGATTCCAAGTTTCCCGTCTTTATAG
1 TTTTTTAAATTGTTTTTATATCGTATTGATTCCAAGTTTCCCGTCTTTATAG
44569319 TTTTTTAAATTGTTTTTATATCGTATTGATTCCAAGTTTCCCGTCTTTATAG
1 TTTTTTAAATTGTTTTTATATCGTATTGATTCCAAGTTTCCCGTCTTTATAG
44569371 TTTTTTAAATTGTTTTTATATCGTATTGATTCCAAGTTTCCCGTCTTT
1 TTTTTTAAATTGTTTTTATATCGTATTGATTCCAAGTTTCCCGTCTTT
44569419 TATATTATTA
Statistics
Matches: 152, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 152 1.00
ACGTcount: A:0.21, C:0.14, G:0.11, T:0.54
Consensus pattern (52 bp):
TTTTTTAAATTGTTTTTATATCGTATTGATTCCAAGTTTCCCGTCTTTATAG
Found at i:44570154 original size:17 final size:17
Alignment explanation
Indices: 44570128--44570161 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
44570118 TATATAATTG
*
44570128 AAATATGTTATAATATA
1 AAATAAGTTATAATATA
44570145 AAATAAGTTATAATATA
1 AAATAAGTTATAATATA
44570162 TTAAGTGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (17 bp):
AAATAAGTTATAATATA
Found at i:44570815 original size:24 final size:24
Alignment explanation
Indices: 44570788--44570923 Score: 150
Period size: 24 Copynumber: 5.7 Consensus size: 24
44570778 GAAATGATTT
44570788 TGGCACTATGTGTGCGAATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* *
44570812 TGGCACTATGTGTGTGAATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
* *
44570836 TGGCACTATGTGTGCGGATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
* *
44570860 TGGCACTATGTGTGCGGATTGGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * * *
44570884 TGTCAATATGTATGTGAATTACT-AA
1 TGGCACTATGTGTGCGAATT--TGAA
44570909 -GGCACTATGTGTGCG
1 TGGCACTATGTGTGCG
44570924 GGTTAACATG
Statistics
Matches: 94, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
24 92 0.98
25 2 0.02
ACGTcount: A:0.23, C:0.12, G:0.30, T:0.35
Consensus pattern (24 bp):
TGGCACTATGTGTGCGAATTTGAA
Found at i:44570874 original size:72 final size:72
Alignment explanation
Indices: 44570788--44570924 Score: 202
Period size: 72 Copynumber: 1.9 Consensus size: 72
44570778 GAAATGATTT
* * * ** *
44570788 TGGCACTATGTGTGCGAATTTGAATGGCACTATGTGTGTGAATTTGTATGGCACTATGTGTGCGG
1 TGGCACTATGTGTGCGAATTGGAATGGCAATATGTATGTGAATTACTAAGGCACTATGTGTGCGG
44570853 ATTTGTA
66 ATTTGTA
* *
44570860 TGGCACTATGTGTGCGGATTGGAATGTCAATATGTATGTGAATTACTAAGGCACTATGTGTGCGG
1 TGGCACTATGTGTGCGAATTGGAATGGCAATATGTATGTGAATTACTAAGGCACTATGTGTGCGG
44570925 GTTAACATGG
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
72 57 1.00
ACGTcount: A:0.23, C:0.12, G:0.31, T:0.35
Consensus pattern (72 bp):
TGGCACTATGTGTGCGAATTGGAATGGCAATATGTATGTGAATTACTAAGGCACTATGTGTGCGG
ATTTGTA
Found at i:44570940 original size:72 final size:72
Alignment explanation
Indices: 44570788--44570941 Score: 191
Period size: 72 Copynumber: 2.1 Consensus size: 72
44570778 GAAATGATTT
* * * ** *
44570788 TGGCACTATGTGTGCGAATTTGAATGGCACTATGTGTGTGAATTTGTATGGCACTATGTGTGCGG
1 TGGCACTATGTGTGCGAATTGGAATGGCAATATGTATGTGAATTACTAAGGCACTATGTGTGCGG
***
44570853 ATTTGTA
66 ATTAACA
* *
44570860 TGGCACTATGTGTGCGGATTGGAATGTCAATATGTATGTGAATTACTAAGGCACTATGTGTGCGG
1 TGGCACTATGTGTGCGAATTGGAATGGCAATATGTATGTGAATTACTAAGGCACTATGTGTGCGG
*
44570925 GTTAACA
66 ATTAACA
*
44570932 TGGTACTATG
1 TGGCACTATG
44570942 GATATGAATT
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
72 69 1.00
ACGTcount: A:0.23, C:0.12, G:0.30, T:0.35
Consensus pattern (72 bp):
TGGCACTATGTGTGCGAATTGGAATGGCAATATGTATGTGAATTACTAAGGCACTATGTGTGCGG
ATTAACA
Found at i:44577095 original size:17 final size:17
Alignment explanation
Indices: 44577069--44577102 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
44577059 TATATAATTG
*
44577069 AAATATGTTATAATATA
1 AAATAAGTTATAATATA
44577086 AAATAAGTTATAATATA
1 AAATAAGTTATAATATA
44577103 TTAAGTGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (17 bp):
AAATAAGTTATAATATA
Found at i:44584735 original size:768 final size:768
Alignment explanation
Indices: 44583717--44585254 Score: 3049
Period size: 768 Copynumber: 2.0 Consensus size: 768
44583707 AATGGATAAA
44583717 TACTAAGAAGATAGTGTTTTTATGTTTTGGATAAAAATATTAGAAAGGTGAAAATGAGCTAGCTA
1 TACTAAGAAGATAGTGTTTTTATGTTTTGGATAAAAATATTAGAAAGGTGAAAATGAGCTAGCTA
44583782 AATAGATATTGGTGAACTTAAATGATGGTATGAACAAATGTGGAGCTTTTGATAGTTTTTAGAAG
66 AATAGATATTGGTGAACTTAAATGATGGTATGAACAAATGTGGAGCTTTTGATAGTTTTTAGAAG
44583847 TATTCGGTCAAGGTGGTTATGTGTTGAAACTTTGTGTTAAATGACAAAGTGATGTGCAATTGTTA
131 TATTCGGTCAAGGTGGTTATGTGTTGAAACTTTGTGTTAAATGACAAAGTGATGTGCAATTGTTA
*
44583912 TTTTGGTAGTGATAATGCCGAAAGTGAAAAGATTGTTAAGGAATTATGGTTTAAATGTTTAGTGA
196 TTTTGGTAGTAATAATGCCGAAAGTGAAAAGATTGTTAAGGAATTATGGTTTAAATGTTTAGTGA
44583977 AGATGATATTCGGCTTGTTAGTATGTGAATAAATTATTTAAAGTATAAACTTTATATGTATGCTA
261 AGATGATATTCGGCTTGTTAGTATGTGAATAAATTATTTAAAGTATAAACTTTATATGTATGCTA
44584042 AAAATTTATATGCATTCGGCCTTGAGACATTAGATAAACTTTAGTTGAAGATTCAATGTCTTGAA
326 AAAATTTATATGCATTCGGCCTTGAGACATTAGATAAACTTTAGTTGAAGATTCAATGTCTTGAA
*
44584107 CAACGATGGTTATAAGATGAAATGGAAATTATTAAATTTATATATATATGTGTGTAATTAGCAAG
391 CAACGATGGTTATAAGATGAAATGGAAATTATTAAATTTATATATATATGTGAGTAATTAGCAAG
44584172 GAGTGGTTACCGTATGTACATATATATAAATATAGGTGTTTTATTGAAATATTGATTGGGTTATG
456 GAGTGGTTACCGTATGTACATATATATAAATATAGGTGTTTTATTGAAATATTGATTGGGTTATG
44584237 GATAGTAATGTGGTATTAGGTGAACAATAGCCGAATGGCTTAAAAGCCTAAGGTGAAAAAAATCA
521 GATAGTAATGTGGTATTAGGTGAACAATAGCCGAATGGCTTAAAAGCCTAAGGTGAAAAAAATCA
44584302 AATTTTAGCCGTGTGATTCTCGTGATATGAAATCATTAATATTATGGGATATAACTAACTAGCAA
586 AATTTTAGCCGTGTGATTCTCGTGATATGAAATCATTAATATTATGGGATATAACTAACTAGCAA
44584367 TGTAATTAAATTAGTTAATTTATTTATTTTAGCTCAAGAACCCAAAGGAGGGGAATCAAGCAAAG
651 TGTAATTAAATTAGTTAATTTATTTATTTTAGCTCAAGAACCCAAAGGAGGGGAATCAAGCAAAG
44584432 GCAAAGCAAAGAATATCGAGTAGCCGATTGCAACCGTTTCATCTAAAACGATG
716 GCAAAGCAAAGAATATCGAGTAGCCGATTGCAACCGTTTCATCTAAAACGATG
44584485 TACTAAGAAGATAGTGTTTTTATGTTTTGGATAAAAATATTAGAAAGGTGAAAATGAGCTAGCTA
1 TACTAAGAAGATAGTGTTTTTATGTTTTGGATAAAAATATTAGAAAGGTGAAAATGAGCTAGCTA
44584550 AATAGATATTGGTGAACTTAAATGATGGTATGAACAAATGTGGAGCTTTTGATAGTTTTTAGAAG
66 AATAGATATTGGTGAACTTAAATGATGGTATGAACAAATGTGGAGCTTTTGATAGTTTTTAGAAG
44584615 TATTCGGTCAAGGTGGTTATGTGTTGAAACTTTGTGTTAAATGACAAAGTGATGTGCAATTGTTA
131 TATTCGGTCAAGGTGGTTATGTGTTGAAACTTTGTGTTAAATGACAAAGTGATGTGCAATTGTTA
44584680 TTTTGGTAGTAATAATGCCGAAAGTGAAAAGATTGTTAAGGAATTATGGTTTAAATGTTTAGTGA
196 TTTTGGTAGTAATAATGCCGAAAGTGAAAAGATTGTTAAGGAATTATGGTTTAAATGTTTAGTGA
44584745 AGATGATATTCGGCTTGTTAGTATGTGAATAAATTATTTAAAGTATAAACTTTATATGTATGCTA
261 AGATGATATTCGGCTTGTTAGTATGTGAATAAATTATTTAAAGTATAAACTTTATATGTATGCTA
44584810 AAAATTTATATGCATTCGGCCTTGAGACATTAGATAAACTTTAGTTGAAGATTCAATGTCTTGAA
326 AAAATTTATATGCATTCGGCCTTGAGACATTAGATAAACTTTAGTTGAAGATTCAATGTCTTGAA
44584875 CAACGATGGTTATAAGATGAAATGGAAATTATTAAATTTATATATATATGTGAGTAATTAGCAAG
391 CAACGATGGTTATAAGATGAAATGGAAATTATTAAATTTATATATATATGTGAGTAATTAGCAAG
44584940 GAGTGGTTACCGTATGTACATATATATAAATATAGGTGTTTTATTGAAATATTGATTGGGTTATG
456 GAGTGGTTACCGTATGTACATATATATAAATATAGGTGTTTTATTGAAATATTGATTGGGTTATG
44585005 GATAGTAATGTGGTATTAGGTGAACAATAGCCGAATGGCTTAAAAGCCTAAGGTGAAAAAAATCA
521 GATAGTAATGTGGTATTAGGTGAACAATAGCCGAATGGCTTAAAAGCCTAAGGTGAAAAAAATCA
44585070 AATTTTAGCCGTGTGATTCTCGTGATATGAAATCATTAATATTATGGGATATAACTAACTAGCAA
586 AATTTTAGCCGTGTGATTCTCGTGATATGAAATCATTAATATTATGGGATATAACTAACTAGCAA
*
44585135 TGTAATTAAATTAGTTAATTTATTTATTTTAGCTCAAGAACCCAAAGGAGGGGAATCAAGCAAGG
651 TGTAATTAAATTAGTTAATTTATTTATTTTAGCTCAAGAACCCAAAGGAGGGGAATCAAGCAAAG
44585200 GCAAAGCAAAGAATATCGAGTAGCCGATTGCAACCGTTTCATCTAAAACGATG
716 GCAAAGCAAAGAATATCGAGTAGCCGATTGCAACCGTTTCATCTAAAACGATG
44585253 TA
1 TA
44585255 AGTCTATAAG
Statistics
Matches: 767, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
768 767 1.00
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.34
Consensus pattern (768 bp):
TACTAAGAAGATAGTGTTTTTATGTTTTGGATAAAAATATTAGAAAGGTGAAAATGAGCTAGCTA
AATAGATATTGGTGAACTTAAATGATGGTATGAACAAATGTGGAGCTTTTGATAGTTTTTAGAAG
TATTCGGTCAAGGTGGTTATGTGTTGAAACTTTGTGTTAAATGACAAAGTGATGTGCAATTGTTA
TTTTGGTAGTAATAATGCCGAAAGTGAAAAGATTGTTAAGGAATTATGGTTTAAATGTTTAGTGA
AGATGATATTCGGCTTGTTAGTATGTGAATAAATTATTTAAAGTATAAACTTTATATGTATGCTA
AAAATTTATATGCATTCGGCCTTGAGACATTAGATAAACTTTAGTTGAAGATTCAATGTCTTGAA
CAACGATGGTTATAAGATGAAATGGAAATTATTAAATTTATATATATATGTGAGTAATTAGCAAG
GAGTGGTTACCGTATGTACATATATATAAATATAGGTGTTTTATTGAAATATTGATTGGGTTATG
GATAGTAATGTGGTATTAGGTGAACAATAGCCGAATGGCTTAAAAGCCTAAGGTGAAAAAAATCA
AATTTTAGCCGTGTGATTCTCGTGATATGAAATCATTAATATTATGGGATATAACTAACTAGCAA
TGTAATTAAATTAGTTAATTTATTTATTTTAGCTCAAGAACCCAAAGGAGGGGAATCAAGCAAAG
GCAAAGCAAAGAATATCGAGTAGCCGATTGCAACCGTTTCATCTAAAACGATG
Found at i:44585437 original size:24 final size:24
Alignment explanation
Indices: 44585410--44585545 Score: 159
Period size: 24 Copynumber: 5.7 Consensus size: 24
44585400 GAAATGATTT
44585410 TGGCACTATGTGTGCGAATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
*
44585434 TGGCACTATGTGTGCGAATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
* *
44585458 TGGCACTATGTGTGCGGATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
* *
44585482 TGGCACTATGTGTGCGGATTGGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * * *
44585506 TGTCAATATGTATGTGAATTACT-AA
1 TGGCACTATGTGTGCGAATT--TGAA
44585531 -GGCACTATGTGTGCG
1 TGGCACTATGTGTGCG
44585546 GGTTAACATG
Statistics
Matches: 96, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
24 94 0.98
25 2 0.02
ACGTcount: A:0.23, C:0.12, G:0.30, T:0.35
Consensus pattern (24 bp):
TGGCACTATGTGTGCGAATTTGAA
Found at i:44585535 original size:72 final size:72
Alignment explanation
Indices: 44585410--44585546 Score: 193
Period size: 72 Copynumber: 1.9 Consensus size: 72
44585400 GAAATGATTT
* * * ** *
44585410 TGGCACTATGTGTGCGAATTTGAATGGCACTATGTGTGCGAATTTGTATGGCACTATGTGTGCGG
1 TGGCACTATGTGTGCGAATTGGAATGGCAATATGTATGCGAATTACTAAGGCACTATGTGTGCGG
44585475 ATTTGTA
66 ATTTGTA
* * *
44585482 TGGCACTATGTGTGCGGATTGGAATGTCAATATGTATGTGAATTACTAAGGCACTATGTGTGCGG
1 TGGCACTATGTGTGCGAATTGGAATGGCAATATGTATGCGAATTACTAAGGCACTATGTGTGCGG
44585547 GTTAACATGG
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
72 56 1.00
ACGTcount: A:0.23, C:0.12, G:0.31, T:0.34
Consensus pattern (72 bp):
TGGCACTATGTGTGCGAATTGGAATGGCAATATGTATGCGAATTACTAAGGCACTATGTGTGCGG
ATTTGTA
Found at i:44585562 original size:72 final size:72
Alignment explanation
Indices: 44585410--44585563 Score: 182
Period size: 72 Copynumber: 2.1 Consensus size: 72
44585400 GAAATGATTT
* * * ** *
44585410 TGGCACTATGTGTGCGAATTTGAATGGCACTATGTGTGCGAATTTGTATGGCACTATGTGTGCGG
1 TGGCACTATGTGTGCGAATTGGAATGGCAATATGTATGCGAATTACTAAGGCACTATGTGTGCGG
***
44585475 ATTTGTA
66 ATTAACA
* * *
44585482 TGGCACTATGTGTGCGGATTGGAATGTCAATATGTATGTGAATTACTAAGGCACTATGTGTGCGG
1 TGGCACTATGTGTGCGAATTGGAATGGCAATATGTATGCGAATTACTAAGGCACTATGTGTGCGG
*
44585547 GTTAACA
66 ATTAACA
*
44585554 TGGTACTATG
1 TGGCACTATG
44585564 GATATGAATT
Statistics
Matches: 68, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
72 68 1.00
ACGTcount: A:0.23, C:0.12, G:0.30, T:0.34
Consensus pattern (72 bp):
TGGCACTATGTGTGCGAATTGGAATGGCAATATGTATGCGAATTACTAAGGCACTATGTGTGCGG
ATTAACA
Found at i:44589665 original size:130 final size:130
Alignment explanation
Indices: 44589342--44589667 Score: 480
Period size: 131 Copynumber: 2.5 Consensus size: 130
44589332 GAAAAATCGA
* *
44589342 AACCCAGCACGGTAGAGCACGATTCCCCGAATTTCCAAACATTGAACATTGCCTT-GTTTT-AGA
1 AACCCAGCACGGTAGGGCACGATTCCCCGAATTTCCAAACATCGAACATTGCCTTCGTTTTAAGA
* * *
44589405 A-TTTAAAAAACATGAGTGAAATTCTAAAGGAATATTCGATTATTTTGAGCGAACGAGAAATTGC
66 ATTTTAAAAAACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGAGAAATTGC
* * *
44589469 AACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTTCCTTCGTTTTGAAG
1 AACCCAGCACGGTAGGGCACGATTCCCCGAATTTCCAAACATCGAACATTGCCTTCGTTTT-AAG
* * *
44589534 AATTTTCAAAGACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGGGAAATTG
65 AATTTTAAAAAACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGAGAAATTG
44589599 C
130 C
* * *
44589600 AACCCAGCA-GGTAGGGTACGATTCCCCGAATTTCCAAACATCAAACATTGCATTCGTTTTAAAG
1 AACCCAGCACGGTAGGGCACGATTCCCCGAATTTCCAAACATCGAACATTGCCTTCGTTTT-AAG
44589664 AATT
65 AATT
44589668 CTTGAATGAA
Statistics
Matches: 177, Mismatches: 18, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
127 50 0.28
128 5 0.03
130 56 0.32
131 66 0.37
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (130 bp):
AACCCAGCACGGTAGGGCACGATTCCCCGAATTTCCAAACATCGAACATTGCCTTCGTTTTAAGA
ATTTTAAAAAACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGAGAAATTGC
Found at i:44591508 original size:30 final size:28
Alignment explanation
Indices: 44591473--44591540 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 28
44591463 ACCTTATTTT
44591473 TATATTAT-ATATTATAAAATTATTTTATTA
1 TATATTATCATATTAT--AATTA-TTTATTA
*
44591503 TATATTATTTCATATTATTATTATTTATTA
1 TATATTA--TCATATTATAATTATTTATTA
44591533 TATATTAT
1 TATATTAT
44591541 TTTTCACAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
28 1 0.03
30 21 0.62
31 4 0.12
32 1 0.03
33 7 0.21
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.60
Consensus pattern (28 bp):
TATATTATCATATTATAATTATTTATTA
Found at i:44591517 original size:10 final size:10
Alignment explanation
Indices: 44591497--44591541 Score: 58
Period size: 10 Copynumber: 4.5 Consensus size: 10
44591487 TAAAATTATT
44591497 TTATTATATA
1 TTATTATATA
44591507 TTATT-TCATA
1 TTATTAT-ATA
44591517 TTATTAT-TA
1 TTATTATATA
44591526 TTTATTATATA
1 -TTATTATATA
44591537 TTATT
1 TTATT
44591542 TTTCACAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
9 3 0.10
10 25 0.81
11 3 0.10
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (10 bp):
TTATTATATA
Found at i:44591541 original size:23 final size:23
Alignment explanation
Indices: 44591467--44591541 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
44591457 TTTTTAACCT
*
44591467 TATTTTTA-TATTATATATTATAA
1 TATTATTATTATTATATATTAT-A
* *
44591490 AATTATT-TTATTATATATTATT
1 TATTATTATTATTATATATTATA
*
44591512 TCA-TATTATTATTATTTATTATA
1 T-ATTATTATTATTATATATTATA
44591535 TATTATT
1 TATTATT
44591542 TTTCACAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
22 5 0.12
23 37 0.88
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (23 bp):
TATTATTATTATTATATATTATA
Found at i:44595175 original size:44 final size:46
Alignment explanation
Indices: 44595120--44595237 Score: 138
Period size: 45 Copynumber: 2.6 Consensus size: 46
44595110 TGTTTTTATC
* * *
44595120 CTGCTCTACTGCAACTTCAGAGAGATAAGGAT-TG-TGACTTCGA-T
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGATCTGTTAACTT-GAGT
* *
44595164 CTGCTCCACTGCAACTTCAGGGAAATAA-GATCTGTTAACTTTAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGATCTGTTAACTTGAGT
44595209 CTGCTCCACTGCAACCTT-AGGGAGATAAG
1 CTGCTCCACTGCAA-CTTCAGGGAGATAAG
44595238 ACTTGTAATT
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.05
44 28 0.44
45 29 0.46
46 3 0.05
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (46 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGGATCTGTTAACTTGAGT
Found at i:44595359 original size:87 final size:87
Alignment explanation
Indices: 44595208--44595592 Score: 389
Period size: 87 Copynumber: 4.4 Consensus size: 87
44595198 TTAACTTTAG
* * * * * *
44595208 TCTGCTCCACTGCAACCTTAGGGAGATAAGA-CTTGTAAT-TTACAGCCTGTTACCTTACTGCTT
1 TCTGCTCCACTACTA-CTTAGGGAGACAAGATC-TGCAATCTT-CAGCCTGTTACCCTACTACTT
44595271 AGGGGGTTAAGG-TCACCGTCTTCGA
63 AGGGGGTTAAGGCT-ACCGTCTTCGA
* * * ** *
44595296 TTTGCTCCACTACTACTTAGGAAGACAAGATCTACAATCTTTGGCTTGTTACCCTACTACTTAGG
1 TCTGCTCCACTACTACTTAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTACTTAGG
* * *
44595361 GGATTAAGGCTCACTGTCTTTGA
66 GGGTTAAGGCT-ACCGTCTTCGA
* * * * *
44595384 TCTGTTCCACTGCAACTTCAGGGGGACAAGATCTGTAATCTTCAGCCTGTTACCCTACTACTTAG
1 TCTGCTCCACTACTACTT-AGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTACTTAG
* ** * *
44595449 AGGGTTAAGGCTTGCTTCTTCAA
65 GGGGTTAAGGCTACCGTCTTCGA
* **
44595472 TTTGCTCCACTACTGTTTAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTACTTAGG
1 TCTGCTCCACTACTACTTAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTACTTAGG
** *
44595537 GGGTTAAGGCTTGCTTCTTCGA
66 GGGTTAAGGCTACCGTCTTCGA
* * *
44595559 TCTGCTCCACTACTGCTCAGGGAGGCAAGATCTG
1 TCTGCTCCACTACTACTTAGGGAGACAAGATCTG
44595593 TGAATTCACT
Statistics
Matches: 245, Mismatches: 48, Indels: 9
0.81 0.16 0.03
Matches are distributed among these distances:
87 139 0.57
88 57 0.23
89 49 0.20
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.32
Consensus pattern (87 bp):
TCTGCTCCACTACTACTTAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTACTTAGG
GGGTTAAGGCTACCGTCTTCGA
Found at i:44595470 original size:43 final size:42
Alignment explanation
Indices: 44595422--44595556 Score: 112
Period size: 43 Copynumber: 3.1 Consensus size: 42
44595412 AGATCTGTAA
44595422 TCTTCAGCCTGTTACCCTACTACTTAGAGGGTTAAGGCTTGCT
1 TCTTCAGCCTGTTACCCTACTACTTAG-GGGTTAAGGCTTGCT
*** * ** ** * *
44595465 TCTTCAATTTGCT-CCACTACTGTTTAGGGAGACAA-GATCTGCAA
1 TCTTCAGCCTGTTACC-CTACTACTTAGGG-GTTAAGGCT-TGC-T
44595509 TCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTGCT
1 TCTTCAGCCTGTTACCCTACTACTTA-GGGGTTAAGGCTTGCT
44595552 TCTTC
1 TCTTC
44595557 GATCTGCTCC
Statistics
Matches: 65, Mismatches: 20, Indels: 14
0.66 0.20 0.14
Matches are distributed among these distances:
42 6 0.09
43 29 0.45
44 23 0.35
45 7 0.11
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (42 bp):
TCTTCAGCCTGTTACCCTACTACTTAGGGGTTAAGGCTTGCT
Found at i:44595512 original size:176 final size:175
Alignment explanation
Indices: 44595208--44595569 Score: 462
Period size: 176 Copynumber: 2.1 Consensus size: 175
44595198 TTAACTTTAG
* * *
44595208 TCTGCTCCACTGCAACCTTAGGGAGATAAGACTTGTAATTTACAGCCTGTTACCTTACTGCTTAG
1 TCTGCTCCACTGCAACCTTAGGGAGACAAGACTTGTAATTTACAGCCTGTTACCCTACTACTTAG
* * *
44595273 GGGGTTAAGGTCACCGTCTTCGATTTGCTCCACTACTACTTAGGAAGACAAGATCTACAATCTTT
66 AGGGTTAAGGTCACCGTCTTCAATTTGCTCCACTACTACTTAGGAAGACAAGATCTACAATCTTC
* * *
44595338 GGCTTGTTACCCTACTACTTAGGGGATTAAGGCTCACTGTCTTTGA
131 AGCCTGTTACCCTACTACTTAGGGGATTAAGGCTCACT-TCTTCGA
* *
44595384 TCTGTTCCACTGCAA-CTTCAGGGGGACAAGA-TCTGTAATCTT-CAGCCTGTTACCCTACTACT
1 TCTGCTCCACTGCAACCTT-AGGGAGACAAGACT-TGTAAT-TTACAGCCTGTTACCCTACTACT
** * ** * *
44595446 TAGAGGGTTAAGG-CTTGCTTCTTCAATTTGCTCCACTACTGTTTAGGGAGACAAGATCTGCAAT
63 TAGAGGGTTAAGGTC-ACCGTCTTCAATTTGCTCCACTACTACTTAGGAAGACAAGATCTACAAT
* **
44595510 CTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTGCTTCTTCGA
127 CTTCAGCCTGTTACCCTACTACTTAGGGGATTAAGGCTCACTTCTTCGA
44595559 TCTGCTCCACT
1 TCTGCTCCACT
44595570 ACTGCTCAGG
Statistics
Matches: 160, Mismatches: 22, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
175 21 0.13
176 137 0.86
177 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (175 bp):
TCTGCTCCACTGCAACCTTAGGGAGACAAGACTTGTAATTTACAGCCTGTTACCCTACTACTTAG
AGGGTTAAGGTCACCGTCTTCAATTTGCTCCACTACTACTTAGGAAGACAAGATCTACAATCTTC
AGCCTGTTACCCTACTACTTAGGGGATTAAGGCTCACTTCTTCGA
Found at i:44595536 original size:44 final size:43
Alignment explanation
Indices: 44595405--44595538 Score: 112
Period size: 44 Copynumber: 3.1 Consensus size: 43
44595395 GCAACTTCAG
*
44595405 GGGGACAAGATCTGTAATCTTCAGCCTGTTACCCTACTACTTA
1 GGGGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTACTTA
** * * *** * **
44595448 GAGGGTTAAG-GCTTGC-TTCTTCAATTTGCT-CCACTACTGTTTA
1 G-GGGACAAGATC-TGCAATCTTCAGCCTGTTACC-CTACTACTTA
44595491 GGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTACTTA
1 GGG-GACAAGATCTGCAATCTTCAGCCTGTTACCCTACTACTTA
44595535 GGGG
1 GGGG
44595539 GTTAAGGCTT
Statistics
Matches: 63, Mismatches: 21, Indels: 14
0.64 0.21 0.14
Matches are distributed among these distances:
42 4 0.06
43 28 0.44
44 29 0.46
45 2 0.03
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.31
Consensus pattern (43 bp):
GGGGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTACTTA
Found at i:44607104 original size:127 final size:129
Alignment explanation
Indices: 44606966--44607298 Score: 458
Period size: 131 Copynumber: 2.6 Consensus size: 129
44606956 GTCCAACGAA
* * *
44606966 AAATTGAAACCCAGCAAGGTAGAGCACGATTCCCCGAATTTTCAAACATTGAACATTGCCTT-GT
1 AAATTGAAACCCAGCACGGTAGGGCACGATTCCCCGAATTTTCAAACATCGAACATTGCCTTCGT
* * *
44607030 TTTAGAATTTAGAAA-ACATGAGTGAAATTCTAAAGGAATATTCGATTATTTTGAGA-AAATGGG
66 TTTAGAATTTACAAAGACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGA-ACAAACGGG
* * * * ** *
44607093 AAATTGCAACCCAACACGATGGGGCACGATTCCCCGAATTGCCAAACATCGAACATTTCCTTCGT
1 AAATTGAAACCCAGCACGGTAGGGCACGATTCCCCGAATTTTCAAACATCGAACATTGCCTTCGT
*
44607158 TTTGAAGAATTTTCAAAGACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGG
66 TTT--AGAATTTACAAAGACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGG
44607223 G
129 G
*
44607224 AAATTGTAACCCAGCACGGTAGGGCACGATTCCCCGAA-TTTCTAAACATCGAACATTGCCTTCG
1 AAATTGAAACCCAGCACGGTAGGGCACGATTCCCCGAATTTTC-AAACATCGAACATTGCCTTCG
*
44607288 TTTTAAAATTT
65 TTTTAGAATTT
44607299 TTTTGAATGA
Statistics
Matches: 178, Mismatches: 22, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
127 52 0.29
128 5 0.03
129 6 0.03
130 13 0.07
131 102 0.57
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (129 bp):
AAATTGAAACCCAGCACGGTAGGGCACGATTCCCCGAATTTTCAAACATCGAACATTGCCTTCGT
TTTAGAATTTACAAAGACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGGG
Found at i:44616997 original size:30 final size:32
Alignment explanation
Indices: 44616912--44616989 Score: 126
Period size: 32 Copynumber: 2.5 Consensus size: 32
44616902 TTCACTTTTT
44616912 AATATTTATGAGCATATTTATATTTTATATAA
1 AATATTTATGAGCATATTTATATTTTATATAA
*
44616944 AATATTTATCAGCATATTTATATTTTATA-AA
1 AATATTTATGAGCATATTTATATTTTATATAA
44616975 AATATTTA-GAG-ATAT
1 AATATTTATGAGCATAT
44616990 CTAATATTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
29 4 0.09
30 2 0.05
31 10 0.23
32 28 0.64
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.47
Consensus pattern (32 bp):
AATATTTATGAGCATATTTATATTTTATATAA
Found at i:44619710 original size:19 final size:21
Alignment explanation
Indices: 44619668--44619712 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
44619658 CTATTTTGAT
* *
44619668 TTTTTTTTATATTATTCTTCC
1 TTTTGTTTATATTATTCCTCC
44619689 TTTTGTTTATATT-TTCCT-C
1 TTTTGTTTATATTATTCCTCC
44619708 TTTTG
1 TTTTG
44619713 GAATAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 6 0.27
20 4 0.18
21 12 0.55
ACGTcount: A:0.11, C:0.13, G:0.04, T:0.71
Consensus pattern (21 bp):
TTTTGTTTATATTATTCCTCC
Found at i:44621014 original size:55 final size:55
Alignment explanation
Indices: 44620946--44621049 Score: 147
Period size: 55 Copynumber: 1.9 Consensus size: 55
44620936 GTGAGCACCC
* * *
44620946 ATAACGGGTGAGCTCTTAGGGAGCTC-TCCAGAGCCTACATGTCAGGCAAGCACTT
1 ATAACAGGCGAGCTCTTAGGGAGCTCGT-CAGAGCCTACATGTCAAGCAAGCACTT
* *
44621001 ATAACAGGCGAGCTCTTGGGGAGCTCGTCAGAGCCTACGTGTCAAGCAA
1 ATAACAGGCGAGCTCTTAGGGAGCTCGTCAGAGCCTACATGTCAAGCAA
44621050 ACAGGGTTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
55 42 0.98
56 1 0.02
ACGTcount: A:0.26, C:0.25, G:0.29, T:0.20
Consensus pattern (55 bp):
ATAACAGGCGAGCTCTTAGGGAGCTCGTCAGAGCCTACATGTCAAGCAAGCACTT
Found at i:44622075 original size:24 final size:24
Alignment explanation
Indices: 44622048--44622101 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
44622038 GAAAATCCAA
44622048 TTATTTTTGCTCCTAGCTTTATAC
1 TTATTTTTGCTCCTAGCTTTATAC
*
44622072 TTATTTTTGCTCCTAGCTTTATCC
1 TTATTTTTGCTCCTAGCTTTATAC
44622096 TTATTT
1 TTATTT
44622102 GTTTGGCTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.15, C:0.20, G:0.07, T:0.57
Consensus pattern (24 bp):
TTATTTTTGCTCCTAGCTTTATAC
Found at i:44627575 original size:103 final size:104
Alignment explanation
Indices: 44627331--44627596 Score: 419
Period size: 103 Copynumber: 2.6 Consensus size: 104
44627321 GTTGTACATA
** *
44627331 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
44627396 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
*
44627435 GAGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
44627499 TCTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
65 TCTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
44627538 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
44627597 AATAACGGTT
Statistics
Matches: 149, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:44631315 original size:2 final size:2
Alignment explanation
Indices: 44631308--44631339 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
44631298 TGGCTCAACC
*
44631308 AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
44631340 TGTAAACTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:44631561 original size:43 final size:43
Alignment explanation
Indices: 44631500--44631585 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
44631490 GTAGATGAGG
44631500 GTAGGATTATATATTTGCATTTGAACTCTTTGTTTGTCTGTTA
1 GTAGGATTATATATTTGCATTTGAACTCTTTGTTTGTCTGTTA
44631543 GTAGGATTATATATTTGCATTTGAACTCTTTGTTTGTCTGTTA
1 GTAGGATTATATATTTGCATTTGAACTCTTTGTTTGTCTGTTA
44631586 CTTTCAGGTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.21, C:0.09, G:0.19, T:0.51
Consensus pattern (43 bp):
GTAGGATTATATATTTGCATTTGAACTCTTTGTTTGTCTGTTA
Found at i:44635805 original size:30 final size:30
Alignment explanation
Indices: 44635769--44635832 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
44635759 TCCCCCGCGA
44635769 CAACAACCTTGTACTCCAGTTATCAATTCT
1 CAACAACCTTGTACTCCAGTTATCAATTCT
44635799 CAACAACCTTGTACTCCAGTTATCAATTCT
1 CAACAACCTTGTACTCCAGTTATCAATTCT
44635829 CAAC
1 CAAC
44635833 TTAACTTTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.31, C:0.31, G:0.06, T:0.31
Consensus pattern (30 bp):
CAACAACCTTGTACTCCAGTTATCAATTCT
Found at i:44648905 original size:18 final size:17
Alignment explanation
Indices: 44648882--44648915 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
44648872 TCATAAACTT
44648882 AATATAAAAATGATATAA
1 AATATAAAAAT-ATATAA
*
44648900 AATATAATAATATATA
1 AATATAAAAATATATA
44648916 TAAGATTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (17 bp):
AATATAAAAATATATAA
Found at i:44649059 original size:21 final size:18
Alignment explanation
Indices: 44649018--44649068 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 18
44649008 ATATATATGT
44649018 AATATAAAAAATTAAATA
1 AATATAAAAAATTAAATA
*
44649036 AATATAATGAAATGTAATATA
1 AATATAA-AAAAT-TAA-ATA
*
44649057 AATATAACAAAT
1 AATATAAAAAAT
44649069 ATTTTTCATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 7 0.25
19 4 0.14
20 7 0.25
21 10 0.36
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (18 bp):
AATATAAAAAATTAAATA
Found at i:44651149 original size:206 final size:206
Alignment explanation
Indices: 44650808--44651551 Score: 1141
Period size: 206 Copynumber: 3.6 Consensus size: 206
44650798 TTGTTCCCTG
* * *
44650808 ACAATACAGAGATGGCAAATCATCTTAGATTTGCTTCAGCGTAAGCACGTGAAAACCAAATCAGC
1 ACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCACGTGAAAGCCAAATCAGC
* * * * *
44650873 TATGTCTTCGATTTGCTCCTTATAAACACAAGGATACCAAACCATCTTGGATTTCCTTCAGTCTA
66 TATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGGATCTGCTTCAGTCTA
*
44650938 ATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCAGTCGAATATGGAGATGCCAAACTTTGA
131 ATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCAGTCGAATATGGAGATGCCAAACTTCGA
* *
44651003 TTTGTTCTCTA
196 TCTGCTCTCTA
* * *
44651014 ACAATACAGAGATGCCAAATCATCTTAGACTCGCTTCAGCGTAAGCACGTGAAAGCTAAATTAGC
1 ACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCACGTGAAAGCCAAATCAGC
* *
44651079 TATGAT-TTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTGTTTCAGTCT
66 TATG-TCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGGATCTGCTTCAGTCT
* * *
44651143 AATCATCTGAAGGTTAGATTTGCTATGTGTCTGCCCTCTGTCGAATATGGAGACGCCAAACTTCG
130 AATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCAGTCGAATATGGAGATGCCAAACTTCG
*
44651208 ATCTGCTCTCTG
195 ATCTGCTCTCTA
* * *
44651220 ACAATATAGAGATGCCAAATCATCTTAGACTTACTTCAGCGTAAGCACGTGAAAGCTAAATCAGC
1 ACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCACGTGAAAGCCAAATCAGC
* *
44651285 TATGAT-TTTGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGGAGCTGCTTCAGTCT
66 TATG-TCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGGATCTGCTTCAGTCT
* * * *
44651349 AGTCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTTGAATATGAAGATGCCAAACTTCG
130 AATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCAGTCGAATATGGAGATGCCAAACTTCG
44651414 ATCTGCTCTCTA
195 ATCTGCTCTCTA
* *
44651426 ACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCAGC
1 ACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCACGTGAAAGCCAAATCAGC
* * *
44651491 TATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGTCAAATCATCTTGGATCTTGCTTCA
66 TATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGGATC-TGCTTCA
44651552 ACTAGATCTG
Statistics
Matches: 490, Mismatches: 45, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
205 1 0.00
206 481 0.98
207 8 0.02
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (206 bp):
ACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCACGTGAAAGCCAAATCAGC
TATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGGATCTGCTTCAGTCTA
ATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCAGTCGAATATGGAGATGCCAAACTTCGA
TCTGCTCTCTA
Found at i:44661794 original size:57 final size:57
Alignment explanation
Indices: 44661726--44661859 Score: 250
Period size: 57 Copynumber: 2.4 Consensus size: 57
44661716 ACTTCCATAT
*
44661726 ATATTCGGCGATTCCTTTATCATATAAATGGATATCTTCAATGAATCACCATCTTCC
1 ATATTCTGCGATTCCTTTATCATATAAATGGATATCTTCAATGAATCACCATCTTCC
44661783 ATATTCTGCGATTCCTTTATCATATAAATGGATATCTTCAATGAATCACCATCTTCC
1 ATATTCTGCGATTCCTTTATCATATAAATGGATATCTTCAATGAATCACCATCTTCC
*
44661840 ATATTCTACGATTCCTTTAT
1 ATATTCTGCGATTCCTTTAT
44661860 TTTTCTTTTG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 75 1.00
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (57 bp):
ATATTCTGCGATTCCTTTATCATATAAATGGATATCTTCAATGAATCACCATCTTCC
Found at i:44663261 original size:18 final size:19
Alignment explanation
Indices: 44663221--44663261 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
44663211 AGAATAAGTT
44663221 TTTAATTAAATAAATTTAA
1 TTTAATTAAATAAATTTAA
* *
44663240 -TTAATTGAA-AATTTTAA
1 TTTAATTAAATAAATTTAA
44663257 TTTAA
1 TTTAA
44663262 ATATACAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (19 bp):
TTTAATTAAATAAATTTAA
Found at i:44664117 original size:5 final size:5
Alignment explanation
Indices: 44664109--44664149 Score: 75
Period size: 5 Copynumber: 8.4 Consensus size: 5
44664099 ATTAAATAAA
44664109 TATTT TATTT TATTT TA-TT TATTT TATTT TATTT TATTT TA
1 TATTT TATTT TATTT TATTT TATTT TATTT TATTT TATTT TA
44664150 AATAACTACA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 4 0.11
5 31 0.89
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
TATTT
Found at i:44664131 original size:14 final size:15
Alignment explanation
Indices: 44664109--44664149 Score: 75
Period size: 14 Copynumber: 2.8 Consensus size: 15
44664099 ATTAAATAAA
44664109 TATTTTATTTTATTT
1 TATTTTATTTTATTT
44664124 TA-TTTATTTTATTT
1 TATTTTATTTTATTT
44664138 TATTTTATTTTA
1 TATTTTATTTTA
44664150 AATAACTACA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 14 0.56
15 11 0.44
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (15 bp):
TATTTTATTTTATTT
Found at i:44664133 original size:19 final size:19
Alignment explanation
Indices: 44664109--44664147 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
44664099 ATTAAATAAA
44664109 TATTTTATTTTATTTTATT
1 TATTTTATTTTATTTTATT
44664128 TATTTTATTTTATTTTATT
1 TATTTTATTTTATTTTATT
44664147 T
1 T
44664148 TAAATAACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (19 bp):
TATTTTATTTTATTTTATT
Found at i:44664718 original size:3 final size:3
Alignment explanation
Indices: 44664710--44664741 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
44664700 ATAAAAAACC
44664710 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
44664742 CAACAACATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:44666163 original size:16 final size:16
Alignment explanation
Indices: 44666138--44666172 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
44666128 TAATTCCCAT
*
44666138 TTTATTTATTTACGTA
1 TTTATCTATTTACGTA
*
44666154 TTTATCTATTTACTTA
1 TTTATCTATTTACGTA
44666170 TTT
1 TTT
44666173 TTACAGTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.23, C:0.09, G:0.03, T:0.66
Consensus pattern (16 bp):
TTTATCTATTTACGTA
Found at i:44669097 original size:19 final size:20
Alignment explanation
Indices: 44669073--44669116 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
44669063 AAAAGATTTT
*
44669073 CCACAAATCTGATGAT-AAC
1 CCACAAATCCGATGATAAAC
44669092 CCACAAATCCGATGATAAAC
1 CCACAAATCCGATGATAAAC
44669112 CCACA
1 CCACA
44669117 TATAGTGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.43, C:0.32, G:0.09, T:0.16
Consensus pattern (20 bp):
CCACAAATCCGATGATAAAC
Found at i:44669652 original size:11 final size:11
Alignment explanation
Indices: 44669607--44669655 Score: 62
Period size: 11 Copynumber: 4.3 Consensus size: 11
44669597 AGATAAATAT
*
44669607 TATTTTATTAA
1 TATTTTATTAG
*
44669618 TATTTTAATAAG
1 TATTTT-ATTAG
44669630 ATATTTTATTAG
1 -TATTTTATTAG
44669642 TATTTTATTAG
1 TATTTTATTAG
44669653 TAT
1 TAT
44669656 ATAAAGAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
11 20 0.61
12 7 0.21
13 6 0.18
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (11 bp):
TATTTTATTAG
Found at i:44670976 original size:24 final size:24
Alignment explanation
Indices: 44670902--44671097 Score: 324
Period size: 24 Copynumber: 8.2 Consensus size: 24
44670892 GAGTAGCCTC
44670902 TTTAATAACTGGGGCA-AAGCCCT
1 TTTAATAACTGGGGCATAAGCCCT
* *
44670925 TTTAATAATTGGGGCA-AATCCCT
1 TTTAATAACTGGGGCATAAGCCCT
44670948 TTTAATAACTGGGGCATAAGCCCT
1 TTTAATAACTGGGGCATAAGCCCT
*
44670972 TTTAATAACCGGGGCATAAGCCCTT
1 TTTAATAACTGGGGCATAAGCCC-T
44670997 TTTAATAACTGGGGCATAAGCCCT
1 TTTAATAACTGGGGCATAAGCCCT
44671021 TTTAATAACTGGGGCATAAGCCCT
1 TTTAATAACTGGGGCATAAGCCCT
44671045 TTTAATAACTGGGGCATAAGCCCTT
1 TTTAATAACTGGGGCATAAGCCC-T
*
44671070 TTTAATAATTGGGGCATAAGCCCT
1 TTTAATAACTGGGGCATAAGCCCT
44671094 TTTA
1 TTTA
44671098 CACTTCCTCC
Statistics
Matches: 163, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
23 36 0.22
24 81 0.50
25 46 0.28
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (24 bp):
TTTAATAACTGGGGCATAAGCCCT
Found at i:44671016 original size:49 final size:48
Alignment explanation
Indices: 44670902--44671097 Score: 324
Period size: 49 Copynumber: 4.1 Consensus size: 48
44670892 GAGTAGCCTC
* *
44670902 TTTAATAACTGGGGCA-AAGCCCTTTTAATAATTGGGGCA-AATCCCT
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCT
*
44670948 TTTAATAACTGGGGCATAAGCCCTTTTAATAACCGGGGCATAAGCCCTT
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC-T
44670997 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCT
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCT
*
44671045 TTTAATAACTGGGGCATAAGCCCTTTTTAATAATTGGGGCATAAGCCCT
1 TTTAATAACTGGGGCATAAGCCC-TTTTAATAACTGGGGCATAAGCCCT
44671094 TTTA
1 TTTA
44671098 CACTTCCTCC
Statistics
Matches: 141, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
46 16 0.11
47 21 0.15
48 29 0.21
49 75 0.53
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (48 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCT
Found at i:44671032 original size:73 final size:73
Alignment explanation
Indices: 44670902--44671097 Score: 344
Period size: 73 Copynumber: 2.7 Consensus size: 73
44670892 GAGTAGCCTC
*
44670902 TTTAATAACTGGGGCA-AAGCCC-TTTTAATAATTGGGGCA-AATCCCTTTTAATAACTGGGGCA
1 TTTAATAACTGGGGCATAAGCCCTTTTTAATAATTGGGGCATAAGCCCTTTTAATAACTGGGGCA
44670964 TAAGCCCT
66 TAAGCCCT
* *
44670972 TTTAATAACCGGGGCATAAGCCCTTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCA
1 TTTAATAACTGGGGCATAAGCCCTTTTTAATAATTGGGGCATAAGCCCTTTTAATAACTGGGGCA
44671037 TAAGCCCT
66 TAAGCCCT
44671045 TTTAATAACTGGGGCATAAGCCCTTTTTAATAATTGGGGCATAAGCCCTTTTA
1 TTTAATAACTGGGGCATAAGCCCTTTTTAATAATTGGGGCATAAGCCCTTTTA
44671098 CACTTCCTCC
Statistics
Matches: 118, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
70 15 0.13
71 6 0.05
72 16 0.14
73 81 0.69
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (73 bp):
TTTAATAACTGGGGCATAAGCCCTTTTTAATAATTGGGGCATAAGCCCTTTTAATAACTGGGGCA
TAAGCCCT
Found at i:44671174 original size:20 final size:20
Alignment explanation
Indices: 44671149--44671212 Score: 110
Period size: 20 Copynumber: 3.2 Consensus size: 20
44671139 TGAATACATA
44671149 ATGTGCATATCATACATATC
1 ATGTGCATATCATACATATC
*
44671169 ATGTGCATATCATACATGTC
1 ATGTGCATATCATACATATC
*
44671189 ATGTGCATATCATACATACC
1 ATGTGCATATCATACATATC
44671209 ATGT
1 ATGT
44671213 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.34
Consensus pattern (20 bp):
ATGTGCATATCATACATATC
Found at i:44671179 original size:11 final size:11
Alignment explanation
Indices: 44671149--44671201 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 11
44671139 TGAATACATA
44671149 ATGTGCATATC
1 ATGTGCATATC
*
44671160 A--TACATATC
1 ATGTGCATATC
44671169 ATGTGCATATC
1 ATGTGCATATC
* *
44671180 A--TACATGTC
1 ATGTGCATATC
44671189 ATGTGCATATC
1 ATGTGCATATC
44671200 AT
1 AT
44671202 ACATACCATG
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
9 15 0.47
11 17 0.53
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (11 bp):
ATGTGCATATC
Found at i:44671281 original size:25 final size:25
Alignment explanation
Indices: 44671249--44671296 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
44671239 ATATTTAAAC
* * *
44671249 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
44671274 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
44671297 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:44673788 original size:30 final size:31
Alignment explanation
Indices: 44673754--44673816 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
44673744 ACTTATTCAC
*
44673754 TTGTTAATT-TTGTTATTATTTTAAAGGCAT
1 TTGTTAATTATTATTATTATTTTAAAGGCAT
*
44673784 TTGTTAATTATTATTATTATTTTAGAGGCAT
1 TTGTTAATTATTATTATTATTTTAAAGGCAT
44673815 TT
1 TT
44673817 ACTTGTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 9 0.30
31 21 0.70
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (31 bp):
TTGTTAATTATTATTATTATTTTAAAGGCAT
Found at i:44674707 original size:27 final size:27
Alignment explanation
Indices: 44674671--44674964 Score: 312
Period size: 27 Copynumber: 11.0 Consensus size: 27
44674661 CCAAATTATT
* *
44674671 GAAATACCC-CCAGTTGTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
* *
44674697 -AAAGTACCCCCGATTTATAAAATTACC
1 GAAA-TACCCTCGATTTGTAAAATTACC
* *
44674724 CAAATATCCTCGATTTGTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
*
44674751 GAAATACCGTCGA-TTGTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
44674777 GAAATACCCTCGATTTGTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
*
44674804 GAAATA-CCTCGA-TTGTAAAATTACT
1 GAAATACCCTCGATTTGTAAAATTACC
**
44674829 GAAATACCCTCGATTTGTAAAATTATT
1 GAAATACCCTCGATTTGTAAAATTACC
* * *
44674856 AAAATACCCTC-AGTTTGCAAAATTACT
1 GAAATACCCTCGA-TTTGTAAAATTACC
* ** * *
44674883 AAAATACCCTTAATTTGTAATATTACT
1 GAAATACCCTCGATTTGTAAAATTACC
* **
44674910 GAAATACCCTTGCCTTGTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
* * *
44674937 AAAATACCCTCGATTTATAGAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
44674964 G
1 G
44674965 TTTTACCCTC
Statistics
Matches: 229, Mismatches: 31, Indels: 15
0.83 0.11 0.05
Matches are distributed among these distances:
25 21 0.09
26 43 0.19
27 161 0.70
28 4 0.02
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (27 bp):
GAAATACCCTCGATTTGTAAAATTACC
Found at i:44675047 original size:26 final size:26
Alignment explanation
Indices: 44674991--44675177 Score: 203
Period size: 27 Copynumber: 7.0 Consensus size: 26
44674981 CAAAATTATT
* *
44674991 GAAATACCCCTGTAAGGTAGTATTACT
1 GAAATACCCCTGT-AGGTAGAATTACC
*
44675018 GAAATACCCCTGTACGTAGAATTACC
1 GAAATACCCCTGTAGGTAGAATTACC
* *
44675044 GAAATACCCCTATAAGTAGAATTACC
1 GAAATACCCCTGTAGGTAGAATTACC
* * *
44675070 GAAATACCCTTGTAGGGTAGAAATATC
1 GAAATACCCCTGTA-GGTAGAATTACC
* *
44675097 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTA-GGTAGAATTACC
* **
44675124 GAAATACCCCTGTAGGATAGGATTATT
1 GAAATACCCCTGTAGG-TAGAATTACC
*
44675151 GAAATACCCTTGTAGGGTAGAATTACC
1 GAAATACCCCTGTA-GGTAGAATTACC
44675178 AAGATTCCCT
Statistics
Matches: 137, Mismatches: 20, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
26 48 0.35
27 87 0.64
28 2 0.01
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (26 bp):
GAAATACCCCTGTAGGTAGAATTACC
Found at i:44675187 original size:27 final size:26
Alignment explanation
Indices: 44674992--44675205 Score: 171
Period size: 27 Copynumber: 8.0 Consensus size: 26
44674982 AAAATTATTG
* * * *
44674992 AAATACCCCTGTAAGGTAGTATTACTG
1 AAATACCCTTGTAGGGTAGAATTAC-C
* *
44675019 AAATACCCCTGTA-CGTAGAATTACC
1 AAATACCCTTGTAGGGTAGAATTACC
* * *
44675044 GAAATACCCCTATA-AGTAGAATTACC
1 -AAATACCCTTGTAGGGTAGAATTACC
* *
44675070 GAAATACCCTTGTAGGGTAGAAATATCG
1 -AAATACCCTTGTAGGGTAGAATTA-CC
*
44675098 AAATACCCTTGTAGGGTAGAAATACC
1 AAATACCCTTGTAGGGTAGAATTACC
* * * **
44675124 GAAATACCCCTGTAGGATAGGATTATTG
1 -AAATACCCTTGTAGGGTAGAATTA-CC
44675152 AAATACCCTTGTAGGGTAGAATTACC
1 AAATACCCTTGTAGGGTAGAATTACC
* * *
44675178 AAGATTCCCTTGTGGGGTAAAATTACC
1 AA-ATACCCTTGTAGGGTAGAATTACC
44675205 A
1 A
44675206 TTTTACCCCT
Statistics
Matches: 156, Mismatches: 25, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
26 47 0.30
27 108 0.69
28 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (26 bp):
AAATACCCTTGTAGGGTAGAATTACC
Found at i:44675684 original size:22 final size:22
Alignment explanation
Indices: 44675632--44675696 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
44675622 TTAAAGCCTT
* *
44675632 CTGATTATGGTTTTGCGCCAAC
1 CTGATTATGGTTCTGTGCCAAC
* *
44675654 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGTTCTGTGCCAAC
*
44675676 CTGATTATGGTTGTGTGCCAA
1 CTGATTATGGTTCTGTGCCAA
44675697 ACGTATTTGC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGTTCTGTGCCAAC
Found at i:44675909 original size:26 final size:27
Alignment explanation
Indices: 44675878--44675937 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 27
44675868 ATTATCTGTT
44675878 TTTGGTGGCTATGCCACAA-ATATTTA
1 TTTGGTGGCTATGCCACAATATATTTA
* *
44675904 TTTGGTGGCTCTGCCACAATATCTTTA
1 TTTGGTGGCTATGCCACAATATATTTA
*
44675931 TCTGGTG
1 TTTGGTG
44675938 ACTCTATCAC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 18 0.60
27 12 0.40
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (27 bp):
TTTGGTGGCTATGCCACAATATATTTA
Found at i:44675942 original size:27 final size:27
Alignment explanation
Indices: 44675880--44675962 Score: 89
Period size: 27 Copynumber: 3.1 Consensus size: 27
44675870 TATCTGTTTT
* * *
44675880 TGGTGGCTATGCCACAA-ATATTTATT
1 TGGTGGCTCTGCCACAATATCTTTATC
44675906 TGGTGGCTCTGCCACAATATCTTTATC
1 TGGTGGCTCTGCCACAATATCTTTATC
* ** *
44675933 TGGTGACTCTATCACAATATCTGT-TC
1 TGGTGGCTCTGCCACAATATCTTTATC
44675959 TGGT
1 TGGT
44675963 AGCCATGCTG
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
26 22 0.45
27 27 0.55
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (27 bp):
TGGTGGCTCTGCCACAATATCTTTATC
Found at i:44676094 original size:6 final size:6
Alignment explanation
Indices: 44676083--44676182 Score: 78
Period size: 6 Copynumber: 16.2 Consensus size: 6
44676073 ATTCATATTT
* * *
44676083 TGATTC TGATTC TG-TTACC TGATAC TGATTC TGATTC TG-TCACC TAATTC
1 TGATTC TGATTC TGATT--C TGATTC TGATTC TGATTC TGAT--TC TGATTC
* * * *
44676133 TAATTC TGATTC TGATTC TGATTC TGTTATC TGATAC TGATTC TAATTC
1 TGATTC TGATTC TGATTC TGATTC TGAT-TC TGATTC TGATTC TGATTC
44676182 T
1 T
44676183 CATTTTGGTT
Statistics
Matches: 76, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
5 3 0.04
6 61 0.80
7 10 0.13
8 2 0.03
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.47
Consensus pattern (6 bp):
TGATTC
Found at i:44676111 original size:25 final size:25
Alignment explanation
Indices: 44676083--44676146 Score: 92
Period size: 25 Copynumber: 2.6 Consensus size: 25
44676073 ATTCATATTT
* *
44676083 TGATTCTGATTCTGTTACCTGATAC
1 TGATTCTGATTCTGTCACCTAATAC
*
44676108 TGATTCTGATTCTGTCACCTAATTC
1 TGATTCTGATTCTGTCACCTAATAC
*
44676133 TAATTCTGATTCTG
1 TGATTCTGATTCTG
44676147 ATTCTGATTC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.45
Consensus pattern (25 bp):
TGATTCTGATTCTGTCACCTAATAC
Found at i:44676121 original size:31 final size:30
Alignment explanation
Indices: 44676083--44676182 Score: 96
Period size: 31 Copynumber: 3.2 Consensus size: 30
44676073 ATTCATATTT
44676083 TGATTCTGATTCTGTTACCTGATACTGATTC
1 TGATTCTGATTCTGTTA-CTGATACTGATTC
* * * *
44676114 TGATTCTG-TCACCTAATT-CTAATTCTGATTC
1 TGATTCTGAT--TCT-GTTACTGATACTGATTC
44676145 TGATTCTGATTCTGTTATCTGATACTGATTC
1 TGATTCTGATTCTGTTA-CTGATACTGATTC
*
44676176 TAATTCT
1 TGATTCT
44676183 CATTTTGGTT
Statistics
Matches: 54, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
29 2 0.04
30 3 0.06
31 44 0.81
32 3 0.06
33 2 0.04
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.47
Consensus pattern (30 bp):
TGATTCTGATTCTGTTACTGATACTGATTC
Found at i:44676176 original size:37 final size:37
Alignment explanation
Indices: 44676101--44676182 Score: 101
Period size: 37 Copynumber: 2.2 Consensus size: 37
44676091 ATTCTGTTAC
* *
44676101 CTGATACTGATTCTGATTCTGTCACCTAATTCTAATT
1 CTGATTCTGATTCTGATTCTGTCACCTAATACTAATT
* * * *
44676138 CTGATTCTGATTCTGATTCTGTTATCTGATACTGATT
1 CTGATTCTGATTCTGATTCTGTCACCTAATACTAATT
*
44676175 CTAATTCT
1 CTGATTCT
44676183 CATTTTGGTT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.22, C:0.20, G:0.12, T:0.46
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTGTCACCTAATACTAATT
Found at i:44677819 original size:27 final size:26
Alignment explanation
Indices: 44677785--44677941 Score: 181
Period size: 27 Copynumber: 5.9 Consensus size: 26
44677775 CAAAATGGTA
*
44677785 ATTT-TACCCCACAAGGGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTC-GT
44677811 ATTTCTACCCTACAAGGGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTC-GT
* * * * *
44677838 AATCCTATCCTAGAGGGGTATTTCGAT
1 ATTTCTACCCTACAAGGGTATTTCG-T
44677865 ATTTCTACCCTACAAGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTC-GT
*
44677892 ATTTCTACCCTACAGGGGTATTTCGAT
1 ATTTCTACCCTACAAGGGTATTTCG-T
* *
44677919 AATTCTACCCTACAGGGGTATTT
1 ATTTCTACCCTACAAGGGTATTT
44677942 TAATAATTTT
Statistics
Matches: 114, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
26 6 0.05
27 107 0.94
28 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.36
Consensus pattern (26 bp):
ATTTCTACCCTACAAGGGTATTTCGT
Found at i:44677840 original size:54 final size:54
Alignment explanation
Indices: 44677782--44677951 Score: 209
Period size: 54 Copynumber: 3.1 Consensus size: 54
44677772 GGGCAAAATG
* *
44677782 GTAATTTTACCCCACAAGGGTATTTC-AGTATTTCTACCCTACAAGGGTATTTCA
1 GTAATTTTACCCTACAGGGGTATTTCGA-TATTTCTACCCTACAAGGGTATTTCA
** * * *
44677836 GTAATCCTATCCTAGAGGGGTATTTCGATATTTCTACCCTACAAGGGTATTTCG
1 GTAATTTTACCCTACAGGGGTATTTCGATATTTCTACCCTACAAGGGTATTTCA
* * *
44677890 GT-ATTTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTA
1 GTAATTT-TACCCTACAGGGGTATTTCGATATTTCTACCCTACAAGGGTATTTCA
*
44677944 ATAATTTT
1 GTAATTTT
44677952 GTAAATTGAG
Statistics
Matches: 97, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
53 2 0.02
54 90 0.93
55 5 0.05
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (54 bp):
GTAATTTTACCCTACAGGGGTATTTCGATATTTCTACCCTACAAGGGTATTTCA
Found at i:44677874 original size:81 final size:80
Alignment explanation
Indices: 44677785--44677941 Score: 235
Period size: 81 Copynumber: 1.9 Consensus size: 80
44677775 CAAAATGGTA
*
44677785 ATTTTACCCCACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTC-AGTAATCCTATCCT
1 ATTTTACCCCACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGA-TAATCCTACCCT
*
44677849 AGAGGGGTATTTCGAT
65 ACAGGGGTATTTCGAT
* * * *
44677865 ATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAGGGGTATTTCGATAATTCTACCCT
1 ATTT-TACCCCACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGATAATCCTACCCT
44677930 ACAGGGGTATTT
65 ACAGGGGTATTT
44677942 TAATAATTTT
Statistics
Matches: 69, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
80 4 0.06
81 64 0.93
82 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.36
Consensus pattern (80 bp):
ATTTTACCCCACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGATAATCCTACCCTA
CAGGGGTATTTCGAT
Found at i:44678018 original size:27 final size:26
Alignment explanation
Indices: 44677988--44678218 Score: 180
Period size: 27 Copynumber: 8.6 Consensus size: 26
44677978 TTTAAATCAG
* *
44677988 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTA-TTTAGTAATTTTACAAATCGA
44678015 GGGTATTTTAGTAATTTTACAAATCGA
1 GGGTA-TTTAGTAATTTTACAAATCGA
* *
44678042 GGATATTTCAGTAATTTTGCAAA-CTGA
1 GGGTATTT-AGTAATTTTACAAATC-GA
* * * *
44678069 GGGTATTTCGGTAATTATATAAATTGA
1 GGGTATTT-AGTAATTTTACAAATCGA
44678096 GGGTATTTTAGTAATTTTAC-AATCGA
1 GGGTA-TTTAGTAATTTTACAAATCGA
** *
44678122 CAGTACTTCAGTAATTTTACAAATCGA
1 GGGTA-TTTAGTAATTTTACAAATCGA
* * * * *
44678149 GGATATTTGGGTAATTTTATAAACCGG
1 GGGTATTT-AGTAATTTTACAAATCGA
* * *
44678176 GGGTACTTTGGTAATTTTACAACT-GG
1 GGGTA-TTTAGTAATTTTACAAATCGA
44678202 GGGTATTTCAGTAATTT
1 GGGTATTT-AGTAATTT
44678219 GGTAAACTAA
Statistics
Matches: 164, Mismatches: 32, Indels: 17
0.77 0.15 0.08
Matches are distributed among these distances:
25 3 0.02
26 41 0.25
27 114 0.70
28 6 0.04
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (26 bp):
GGGTATTTAGTAATTTTACAAATCGA
Found at i:44678039 original size:54 final size:53
Alignment explanation
Indices: 44677998--44678218 Score: 201
Period size: 54 Copynumber: 4.1 Consensus size: 53
44677988 GGGTACTTTG
* *
44677998 GTAATTTTACAAGTCGAGGGTATTTTAGTAATTTTACAAATCGAGGATATTTCA
1 GTAATTTTACAA-TCGAGGGTACTTCAGTAATTTTACAAATCGAGGATATTTCA
* * * * * * * * *
44678052 GTAATTTTGCAAACTGAGGGTATTTCGGTAATTATATAAATTGAGGGTATTTTA
1 GTAATTTTACAATC-GAGGGTACTTCAGTAATTTTACAAATCGAGGATATTTCA
** **
44678106 GTAATTTTACAATCGACAGTACTTCAGTAATTTTACAAATCGAGGATATTTGG
1 GTAATTTTACAATCGAGGGTACTTCAGTAATTTTACAAATCGAGGATATTTCA
* * * ** * * *
44678159 GTAATTTTATAAACCGGGGGTACTTTGGTAATTTTACAACT-GGGGGTATTTCA
1 GTAATTTTA-CAATCGAGGGTACTTCAGTAATTTTACAAATCGAGGATATTTCA
44678212 GTAATTT
1 GTAATTT
44678219 GGTAAACTAA
Statistics
Matches: 132, Mismatches: 33, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
53 54 0.41
54 78 0.59
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (53 bp):
GTAATTTTACAATCGAGGGTACTTCAGTAATTTTACAAATCGAGGATATTTCA
Found at i:44678212 original size:80 final size:80
Alignment explanation
Indices: 44677997--44678218 Score: 259
Period size: 80 Copynumber: 2.8 Consensus size: 80
44677987 GGGGTACTTT
* * * *
44677997 GGTAATTTTACAAGTCGAGGGTATTTTAGTAATTTTACAAATCGAGGATATTTCAGTAATTTTGC
1 GGTAATTTTATAAATCGAGGGTATTTTAGTAATTTTAC-AATCGAGGGTATTTCAGTAATTTTAC
*
44678062 AAACTGAGGGTATTTC
65 AAACTGAGGATATTTC
* * ** *
44678078 GGTAATTATATAAATTGAGGGTATTTTAGTAATTTTACAATCGACAGTACTTCAGTAATTTTACA
1 GGTAATTTTATAAATCGAGGGTATTTTAGTAATTTTACAATCGAGGGTATTTCAGTAATTTTACA
*
44678143 AA-TCGAGGATATTTG
66 AACT-GAGGATATTTC
* * * * *
44678158 GGTAATTTTATAAACCGGGGGTACTTTGGTAATTTTACAA-CTGGGGGTATTTCAGTAATTT
1 GGTAATTTTATAAATCGAGGGTATTTTAGTAATTTTACAATC-GAGGGTATTTCAGTAATTT
44678219 GGTAAACTAA
Statistics
Matches: 118, Mismatches: 21, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
79 2 0.02
80 82 0.69
81 34 0.29
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (80 bp):
GGTAATTTTATAAATCGAGGGTATTTTAGTAATTTTACAATCGAGGGTATTTCAGTAATTTTACA
AACTGAGGATATTTC
Found at i:44679615 original size:52 final size:51
Alignment explanation
Indices: 44679509--44679626 Score: 155
Period size: 52 Copynumber: 2.3 Consensus size: 51
44679499 ACTTCTGATC
* * *
44679509 AGTGACAAGTGATAAGTGGTAGCCTCAACTACACTTATCTGATTAGTGACA
1 AGTGACAAGTGATAAGCGGTAGCCTCAACTACACTTATCTGATCAATGACA
* * * * *
44679560 AGTGATAAGTGATAAGCGGTAGCTTTAGCTACCACTTATTTGATCAATGACA
1 AGTGACAAGTGATAAGCGGTAGCCTCAACTA-CACTTATCTGATCAATGACA
44679612 AGTGACAAGTGATAA
1 AGTGACAAGTGATAA
44679627 ATGTGATCCG
Statistics
Matches: 57, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
51 26 0.46
52 31 0.54
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (51 bp):
AGTGACAAGTGATAAGCGGTAGCCTCAACTACACTTATCTGATCAATGACA
Found at i:44680066 original size:45 final size:45
Alignment explanation
Indices: 44680016--44680135 Score: 170
Period size: 45 Copynumber: 2.7 Consensus size: 45
44680006 CCAAAAACAA
* *
44680016 GTAAGACCATAGCCGAAAGACGCTATGGCATCGCGATTCAGATGAT
1 GTAAGACCATAGCTGAAAGACGCTATGGCATCACGATTCAGAT-AT
*
44680062 -TAAGACCATAGCTGAAAGACGTTATGGCATCACGATTCAGATAT
1 GTAAGACCATAGCTGAAAGACGCTATGGCATCACGATTCAGATAT
* **
44680106 GTAAGACCATAGTTGAAAGATACTATGGCA
1 GTAAGACCATAGCTGAAAGACGCTATGGCA
44680136 ATATGACGAG
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
44 2 0.03
45 64 0.97
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (45 bp):
GTAAGACCATAGCTGAAAGACGCTATGGCATCACGATTCAGATAT
Found at i:44680167 original size:46 final size:45
Alignment explanation
Indices: 44680107--44680265 Score: 246
Period size: 46 Copynumber: 3.5 Consensus size: 45
44680097 TTCAGATATG
* * *
44680107 TAAGACCATAGTTGAAAGATACTATGGCAATATGACGAGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGAC-AGAAATGAA
44680153 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAG-AAATGAA
*
44680199 TAAGACCATGGTTGAAAGATACCATAGCAACATGACAGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAATGAA
*
44680245 TAAGACCAGGGTTGAAAGATA
1 TAAGACCATGGTTGAAAGATA
44680266 GAAATGAATA
Statistics
Matches: 106, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
45 2 0.02
46 103 0.97
47 1 0.01
ACGTcount: A:0.45, C:0.13, G:0.23, T:0.19
Consensus pattern (45 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAATGAA
Found at i:44680432 original size:13 final size:13
Alignment explanation
Indices: 44680391--44680433 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
44680381 TCAAATGACG
*
44680391 AATGGTTATATGA
1 AATGGTTGTATGA
* **
44680404 ATTGGTTGTACAA
1 AATGGTTGTATGA
44680417 AATGGTTGTATGA
1 AATGGTTGTATGA
44680430 AATG
1 AATG
44680434 TTTACAAGAA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.35, C:0.02, G:0.26, T:0.37
Consensus pattern (13 bp):
AATGGTTGTATGA
Found at i:44680448 original size:26 final size:26
Alignment explanation
Indices: 44680391--44680485 Score: 79
Period size: 26 Copynumber: 3.6 Consensus size: 26
44680381 TCAAATGACG
*
44680391 AATGGTTATATGAATTGGTTGTACAA
1 AATGGTTATATGAAATGGTTGTACAA
*
44680417 AATGGTTGTATGAAAT-GTT-TACAA
1 AATGGTTATATGAAATGGTTGTACAA
* *
44680441 GAATTGGTCATATGGAAAT-ATATGTACAA
1 -AA-TGGTTATAT-GAAATGGT-TGTACAA
* *
44680470 AATAGTTGTATGAAAT
1 AATGGTTATATGAAAT
44680486 AATTATGAAG
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
24 5 0.09
25 5 0.09
26 26 0.46
27 12 0.21
28 3 0.05
29 5 0.09
ACGTcount: A:0.39, C:0.04, G:0.21, T:0.36
Consensus pattern (26 bp):
AATGGTTATATGAAATGGTTGTACAA
Found at i:44693874 original size:44 final size:43
Alignment explanation
Indices: 44693793--44694392 Score: 336
Period size: 44 Copynumber: 13.4 Consensus size: 43
44693783 CATTATGGCG
* * *
44693793 AATCTTATCTCCCTAAAGTTGCAGTGGAGTC-GGTTGAAGTCACT
1 AATCTTATCTCCCTGAAGTTGCAGTAGAG-CAGATTGAAGT-ACT
* * *
44693837 AATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAG-TA-CT
* * *** *
44693882 AATCTTATCTCTCTG-AGATTGCAATAGAATGGATTAAAGCTA-T
1 AATCTTATCTCCCTGAAG-TTGCAGTAGAGCAGATTGAAG-TACT
* * * *
44693925 AAACCTTATCTCCCTGAAGTTGCACTAGAGCAGCTTGAAATTAC-
1 -AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTG-AAGTACT
* *
44693969 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGT
1 AA-TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAG-TACT
* * * * *
44694014 AAATCTTATCTCTCTAAAGTCGTAGTAGAGCAGATTAAAGCTA-T
1 -AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAG-TACT
* * * *
44694058 AAACCTTATCTCCCTGAAGTTCCAGTAGAGCAGGTTGAAATTAC-
1 -AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTG-AAGTACT
* * * *
44694102 AAGTCTTATCCCCCTGAAGTTGCAGTAGAGAAAATTGAAGATAGCA
1 AA-TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAG-TA-CT
* * *
44694148 AATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATTAAAGCTA-T
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAG-TACT
* * * * * * *
44694191 AAACCTTATCTCCCTAAAGTTGTAGTGGAGTAGATTGAAGATGCG
1 -AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAG-TACT
* * * * * * *
44694236 AATCTTATTTCCCTGAAGTTGAAGTGGAATGGATTAATGCTACAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTAG-A-GCA--GAT--T-GAAG-TACT
* * * * * *
44694287 AATCTTACCTCCTTGGAGTTGCAGTGGAGCAGATTGAAGATGCG
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAG-TACT
* * *
44694331 AATCTTATTTCCCTGAAGTTACAGT-GAAGCAGATTGAAGCTAAT
1 AATCTTATCTCCCTGAAGTTGCAGTAG-AGCAGATTGAAG-TACT
44694375 AATCTTATC-CCCTTGAAG
1 AATCTTATCTCCC-TGAAG
44694393 CTATAGTGGA
Statistics
Matches: 427, Mismatches: 100, Indels: 58
0.73 0.17 0.10
Matches are distributed among these distances:
43 13 0.03
44 266 0.62
45 107 0.25
46 6 0.01
47 2 0.00
48 2 0.00
49 2 0.00
50 2 0.00
51 27 0.06
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGTACT
Found at i:44693938 original size:89 final size:89
Alignment explanation
Indices: 44693793--44694392 Score: 418
Period size: 89 Copynumber: 6.7 Consensus size: 89
44693783 CATTATGGCG
* * * * *
44693793 AATCTTATCTCCCTAAAGTTGCAGTGGAGTCGG-TTGAAG-TCACT-AATCTTGTCTCCCTGAAG
1 AATCTTATCTCCCTGAAGTTGCAGTAGA-ACGGATTAAAGCT-A-TAAATCTTATCTCCCTGAAG
*
44693855 TTGCAGTGGAGCAGATTGAAGATAGCA
63 TTGCAGTAGAGCAGATTGAAGATAGCA
* * * *
44693882 AATCTTATCTCTCTG-AGATTGCAATAGAATGGATTAAAGCTATAAACCTTATCTCCCTGAAGTT
1 AATCTTATCTCCCTGAAG-TTGCAGTAGAACGGATTAAAGCTATAAATCTTATCTCCCTGAAGTT
* *
44693946 GCACTAGAGCAGCTTGAA-ATTA-CA
65 GCAGTAGAGCAGATTGAAGA-TAGCA
* * * * * * * * *
44693970 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGTAAATCTTATCTCTCTAAAGTC
1 AATCTTATCTCCCTGAAGTTGCAGTAGAACGGATTAAAGCTA-TAAATCTTATCTCCCTGAAGTT
* * * *
44694035 GTAGTAGAGCAGATTAAAGCTA-TA
65 GCAGTAGAGCAGATTGAAGATAGCA
* * * * * * *
44694059 AACCTTATCTCCCTGAAGTTCCAGTAGAGCAGG-TTGAAA-TTACAAGTCTTATCCCCCTGAAGT
1 AATCTTATCTCCCTGAAGTTGCAGTAGAAC-GGATT-AAAGCTATAAATCTTATCTCCCTGAAGT
* *
44694122 TGCAGTAGAGAAAATTGAAGATAGCA
64 TGCAGTAGAGCAGATTGAAGATAGCA
* * * * * *
44694148 AATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATTAAAGCTATAAACCTTATCTCCCTAAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTAGAACGGATTAAAGCTATAAATCTTATCTCCCTGAAGTTG
* * * *
44694213 TAGTGGAGTAGATTGAAGAT-GCG
66 CAGTAGAGCAGATTGAAGATAGCA
* * * * * * *
44694236 AATCTTATTTCCCTGAAGTTGAAGTGGAATGGATTAATGCTACAAGTTACAAATCTTACCTCCTT
1 AATCTTATCTCCCTGAAGTTGCAGTAGAACGGATTAAAGCT---A--T--AAATCTTATCTCCCT
* * *
44694301 GGAGTTGCAGTGGAGCAGATTGAAGAT-GCG
59 GAAGTTGCAGTAGAGCAGATTGAAGATAGCA
* * * *
44694331 AATCTTATTTCCCTGAAGTTACAGT-GAAGCAGATTGAAGCTA-ATAATCTTATC-CCCTTGAAG
1 AATCTTATCTCCCTGAAGTTGCAGTAGAA-CGGATTAAAGCTATA-AATCTTATCTCCC-TGAAG
44694393 CTATAGTGGA
Statistics
Matches: 398, Mismatches: 90, Indels: 47
0.74 0.17 0.09
Matches are distributed among these distances:
87 3 0.01
88 122 0.31
89 194 0.49
90 4 0.01
91 1 0.00
92 1 0.00
93 1 0.00
94 3 0.01
95 69 0.17
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (89 bp):
AATCTTATCTCCCTGAAGTTGCAGTAGAACGGATTAAAGCTATAAATCTTATCTCCCTGAAGTTG
CAGTAGAGCAGATTGAAGATAGCA
Found at i:44693981 original size:133 final size:133
Alignment explanation
Indices: 44693796--44694263 Score: 604
Period size: 133 Copynumber: 3.5 Consensus size: 133
44693786 TATGGCGAAT
* * * *
44693796 CTTATCTCCCTAAAGTTGCAGTGGAGTC-GGTTGAAGTCACTAA-TCTTGTCTCCCTGAAGTTGC
1 CTTATCTCCCTAAAGTTGCAGTAGAG-CAGGTTGAAATTAC-AAGTCTTATCTCCCTGAAGTTGC
* * ***
44693859 AGTGGAGCAGATTGAAGATAGCAAATCTTATCTCTCTG-AGATTGCAATAGAATGGATTAAAGCT
64 AGTGGAGCAGATTGAAGATAGCAAATCTTATCTCTCTGAAG-TTGTAGTAGAGCAGATTAAAGCT
44693923 ATAAAC
128 ATAAAC
* * *
44693929 CTTATCTCCCTGAAGTTGCACTAGAGCAGCTTGAAATTACAAGTCTTATCTCCCTGAAGTTGCAG
1 CTTATCTCCCTAAAGTTGCAGTAGAGCAGGTTGAAATTACAAGTCTTATCTCCCTGAAGTTGCAG
* * *
44693994 TGGAGCAGATTGAAGATAGTAAATCTTATCTCTCTAAAGTCGTAGTAGAGCAGATTAAAGCTATA
66 TGGAGCAGATTGAAGATAGCAAATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATTAAAGCTATA
44694059 AAC
131 AAC
* * *
44694062 CTTATCTCCCTGAAGTTCCAGTAGAGCAGGTTGAAATTACAAGTCTTATCCCCCTGAAGTTGCAG
1 CTTATCTCCCTAAAGTTGCAGTAGAGCAGGTTGAAATTACAAGTCTTATCTCCCTGAAGTTGCAG
* * *
44694127 TAGAGAAAATTGAAGATAGCAAATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATTAAAGCTATA
66 TGGAGCAGATTGAAGATAGCAAATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATTAAAGCTATA
44694192 AAC
131 AAC
* * * * * * *
44694195 CTTATCTCCCTAAAGTTGTAGTGGAGTAGATTGAAGA-TGCGAA-TCTTATTTCCCTGAAGTTGA
1 CTTATCTCCCTAAAGTTGCAGTAGAGCAGGTTGAA-ATTAC-AAGTCTTATCTCCCTGAAGTTGC
44694258 AGTGGA
64 AGTGGA
44694264 ATGGATTAAT
Statistics
Matches: 294, Mismatches: 36, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
132 3 0.01
133 286 0.97
134 5 0.02
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (133 bp):
CTTATCTCCCTAAAGTTGCAGTAGAGCAGGTTGAAATTACAAGTCTTATCTCCCTGAAGTTGCAG
TGGAGCAGATTGAAGATAGCAAATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATTAAAGCTATA
AAC
Found at i:44695676 original size:31 final size:31
Alignment explanation
Indices: 44695640--44695701 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
44695630 ACGACTAAGT
44695640 GTGTACATCCCCACAAACAACATGCATACAA
1 GTGTACATCCCCACAAACAACATGCATACAA
44695671 GTGTACATCCCCACAAACAACATGCATACAA
1 GTGTACATCCCCACAAACAACATGCATACAA
44695702 ACAGATAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.32, G:0.10, T:0.16
Consensus pattern (31 bp):
GTGTACATCCCCACAAACAACATGCATACAA
Found at i:44695900 original size:40 final size:38
Alignment explanation
Indices: 44695808--44695904 Score: 95
Period size: 40 Copynumber: 2.5 Consensus size: 38
44695798 ACCATCTCCT
* * * *
44695808 TCCAACCCAACACACCATGTGGGGATAAAATCGATCCA
1 TCCAACCCTACACACCATATAGGGATAAAATCGACCCA
* * * * *
44695846 CCCATCCTTGCACACCGTATATAGGGATATAATCGACCCA
1 TCCAACCCTACACACC--ATATAGGGATAAAATCGACCCA
44695886 TCCAACCCTACACACCATA
1 TCCAACCCTACACACCATA
44695905 AAGTACCACA
Statistics
Matches: 44, Mismatches: 13, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
38 14 0.32
40 30 0.68
ACGTcount: A:0.34, C:0.35, G:0.12, T:0.19
Consensus pattern (38 bp):
TCCAACCCTACACACCATATAGGGATAAAATCGACCCA
Found at i:44700062 original size:15 final size:15
Alignment explanation
Indices: 44700038--44700067 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
44700028 CACAACTAAT
44700038 CGAAAAAGAAGAAAA
1 CGAAAAAGAAGAAAA
*
44700053 CGAAAGAGAAGAAAA
1 CGAAAAAGAAGAAAA
44700068 ATGGAGAAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.07, G:0.23, T:0.00
Consensus pattern (15 bp):
CGAAAAAGAAGAAAA
Found at i:44700589 original size:22 final size:24
Alignment explanation
Indices: 44700551--44700601 Score: 63
Period size: 22 Copynumber: 2.2 Consensus size: 24
44700541 CCCAACAAGC
*
44700551 CCAAATCAAATACAAAACC-AAA-
1 CCAAATCAAACACAAAACCTAAAG
44700573 CCAAATCAAAC-CAAAAACCTAAAG
1 CCAAATCAAACAC-AAAACCTAAAG
44700597 CCAAA
1 CCAAA
44700602 ACTATAGCCC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 1 0.04
22 16 0.64
23 3 0.12
24 5 0.20
ACGTcount: A:0.61, C:0.29, G:0.02, T:0.08
Consensus pattern (24 bp):
CCAAATCAAACACAAAACCTAAAG
Found at i:44701716 original size:3 final size:3
Alignment explanation
Indices: 44701708--44701904 Score: 124
Period size: 3 Copynumber: 66.3 Consensus size: 3
44701698 TAATTTAATA
* *
44701708 TAT TAT TAT TAT TAT TAT CAT TAT T-T TAC TAT TAT TACT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
* * *
44701752 TCGT TAG TAT TAT TAT TAAT T-T TACC T-T TAT T-T CCT-T TAT TAT
1 T-AT TAT TAT TAT TAT T-AT TAT TA-T TAT TAT TAT --TAT TAT TAT
* * * *
44701795 TAT TTT TAT TAT CAT TAAT TAT TAT TAT TAT TAT TAT TAC TAT TTT
1 TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * **
44701841 TAT TAC TAT TAC TAC TAT TAT TAT TA- TAC TGT TAT TAT TCC TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
44701887 TAT TAT TAT TA- TAT TAT T
1 TAT TAT TAT TAT TAT TAT T
44701905 TTTACCTATT
Statistics
Matches: 150, Mismatches: 29, Indels: 30
0.72 0.14 0.14
Matches are distributed among these distances:
2 15 0.10
3 121 0.81
4 14 0.09
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:44702069 original size:15 final size:15
Alignment explanation
Indices: 44702039--44702072 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
44702029 TTACCATTAC
*
44702039 CATTAATATTATTAT
1 CATTAATATTACTAT
*
44702054 CATTATTATTACTAT
1 CATTAATATTACTAT
44702069 CATT
1 CATT
44702073 TTTTAAATAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.53
Consensus pattern (15 bp):
CATTAATATTACTAT
Found at i:44706011 original size:47 final size:47
Alignment explanation
Indices: 44705747--44706010 Score: 404
Period size: 47 Copynumber: 5.6 Consensus size: 47
44705737 NNNNNNNNNN
44705747 GTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTACT
1 GTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTACT
44705794 GTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTACT
1 GTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTACT
*
44705841 GTATAAGACCATATCTGGGATATGGCATCGGTGTGTTATATGCTACT
1 GTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTACT
* * *
44705888 GCATAAGACCATATTTGAGATATGGCATCGGTGTGATATATGCTACT
1 GTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTACT
* * * * *
44705935 GTATAAGACCATATCTGGGATATGACATCAGTGAGATATGTGATTAC-
1 GTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATG-CTACT
* * *
44705982 GTGTAAGACCATAGCTGGGCTATGGCATC
1 GTATAAGACCATATCTGGGATATGGCATC
44706011 ATTATGTAAA
Statistics
Matches: 199, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
47 196 0.98
48 3 0.02
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.31
Consensus pattern (47 bp):
GTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTACT
Found at i:44714171 original size:16 final size:15
Alignment explanation
Indices: 44714136--44714187 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
44714126 CTAATCGAAA
44714136 AAGAAGAAAATGAAG
1 AAGAAGAAAATGAAG
* *
44714151 GAGAAGAAAAATGGAG
1 AAGAAG-AAAATGAAG
*
44714167 AAGAAGGGAAAAAGAAG
1 AAGAA--GAAAATGAAG
44714184 AAGA
1 AAGA
44714188 GAAGTTCGAC
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
15 5 0.17
16 12 0.41
17 11 0.38
18 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.33, T:0.04
Consensus pattern (15 bp):
AAGAAGAAAATGAAG
Found at i:44714190 original size:19 final size:20
Alignment explanation
Indices: 44714132--44714191 Score: 52
Period size: 21 Copynumber: 2.9 Consensus size: 20
44714122 ACAACTAATC
*
44714132 GAAAAAGAAGAAAATGAAGGA
1 GAAAAAGAAGAAGA-GAAGGA
*
44714153 GAAGAAA-AATGGAGAAGAAGG-
1 GAA-AAAGAA-GAAG-AGAAGGA
44714174 GAAAAAGAAGAAGAGAAG
1 GAAAAAGAAGAAGAGAAG
44714192 TTCGACAGCT
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
19 5 0.16
20 6 0.19
21 10 0.31
22 10 0.31
23 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.33, T:0.03
Consensus pattern (20 bp):
GAAAAAGAAGAAGAGAAGGA
Found at i:44721543 original size:15 final size:15
Alignment explanation
Indices: 44721501--44721552 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
44721491 TTTTATAAAA
*
44721501 AATATTTTAATTTTT
1 AATATTTAAATTTTT
*
44721516 --TATTTAATTTTTTT
1 AATATTTAA-ATTTTT
44721530 AATATTTAAATTTTT
1 AATATTTAAATTTTT
*
44721545 ACTATTTA
1 AATATTTA
44721553 TCAAATTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
13 6 0.20
14 5 0.17
15 12 0.40
16 7 0.23
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (15 bp):
AATATTTAAATTTTT
Found at i:44721688 original size:21 final size:23
Alignment explanation
Indices: 44721651--44721693 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
44721641 AATATAAAAA
44721651 ATTTAAAAAATATAG-AATATTT
1 ATTTAAAAAATATAGAAATATTT
44721673 ATTT-AAAAATCA-AGAAATATT
1 ATTTAAAAAAT-ATAGAAATATT
44721694 AGAAGTGTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (23 bp):
ATTTAAAAAATATAGAAATATTT
Found at i:44721725 original size:19 final size:19
Alignment explanation
Indices: 44721703--44721739 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
44721693 TAGAAGTGTG
44721703 AATTTATATAAAAATATTA
1 AATTTATATAAAAATATTA
44721722 AATTTATATAAAAATATT
1 AATTTATATAAAAATATT
44721740 TTTTAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
AATTTATATAAAAATATTA
Found at i:44722180 original size:19 final size:20
Alignment explanation
Indices: 44722145--44722182 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
44722135 TGTTACATCA
*
44722145 ATAAATAATTTAAAATTTAT
1 ATAAATAATTCAAAATTTAT
44722165 ATAAAT-ATTCAAAATTTA
1 ATAAATAATTCAAAATTTA
44722183 AAAAAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
ATAAATAATTCAAAATTTAT
Found at i:44723098 original size:38 final size:38
Alignment explanation
Indices: 44723056--44723134 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
44723046 TCCCAAATTG
*
44723056 AGATGTCCTAAGCTAGAGGAATAGCCATATTGCATTAA
1 AGATGTCCTAAGCTAGAGGAATAGCCATACTGCATTAA
44723094 AGATGTCCTAAGCTAGAGGAATAGCCATACTGCATTAA
1 AGATGTCCTAAGCTAGAGGAATAGCCATACTGCATTAA
44723132 AGA
1 AGA
44723135 GGATTAGTTA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (38 bp):
AGATGTCCTAAGCTAGAGGAATAGCCATACTGCATTAA
Found at i:44725708 original size:26 final size:26
Alignment explanation
Indices: 44725677--44725784 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
44725667 TGAAATGCCC
*
44725677 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
44725703 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
44725729 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
44725755 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
44725781 ATCA
1 ATCA
44725785 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:44730342 original size:31 final size:32
Alignment explanation
Indices: 44730302--44730370 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 32
44730292 TTTTTTATCC
* * *
44730302 AATTAGGTACTTGAACTTGA-TTTCTTGGTTCA
1 AATTAGGTACCTAAACTTGACTTT-TTGGTCCA
44730334 AATT-GGTACCTAAACTTGACTTTTTGGTCCA
1 AATTAGGTACCTAAACTTGACTTTTTGGTCCA
44730365 AATTAG
1 AATTAG
44730371 TGCTTACAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 24 0.75
32 8 0.25
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (32 bp):
AATTAGGTACCTAAACTTGACTTTTTGGTCCA
Found at i:44732653 original size:15 final size:14
Alignment explanation
Indices: 44732635--44732664 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
44732625 GTATACATAT
44732635 TTTATATTATATTTA
1 TTTATATT-TATTTA
44732650 TTTATATTTATTTA
1 TTTATATTTATTTA
44732664 T
1 T
44732665 GAATTTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTATATTTATTTA
Found at i:44732656 original size:10 final size:10
Alignment explanation
Indices: 44732635--44732664 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
44732625 GTATACATAT
44732635 TTTATATTATA
1 TTTAT-TTATA
44732646 TTTATTTATA
1 TTTATTTATA
44732656 TTTATTTAT
1 TTTATTTAT
44732665 GAATTTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 14 0.74
11 5 0.26
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTATTTATA
Found at i:44732725 original size:5 final size:5
Alignment explanation
Indices: 44732715--44732774 Score: 63
Period size: 5 Copynumber: 12.4 Consensus size: 5
44732705 ACTTTTTGTA
* *
44732715 TATAT TATAT TATA- TACAT TATAT TATA- TATTTT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TA-TAT TATAT TATAT TATAT
*
44732764 AAT-T TATAT TA
1 TATAT TATAT TA
44732775 CTATATAGTT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
4 8 0.18
5 35 0.78
6 2 0.04
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:44732758 original size:34 final size:35
Alignment explanation
Indices: 44732715--44732780 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
44732705 ACTTTTTGTA
44732715 TATATTATATTATATACA-TTATATTA-TATATTTT
1 TATATTATATTATATA-ATTTATATTACTATATTTT
44732749 TATATTATATTATATAATTTATATTACTATAT
1 TATATTATATTATATAATTTATATTACTATAT
44732781 AGTTTTATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
33 1 0.03
34 24 0.80
35 5 0.17
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (35 bp):
TATATTATATTATATAATTTATATTACTATATTTT
Found at i:44734329 original size:26 final size:26
Alignment explanation
Indices: 44734294--44734359 Score: 105
Period size: 26 Copynumber: 2.5 Consensus size: 26
44734284 TATCACATTA
*
44734294 ATAAATAATTTAAAATCTATACAAAT
1 ATAAAAAATTTAAAATCTATACAAAT
44734320 ATAAAAAATTTAAAATCTATACAAAT
1 ATAAAAAATTTAAAATCTATACAAAT
*
44734346 ATTTAAAAATTTAA
1 A-TAAAAAATTTAA
44734360 TAAAAATCAA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
26 26 0.70
27 11 0.30
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (26 bp):
ATAAAAAATTTAAAATCTATACAAAT
Found at i:44734820 original size:5 final size:5
Alignment explanation
Indices: 44734805--44734837 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
44734795 TGTGTGTTCT
44734805 TTTTA -TTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
44734838 TTTACAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:44734828 original size:15 final size:14
Alignment explanation
Indices: 44734805--44734841 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
44734795 TGTGTGTTCT
44734805 TTTTATTTATTTTA
1 TTTTATTTATTTTA
44734819 TTTTATTTTATTTTA
1 TTTTA-TTTATTTTA
44734834 TTTT-TTTA
1 TTTTATTTA
44734842 CAAATTAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.18
14 5 0.23
15 13 0.59
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTATTTATTTTA
Found at i:44739262 original size:14 final size:14
Alignment explanation
Indices: 44739243--44739269 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
44739233 TGTGTGTTCT
44739243 TTTTATTTATTTTA
1 TTTTATTTATTTTA
44739257 TTTTATTTATTTT
1 TTTTATTTATTTT
44739270 TTTACAAGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTATTTATTTTA
Found at i:44751049 original size:23 final size:23
Alignment explanation
Indices: 44751023--44751068 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
44751013 TGAAAAATGG
44751023 CCGAAATATTCTCGTTGAGGTTA
1 CCGAAATATTCTCGTTGAGGTTA
44751046 CCGAAATATTCTCGTTGAGGTTA
1 CCGAAATATTCTCGTTGAGGTTA
44751069 ACTCTTTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (23 bp):
CCGAAATATTCTCGTTGAGGTTA
Found at i:44759883 original size:13 final size:13
Alignment explanation
Indices: 44759865--44759891 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
44759855 TCTTGACAGG
44759865 GACACGCCCGTGT
1 GACACGCCCGTGT
44759878 GACACGCCCGTGT
1 GACACGCCCGTGT
44759891 G
1 G
44759892 CGATTACTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Done.