Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 161 of 185
Found at i:48326200 original size:124 final size:125
Alignment explanation
Indices: 48325980--48326266 Score: 459
Period size: 124 Copynumber: 2.3 Consensus size: 125
48325970 CCCAAACATG
* * *
48325980 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCAATTTCAAAAATTCTTCTGATAAAGCATCTTAC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTTAAAAATTCTTCTGATAAAGCATCCTAC
* * *
48326045 TTGAGGCATTTTTTATACTATTTGCTCAGAAATGTCAACTCGAAATTA-TTTTTCAGGAC
66 TTGAAGCATTTTTTATACTATTTGCTCAGAAACGTCAAATCGAAATTATTTTTTCAGGAC
* * *
48326104 CTACTGTAGCAAAAGCGCGTCCACGTGAGAGCGATTTTAGAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTTAAAAATTCTTCTGATAAAGCATCCTAC
*
48326169 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAAATCGAAATTATTTTTTCAGGAC
66 TTGAAGCATTTTTTATACTATTTGCTCAGAAACGTCAAATCGAAATTATTTTTTCAGGAC
* *
48326229 CTACTGTATCAAAAACGCGTCCACGTGGGAGCGATTTT
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTT
48326267 CTTAATAAAT
Statistics
Matches: 149, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
124 103 0.69
125 46 0.31
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTTAAAAATTCTTCTGATAAAGCATCCTAC
TTGAAGCATTTTTTATACTATTTGCTCAGAAACGTCAAATCGAAATTATTTTTTCAGGAC
Found at i:48326473 original size:21 final size:21
Alignment explanation
Indices: 48326447--48326487 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
48326437 CCTAAAAATC
* *
48326447 CTAAAAACCCTAATCCTAACT
1 CTAAAAACCCAAAACCTAACT
48326468 CTAAAAACCCAAAACCTAAC
1 CTAAAAACCCAAAACCTAAC
48326488 GTGGAAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.49, C:0.34, G:0.00, T:0.17
Consensus pattern (21 bp):
CTAAAAACCCAAAACCTAACT
Found at i:48331455 original size:3 final size:3
Alignment explanation
Indices: 48331449--48331480 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
48331439 GGTTGCAGTG
48331449 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
48331481 TCTCCACATG
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:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:48348192 original size:15 final size:16
Alignment explanation
Indices: 48348164--48348202 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
48348154 TTTTATTTTT
48348164 TAATTTATATTTAA-AA
1 TAATTTA-ATTTAATAA
48348180 TAATTTAATTTAATAA
1 TAATTTAATTTAATAA
48348196 -AATTTAA
1 TAATTTAA
48348203 CAAAATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TAATTTAATTTAATAA
Found at i:48349528 original size:9 final size:9
Alignment explanation
Indices: 48349514--48349553 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
48349504 GTAGTGATTC
48349514 AATTCGGTT
1 AATTCGGTT
48349523 AATTCGGTT
1 AATTCGGTT
48349532 AATTCTGG-T
1 AATTC-GGTT
*
48349541 AATTCAGTT
1 AATTCGGTT
48349550 AATT
1 AATT
48349554 TTTAACAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
8 1 0.04
9 25 0.89
10 2 0.07
ACGTcount: A:0.28, C:0.10, G:0.17, T:0.45
Consensus pattern (9 bp):
AATTCGGTT
Found at i:48352733 original size:16 final size:16
Alignment explanation
Indices: 48352712--48352745 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
48352702 GTCAGTGTTT
*
48352712 TTTAGCATTTTTATTA
1 TTTAGCATTATTATTA
*
48352728 TTTAGCCTTATTATTA
1 TTTAGCATTATTATTA
48352744 TT
1 TT
48352746 GTTGTTGTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.09, G:0.06, T:0.62
Consensus pattern (16 bp):
TTTAGCATTATTATTA
Found at i:48352942 original size:17 final size:18
Alignment explanation
Indices: 48352913--48352949 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
48352903 TTTTTTTATT
48352913 TTATATAGATATAAATAC
1 TTATATAGATATAAATAC
*
48352931 TTATAT-GATATATATAC
1 TTATATAGATATAAATAC
48352948 TT
1 TT
48352950 TACACTTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.46
Consensus pattern (18 bp):
TTATATAGATATAAATAC
Found at i:48359019 original size:100 final size:100
Alignment explanation
Indices: 48358846--48360286 Score: 1968
Period size: 100 Copynumber: 14.4 Consensus size: 100
48358836 AAACCATAGT
* **
48358846 TTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTTTCAGGCAATGCAGCGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTTCCAGGCGGTGCAGCGGAACAGA
* * * **
48358911 TTGAAGCTACGACGGTGAACCTCACTTCCCCGACA
66 TTGAAGCTACAACGGCGAATCTTGCTTCCCCGACA
* * * * * *
48358946 TTGCAATTTAAAAGATTGAAGCCACAGCGGCAAATCTTACATTCCAGGCGGTGCAGCGGAACAAA
1 TTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTTCCAGGCGGTGCAGCGGAACAGA
*
48359011 TTGAAGCTACAACGGTGAATCTTGCTTCCCCGACA
66 TTGAAGCTACAACGGCGAATCTTGCTTCCCCGACA
* * * * * *
48359046 TTACAATTAAAAATATTGAAGCTACAACGGTGAATCATACTTCCCAGGCGATGCAGCGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTTCCAGGCGGTGCAGCGGAACAGA
* * * ** * *
48359111 TTGAAACTACGACGGTGAATCTCACTTCCTCAACA
66 TTGAAGCTACAACGGCGAATCTTGCTTCCCCGACA
* * * * * * * *
48359146 ATGCAATTTAAAAGATTGAAGCCACAACAGTGAATCTTACTTCCCAGGCGGTGCAGCGAAATAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTTCCAGGCGGTGCAGCGGAACAGA
* *
48359211 TTGAAGCTACAACGGTGAATCTTGCTTCCCCAACA
66 TTGAAGCTACAACGGCGAATCTTGCTTCCCCGACA
* * *
48359246 TTGCAATTAAAAAGATTGAAGCTACAATGGCGAATCTTACTTTCCAGGTGGTCCAGCGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTTCCAGGCGGTGCAGCGGAACAGA
*
48359311 TTGAAGCTACAACAGCGAATCTTGCTTCCCCGACA
66 TTGAAGCTACAACGGCGAATCTTGCTTCCCCGACA
* * * **
48359346 TTGCAATTAAAAAGATTGAAGTTACAATGGCGAATCTTACATTCCAGGCGGTGCAGCAAAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTTCCAGGCGGTGCAGCGGAACAGA
* * *
48359411 TTAAAACTACAACGGTGAATCTTGCTTCCCCGACA
66 TTGAAGCTACAACGGCGAATCTTGCTTCCCCGACA
* * * *
48359446 TTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGAAATAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTTCCAGGCGGTGCAGCGGAACAGA
* * * *
48359511 TTGAAGCTACGACGGCGTATCTTACTTCCCCGATA
66 TTGAAGCTACAACGGCGAATCTTGCTTCCCCGACA
* * * * * * *
48359546 TTGCAATTAAAAAGATTAAAGCTACAATGACGAATCTTACTTTTCAAGCGGTGCAGTGAAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTTCCAGGCGGTGCAGCGGAACAGA
48359611 TTGAAGCTACAACGGCGAATCTTGCTTCCCCGACA
66 TTGAAGCTACAACGGCGAATCTTGCTTCCCCGACA
* * *
48359646 TTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTTTCAGGCGGTGTAGTGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTTCCAGGCGGTGCAGCGGAACAGA
* * * *
48359711 TTAAAGTTACAACGGCGAATTTTGTTTCCCCGACA
66 TTGAAGCTACAACGGCGAATCTTGCTTCCCCGACA
* * *
48359746 TTGCAATTAAAAAGATTGAAGCTACAATGGCTAATCTTACTTTCCAGGCGGTGCAGCGGAACAAA
1 TTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTTCCAGGCGGTGCAGCGGAACAGA
* * *
48359811 TTGAAGCTACAACGGCGAATCTTGTTTCACTGACA
66 TTGAAGCTACAACGGCGAATCTTGCTTCCCCGACA
* *
48359846 TTGCAATTAAAAAGATTGAAGCTACAATGGCGAATCTTACTTTCCAGGCGGTGCAGCGGAACAAA
1 TTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTTCCAGGCGGTGCAGCGGAACAGA
48359911 TTGAAGCTACAACGGCGAATCTTGCTTCCCCGACA
66 TTGAAGCTACAACGGCGAATCTTGCTTCCCCGACA
* * * * *
48359946 TTGCAATTAAAAGGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTTCCAGGCGGTGCAGCGGAACAGA
*
48360011 TTGAAGCTACAACAGCGAATCTTGCTTCCCCGACA
66 TTGAAGCTACAACGGCGAATCTTGCTTCCCCGACA
* * * **
48360046 TTGCAATTAAAAAGATTGAAGTTACAATGGCGAATCTTACATTCCAGGCGGTGCAGCAAAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTTCCAGGCGGTGCAGCGGAACAGA
* * *
48360111 TTAAAACTACAACGGTGAATCTTGCTTCCCCGACA
66 TTGAAGCTACAACGGCGAATCTTGCTTCCCCGACA
* * *
48360146 TTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGGTGCAGTGAAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTTCCAGGCGGTGCAGCGGAACAGA
*
48360211 TT-AATGCTACAACGGCGAATCTCGCTTCCCCGACA
66 TTGAA-GCTACAACGGCGAATCTTGCTTCCCCGACA
*
48360246 TTGCAATT-AAAAGATTGAAGCCACAACGGCGAATCTTACTT
1 TTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTT
48360287 NNNNNNNNNN
Statistics
Matches: 1186, Mismatches: 154, Indels: 3
0.88 0.11 0.00
Matches are distributed among these distances:
99 34 0.03
100 1152 0.97
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (100 bp):
TTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTTCCAGGCGGTGCAGCGGAACAGA
TTGAAGCTACAACGGCGAATCTTGCTTCCCCGACA
Found at i:48363161 original size:50 final size:50
Alignment explanation
Indices: 48363103--48363589 Score: 410
Period size: 50 Copynumber: 9.7 Consensus size: 50
48363093 CATTGCAATT
*
48363103 AAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGATGCAGCG
1 AAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGATGCAGTG
* * * * ** * *
48363153 AAATAGATTGAAGCTACGACGGCGTATCTTACTTCCC-CGATATTGCAATT
1 AAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGA-TGCAGTG
* * * ** * *
48363203 AAAAAGATTAAAGCTACAATGACGAATCTTACTTTTCAAGCGGTGCAGTG
1 AAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGATGCAGTG
* * * * * *
48363253 AAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGAC-ATTGCAATT
1 AAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGA-TGCAGTG
* * * *
48363303 AAAAAGATTGAAGTTACAATGGCGAATCTTACATT-CCAGGCGGTGCAG-C
1 AAAAAGATTGAAGCTACAACGGCGAATCTTAC-TTCCCAGGCGATGCAGTG
* * * * * * * *
48363352 AAAACAGATTAAAACTACAACGGTGAATCTTGCTTCCCCGAC-ATTGCAATT
1 AAAA-AGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGA-TGCAGTG
*
48363403 AAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGATGCAGCG
1 AAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGATGCAGTG
* * * * ** * *
48363453 AAATAGATTGAAGCTACGACGGCGTATCTTACTTCCC-CGATATTGCAATT
1 AAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGA-TGCAGTG
* * * ** * *
48363503 AAAAAGATTAAAGCTACAATGACGAATCTTACTTTTCAAGCGGTGCAGTG
1 AAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGATGCAGTG
* *
48363553 AAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCC
1 AAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCC
48363590 CGACATTGCA
Statistics
Matches: 330, Mismatches: 95, Indels: 24
0.73 0.21 0.05
Matches are distributed among these distances:
49 10 0.03
50 311 0.94
51 9 0.03
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (50 bp):
AAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGATGCAGTG
Found at i:48363261 original size:100 final size:100
Alignment explanation
Indices: 48363076--48363607 Score: 776
Period size: 100 Copynumber: 5.3 Consensus size: 100
48363066 NNNNNNNNNN
* *
48363076 GAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCA
1 GAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCTACAATGGCGAATCTTACTTTCCA
* * *
48363141 GGCGATGCAGCGAAATAGATTGAAGCTACGACGGC
66 GGCGGTGCAGCGAAACAGATTGAAGCTACAACGGC
* * * * * *
48363176 GTATCTTACTTCCCCGATATTGCAATTAAAAAGATTAAAGCTACAATGACGAATCTTACTTTTCA
1 GAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCTACAATGGCGAATCTTACTTTCCA
* *
48363241 AGCGGTGCAGTGAAACAGATTGAAGCTACAACGGC
66 GGCGGTGCAGCGAAACAGATTGAAGCTACAACGGC
* *
48363276 GAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGTTACAATGGCGAATCTTACATTCCA
1 GAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCTACAATGGCGAATCTTACTTTCCA
* * * *
48363341 GGCGGTGCAGCAAAACAGATTAAAACTACAACGGT
66 GGCGGTGCAGCGAAACAGATTGAAGCTACAACGGC
* *
48363376 GAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCA
1 GAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCTACAATGGCGAATCTTACTTTCCA
* * *
48363441 GGCGATGCAGCGAAATAGATTGAAGCTACGACGGC
66 GGCGGTGCAGCGAAACAGATTGAAGCTACAACGGC
* * * * * *
48363476 GTATCTTACTTCCCCGATATTGCAATTAAAAAGATTAAAGCTACAATGACGAATCTTACTTTTCA
1 GAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCTACAATGGCGAATCTTACTTTCCA
* *
48363541 AGCGGTGCAGTGAAACAGATTGAAGCTACAACGGC
66 GGCGGTGCAGCGAAACAGATTGAAGCTACAACGGC
48363576 GAATCTTGCTTCCCCGACATTGCAATTAAAAA
1 GAATCTTGCTTCCCCGACATTGCAATTAAAAA
48363608 AGGACCAAAT
Statistics
Matches: 378, Mismatches: 54, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
100 378 1.00
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (100 bp):
GAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCTACAATGGCGAATCTTACTTTCCA
GGCGGTGCAGCGAAACAGATTGAAGCTACAACGGC
Found at i:48364153 original size:50 final size:50
Alignment explanation
Indices: 48364091--48364808 Score: 552
Period size: 50 Copynumber: 14.4 Consensus size: 50
48364081 ATTACAATTC
* * * * * **
48364091 AAAAGATTGAAGCCACAACAGTGAATCTTACTTGCCAGGCAATGCAGTGG
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCATTGCAGTTA
* * * * * * *
48364141 AACAGATTGAAGCTACAATGGCGAATCTTGCTTCCCCGACATTGCAATTT
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCATTGCAGTTA
* * * * *
48364191 AAAAGATTGAGGCCACAACGGCGGATCTTACTTCCCAGGCAATGCAG-CA
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCATTGCAGTTA
* * * * ** * * *
48364240 GAACAGATTGAAGCTACGATGGTGAATCTTGTTTCCCCGACATTGCAATTA
1 -AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCATTGCAGTTA
* * * ** **
48364291 AAAAGATTGAAGCTACAATGGCTAATCTTACTTTCCAGGCGGTGCAGCGGA
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCATTGCAG-TTA
* ** * * * *
48364342 ACAA-ATTGAAGCTACAACGGCGAATCTTGTTTCACTGACATTGCAATTA
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCATTGCAGTTA
* * * ** ***
48364391 AAAAGATTGAAGCTACAATGGCGAATCTTACTTTCTAGGCGGTGCAGCGG
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCATTGCAGTTA
* * * * *
48364441 AACAGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTA
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCATTGCAGTTA
* * ** *
48364491 AAAAGATTGAAGTTACAATGGCGAATCTTACATT-CCAGGCGGTGCAG-CA
1 AAAAGATTGAAGCTACAACGGCGAATCTTAC-TTCCCAGGCATTGCAGTTA
* * * * * *
48364540 AAACAGATTAAAACTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTA
1 AAA-AGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCATTGCAGTTA
**
48364591 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGA-TGCAGCGA
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGC-ATTGCAGTTA
* * * * * *
48364641 AATAGATTGAAGCTACGACGGCGAATCTCACTTCCTC-GACATTGCAATTT
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCC-CAGGCATTGCAGTTA
* * *
48364691 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCAGTGCAG-CA
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCATTGCAGTTA
* * * * * * *
48364740 GAACAGATTGAAGCTACAACGGTGAATCTTGCTTCCCTGACATTACAATTA
1 -AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCATTGCAGTTA
48364791 AAAAGATT-AATGCTACAA
1 AAAAGATTGAA-GCTACAA
48364809 GTCAGAACTC
Statistics
Matches: 501, Mismatches: 152, Indels: 30
0.73 0.22 0.04
Matches are distributed among these distances:
49 14 0.03
50 473 0.94
51 14 0.03
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (50 bp):
AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCATTGCAGTTA
Found at i:48364267 original size:100 final size:100
Alignment explanation
Indices: 48364085--48364808 Score: 959
Period size: 100 Copynumber: 7.2 Consensus size: 100
48364075 CCATATATTA
* * * * * ** **
48364085 CAATTCAAAAGATTGAAGCCACAACAGTGAATCTTACTTGCCAGGCAATGCAGTGGAACAGATTG
1 CAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGGTGCAGCAGAACAGATTG
*
48364150 AAGCTACAATGGCGAATCTTGCTTCCCCGACATTG
66 AAGCTACAACGGCGAATCTTGCTTCCCCGACATTG
* * * * **
48364185 CAATTTAAAAGATTGAGGCCACAACGGCGGATCTTACTTCCCAGGCAATGCAGCAGAACAGATTG
1 CAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGGTGCAGCAGAACAGATTG
* * * *
48364250 AAGCTACGATGGTGAATCTTGTTTCCCCGACATTG
66 AAGCTACAACGGCGAATCTTGCTTCCCCGACATTG
* * * * *
48364285 CAATTAAAAAGATTGAAGCTACAATGGCTAATCTTACTTTCCAGGCGGTGCAGCGGAACAAATTG
1 CAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGGTGCAGCAGAACAGATTG
* * *
48364350 AAGCTACAACGGCGAATCTTGTTTCACTGACATTG
66 AAGCTACAACGGCGAATCTTGCTTCCCCGACATTG
* * * *
48364385 CAATTAAAAAGATTGAAGCTACAATGGCGAATCTTACTTTCTAGGCGGTGCAGCGGAACAGATTG
1 CAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGGTGCAGCAGAACAGATTG
48364450 AAGCTACAACGGCGAATCTTGCTTCCCCGACATTG
66 AAGCTACAACGGCGAATCTTGCTTCCCCGACATTG
* * *
48364485 CAATTAAAAAGATTGAAGTTACAATGGCGAATCTTACATT-CCAGGCGGTGCAGCAAAACAGATT
1 CAATTAAAAAGATTGAAGCTACAACGGCGAATCTTAC-TTCCCAGGCGGTGCAGCAGAACAGATT
* *
48364549 AAAACTACAACGGCGAATCTTGCTTCCCCGACATTG
65 GAAGCTACAACGGCGAATCTTGCTTCCCCGACATTG
* *
48364585 CAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGATGCAGC-GAAATAGATT
1 CAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGGTGCAGCAG-AACAGATT
* ** *
48364649 GAAGCTACGACGGCGAATCTCACTTCCTCGACATTG
65 GAAGCTACAACGGCGAATCTTGCTTCCCCGACATTG
* * *
48364685 CAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCAGTGCAGCAGAACAGATTG
1 CAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGGTGCAGCAGAACAGATTG
* * *
48364750 AAGCTACAACGGTGAATCTTGCTTCCCTGACATTA
66 AAGCTACAACGGCGAATCTTGCTTCCCCGACATTG
48364785 CAATTAAAAAGATT-AATGCTACAA
1 CAATTAAAAAGATTGAA-GCTACAA
48364809 GTCAGAACTC
Statistics
Matches: 555, Mismatches: 64, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
99 4 0.01
100 548 0.99
101 3 0.01
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (100 bp):
CAATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGGTGCAGCAGAACAGATTG
AAGCTACAACGGCGAATCTTGCTTCCCCGACATTG
Found at i:48366487 original size:17 final size:18
Alignment explanation
Indices: 48366458--48366494 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
48366448 TTTTTTTATT
48366458 TTATATAGATATAAATAC
1 TTATATAGATATAAATAC
*
48366476 TTATAT-GATATATATAC
1 TTATATAGATATAAATAC
48366493 TT
1 TT
48366495 TACACTTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.46
Consensus pattern (18 bp):
TTATATAGATATAAATAC
Found at i:48369196 original size:24 final size:23
Alignment explanation
Indices: 48369165--48369314 Score: 106
Period size: 26 Copynumber: 6.2 Consensus size: 23
48369155 AAAACAAAAC
* **
48369165 AATATATAGAACAATTTGGAGTA
1 AATATATAAAACAATTTAAAGTA
48369188 AATAGTATAAAACAATTTAAAGTA
1 AATA-TATAAAACAATTTAAAGTA
* *
48369212 AATAATATGTAAAACAAATTAAAATA
1 AAT-ATA--TAAAACAATTTAAAGTA
*
48369238 AATAATATACAAAGCAATTTAAAATA
1 AAT-ATATA-AAA-CAATTTAAAGTA
* *
48369264 AATAACATATAAGACAATTTAAAAT-
1 AAT---ATATAAAACAATTTAAAGTA
* *
48369289 AATATATAAAA-ATTTTAAAATA
1 AATATATAAAACAATTTAAAGTA
48369311 AATA
1 AATA
48369315 ATATGTAAAA
Statistics
Matches: 108, Mismatches: 10, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
21 9 0.08
22 11 0.10
23 4 0.04
24 23 0.21
25 7 0.06
26 47 0.44
27 2 0.02
28 5 0.05
ACGTcount: A:0.60, C:0.05, G:0.06, T:0.29
Consensus pattern (23 bp):
AATATATAAAACAATTTAAAGTA
Found at i:48369233 original size:26 final size:26
Alignment explanation
Indices: 48369188--48369559 Score: 292
Period size: 26 Copynumber: 14.1 Consensus size: 26
48369178 ATTTGGAGTA
*
48369188 AATAGTATAAAACAATTTAAAGTAAAT
1 AATA-TATAAAACAATTTAAAATAAAT
* *
48369215 AATATGTAAAACAAATTAAAATAAAT
1 AATATATAAAACAATTTAAAATAAAT
* *
48369241 AATATACAAAGCAATTTAAAATAAAT
1 AATATATAAAACAATTTAAAATAAAT
* *
48369267 AACATATAAGACAATTT---A-AAAT
1 AATATATAAAACAATTTAAAATAAAT
*
48369289 AATATATAAAA-ATTTTAAAATAAAT
1 AATATATAAAACAATTTAAAATAAAT
* *
48369314 AATATGTAAAAAGAAGTTTAAAATAAAT
1 AATATAT-AAAACAA-TTTAAAATAAAT
* * *
48369342 AATGTACAAAACAGTTTAAAAATAAAT
1 AATATATAAAACAATTT-AAAATAAAT
*
48369369 GATATATATAAAAAACAATTCAAAATAAAT
1 -A-ATATAT--AAAACAATTTAAAATAAAT
**
48369399 AATATATATGACAATTTAAAAATAAAT
1 AATATATAAAACAATTT-AAAATAAAT
* **
48369426 AATATATAAAAAAATTTAAAATGGAT
1 AATATATAAAACAATTTAAAATAAAT
* * * * *
48369452 AATAGTTTGAAATAGTTTAAAATACAT
1 AATA-TATAAAACAATTTAAAATAAAT
* * ** *
48369479 GATATGTGGAA-AACTTAAAATAAAT
1 AATATATAAAACAATTTAAAATAAAT
48369504 AATA-ATAAAACAATTTAAAATAAAT
1 AATATATAAAACAATTTAAAATAAAT
*
48369529 AATAAATGAGAAA-AAGGTTTAAAATAAAT
1 AATATAT-A-AAACAA--TTTAAAATAAAT
48369558 AA
1 AA
48369560 ATAACAAATT
Statistics
Matches: 275, Mismatches: 50, Indels: 38
0.76 0.14 0.10
Matches are distributed among these distances:
21 4 0.01
22 13 0.05
23 1 0.00
24 4 0.01
25 41 0.15
26 86 0.31
27 64 0.23
28 26 0.09
29 19 0.07
30 9 0.03
31 8 0.03
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.29
Consensus pattern (26 bp):
AATATATAAAACAATTTAAAATAAAT
Found at i:48369302 original size:20 final size:23
Alignment explanation
Indices: 48369263--48369311 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
48369253 AATTTAAAAT
48369263 AAATAACATATAAGACAA-TTTA
1 AAATAACATATAAGACAATTTTA
*
48369285 AAATAATATATAA-A-AATTTTA
1 AAATAACATATAAGACAATTTTA
48369306 AAATAA
1 AAATAA
48369312 ATAATATGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 2 0.08
21 11 0.44
22 12 0.48
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (23 bp):
AAATAACATATAAGACAATTTTA
Found at i:48369360 original size:75 final size:74
Alignment explanation
Indices: 48369211--48369447 Score: 192
Period size: 75 Copynumber: 3.1 Consensus size: 74
48369201 AATTTAAAGT
* * *
48369211 AAATAATATGTAAAACAAATTAAAATAAATAATATACAAAGCAATTTAAAATAAATAACATATAA
1 AAATAATATATAAAACAAATTAAAATAAATAATATAAAAAGCAATTTAAAATAAATAACATACAA
*
48369276 GACAATTTA
66 AACAATTTA
** **
48369285 AAATAATATATAAAA-ATTTTAAAATAAATAATATGTAAAAAG-AAGTTTAAAATAAATAATGTA
1 AAATAATATATAAAACAAATTAAAATAAATAATA--TAAAAAGCAA-TTTAAAATAAATAACATA
*
48369348 CAAAACAGTTTAAAAA
63 CAAAACAATTT----A
* * *
48369364 TAAATGATATATATAAAAAACAATTCAAAATAAATAATAT-ATATGACAATTTAAAAATAAATAA
1 -AAAT-A-ATATATAAAACA-AATT-AAAATAAATAATATAAAAAG-CAATTT-AAAATAAATAA
* * *
48369428 TATATAAAAAAATTTA
59 CATACAAAACAATTTA
48369444 AAAT
1 AAAT
48369448 GGATAATAGT
Statistics
Matches: 130, Mismatches: 17, Indels: 27
0.75 0.10 0.16
Matches are distributed among these distances:
73 16 0.12
74 16 0.12
75 30 0.23
79 5 0.04
80 5 0.04
81 1 0.01
82 13 0.10
83 5 0.04
84 26 0.20
85 13 0.10
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.29
Consensus pattern (74 bp):
AAATAATATATAAAACAAATTAAAATAAATAATATAAAAAGCAATTTAAAATAAATAACATACAA
AACAATTTA
Found at i:48369394 original size:57 final size:56
Alignment explanation
Indices: 48369285--48369439 Score: 172
Period size: 57 Copynumber: 2.8 Consensus size: 56
48369275 AGACAATTTA
* * * * * *
48369285 AAATAATATA-TAAA-AATTTTAAAATAAATAATATGTAAAAAGA-AGTTTAAAAT
1 AAATAATATACAAAACAATTTAAAAATAAATAATATATAAAAAAACAATTCAAAAT
* * *
48369338 AAATAATGTACAAAACAGTTTAAAAATAAATGATATATATAAAAAACAATTCAAAAT
1 AAATAATATACAAAACAATTTAAAAATAAATAATATATA-AAAAAACAATTCAAAAT
* **
48369395 AAATAATATATATGACAATTTAAAAATAAATAATATATAAAAAAA
1 AAATAATATACAAAACAATTTAAAAATAAATAATATATAAAAAAA
48369440 TTTAAAATGG
Statistics
Matches: 83, Mismatches: 15, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
53 9 0.11
54 3 0.04
55 19 0.23
56 11 0.13
57 41 0.49
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (56 bp):
AAATAATATACAAAACAATTTAAAAATAAATAATATATAAAAAAACAATTCAAAAT
Found at i:48369402 original size:110 final size:104
Alignment explanation
Indices: 48369188--48369559 Score: 307
Period size: 110 Copynumber: 3.5 Consensus size: 104
48369178 ATTTGGAGTA
* *
48369188 AATAGTATAAAACAATTTAAAGTAAATAATATGTAAAACAAA--TTAAAATAAATAATA-TACAA
1 AATA-TATAAAA-ATTTTAAAATAAATAATATGTAAAA-AAAGTTTAAAATAAATAATAGTACAA
* * * * * *
48369250 AGCAATTTAAAATAAATAACATATAAGACAA-TT--TA-AAAT
63 AACAGTTTAAAATAAATGATATATAA-AAAACTTAAAATAAAT
48369289 AATATATAAAAATTTTAAAATAAATAATATGTAAAAAGAAGTTTAAAATAAATAAT-GTACAAAA
1 AATATATAAAAATTTTAAAATAAATAATATGTAAAAA-AAGTTTAAAATAAATAATAGTACAAAA
48369353 CAGTTTAAAAATAAATGATATATATAAAAAACAATTCAAAATAAAT
65 CAGTTT-AAAATAAATG--ATATATAAAAAAC--TT-AAAATAAAT
* * * ** ***
48369399 AATATATATGACAATTTAAAAATAAATAATATATAAAAAAA-TTTAAAATGGATAATAGTTTGAA
1 AATATATA--AAAATTTTAAAATAAATAATATGTAAAAAAAGTTTAAAATAAATAATAGTACAAA
* * * **
48369463 ATAGTTTAAAATACATGATATGTGGAAAACTTAAAATAAAT
64 ACAGTTTAAAATAAATGATATATAAAAAACTTAAAATAAAT
* *
48369504 AATA-ATAAAACAATTTAAAATAAATAATAAATG-AGAAAAAGGTTTAAAATAAATAA
1 AATATATAAAA-ATTTTAAAATAAATAAT--ATGTA-AAAAAAGTTTAAAATAAATAA
48369560 ATAACAAATT
Statistics
Matches: 221, Mismatches: 28, Indels: 39
0.77 0.10 0.14
Matches are distributed among these distances:
98 1 0.00
99 25 0.11
100 7 0.03
101 29 0.13
102 11 0.05
103 18 0.08
104 11 0.05
105 20 0.09
106 16 0.07
108 10 0.05
109 1 0.00
110 34 0.15
111 12 0.05
112 26 0.12
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.29
Consensus pattern (104 bp):
AATATATAAAAATTTTAAAATAAATAATATGTAAAAAAAGTTTAAAATAAATAATAGTACAAAAC
AGTTTAAAATAAATGATATATAAAAAACTTAAAATAAAT
Found at i:48369528 original size:29 final size:29
Alignment explanation
Indices: 48369496--48369563 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
48369486 GGAAAACTTA
*
48369496 AAATAAATAATAATAAAACA-ATTTAAAAT
1 AAATAAATAATAAGAAAA-AGATTTAAAAT
* *
48369525 AAAT-AATAAATGAGAAAAAGGTTTAAAAT
1 AAATAAAT-AATAAGAAAAAGATTTAAAAT
48369554 AAATAAATAA
1 AAATAAATAA
48369564 CAAATTTGCG
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
28 4 0.12
29 26 0.79
30 3 0.09
ACGTcount: A:0.68, C:0.01, G:0.06, T:0.25
Consensus pattern (29 bp):
AAATAAATAATAAGAAAAAGATTTAAAAT
Found at i:48370380 original size:18 final size:17
Alignment explanation
Indices: 48370353--48370387 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
48370343 TAAAAAGGAT
48370353 AAACAGAAAACAAAAAA
1 AAACAGAAAACAAAAAA
*
48370370 AAACGAGAAAAGAAAAAA
1 AAAC-AGAAAACAAAAAA
48370388 GAGCAAACAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.80, C:0.09, G:0.11, T:0.00
Consensus pattern (17 bp):
AAACAGAAAACAAAAAA
Found at i:48377616 original size:27 final size:27
Alignment explanation
Indices: 48377575--48377638 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
48377565 TTTAAATTAA
48377575 AAATTCTTAAAAATA-AAAACAAAAAAAT
1 AAATT-TTAAAAATATAAAA-AAAAAAAT
* * *
48377603 ATATTTTAAAAATATAAAATATAAAAT
1 AAATTTTAAAAATATAAAAAAAAAAAT
48377630 AAATTTTAA
1 AAATTTTAA
48377639 TCTCTAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 23 0.74
28 8 0.26
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (27 bp):
AAATTTTAAAAATATAAAAAAAAAAAT
Found at i:48378262 original size:30 final size:30
Alignment explanation
Indices: 48378221--48378309 Score: 92
Period size: 29 Copynumber: 3.0 Consensus size: 30
48378211 AACTTTTAAG
*
48378221 ATTTTTAAAAATAAAAAAATTTATAAATTT
1 ATTTTTTAAAATAAAAAAATTTATAAATTT
* * *
48378251 ATTTTTTAAAATTAAAAAGTATA-AAATTT
1 ATTTTTTAAAATAAAAAAATTTATAAATTT
* * * *
48378280 ATTTTCTAAAA-AATAATATTTTTAAATTT
1 ATTTTTTAAAATAAAAAAATTTATAAATTT
48378309 A
1 A
48378310 AAAAATCAAT
Statistics
Matches: 47, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
28 5 0.11
29 23 0.49
30 19 0.40
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (30 bp):
ATTTTTTAAAATAAAAAAATTTATAAATTT
Found at i:48384290 original size:7 final size:8
Alignment explanation
Indices: 48384261--48384288 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
48384251 AAATGCGTAC
48384261 AAAAAGAA
1 AAAAAGAA
48384269 AAAAAGAA
1 AAAAAGAA
48384277 AAAAAGAA
1 AAAAAGAA
48384285 AAAA
1 AAAA
48384289 GAGAGAGCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (8 bp):
AAAAAGAA
Found at i:48397023 original size:85 final size:84
Alignment explanation
Indices: 48396893--48397081 Score: 227
Period size: 85 Copynumber: 2.2 Consensus size: 84
48396883 TTTAAAAAAA
* * * *
48396893 AAAAAAAGCAATTAAGTCCCTCTTTTTTTGTATTCAATTAAGTACTTGAACTTTCAAAATATATC
1 AAAAAAAGCAATTAAG-CCCTATTTTTTTGCACTCAATTAAGTACTTAAACTTTCAAAATATAT-
* *
48396958 AAAAAAGCCCTCAAACTTCTTT
64 AAAAAAACCCTCAAAATT-TTT
** * *
48396980 AAAAAAAGCAATTAAGCCCTATTTTTTT-CACTCAATTGGGTACTTAAACTTTTAAAATGTATAA
1 AAAAAAAGCAATTAAGCCCTATTTTTTTGCACTCAATTAAGTACTTAAACTTTCAAAATATATAA
48397044 AAAAACCCTCAAAATTTTT
66 AAAAACCCTCAAAATTTTT
* * *
48397063 CAAATAAGAAATTAAGCCC
1 AAAAAAAGCAATTAAGCCC
48397082 CTGCTCTTAT
Statistics
Matches: 89, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
83 19 0.21
84 16 0.18
85 27 0.30
86 11 0.12
87 16 0.18
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (84 bp):
AAAAAAAGCAATTAAGCCCTATTTTTTTGCACTCAATTAAGTACTTAAACTTTCAAAATATATAA
AAAAACCCTCAAAATTTTT
Found at i:48397372 original size:19 final size:19
Alignment explanation
Indices: 48397333--48397373 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
48397323 TTTTTTAATG
**
48397333 ATTTTTATAAAATTTTATA
1 ATTTTTATAAAAAATTATA
*
48397352 ATTTTTATAAAAAATTCTA
1 ATTTTTATAAAAAATTATA
48397371 ATT
1 ATT
48397374 CTTAATAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTTTATAAAAAATTATA
Found at i:48397431 original size:10 final size:11
Alignment explanation
Indices: 48397416--48397441 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
48397406 AAATTTATTG
48397416 TTTTTTGTAAT
1 TTTTTTGTAAT
48397427 TTTTTTGTAAT
1 TTTTTTGTAAT
48397438 TTTT
1 TTTT
48397442 AATAAGAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (11 bp):
TTTTTTGTAAT
Found at i:48401017 original size:17 final size:17
Alignment explanation
Indices: 48400995--48401058 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 17
48400985 CATCAAAGGC
*
48400995 TACAATTAAAAGCTGTA
1 TACAATTAGAAGCTGTA
*
48401012 TACAATTAGAA-CTCTAA
1 TACAATTAGAAGCTGT-A
*
48401029 GACATAATTAGAAGCTGTA
1 TAC--AATTAGAAGCTGTA
48401048 TACAATTAGAA
1 TACAATTAGAA
48401059 CTCTAAGATT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
16 3 0.08
17 21 0.55
19 11 0.29
20 3 0.08
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.28
Consensus pattern (17 bp):
TACAATTAGAAGCTGTA
Found at i:48401039 original size:19 final size:17
Alignment explanation
Indices: 48401013--48401066 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
48401003 AAAGCTGTAT
48401013 ACAATTAGAACTCTAAG
1 ACAATTAGAACTCTAAG
* *
48401030 ACATAATTAGAAGCTGT-AT
1 AC--AATTAGAA-CTCTAAG
48401049 ACAATTAGAACTCTAAG
1 ACAATTAGAACTCTAAG
48401066 A
1 A
48401067 TTAAATAATC
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
16 3 0.10
17 12 0.41
19 11 0.38
20 3 0.10
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.26
Consensus pattern (17 bp):
ACAATTAGAACTCTAAG
Found at i:48401045 original size:36 final size:36
Alignment explanation
Indices: 48400998--48401066 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
48400988 CAAAGGCTAC
48400998 AATTAAAAGCTGTATACAATTAGAACTCTAAGACAT
1 AATTAAAAGCTGTATACAATTAGAACTCTAAGACAT
*
48401034 AATTAGAAGCTGTATACAATTAGAACTCTAAGA
1 AATTAAAAGCTGTATACAATTAGAACTCTAAGA
48401067 TTAAATAATC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.28
Consensus pattern (36 bp):
AATTAAAAGCTGTATACAATTAGAACTCTAAGACAT
Found at i:48403708 original size:17 final size:17
Alignment explanation
Indices: 48403686--48403749 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 17
48403676 CATCAAAGGC
*
48403686 TACAATTAAAAGCTGTA
1 TACAATTAGAAGCTGTA
*
48403703 TACAATTAGAA-CTCTAA
1 TACAATTAGAAGCTGT-A
*
48403720 GACATAATTAGAAGCTGTA
1 TAC--AATTAGAAGCTGTA
48403739 TACAATTAGAA
1 TACAATTAGAA
48403750 CTCTAAGATT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
16 3 0.08
17 21 0.55
19 11 0.29
20 3 0.08
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.28
Consensus pattern (17 bp):
TACAATTAGAAGCTGTA
Found at i:48403730 original size:19 final size:17
Alignment explanation
Indices: 48403704--48403757 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
48403694 AAAGCTGTAT
48403704 ACAATTAGAACTCTAAG
1 ACAATTAGAACTCTAAG
* *
48403721 ACATAATTAGAAGCTGT-AT
1 AC--AATTAGAA-CTCTAAG
48403740 ACAATTAGAACTCTAAG
1 ACAATTAGAACTCTAAG
48403757 A
1 A
48403758 TTAAATAATC
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
16 3 0.10
17 12 0.41
19 11 0.38
20 3 0.10
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.26
Consensus pattern (17 bp):
ACAATTAGAACTCTAAG
Found at i:48403736 original size:36 final size:36
Alignment explanation
Indices: 48403689--48403757 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
48403679 CAAAGGCTAC
48403689 AATTAAAAGCTGTATACAATTAGAACTCTAAGACAT
1 AATTAAAAGCTGTATACAATTAGAACTCTAAGACAT
*
48403725 AATTAGAAGCTGTATACAATTAGAACTCTAAGA
1 AATTAAAAGCTGTATACAATTAGAACTCTAAGA
48403758 TTAAATAATC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.28
Consensus pattern (36 bp):
AATTAAAAGCTGTATACAATTAGAACTCTAAGACAT
Found at i:48404110 original size:3 final size:3
Alignment explanation
Indices: 48404097--48404134 Score: 67
Period size: 3 Copynumber: 12.3 Consensus size: 3
48404087 TAGTTGTAAT
48404097 ACA ATCA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA A-CA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
48404135 AAACCAATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.66, C:0.32, G:0.00, T:0.03
Consensus pattern (3 bp):
ACA
Found at i:48406875 original size:19 final size:20
Alignment explanation
Indices: 48406848--48406885 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
48406838 TTGTAAAGGT
*
48406848 TATATTTTA-ATATCTAAAA
1 TATAATTTATATATCTAAAA
*
48406867 TATAATTTATATATTTAAA
1 TATAATTTATATATCTAAA
48406886 TTAAATAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (20 bp):
TATAATTTATATATCTAAAA
Found at i:48415495 original size:16 final size:16
Alignment explanation
Indices: 48415461--48415498 Score: 67
Period size: 17 Copynumber: 2.3 Consensus size: 16
48415451 AATAAAAAAT
48415461 AAAAAATATTACCCAA
1 AAAAAATATTACCCAA
48415477 AAAAACATATTACCCAA
1 AAAAA-ATATTACCCAA
48415494 AAAAA
1 AAAAA
48415499 GAGGGGGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.66, C:0.18, G:0.00, T:0.16
Consensus pattern (16 bp):
AAAAAATATTACCCAA
Found at i:48416908 original size:11 final size:11
Alignment explanation
Indices: 48416870--48416914 Score: 60
Period size: 11 Copynumber: 4.3 Consensus size: 11
48416860 AATTTATTCT
48416870 AAAA-ATTTT-
1 AAAATATTTTA
48416879 AAAAT-TTTTA
1 AAAATATTTTA
48416889 AAAATTATTTTA
1 AAAA-TATTTTA
48416901 AAAATATTTTA
1 AAAATATTTTA
48416912 AAA
1 AAA
48416915 TTAAAAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
9 8 0.25
10 4 0.12
11 11 0.34
12 9 0.28
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
AAAATATTTTA
Found at i:48416915 original size:32 final size:31
Alignment explanation
Indices: 48416857--48416916 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 31
48416847 ATAAAATACC
48416857 AAAAATTTATTCTAAAAATTTTAAAATTTTT
1 AAAAATTTATTCTAAAAATTTTAAAATTTTT
*
48416888 AAAAA-TTATTTTAAAAATATTTTAAAATT
1 AAAAATTTATTCT-AAAA-ATTTTAAAATT
48416917 AAAAAAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 6 0.23
31 9 0.35
32 11 0.42
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (31 bp):
AAAAATTTATTCTAAAAATTTTAAAATTTTT
Found at i:48416919 original size:29 final size:28
Alignment explanation
Indices: 48416886--48416963 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 28
48416876 TTTAAAATTT
48416886 TTAAAAATTATTTTAAAAATA-TTTTAAAA
1 TTAAAAA--ATTTTAAAAATATTTTTAAAA
*
48416915 TTAAAAAAATTTAAAAAAGTATTTTTAAAA
1 TT-AAAAAATTTTAAAAA-TATTTTTAAAA
*
48416945 TTAAAAAAATTTAAAAATA
1 TTAAAAAATTTTAAAAATA
48416964 AATATATTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
28 11 0.26
29 17 0.40
30 15 0.35
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.38
Consensus pattern (28 bp):
TTAAAAAATTTTAAAAATATTTTTAAAA
Found at i:48416922 original size:30 final size:28
Alignment explanation
Indices: 48416886--48416963 Score: 104
Period size: 30 Copynumber: 2.7 Consensus size: 28
48416876 TTTAAAATTT
*
48416886 TTAAAAATTATTTTAAAAATATTTTAAAA
1 TTAAAAA-AATTTTAAAAATATTTTAAAA
*
48416915 TTAAAAAAATTTAAAAAAGTATTTTTAAAA
1 TTAAAAAAATTTTAAAAA-TA-TTTTAAAA
48416945 TTAAAAAAA-TTTAAAAATA
1 TTAAAAAAATTTTAAAAATA
48416964 AATATATTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
28 11 0.25
29 16 0.36
30 17 0.39
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.38
Consensus pattern (28 bp):
TTAAAAAAATTTTAAAAATATTTTAAAA
Found at i:48416923 original size:31 final size:30
Alignment explanation
Indices: 48416857--48416963 Score: 93
Period size: 30 Copynumber: 3.7 Consensus size: 30
48416847 ATAAAATACC
* *
48416857 AAAAATTTATTCT-AAAA-ATTTTAAAATTTT
1 AAAAAATTATTTTAAAAATATTTTAAAA--TT
*
48416887 TAAAAATTATTTTAAAAATATTTTAAAATT
1 AAAAAATTATTTTAAAAATATTTTAAAATT
*
48416917 AAAAAA--ATTTAAAAAAGTATTTTTAAAATT
1 AAAAAATTATTTTAAAAA-TA-TTTTAAAATT
48416947 AAAAAA--A-TTTAAAAATA
1 AAAAAATTATTTTAAAAATA
48416964 AATATATTTA
Statistics
Matches: 67, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
28 11 0.16
29 9 0.13
30 34 0.51
31 4 0.06
32 9 0.13
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (30 bp):
AAAAAATTATTTTAAAAATATTTTAAAATT
Found at i:48417404 original size:19 final size:18
Alignment explanation
Indices: 48417376--48417446 Score: 54
Period size: 19 Copynumber: 3.6 Consensus size: 18
48417366 ATCTAAACTA
*
48417376 ATTTTTAAAATTAAAAAT
1 ATTTTAAAAATTAAAAAT
48417394 ATTTATAAAAATTCAAAACTTAT
1 ATTT-TAAAAATT-AAAA---AT
48417417 ATTTTTAACAAATTATAAAA-
1 A-TTTTAA-AAATTA-AAAAT
48417437 ATTTTAAAAA
1 ATTTTAAAAA
48417447 ATTCTAAAGT
Statistics
Matches: 44, Mismatches: 1, Indels: 16
0.72 0.02 0.26
Matches are distributed among these distances:
18 7 0.16
19 13 0.30
20 5 0.11
21 1 0.02
23 7 0.16
24 11 0.25
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (18 bp):
ATTTTAAAAATTAAAAAT
Found at i:48417549 original size:17 final size:17
Alignment explanation
Indices: 48417523--48417556 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
48417513 TCTTATCATA
48417523 TTAAAGTATTTTATTTT
1 TTAAAGTATTTTATTTT
* *
48417540 TTAAATTATTTTGTTTT
1 TTAAAGTATTTTATTTT
48417557 GAACTTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (17 bp):
TTAAAGTATTTTATTTT
Found at i:48417909 original size:7 final size:7
Alignment explanation
Indices: 48417886--48417930 Score: 65
Period size: 7 Copynumber: 6.6 Consensus size: 7
48417876 CCGTAACAGG
48417886 ATTTT-A
1 ATTTTAA
* *
48417892 ATTTGAC
1 ATTTTAA
48417899 ATTTTAA
1 ATTTTAA
48417906 ATTTTAA
1 ATTTTAA
48417913 ATTTTAA
1 ATTTTAA
48417920 ATTTTAA
1 ATTTTAA
48417927 ATTT
1 ATTT
48417931 AACTTAAACA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
6 4 0.12
7 30 0.88
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (7 bp):
ATTTTAA
Found at i:48419648 original size:16 final size:17
Alignment explanation
Indices: 48419617--48419651 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
48419607 CAAATATTAC
48419617 TATTTATGTATTTTTTA
1 TATTTATGTATTTTTTA
*
48419634 TATTTAT-TCTTTTTTA
1 TATTTATGTATTTTTTA
48419650 TA
1 TA
48419652 GATTTATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.71
Consensus pattern (17 bp):
TATTTATGTATTTTTTA
Found at i:48420101 original size:28 final size:28
Alignment explanation
Indices: 48420069--48420124 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
48420059 AGTAAAAAAT
48420069 TTAAAAATTTATGAAAATGACCTTAATA
1 TTAAAAATTTATGAAAATGACCTTAATA
48420097 TTAAAAATTTATGAAAATGACCTTAATA
1 TTAAAAATTTATGAAAATGACCTTAATA
48420125 CTAGATTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.36
Consensus pattern (28 bp):
TTAAAAATTTATGAAAATGACCTTAATA
Found at i:48420514 original size:20 final size:20
Alignment explanation
Indices: 48420476--48420516 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
48420466 TATGTTGAAA
* **
48420476 GAAAAAAAATGTGTTATATT
1 GAAAAAAAATGAGAGATATT
48420496 GAAAAAAAATGAGAGATATT
1 GAAAAAAAATGAGAGATATT
48420516 G
1 G
48420517 TTATTATGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.20, T:0.27
Consensus pattern (20 bp):
GAAAAAAAATGAGAGATATT
Found at i:48421405 original size:51 final size:52
Alignment explanation
Indices: 48421327--48421448 Score: 156
Period size: 52 Copynumber: 2.4 Consensus size: 52
48421317 TAAGTGATTA
* * **
48421327 AAATAATATGGCGGCATCAAAAGATAAA-TTTTATTCAATTTAGGTGCCTCC
1 AAATAATATGGCGGCACCAAAAAATAAATTTTTATTCAATTTAGGCACCTCC
* ** *
48421378 AAATAATGTGGCGGCACCAAAAAATAAATTTTTATTTTATTTTGGCACCTCC
1 AAATAATATGGCGGCACCAAAAAATAAATTTTTATTCAATTTAGGCACCTCC
*
48421430 AAATAACATGGCGGCACCA
1 AAATAATATGGCGGCACCA
48421449 CAAATATTAA
Statistics
Matches: 60, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
51 25 0.42
52 35 0.58
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.30
Consensus pattern (52 bp):
AAATAATATGGCGGCACCAAAAAATAAATTTTTATTCAATTTAGGCACCTCC
Found at i:48423948 original size:179 final size:179
Alignment explanation
Indices: 48423648--48424005 Score: 716
Period size: 179 Copynumber: 2.0 Consensus size: 179
48423638 GCTCGACTCG
48423648 ATGTTGATTTTGCATCCTTTCAAGTCTAAAATACTCAAAGAGATGAGATTCTTTCGGAAATCAAG
1 ATGTTGATTTTGCATCCTTTCAAGTCTAAAATACTCAAAGAGATGAGATTCTTTCGGAAATCAAG
48423713 TACATACCTGACATCTGAGAGTGTCCTAATCGTCCCATCGTGTATACTAATTTTAACAGTACCAA
66 TACATACCTGACATCTGAGAGTGTCCTAATCGTCCCATCGTGTATACTAATTTTAACAGTACCAA
48423778 TACCAATTACCTTACTGGATGAATCGTTTCCCATGTGAACAACTCCACA
131 TACCAATTACCTTACTGGATGAATCGTTTCCCATGTGAACAACTCCACA
48423827 ATGTTGATTTTGCATCCTTTCAAGTCTAAAATACTCAAAGAGATGAGATTCTTTCGGAAATCAAG
1 ATGTTGATTTTGCATCCTTTCAAGTCTAAAATACTCAAAGAGATGAGATTCTTTCGGAAATCAAG
48423892 TACATACCTGACATCTGAGAGTGTCCTAATCGTCCCATCGTGTATACTAATTTTAACAGTACCAA
66 TACATACCTGACATCTGAGAGTGTCCTAATCGTCCCATCGTGTATACTAATTTTAACAGTACCAA
48423957 TACCAATTACCTTACTGGATGAATCGTTTCCCATGTGAACAACTCCACA
131 TACCAATTACCTTACTGGATGAATCGTTTCCCATGTGAACAACTCCACA
48424006 TTCAACCGAA
Statistics
Matches: 179, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
179 179 1.00
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (179 bp):
ATGTTGATTTTGCATCCTTTCAAGTCTAAAATACTCAAAGAGATGAGATTCTTTCGGAAATCAAG
TACATACCTGACATCTGAGAGTGTCCTAATCGTCCCATCGTGTATACTAATTTTAACAGTACCAA
TACCAATTACCTTACTGGATGAATCGTTTCCCATGTGAACAACTCCACA
Found at i:48425381 original size:17 final size:17
Alignment explanation
Indices: 48425356--48425388 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
48425346 CAAATACTCT
*
48425356 AAACCTTGAAAGATGAC
1 AAACATTGAAAGATGAC
48425373 AAACATTGAAAGATGA
1 AAACATTGAAAGATGA
48425389 AAATATTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.12, G:0.18, T:0.18
Consensus pattern (17 bp):
AAACATTGAAAGATGAC
Found at i:48431418 original size:15 final size:15
Alignment explanation
Indices: 48431398--48431449 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
48431388 ACTAGAAAAC
48431398 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
48431413 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
48431432 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
48431447 ATT
1 ATT
48431450 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:48431507 original size:15 final size:17
Alignment explanation
Indices: 48431482--48431517 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
48431472 AAGTGAATAA
48431482 TATTGTTTAAAA-TTAT
1 TATTGTTTAAAATTTAT
48431498 TATT-TTTAAAATTTAT
1 TATTGTTTAAAATTTAT
48431514 TATT
1 TATT
48431518 AAAATAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
TATTGTTTAAAATTTAT
Found at i:48431513 original size:13 final size:14
Alignment explanation
Indices: 48431477--48431523 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
48431467 ACAATAAGTG
*
48431477 AATAATATTGTTTAA
1 AATATTATT-TTTAA
48431492 AATTATTATTTTTAA
1 AA-TATTATTTTTAA
*
48431507 AAT-TTATTATTAA
1 AATATTATTTTTAA
48431520 AATA
1 AATA
48431524 AAATTGAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
13 12 0.43
14 1 0.04
15 9 0.32
16 6 0.21
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (14 bp):
AATATTATTTTTAA
Found at i:48434123 original size:46 final size:44
Alignment explanation
Indices: 48434064--48434178 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
48434054 ACAGGACAGA
* *
48434064 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
48434110 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
48434154 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
48434179 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:48434159 original size:44 final size:45
Alignment explanation
Indices: 48434064--48434197 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
48434054 ACAGGACAGA
* *
48434064 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
48434110 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
48434154 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
48434198 CAGGGTATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:48440134 original size:46 final size:44
Alignment explanation
Indices: 48440075--48440189 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
48440065 ACAGGACAGA
* *
48440075 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
48440121 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
48440165 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
48440190 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:48440170 original size:44 final size:45
Alignment explanation
Indices: 48440075--48440208 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
48440065 ACAGGACAGA
* *
48440075 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
48440121 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
48440165 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
48440209 CAGGGTATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:48442540 original size:31 final size:31
Alignment explanation
Indices: 48442505--48442563 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
48442495 TTATAACATA
* *
48442505 TTTCATATTCTGTTTTCAATTCACTATCGTT
1 TTTCACATTCTATTTTCAATTCACTATCGTT
48442536 TTTCACATTCTATTTTCAATTCACTATC
1 TTTCACATTCTATTTTCAATTCACTATC
48442564 TCATATTCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.22, C:0.22, G:0.03, T:0.53
Consensus pattern (31 bp):
TTTCACATTCTATTTTCAATTCACTATCGTT
Found at i:48442729 original size:25 final size:25
Alignment explanation
Indices: 48442647--48442781 Score: 142
Period size: 25 Copynumber: 5.6 Consensus size: 25
48442637 CTGTTATGCA
*
48442647 CTAATGAA-CAGAGAGCACTAAAGTG
1 CTAAT-AATCAGAGAGCACTAACGTG
*
48442672 CT-AT-A-CAGAGAGCAC-AGATGTG
1 CTAATAATCAGAGAGCACTA-ACGTG
* *
48442694 CT-A-AA-CAGAGAGTACTGACGTG
1 CTAATAATCAGAGAGCACTAACGTG
*
48442716 CTAGTAATCAGAGAGCACTAACGTG
1 CTAATAATCAGAGAGCACTAACGTG
*
48442741 CTAATAATCAGAGAGCACCAACGTG
1 CTAATAATCAGAGAGCACTAACGTG
48442766 CTAATAATCAGAGAGC
1 CTAATAATCAGAGAGC
48442782 GCGCTAAAGT
Statistics
Matches: 95, Mismatches: 9, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
21 1 0.01
22 34 0.36
24 4 0.04
25 56 0.59
ACGTcount: A:0.39, C:0.19, G:0.24, T:0.18
Consensus pattern (25 bp):
CTAATAATCAGAGAGCACTAACGTG
Found at i:48445036 original size:21 final size:21
Alignment explanation
Indices: 48445012--48445051 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
48445002 TCTTTTCATA
* *
48445012 TTAATTTCATGTATCATTTAC
1 TTAACTTCATATATCATTTAC
48445033 TTAACTTCATATATCATTT
1 TTAACTTCATATATCATTT
48445052 CATAAATATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.15, G:0.03, T:0.53
Consensus pattern (21 bp):
TTAACTTCATATATCATTTAC
Found at i:48446523 original size:23 final size:23
Alignment explanation
Indices: 48446497--48446592 Score: 113
Period size: 23 Copynumber: 4.2 Consensus size: 23
48446487 ATAAATGCCA
48446497 CACTAATATGTAGCCGAAGCTAC
1 CACTAATATGTAGCCGAAGCTAC
* * * *
48446520 CACTGATAAGTAGCTGTAGCTAC
1 CACTAATATGTAGCCGAAGCTAC
*
48446543 CACTGAA-ATGTAGCTGAAGCTAC
1 CACT-AATATGTAGCCGAAGCTAC
* *
48446566 CACTAATGTGTAGCCGTAGCTAC
1 CACTAATATGTAGCCGAAGCTAC
48446589 CACT
1 CACT
48446593 GATCAATAAC
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
22 2 0.03
23 58 0.95
24 1 0.02
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (23 bp):
CACTAATATGTAGCCGAAGCTAC
Found at i:48446579 original size:46 final size:46
Alignment explanation
Indices: 48446504--48446594 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 46
48446494 CCACACTAAT
* *
48446504 ATGTAGCCGAAGCTACCACTGATAAGTAGCTGTAGCTACCACTGAA
1 ATGTAGCCGAAGCTACCACTAATAAGTAGCCGTAGCTACCACTGAA
* **
48446550 ATGTAGCTGAAGCTACCACTAATGTGTAGCCGTAGCTACCACTGA
1 ATGTAGCCGAAGCTACCACTAATAAGTAGCCGTAGCTACCACTGA
48446595 TCAATAACAC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (46 bp):
ATGTAGCCGAAGCTACCACTAATAAGTAGCCGTAGCTACCACTGAA
Found at i:48447805 original size:18 final size:18
Alignment explanation
Indices: 48447782--48447817 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
48447772 CAAACGTCAA
48447782 AATTTTCAAACGAATTTT
1 AATTTTCAAACGAATTTT
48447800 AATTTTCAAACGAATTTT
1 AATTTTCAAACGAATTTT
48447818 TCACAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (18 bp):
AATTTTCAAACGAATTTT
Found at i:48449587 original size:19 final size:18
Alignment explanation
Indices: 48449546--48449619 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 18
48449536 AACAAAAACT
*
48449546 TGGCACATGAAGTGCATAC
1 TGGCACAT-AAGCGCATAC
* *
48449565 TGGCGCATAAGCGCATATT
1 TGGCACATAAGCGCATA-C
*
48449584 TGGCACATGAAGTGCATAC
1 TGGCACAT-AAGCGCATAC
*
48449603 TGGCACATAAGCTCATA
1 TGGCACATAAGCGCATA
48449620 ATATTGTACT
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
18 15 0.33
19 22 0.49
20 8 0.18
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.23
Consensus pattern (18 bp):
TGGCACATAAGCGCATAC
Found at i:48449589 original size:38 final size:38
Alignment explanation
Indices: 48449545--48449619 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 38
48449535 AAACAAAAAC
*
48449545 TTGGCACATGAAGTGCATACTGGCGCATAAGCGCATAT
1 TTGGCACATGAAGTGCATACTGGCACATAAGCGCATAT
*
48449583 TTGGCACATGAAGTGCATACTGGCACATAAGCTCATA
1 TTGGCACATGAAGTGCATACTGGCACATAAGCGCATA
48449620 ATATTGTACT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (38 bp):
TTGGCACATGAAGTGCATACTGGCACATAAGCGCATAT
Found at i:48449706 original size:6 final size:6
Alignment explanation
Indices: 48449695--48449725 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
48449685 GGTATCAAAA
*
48449695 TCCAAT TCCAAT TCCAAT TCAAAT TCCAAT T
1 TCCAAT TCCAAT TCCAAT TCCAAT TCCAAT T
48449726 TAGTACACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.35, C:0.29, G:0.00, T:0.35
Consensus pattern (6 bp):
TCCAAT
Found at i:48449712 original size:12 final size:12
Alignment explanation
Indices: 48449689--48449725 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
48449679 TAATAGGGTA
*
48449689 TCAAAATCCAAT
1 TCAAATTCCAAT
*
48449701 TCCAATTCCAAT
1 TCAAATTCCAAT
48449713 TCAAATTCCAAT
1 TCAAATTCCAAT
48449725 T
1 T
48449726 TAGTACACTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.41, C:0.27, G:0.00, T:0.32
Consensus pattern (12 bp):
TCAAATTCCAAT
Found at i:48451280 original size:23 final size:22
Alignment explanation
Indices: 48451237--48451294 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
48451227 AAAGGGTATC
* *
48451237 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
48451258 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
48451281 TGCATATCATATCT
1 TACAAATCATATCT
48451295 AACATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:48456319 original size:45 final size:45
Alignment explanation
Indices: 48456270--48456425 Score: 147
Period size: 46 Copynumber: 3.4 Consensus size: 45
48456260 TAATCATACG
*
48456270 TGATAAATTCAAAATATTAATATATAATAAATTTAAA-AATATTAA
1 TGATAAATTTAAAATA-TAATATATAATAAATTTAAATAATATTAA
* * *
48456315 TGATAAATTTGAAATA-AATATACATGATAAATTTAAATAATGTTAA
1 TGATAAATTTAAAATATAATAT--ATAATAAATTTAAATAATATTAA
* * * * *
48456361 TGATGAGTTTAAAATAATAACATATTAA-AAATTAAAATAATATTGA
1 TGATAAATTTAAAAT-ATAATATA-TAATAAATTTAAATAATATTAA
*
48456407 TAATAAATTTAAAAATATA
1 TGATAAATTT-AAAATATA
48456426 TTAAGCTTGA
Statistics
Matches: 89, Mismatches: 15, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
43 5 0.06
45 27 0.30
46 45 0.51
47 8 0.09
48 4 0.04
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.37
Consensus pattern (45 bp):
TGATAAATTTAAAATATAATATATAATAAATTTAAATAATATTAA
Found at i:48456320 original size:24 final size:24
Alignment explanation
Indices: 48456272--48456320 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
48456262 ATCATACGTG
* *
48456272 ATAAATTCAAAATATTAATATATA
1 ATAAATTAAAAATATTAATAGATA
48456296 ATAAATTTAAAAATATTAAT-GATA
1 ATAAA-TTAAAAATATTAATAGATA
48456320 A
1 A
48456321 ATTTGAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (24 bp):
ATAAATTAAAAATATTAATAGATA
Found at i:48456333 original size:24 final size:23
Alignment explanation
Indices: 48456296--48456429 Score: 84
Period size: 22 Copynumber: 5.9 Consensus size: 23
48456286 TTAATATATA
48456296 ATAAATTT-AA-AAATATTAATG
1 ATAAATTTAAATAAATATTAATG
48456317 ATAAATTTGAAATAAATA-TACATG
1 ATAAATTT-AAATAAATATTA-ATG
*
48456341 ATAAATTTAAAT-AATGTTAATG
1 ATAAATTTAAATAAATATTAATG
* * ** *
48456363 ATGAGTTTAAA-ATAATAACATATT
1 ATAAATTTAAATA-AATATTA-ATG
* * * *
48456387 AAAAATTAAAAT-AATATTGATA
1 ATAAATTTAAATAAATATTAATG
48456409 ATAAATTTAAA-AATATATTAA
1 ATAAATTTAAATAA-ATATTAA
48456430 GCTTGAACAT
Statistics
Matches: 84, Mismatches: 18, Indels: 20
0.69 0.15 0.16
Matches are distributed among these distances:
21 8 0.10
22 27 0.32
23 24 0.29
24 25 0.30
ACGTcount: A:0.56, C:0.01, G:0.06, T:0.37
Consensus pattern (23 bp):
ATAAATTTAAATAAATATTAATG
Found at i:48456418 original size:23 final size:23
Alignment explanation
Indices: 48456272--48456429 Score: 96
Period size: 23 Copynumber: 6.9 Consensus size: 23
48456262 ATCATACGTG
* * *
48456272 ATAAATTCAAAATATTAATATATA
1 ATAAATTTAAAATAATATTA-ATA
*
48456296 ATAAATTT-AAA-AATATTAATG
1 ATAAATTTAAAATAATATTAATA
* *
48456317 ATAAATTTGAAATAA-ATATACATG
1 ATAAATTTAAAATAATAT-TA-ATA
* *
48456341 ATAAATTT-AAATAATGTTAATG
1 ATAAATTTAAAATAATATTAATA
* *
48456363 ATGAGTTTAAAATAATA--ACATA
1 ATAAATTTAAAATAATATTA-ATA
* * *
48456385 TTAAAAATTAAAATAATATTGATA
1 AT-AAATTTAAAATAATATTAATA
48456409 ATAAATTTAAAA-ATATATTAA
1 ATAAATTTAAAATA-ATATTAA
48456430 GCTTGAACAT
Statistics
Matches: 106, Mismatches: 17, Indels: 23
0.73 0.12 0.16
Matches are distributed among these distances:
21 11 0.10
22 23 0.22
23 49 0.46
24 23 0.22
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (23 bp):
ATAAATTTAAAATAATATTAATA
Found at i:48458054 original size:50 final size:50
Alignment explanation
Indices: 48457995--48458110 Score: 207
Period size: 50 Copynumber: 2.3 Consensus size: 50
48457985 ATAAAATATC
48457995 TATTAAGTACAAGATTCTAAATAAAAATATCAATTATTTCAAACAAGTTG
1 TATTAAGTACAAGATTCTAAATAAAAATATCAATTATTTCAAACAAGTTG
48458045 TATTAAGTACAAGATTCTAAATAAAAATATCAATTATTTCAAACAAGTTG
1 TATTAAGTACAAGATTCTAAATAAAAATATCAATTATTTCAAACAAGTTG
48458095 TGATTATA-TACAAGAT
1 T-ATTA-AGTACAAGAT
48458111 AGGGAATAAA
Statistics
Matches: 64, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
50 51 0.80
51 12 0.19
52 1 0.02
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.34
Consensus pattern (50 bp):
TATTAAGTACAAGATTCTAAATAAAAATATCAATTATTTCAAACAAGTTG
Found at i:48459222 original size:22 final size:22
Alignment explanation
Indices: 48459195--48459237 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
48459185 CTAGTACCTA
48459195 GGAATTATACATGAAAACTAAG
1 GGAATTATACATGAAAACTAAG
48459217 GGAATTATACATGAAAACTAA
1 GGAATTATACATGAAAACTAA
48459238 CTAGACAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.09, G:0.16, T:0.23
Consensus pattern (22 bp):
GGAATTATACATGAAAACTAAG
Found at i:48463135 original size:42 final size:42
Alignment explanation
Indices: 48463089--48463191 Score: 118
Period size: 42 Copynumber: 2.5 Consensus size: 42
48463079 TGCTAAACAG
* * * **
48463089 AAACCCATAAAGGTTAGACAGAAG-TTCATAGGAGCTGAACGA
1 AAACCCATAAGGGTTAAACAGAAGCTCCA-AAAAGCTGAACGA
* * *
48463131 AAACCCATACGGGTTAAACTGAAGCTCCAAAAAGCTGAACGG
1 AAACCCATAAGGGTTAAACAGAAGCTCCAAAAAGCTGAACGA
48463173 AAACCCATAAGGGTTAAAC
1 AAACCCATAAGGGTTAAAC
48463192 TGAAACTCAT
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 48 0.94
43 3 0.06
ACGTcount: A:0.43, C:0.20, G:0.21, T:0.16
Consensus pattern (42 bp):
AAACCCATAAGGGTTAAACAGAAGCTCCAAAAAGCTGAACGA
Found at i:48463202 original size:21 final size:20
Alignment explanation
Indices: 48463172--48463236 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
48463162 AAGCTGAACG
* *
48463172 GAAACCCATAAGGGTTAAACT
1 GAAACTCATAAGAGTTAAA-T
*
48463193 GAAACTCATATGAGTTAAAT
1 GAAACTCATAAGAGTTAAAT
* * * *
48463213 GAAGCTCATGAGAGCTAAAC
1 GAAACTCATAAGAGTTAAAT
48463233 GAAA
1 GAAA
48463237 AGTAAACATG
Statistics
Matches: 35, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
20 19 0.54
21 16 0.46
ACGTcount: A:0.45, C:0.15, G:0.20, T:0.20
Consensus pattern (20 bp):
GAAACTCATAAGAGTTAAAT
Found at i:48468947 original size:21 final size:21
Alignment explanation
Indices: 48468923--48469041 Score: 112
Period size: 21 Copynumber: 5.7 Consensus size: 21
48468913 AGTTAACTCA
* *
48468923 TATGAGTTTCCGTTTAACCCC
1 TATGAGTTTCCGTTCAACCCT
* **
48468944 TATGAGTTTCCATTCAACTTT
1 TATGAGTTTCCGTTCAACCCT
* * * *
48468965 TTTGAGCTTCAGTTTAACCCT
1 TATGAGTTTCCGTTCAACCCT
* *
48468986 TATGGGTTTCCGTTCAACTCT
1 TATGAGTTTCCGTTCAACCCT
* *
48469007 TACGAGCTTCCGTTCAACCCT
1 TATGAGTTTCCGTTCAACCCT
*
48469028 TATGGGTTTCCGTT
1 TATGAGTTTCCGTT
48469042 TAGCTCTCAT
Statistics
Matches: 73, Mismatches: 25, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 73 1.00
ACGTcount: A:0.18, C:0.25, G:0.16, T:0.41
Consensus pattern (21 bp):
TATGAGTTTCCGTTCAACCCT
Found at i:48468981 original size:42 final size:42
Alignment explanation
Indices: 48468917--48469057 Score: 156
Period size: 42 Copynumber: 3.4 Consensus size: 42
48468907 AGCTTTAGTT
* * * *
48468917 AACTCATATGAGTTTCCGTTTAACCCCTATGAGTTTCCATTC
1 AACTCTTATGAGCTTCCGTTTAACCCTTATGGGTTTCCATTC
* * * *
48468959 AACTTTTTTGAGCTTCAGTTTAACCCTTATGGGTTTCCGTTC
1 AACTCTTATGAGCTTCCGTTTAACCCTTATGGGTTTCCATTC
* * * *
48469001 AACTCTTACGAGCTTCCGTTCAACCCTTATGGGTTTCCGTTT
1 AACTCTTATGAGCTTCCGTTTAACCCTTATGGGTTTCCATTC
* *
48469043 AGCTCTCATGAGCTT
1 AACTCTTATGAGCTT
48469058 TTGTTTAGCC
Statistics
Matches: 82, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 82 1.00
ACGTcount: A:0.19, C:0.26, G:0.16, T:0.40
Consensus pattern (42 bp):
AACTCTTATGAGCTTCCGTTTAACCCTTATGGGTTTCCATTC
Found at i:48469023 original size:63 final size:62
Alignment explanation
Indices: 48468905--48469024 Score: 141
Period size: 63 Copynumber: 1.9 Consensus size: 62
48468895 TTAGATCTTA
* * * * *
48468905 TGAGCTTTAGTTAACTCATATGAGTTTCCGTTTAACCCCTATGAGTTTCCATTCAACTTTTT
1 TGAGCTTCAGTTAACCCATATGAGTTTCCGTTCAACCCCTACGAGCTTCCATTCAACTTTTT
* * * * *
48468967 TGAGCTTCAGTTTAACCCTTATGGGTTTCCGTTCAACTCTTACGAGCTTCCGTTCAAC
1 TGAGCTTCAG-TTAACCCATATGAGTTTCCGTTCAACCCCTACGAGCTTCCATTCAAC
48469025 CCTTATGGGT
Statistics
Matches: 47, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
62 9 0.19
63 38 0.81
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (62 bp):
TGAGCTTCAGTTAACCCATATGAGTTTCCGTTCAACCCCTACGAGCTTCCATTCAACTTTTT
Found at i:48471850 original size:9 final size:9
Alignment explanation
Indices: 48471833--48471869 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
48471823 TGAGTTTTCG
48471833 AATTCGAAT
1 AATTCGAAT
*
48471842 AACTCGAAT
1 AATTCGAAT
48471851 AATTCGAAT
1 AATTCGAAT
48471860 AATTCGAAT
1 AATTCGAAT
48471869 A
1 A
48471870 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:48473340 original size:34 final size:35
Alignment explanation
Indices: 48473281--48473349 Score: 122
Period size: 34 Copynumber: 2.0 Consensus size: 35
48473271 AATATTTATG
*
48473281 GCTCGGTTTATAAAATCAAGGTCTCGATGCCTCTT
1 GCTCGGTTTATAAAATCAAGGTCTCGATACCTCTT
48473316 GCTCGGTTTATAAAA-CAAGGTCTCGATACCTCTT
1 GCTCGGTTTATAAAATCAAGGTCTCGATACCTCTT
48473350 TTTCTTAATC
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 18 0.55
35 15 0.45
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (35 bp):
GCTCGGTTTATAAAATCAAGGTCTCGATACCTCTT
Found at i:48474905 original size:27 final size:26
Alignment explanation
Indices: 48474875--48474932 Score: 75
Period size: 25 Copynumber: 2.2 Consensus size: 26
48474865 CACATAATCA
48474875 GGAAGCCCTC-TCTCGAGCCATATAACG
1 GGAAG-CCTCATCT-GAGCCATATAACG
*
48474902 GGAAG-CTCATGTGAGCCATATAACG
1 GGAAGCCTCATCTGAGCCATATAACG
48474927 GGAAGC
1 GGAAGC
48474933 TTATCCAGGC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 21 0.75
26 2 0.07
27 5 0.18
ACGTcount: A:0.29, C:0.26, G:0.28, T:0.17
Consensus pattern (26 bp):
GGAAGCCTCATCTGAGCCATATAACG
Found at i:48474919 original size:25 final size:25
Alignment explanation
Indices: 48474889--48475113 Score: 135
Period size: 24 Copynumber: 9.2 Consensus size: 25
48474879 GCCCTCTCTC
*
48474889 GAGCCATATAACGGGAAGCTCATGT
1 GAGCCATATAACGGGAAGCTCATGA
* *
48474914 GAGCCATATAACGGGAAGCTTATCCA
1 GAGCCATATAACGGGAAGCTCAT-GA
** * *
48474940 G-GCTGTATAATGGGAAGCTCATAA
1 GAGCCATATAACGGGAAGCTCATGA
** *
48474964 GAGCCATA-ATTGGGAAGCTCATGC
1 GAGCCATATAACGGGAAGCTCATGA
* *
48474988 GAGCCA-ATAACGGGTAGCTC-CGAA
1 GAGCCATATAACGGGAAGCTCATG-A
*
48475012 GAGCCAT-TAATGGGAAGCTC-TGAA
1 GAGCCATATAACGGGAAGCTCATG-A
* * * * * *
48475036 TAGCCATATATCGAGAAGTTCAAGT
1 GAGCCATATAACGGGAAGCTCATGA
* **
48475061 GAGCCATAT--TGGGAAGCTCACAAA
1 GAGCCATATAACGGGAAGCTCA-TGA
*
48475085 GAGCCATATAACGGGACA-CTCATAA
1 GAGCCATATAACGGGA-AGCTCATGA
48475110 GAGC
1 GAGC
48475114 TGTGGTGTGT
Statistics
Matches: 153, Mismatches: 36, Indels: 22
0.73 0.17 0.10
Matches are distributed among these distances:
23 10 0.07
24 66 0.43
25 66 0.43
26 10 0.07
27 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.20
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTCATGA
Found at i:48479614 original size:7 final size:7
Alignment explanation
Indices: 48479602--48479628 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
48479592 TTATTTCTTT
48479602 ATTTCAA
1 ATTTCAA
48479609 ATTTCAA
1 ATTTCAA
48479616 ATTTCAA
1 ATTTCAA
48479623 ATTTCA
1 ATTTCA
48479629 CTTTTCACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (7 bp):
ATTTCAA
Found at i:48479778 original size:6 final size:6
Alignment explanation
Indices: 48479741--48479783 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
48479731 CCAAACACAC
* *
48479741 CAGTAAA CAGTAA TCAGTAA CGGTAG CAGTAA CAGTAA CAGTA
1 CAGT-AA CAGTAA -CAGTAA CAGTAA CAGTAA CAGTAA CAGTA
48479784 TTCAACACAC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
6 21 0.68
7 10 0.32
ACGTcount: A:0.44, C:0.16, G:0.21, T:0.19
Consensus pattern (6 bp):
CAGTAA
Found at i:48479831 original size:45 final size:44
Alignment explanation
Indices: 48479767--48479912 Score: 202
Period size: 45 Copynumber: 3.2 Consensus size: 44
48479757 GTAACGGTAG
* * *
48479767 CAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAACCTGTAA
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATC-GTAA
* *
48479812 CAGTAACGGTAACAGTATTCGACACACAAAGTGCCGAGTCGATAA
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCG-TAA
* *
48479857 CAATAATAGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAA
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATC-GTAA
48479902 CAGTAACAGTA
1 CAGTAACAGTA
48479913 GTCGGCACAT
Statistics
Matches: 88, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
44 1 0.01
45 86 0.98
46 1 0.01
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.19
Consensus pattern (44 bp):
CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGTAA
Found at i:48480903 original size:9 final size:9
Alignment explanation
Indices: 48480859--48480885 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
48480849 CATTTGAATA
48480859 AATAATTAT
1 AATAATTAT
48480868 AATAATTAT
1 AATAATTAT
48480877 AATAATTAT
1 AATAATTAT
48480886 GTACATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
AATAATTAT
Found at i:48483458 original size:19 final size:19
Alignment explanation
Indices: 48483434--48483472 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
48483424 TTTCGTAAAT
48483434 TATATAATGTA-TGATGAAA
1 TATAT-ATGTATTGATGAAA
*
48483453 TATATATTTATTGATGAAA
1 TATATATGTATTGATGAAA
48483472 T
1 T
48483473 GAGAATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.44
Consensus pattern (19 bp):
TATATATGTATTGATGAAA
Found at i:48483624 original size:37 final size:37
Alignment explanation
Indices: 48483583--48483691 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
48483573 GGTAGCTTTA
48483583 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
48483620 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
48483657 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
48483692 ATCATACGTA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
35 11 0.16
36 4 0.06
37 52 0.78
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:48487458 original size:23 final size:23
Alignment explanation
Indices: 48487428--48487474 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
48487418 CTTATTACTG
48487428 AGAGTAATTACTTTGTGGGTGCT
1 AGAGTAATTACTTTGTGGGTGCT
*
48487451 AGAGTAATTACTTTGTGGTTGCT
1 AGAGTAATTACTTTGTGGGTGCT
48487474 A
1 A
48487475 ATCTCAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.23, C:0.09, G:0.28, T:0.40
Consensus pattern (23 bp):
AGAGTAATTACTTTGTGGGTGCT
Found at i:48487906 original size:12 final size:12
Alignment explanation
Indices: 48487889--48487913 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
48487879 TATTCGTGGT
48487889 AGGAGATCCAGA
1 AGGAGATCCAGA
48487901 AGGAGATCCAGA
1 AGGAGATCCAGA
48487913 A
1 A
48487914 ATGACAAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.16, G:0.32, T:0.08
Consensus pattern (12 bp):
AGGAGATCCAGA
Found at i:48489543 original size:50 final size:50
Alignment explanation
Indices: 48489468--48489568 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 50
48489458 AAAAAGATCC
48489468 TATTTATAGATTTCAGGTGGCCTTCGTCGTCAAACCTAGGTTAGTTGAAG
1 TATTTATAGATTTCAGGTGGCCTTCGTCGTCAAACCTAGGTTAGTTGAAG
*
48489518 TATTTATAGATTTTAGGTGGCCTTCGTCGTCAAACCTAGGTTAGTTGAAG
1 TATTTATAGATTTCAGGTGGCCTTCGTCGTCAAACCTAGGTTAGTTGAAG
48489568 T
1 T
48489569 TCTAGAGCTT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.38
Consensus pattern (50 bp):
TATTTATAGATTTCAGGTGGCCTTCGTCGTCAAACCTAGGTTAGTTGAAG
Found at i:48494053 original size:8 final size:8
Alignment explanation
Indices: 48494042--48494066 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
48494032 CCACCTACCC
48494042 CCCACTTG
1 CCCACTTG
48494050 CCCACTTG
1 CCCACTTG
48494058 CCCACTTG
1 CCCACTTG
48494066 C
1 C
48494067 GCCGAACACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.52, G:0.12, T:0.24
Consensus pattern (8 bp):
CCCACTTG
Found at i:48494561 original size:11 final size:11
Alignment explanation
Indices: 48494545--48494579 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
48494535 CCCTTCCCCC
48494545 CTCCCTTCTCT
1 CTCCCTTCTCT
48494556 CTCCCTTCTCT
1 CTCCCTTCTCT
48494567 CTTCCC-TCTCT
1 C-TCCCTTCTCT
48494578 CT
1 CT
48494580 TTTTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.04
11 18 0.78
12 4 0.17
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:48498546 original size:15 final size:16
Alignment explanation
Indices: 48498521--48498554 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
48498511 TTACTAGATC
48498521 TGCAGATAGCTTTCCT
1 TGCAGATAGCTTTCCT
48498537 TGCA-ATAGCTTTCCT
1 TGCAGATAGCTTTCCT
48498552 TGC
1 TGC
48498555 TCCTGATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.18, C:0.26, G:0.18, T:0.38
Consensus pattern (16 bp):
TGCAGATAGCTTTCCT
Found at i:48498662 original size:60 final size:60
Alignment explanation
Indices: 48498590--48498710 Score: 233
Period size: 60 Copynumber: 2.0 Consensus size: 60
48498580 GCTTTTCTGA
48498590 ATTGCCATCCTTGTCATTGCCTTTAAGATAATCAGCGAACCAGCAAGCAGTAGCTCTTTC
1 ATTGCCATCCTTGTCATTGCCTTTAAGATAATCAGCGAACCAGCAAGCAGTAGCTCTTTC
*
48498650 ATTGCCATCCTTGTCATTGCCTTTAAGATAATCAGCGAACCAGGAAGCAGTAGCTCTTTC
1 ATTGCCATCCTTGTCATTGCCTTTAAGATAATCAGCGAACCAGCAAGCAGTAGCTCTTTC
48498710 A
1 A
48498711 GACTTCACCA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (60 bp):
ATTGCCATCCTTGTCATTGCCTTTAAGATAATCAGCGAACCAGCAAGCAGTAGCTCTTTC
Found at i:48504731 original size:15 final size:15
Alignment explanation
Indices: 48504706--48504738 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
48504696 AATTGTTTCA
48504706 ATTTTATTTTAT-TT
1 ATTTTATTTTATATT
48504720 ATTTTAATTTTATATT
1 ATTTT-ATTTTATATT
48504736 ATT
1 ATT
48504739 CTATAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 7 0.41
16 5 0.29
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
ATTTTATTTTATATT
Found at i:48504759 original size:12 final size:12
Alignment explanation
Indices: 48504742--48504766 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
48504732 TATTATTCTA
48504742 TAAAATTTAATT
1 TAAAATTTAATT
48504754 TAAAATTTAATT
1 TAAAATTTAATT
48504766 T
1 T
48504767 TTTATTTAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TAAAATTTAATT
Found at i:48507330 original size:40 final size:41
Alignment explanation
Indices: 48507236--48507349 Score: 149
Period size: 41 Copynumber: 2.8 Consensus size: 41
48507226 TACCACCGCT
* * *
48507236 CTCCCATCCCTCTCCCTCTTCCCCACCATCCCCCCCCCCTA
1 CTCCGATCCCTCTCCCTCTCCCCCACCATCCCTCCCCCCTA
** *
48507277 CTCCGATTTCTCTCCCTCTCCCCCACCATCCCTGCCCCCTA
1 CTCCGATCCCTCTCCCTCTCCCCCACCATCCCTCCCCCCTA
* *
48507318 CTCTGA-CCCTCTCCCTCTCCCCCACCGTCCCT
1 CTCCGATCCCTCTCCCTCTCCCCCACCATCCCT
48507350 TTCCCTCTGC
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
40 23 0.37
41 40 0.63
ACGTcount: A:0.09, C:0.63, G:0.04, T:0.25
Consensus pattern (41 bp):
CTCCGATCCCTCTCCCTCTCCCCCACCATCCCTCCCCCCTA
Found at i:48511396 original size:32 final size:31
Alignment explanation
Indices: 48511360--48511420 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 31
48511350 TATTTTTATA
*
48511360 TTTTTTTAATGATTTTT-AATTTTTAGAAATAG
1 TTTTTATAAT-ATTTTTGAATTTTTA-AAATAG
*
48511392 TTTTTATAATTTTTTTGAATTTTTAAAAT
1 TTTTTATAATATTTTTGAATTTTTAAAAT
48511421 TTTAAAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 9 0.35
32 17 0.65
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (31 bp):
TTTTTATAATATTTTTGAATTTTTAAAATAG
Found at i:48511422 original size:41 final size:41
Alignment explanation
Indices: 48511302--48511423 Score: 115
Period size: 42 Copynumber: 2.9 Consensus size: 41
48511292 ATCATCATAT
* ** *
48511302 ATATGATATTTTAATATTTAATTAATTTATTAAAAATTTTAGA
1 ATAT-ATATTTTTATATTTTTTTAATTT-TTAAAATTTTTAGA
*
48511345 ATATATATTTTTATATTTTTTTAATGATTTT-TAATTTTTAGA
1 ATATATATTTTTATATTTTTTTAAT--TTTTAAAATTTTTAGA
*
48511387 A-ATA-GTTTTTATAATTTTTTTGAATTTTTAAAATTTT
1 ATATATATTTTTAT-ATTTTTTT-AATTTTTAAAATTTT
48511424 AAAAAATTAA
Statistics
Matches: 67, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
40 11 0.16
41 17 0.25
42 31 0.46
43 6 0.09
44 2 0.03
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (41 bp):
ATATATATTTTTATATTTTTTTAATTTTTAAAATTTTTAGA
Found at i:48517471 original size:20 final size:20
Alignment explanation
Indices: 48517437--48517478 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
48517427 AATTATTTAA
** *
48517437 ATAATATTATTTGAATACTT
1 ATAATATTAAATGAATAATT
48517457 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
48517477 AT
1 AT
48517479 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:48518620 original size:21 final size:21
Alignment explanation
Indices: 48518596--48518635 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
48518586 AATTTCACCG
* *
48518596 CTACAGTATCCAATCTCACTA
1 CTACAATAACCAATCTCACTA
*
48518617 CTACAATAACTAATCTCAC
1 CTACAATAACCAATCTCAC
48518636 CGCCACTACT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.33, G:0.03, T:0.28
Consensus pattern (21 bp):
CTACAATAACCAATCTCACTA
Found at i:48519875 original size:714 final size:719
Alignment explanation
Indices: 48518492--48519938 Score: 2519
Period size: 714 Copynumber: 2.0 Consensus size: 719
48518482 GATATATATC
* **
48518492 AATTCTAATTTGATGTCCTTAAAAGTCATTTTCTATTCTCACTTCACCGTCACAGCTGTATTTGA
1 AATTCTAATTTGATGTCCTTAAAAGTCATTTTCTATTCTCACTTCACCATCACAGCTACATTTGA
*
48518557 ATCCAAACACATACTCCACCGTTGTTTCTAATTTCACCGCTACAGTATCCAATCTCACTACTACA
66 ATCCAAACACATACTCCACCGTTGTTTCTAATTTCACCGCTACAATATCCAATCTCACTACTACA
* *
48518622 ATAACTAATCTCACCGCCACTACTGTTTTTAACCTCACCGGAGCTAAATACACTGCCCATCCAAA
131 ATAACTAATCTCACCGCCACTACTGTTTTTAACCTCACCGGAACTAAATACACCGCCCATCCAAA
48518687 CTAAGCCTTTATATAATTTTCTATTACGATTGAAGAGTTAAAAGTCAATATATATAAACAACATC
196 CTAAGCCTTTATATAATTTTCTATTACGATTGAAGAGTT-AAAGTCAATATATATAAACAACATC
*
48518752 AACCATTAAAGTAACAATTTTTTTCTCTCCCTTGTTGGTTTCCTAATTTATTATCTTTATTTCAA
260 AACCATTAAAGTAACAATTTTTTTCTCTCCCTTGTTGGTTTCCTAAATTATTATCTTTATTTCAA
*
48518817 ATACTAAATTTTTGTTGAAACTCTACATATACTGTTAAAATATGTTGTTGATTTTTTTATAGAGG
325 ATACTAAATTTTTGTTGAAACTCTACATATAC---------ATGTTGTTGATTTTTTTATAGAAG
*
48518882 AAAAGAAAATCAGAATTAGTTAGCCCTCATATTACAACTTTCTCTATTATAAATATATTATAAAC
381 AAAAGAAAATCAGAATTAGTTAGCCCTCATATAACAACTTTCTCTATTATAAATATATTATAAAC
*
48518947 AATAATCGGAGGAACATCATATTCACTATGATAAATGATGGAACGCAAGGCCAATTTAACTAGCT
446 AATAATCGGAGGAACATCATATTCACTATGATAAATGATGGAACGCAAGGCCAATCTAACTAGCT
48519012 CATCTGTCACTTTGTTAAGCTCTCATAGCACGTGATTAATCAGAACCAACCAATATTGTGATATA
511 CATCTGTCACTTTGTTAAGCTCTCATAGCACGTGATTAATCAGAACCAACCAATATTGTGATATA
48519077 AATCCTTTAATTCTTCTAGAAATTGGCAAACTCTCCTCTTCACTTTCTTTAAGAATGTCGATTGC
576 AATCCTTTAATTCTTCTAGAAATTGGCAAACTCTCCTCTTCACTTTCTTTAAGAATGTCGATTGC
* * *
48519142 TTCCTTGCAGTCTACTTCCAACACAACTTTCGTAGCACCCCTCTCCTATGTGATCGAAAGTCCCT
641 TTCCTTGCAATCCACTTCCAACACAACTTTCGTAGCACCCCTCTCCTATATGATCGAAAGTCCCT
*
48519207 CATAGGCTCCTTAT
706 CATAGGCTCCTCAT
* *
48519221 AATTCTAATTTGATGTCCTTAAAAGTTATTTTCTATTCTCACTTCACCATCATAGCTACATTTGA
1 AATTCTAATTTGATGTCCTTAAAAGTCATTTTCTATTCTCACTTCACCATCACAGCTACATTTGA
* *
48519286 ATCCAAACACATACTCCA-CTTCTGTTTCTAATTTCACCGCTACAATATCCAATCTCACTACTAT
66 ATCCAAACACATACTCCACCGT-TGTTTCTAATTTCACCGCTACAATATCCAATCTCACTACTAC
48519350 AATAACTAATCTCACCGCCACTACTGTTTTTAACCTCACCGGAACTAAATACACCGCCCATCCAA
130 AATAACTAATCTCACCGCCACTACTGTTTTTAACCTCACCGGAACTAAATACACCGCCCATCCAA
48519415 ACTAAGCCTTTATATAATTTTCTATTACGATTGAAGAGTT-AAGTCAATATATATAAACAACATC
195 ACTAAGCCTTTATATAATTTTCTATTACGATTGAAGAGTTAAAGTCAATATATATAAACAACATC
48519479 AACCATTAAAGTAACAATTTTTTTCTCTCCCTTGTTGGTTTCCTAAATTATTATCTTTATTTCAA
260 AACCATTAAAGTAACAATTTTTTTCTCTCCCTTGTTGGTTTCCTAAATTATTATCTTTATTTCAA
*
48519544 ATACTAATTTTTTGTTGAAACTCTACATATAC-TG-T-TT-ATTTTTTTATAGAAGAAAAGAAAA
325 ATACTAAATTTTTGTTGAAACTCTACATATACATGTTGTTGATTTTTTTATAGAAGAAAAGAAAA
48519605 TCAGAATTAGTTAGCCCTCATATAACAACTTTCTCTATTATAAATATATTATAAACAATAATCGG
390 TCAGAATTAGTTAGCCCTCATATAACAACTTTCTCTATTATAAATATATTATAAACAATAATCGG
* *
48519670 AGGAACATCATATTCACTATGATAAATGGTGGAATGCAAGGCCAATCTAACTAGCTCATCTGTCA
455 AGGAACATCATATTCACTATGATAAATGATGGAACGCAAGGCCAATCTAACTAGCTCATCTGTCA
* *
48519735 CTTTGTTAAGCTCTCATGGCACGTGATTAATCAGAACCAACCAATATTGTGATATAAGTCCTTTA
520 CTTTGTTAAGCTCTCATAGCACGTGATTAATCAGAACCAACCAATATTGTGATATAAATCCTTTA
*
48519800 ATTCTTCTAGAAATTGGCAAACTCTCCTCTTCACTTTCTTTAAGAATGTTGATTGCTTCCTTGCA
585 ATTCTTCTAGAAATTGGCAAACTCTCCTCTTCACTTTCTTTAAGAATGTCGATTGCTTCCTTGCA
* *
48519865 ATCCACTTCCAACACAACTTTCGTAGCACCCCTCTCCTATATGATCGAAAGTCTCTCATAGGTTC
650 ATCCACTTCCAACACAACTTTCGTAGCACCCCTCTCCTATATGATCGAAAGTCCCTCATAGGCTC
48519930 CTCAT
715 CTCAT
48519935 AATT
1 AATT
48519939 TTACCTCCGA
Statistics
Matches: 691, Mismatches: 26, Indels: 17
0.94 0.04 0.02
Matches are distributed among these distances:
714 344 0.50
715 2 0.00
716 1 0.00
717 2 0.00
727 119 0.17
728 2 0.00
729 221 0.32
ACGTcount: A:0.32, C:0.22, G:0.10, T:0.35
Consensus pattern (719 bp):
AATTCTAATTTGATGTCCTTAAAAGTCATTTTCTATTCTCACTTCACCATCACAGCTACATTTGA
ATCCAAACACATACTCCACCGTTGTTTCTAATTTCACCGCTACAATATCCAATCTCACTACTACA
ATAACTAATCTCACCGCCACTACTGTTTTTAACCTCACCGGAACTAAATACACCGCCCATCCAAA
CTAAGCCTTTATATAATTTTCTATTACGATTGAAGAGTTAAAGTCAATATATATAAACAACATCA
ACCATTAAAGTAACAATTTTTTTCTCTCCCTTGTTGGTTTCCTAAATTATTATCTTTATTTCAAA
TACTAAATTTTTGTTGAAACTCTACATATACATGTTGTTGATTTTTTTATAGAAGAAAAGAAAAT
CAGAATTAGTTAGCCCTCATATAACAACTTTCTCTATTATAAATATATTATAAACAATAATCGGA
GGAACATCATATTCACTATGATAAATGATGGAACGCAAGGCCAATCTAACTAGCTCATCTGTCAC
TTTGTTAAGCTCTCATAGCACGTGATTAATCAGAACCAACCAATATTGTGATATAAATCCTTTAA
TTCTTCTAGAAATTGGCAAACTCTCCTCTTCACTTTCTTTAAGAATGTCGATTGCTTCCTTGCAA
TCCACTTCCAACACAACTTTCGTAGCACCCCTCTCCTATATGATCGAAAGTCCCTCATAGGCTCC
TCAT
Found at i:48533573 original size:62 final size:63
Alignment explanation
Indices: 48533458--48533584 Score: 238
Period size: 62 Copynumber: 2.0 Consensus size: 63
48533448 GAGTATCTAA
*
48533458 AATGATTTACTCTTGTCACAACAAAAGGGGTATGCTAAAGCTTTAATTTAAACAGGTTGCTTG
1 AATGATTTACTCTTGTCACAACAAAAGAGGTATGCTAAAGCTTTAATTTAAACAGGTTGCTTG
48533521 AATGATTTACTCTTGTCACAACAAAA-AGGTATGCTAAAGCTTTAATTTAAACAGGTTGCTTG
1 AATGATTTACTCTTGTCACAACAAAAGAGGTATGCTAAAGCTTTAATTTAAACAGGTTGCTTG
48533583 AA
1 AA
48533585 GGAGATCAAT
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
62 37 0.59
63 26 0.41
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.33
Consensus pattern (63 bp):
AATGATTTACTCTTGTCACAACAAAAGAGGTATGCTAAAGCTTTAATTTAAACAGGTTGCTTG
Found at i:48536783 original size:16 final size:18
Alignment explanation
Indices: 48536744--48536777 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
48536734 TAAGTTTATA
48536744 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
48536761 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
48536778 AATTTAGAAC
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:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:48537654 original size:21 final size:21
Alignment explanation
Indices: 48537628--48537668 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
48537618 CAACGTGGCA
48537628 AGTTAACTGGCCACACCAGCT
1 AGTTAACTGGCCACACCAGCT
* *
48537649 AGTTAACTTGCCACATCAGC
1 AGTTAACTGGCCACACCAGC
48537669 GGTCCCGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (21 bp):
AGTTAACTGGCCACACCAGCT
Found at i:48537766 original size:29 final size:30
Alignment explanation
Indices: 48537703--48537770 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 30
48537693 ACTGTTAATC
*
48537703 AGTGACTGTTTTGTCACTTTTTTATAACGTT
1 AGTGACTGTTTTGTCAC-TTTTTATAAAGTT
*
48537734 AGTGACTGTTTTGTTA-TTTTTA-AAAGTT
1 AGTGACTGTTTTGTCACTTTTTATAAAGTT
48537762 GAGTGACTG
1 -AGTGACTG
48537771 AAATGAAACC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 5 0.15
29 14 0.41
31 15 0.44
ACGTcount: A:0.22, C:0.09, G:0.21, T:0.49
Consensus pattern (30 bp):
AGTGACTGTTTTGTCACTTTTTATAAAGTT
Found at i:48538177 original size:355 final size:348
Alignment explanation
Indices: 48537532--48538191 Score: 1058
Period size: 355 Copynumber: 1.9 Consensus size: 348
48537522 CGATGCTTTC
* * *
48537532 TTCTTCTTTTTCTTCTTCTCTTCTCTGTTATTAGGGTTTTTTTTTTCAATTTCTTTTTAATTTGG
1 TTCTTCTTTTTCTTCTTCTCTTCTCTATTATTAGGGTTTTTTTTTTCAATTTCTTCTTAAATTGG
*
48537597 GTGGGTTTCACTGTAGACATCCAACGTGGCAAGTTAACTGGCCACACCAGCTAGTTAACTTGCCA
66 GTGGATTTCACTGTAGACATCCAACGTGGCAAGTTAACTGGCCACACCAGCTAGTTAACTTGCCA
*
48537662 CATCAGCGGTCCCGTTAAGACACTAACAGAAACTGTTAATCAGTGACTGTTTTGTCACTTTTTTA
131 CATCAGCGATCCCGTTAAGACACTAACAGAAAC--TTAATCAGTGACTGTTTTGTCACTTTTTTA
* * *
48537727 TAACGTTAGTGACTGTTTTGTTATTTTTAAAAGTTGAGTGACTGAAATGAAACCTAGGTGATTGT
194 TAACGTTAGTGACTATTTTGTTATTTTTAAAAGTTGAGTGACTGAAATGAAACCTAGGTGACTGC
48537792 TTTGTTAGCTACCCCAAAGTTGAGTGACTGTTGGTGTAATTTACCCATTTCTTTCTTTGGAAGAA
259 TTTGTTAGCTACCCCAAAGTTGAGTGACTGTTGGTGTAATTTACCCATTTCTTTCTTTGGAAGAA
48537857 AAACGTAGCAAAAAAATTAGGTATT
324 AAACGTAGCAAAAAAATTAGGTATT
48537882 TTCTTCTTTTTCTTCTTCTTCTTCTCTATTATTAGGG-TTTTTTTTTCAATTTCTTCTTAAATTG
1 TTCTTCTTTTTCTTCTTC-TCTTCTCTATTATTAGGGTTTTTTTTTTCAATTTCTTCTTAAATTG
* **
48537946 GGTGGATTTCCACTGTGGACATCCACGTTCAACGTGGCAAGTTAACTGGCCACATTAGCTAGTTA
65 GGTGGATTT-CACTGTAGACAT---C---CAACGTGGCAAGTTAACTGGCCACACCAGCTAGTTA
48538011 ACTTGCCACATCCA-CGATCCCGTTAAGACACTAAC-GAAAAC-TAATCAGTGACTGTTTTGTCA
123 ACTTGCCACAT-CAGCGATCCCGTTAAGACACTAACAG-AAACTTAATCAGTGACTGTTTTGTCA
* *
48538073 CTTTTTTATAATGTTAGTGTCTATTTTGTTATTTTTTAAAAGTTGAGTGACTGAAATGAAACCTA
186 CTTTTTTATAACGTTAGTGACTATTTTGTTA-TTTTTAAAAGTTGAGTGACTGAAATGAAACCTA
48538138 GGTGACTGCTTTGTTAGCTACCCCAAAGTTGAGTGACTGTTGGTGTAATTTACC
250 GGTGACTGCTTTGTTAGCTACCCCAAAGTTGAGTGACTGTTGGTGTAATTTACC
48538192 TTAAAATTAT
Statistics
Matches: 286, Mismatches: 13, Indels: 17
0.91 0.04 0.05
Matches are distributed among these distances:
350 51 0.18
351 28 0.10
354 50 0.17
355 85 0.30
356 1 0.00
357 69 0.24
358 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.40
Consensus pattern (348 bp):
TTCTTCTTTTTCTTCTTCTCTTCTCTATTATTAGGGTTTTTTTTTTCAATTTCTTCTTAAATTGG
GTGGATTTCACTGTAGACATCCAACGTGGCAAGTTAACTGGCCACACCAGCTAGTTAACTTGCCA
CATCAGCGATCCCGTTAAGACACTAACAGAAACTTAATCAGTGACTGTTTTGTCACTTTTTTATA
ACGTTAGTGACTATTTTGTTATTTTTAAAAGTTGAGTGACTGAAATGAAACCTAGGTGACTGCTT
TGTTAGCTACCCCAAAGTTGAGTGACTGTTGGTGTAATTTACCCATTTCTTTCTTTGGAAGAAAA
ACGTAGCAAAAAAATTAGGTATT
Found at i:48538880 original size:30 final size:30
Alignment explanation
Indices: 48538846--48538908 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
48538836 ACTTAACAAT
*
48538846 CAAATTCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTTTAAAATAATAACAAAATTAA
48538876 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTTTAAAATAATAACAAAATTAA
48538906 CAA
1 CAA
48538909 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.14, G:0.02, T:0.27
Consensus pattern (30 bp):
CAAATGCCTTTAAAATAATAACAAAATTAA
Found at i:48539589 original size:25 final size:22
Alignment explanation
Indices: 48539555--48539610 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 22
48539545 ATTTTCTACA
48539555 ATTTTTAATTTAAAAAATGTTTTT
1 ATTTTTAATTT-AAAAA-GTTTTT
* *
48539579 GTTTTTGAATTTTAAAAGTTTTT
1 ATTTTT-AATTTAAAAAGTTTTT
48539602 ATTTTTAAT
1 ATTTTTAAT
48539611 AAAATCATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 3 0.11
23 11 0.39
24 9 0.32
25 5 0.18
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (22 bp):
ATTTTTAATTTAAAAAGTTTTT
Found at i:48540771 original size:6 final size:6
Alignment explanation
Indices: 48540760--48540787 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
48540750 CCATCAACAT
48540760 TGCTCA TGCTCA TGCTCA TGCTCA TGCT
1 TGCTCA TGCTCA TGCTCA TGCTCA TGCT
48540788 GTCGCTCTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.32, G:0.18, T:0.36
Consensus pattern (6 bp):
TGCTCA
Found at i:48547583 original size:28 final size:28
Alignment explanation
Indices: 48547546--48547605 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 28
48547536 TACTAGCAGG
48547546 CCTAAACCCACCCAAG-CCCAAACTAAA
1 CCTAAACCCACCCAAGCCCCAAACTAAA
* *
48547573 CCTAATACCCACCTAAGCCCCAAACTAAC
1 CCTAA-ACCCACCCAAGCCCCAAACTAAA
48547602 CCTA
1 CCTA
48547606 GCCCAGCAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 5 0.17
28 10 0.34
29 14 0.48
ACGTcount: A:0.40, C:0.45, G:0.03, T:0.12
Consensus pattern (28 bp):
CCTAAACCCACCCAAGCCCCAAACTAAA
Found at i:48548789 original size:16 final size:17
Alignment explanation
Indices: 48548770--48548803 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
48548760 TTTTTAAAAC
48548770 TTTTATATATTT-TATA
1 TTTTATATATTTATATA
48548786 TTTTATATATTTATATA
1 TTTTATATATTTATATA
48548803 T
1 T
48548804 ACTCAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTATATATTTATATA
Found at i:48548976 original size:14 final size:14
Alignment explanation
Indices: 48548948--48548995 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
48548938 GTGTGTCTGA
48548948 TATATATTATATTTG
1 TATATATT-TATTTG
48548963 TATATATTTATTTG
1 TATATATTTATTTG
* * *
48548977 CAAATATTTATTCG
1 TATATATTTATTTG
48548991 TATAT
1 TATAT
48548996 GCTGTAAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 20 0.71
15 8 0.29
ACGTcount: A:0.33, C:0.04, G:0.06, T:0.56
Consensus pattern (14 bp):
TATATATTTATTTG
Found at i:48549966 original size:24 final size:24
Alignment explanation
Indices: 48549951--48550002 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
48549941 AATCAAAGTC
48549951 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
* * *
48549975 AAATATATTATACTCATAAATACT
1 AAATATATTATGCTAATAAATGCT
48549999 AAAT
1 AAAT
48550003 TTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:48558215 original size:30 final size:30
Alignment explanation
Indices: 48558180--48558236 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
48558170 ATCAGTTCCC
*
48558180 CCTCCCCACCTCATCAT-GCATATCATCCAA
1 CCTCCCCACCTCACCATAGC-TATCATCCAA
*
48558210 CCTCCCCTCCTCACCATAGCTATCATC
1 CCTCCCCACCTCACCATAGCTATCATC
48558237 AGCCCACCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 22 0.92
31 2 0.08
ACGTcount: A:0.23, C:0.49, G:0.04, T:0.25
Consensus pattern (30 bp):
CCTCCCCACCTCACCATAGCTATCATCCAA
Found at i:48571738 original size:31 final size:32
Alignment explanation
Indices: 48571678--48571748 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 32
48571668 AGTTTAGTAC
*
48571678 TTAAACTTGACATTTTTTTTCTAATTTGGTAG
1 TTAAACTTGACATTTTTTTTCTAAGTTGGTAG
* *
48571710 TTAAATTTGACATTTTTTTT-TAAGTTGGTAT
1 TTAAACTTGACATTTTTTTTCTAAGTTGGTAG
*
48571741 TTCAACTT
1 TTAAACTT
48571749 TTTCAAGTCC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 15 0.44
32 19 0.56
ACGTcount: A:0.25, C:0.08, G:0.11, T:0.55
Consensus pattern (32 bp):
TTAAACTTGACATTTTTTTTCTAAGTTGGTAG
Found at i:48572286 original size:26 final size:24
Alignment explanation
Indices: 48572234--48572288 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 24
48572224 TTTGTTTATG
* *
48572234 AAAATATTTTTATTTTCATTTTTA
1 AAAATATTTTTATTTTCACTTTGA
*
48572258 AAAATACTTTTTATTTTTTACTTTGA
1 AAAATA-TTTTTA-TTTTCACTTTGA
48572284 AAAAT
1 AAAAT
48572289 TAAAAAATGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 6 0.23
25 6 0.23
26 14 0.54
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.56
Consensus pattern (24 bp):
AAAATATTTTTATTTTCACTTTGA
Found at i:48573524 original size:29 final size:29
Alignment explanation
Indices: 48573470--48573525 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
48573460 TTTGAAGGAT
* ***
48573470 AAACTATTAAACAATTAGGTTGCTTAAGA
1 AAACTATTAAACAAGTAGGCAACTTAAGA
48573499 AAACTATTAAACAAGTAGGCAACTTAA
1 AAACTATTAAACAAGTAGGCAACTTAA
48573526 TAAAGATAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.27
Consensus pattern (29 bp):
AAACTATTAAACAAGTAGGCAACTTAAGA
Done.