Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_pilon, whole genome shotgun sequence
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: 12862612
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 38 of 56
Found at i:8533629 original size:165 final size:165
Alignment explanation
Indices: 8533357--8533683 Score: 503
Period size: 165 Copynumber: 2.0 Consensus size: 165
8533347 TATGGATGTG
* * * * ** *
8533357 GGAAATAGTTTACTAAGTAAGATACTATGGAAATTGTTTTCTTACTTTTTAACAATTTCATTTTC
1 GGAAATAGTTTACTAAGTAAAAAACTAAGAAAACCGTTTTCTTACTTTTCAACAATTTCATTTTC
** *
8533422 AAAAAAGATTGAATGAGAAACTATGGAAATCGTTTTCTCATTATTTTTCAAAATAACATGTTGAT
66 AAAAAAGATAAAATGAGAAACTATGGAAATCGTTTTCTCATTATTTTTCAAAATAACATGTTAAT
* *
8533487 TGGGTAACATGCCCCAATCTCAAGATAATGCTGTT
131 TGGGTAACATGACCCAAACTCAAGATAATGCTGTT
8533522 GGAAATAGTTTACTAAGTAAAAAAACTAAGAAAACCGTTTTCTTACTTTTCAACAATTTCATTTT
1 GGAAATAGTTTACTAAGT-AAAAAACTAAGAAAACCGTTTTCTTACTTTTCAACAATTTCATTTT
* *
8533587 -AGAAAAGATAAAATGAGAAACTATGGAAATCGTTTTCTCATTATTTTTCAAAATATCATGTTAA
65 CAAAAAAGATAAAATGAGAAACTATGGAAATCGTTTTCTCATTATTTTTCAAAATAACATGTTAA
*
8533651 TTGGGTAACATGACCCAAACTCAATATAATGCT
130 TTGGGTAACATGACCCAAACTCAAGATAATGCT
8533684 CATTCTTGTG
Statistics
Matches: 146, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
165 107 0.73
166 39 0.27
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (165 bp):
GGAAATAGTTTACTAAGTAAAAAACTAAGAAAACCGTTTTCTTACTTTTCAACAATTTCATTTTC
AAAAAAGATAAAATGAGAAACTATGGAAATCGTTTTCTCATTATTTTTCAAAATAACATGTTAAT
TGGGTAACATGACCCAAACTCAAGATAATGCTGTT
Found at i:8534215 original size:22 final size:22
Alignment explanation
Indices: 8534187--8534241 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
8534177 AATAAAGCTT
8534187 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
8534209 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
8534231 TCATCTTTGAA
1 TCATCTTTGAA
8534242 GAGTGTAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:8538486 original size:16 final size:16
Alignment explanation
Indices: 8538458--8538509 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
8538448 ATTTTTCCTT
*
8538458 TTTTTTTTC-TTTTTC
1 TTTTTTCTCATTTTTC
8538473 TTTTTTCTCATTTTTC
1 TTTTTTCTCATTTTTC
*
8538489 CTTTTTCATCTATTTTT-
1 TTTTTTC-TC-ATTTTTC
8538506 TTTT
1 TTTT
8538510 CTTTTTCCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
15 8 0.26
16 12 0.39
17 5 0.16
18 6 0.19
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTTCTCATTTTTC
Found at i:8538505 original size:34 final size:34
Alignment explanation
Indices: 8538441--8538509 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
8538431 CTTGATTCAA
** * *
8538441 TTTCTCCATTTTTCCTTTTTTTTTTCTTTTTCTTT
1 TTTCTCCATTTTTCCTTTTTCATCTATTTTT-TTT
8538476 TTTCT-CATTTTTCCTTTTTCATCTATTTTTTTT
1 TTTCTCCATTTTTCCTTTTTCATCTATTTTTTTT
8538509 T
1 T
8538510 CTTTTTCCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 4 0.13
34 21 0.70
35 5 0.17
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.75
Consensus pattern (34 bp):
TTTCTCCATTTTTCCTTTTTCATCTATTTTTTTT
Found at i:8543804 original size:22 final size:24
Alignment explanation
Indices: 8543776--8543819 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
8543766 TTAATACCTG
8543776 AATAAAATAA-ATAAAA-AATATT
1 AATAAAATAATATAAAATAATATT
8543798 AATAAAATAATATAAAATAATA
1 AATAAAATAATATAAAATAATA
8543820 AGTAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 10 0.50
23 6 0.30
24 4 0.20
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (24 bp):
AATAAAATAATATAAAATAATATT
Found at i:8543814 original size:10 final size:10
Alignment explanation
Indices: 8543777--8543819 Score: 50
Period size: 11 Copynumber: 4.1 Consensus size: 10
8543767 TAATACCTGA
8543777 ATAAAATAAAT
1 ATAAAAT-AAT
* *
8543788 AAAAAATATT
1 ATAAAATAAT
8543798 AATAAAATAAT
1 -ATAAAATAAT
8543809 ATAAAATAAT
1 ATAAAATAAT
8543819 A
1 A
8543820 AGTAAAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
10 13 0.48
11 14 0.52
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
ATAAAATAAT
Found at i:8543825 original size:22 final size:22
Alignment explanation
Indices: 8543776--8543831 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
8543766 TTAATACCTG
*
8543776 AATAAAATAAATAAAAAATATT
1 AATAAAATAAATAAAAAATAAT
*
8543798 AATAAAAT-AATATAAAATAAT
1 AATAAAATAAATAAAAAATAAT
*
8543819 AAGTAAAAAAAAT
1 AA-TAAAATAAAT
8543832 TTGAAAAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 13 0.45
22 13 0.45
23 3 0.10
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (22 bp):
AATAAAATAAATAAAAAATAAT
Found at i:8544345 original size:22 final size:22
Alignment explanation
Indices: 8544292--8544347 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
8544282 TTAAATTATA
8544292 ATTTATGAAA-ATATATTAATTT
1 ATTTA-GAAATATATATTAATTT
** * *
8544314 AAATATAAATATATATTTATTT
1 ATTTAGAAATATATATTAATTT
8544336 ATTTAGAAATAT
1 ATTTAGAAATAT
8544348 CAGAAAATGG
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
21 3 0.12
22 23 0.88
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (22 bp):
ATTTAGAAATATATATTAATTT
Found at i:8545645 original size:3 final size:3
Alignment explanation
Indices: 8545637--8545681 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
8545627 TAATATGGAC
*
8545637 ATT ATT ATT ATT ATT ATT ATT ACT -TT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
8545682 AAGGGGTTGG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
2 1 0.03
3 38 0.97
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:8545666 original size:20 final size:20
Alignment explanation
Indices: 8545641--8545678 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
8545631 ATGGACATTA
8545641 TTATTATTATTATTATTACT
1 TTATTATTATTATTATTACT
8545661 TTATTATTATTATTATTA
1 TTATTATTATTATTATTA
8545679 TTAAAGGGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (20 bp):
TTATTATTATTATTATTACT
Found at i:8545668 original size:23 final size:23
Alignment explanation
Indices: 8545638--8545681 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
8545628 AATATGGACA
8545638 TTATTATTATTATTATTATTACT
1 TTATTATTATTATTATTATTACT
8545661 TTATTATTATTATTATTATTA
1 TTATTATTATTATTATTATTA
8545682 AAGGGGTTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (23 bp):
TTATTATTATTATTATTATTACT
Found at i:8546372 original size:10 final size:10
Alignment explanation
Indices: 8546357--8546381 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
8546347 GATGTGTTCC
8546357 CCATATTTCA
1 CCATATTTCA
8546367 CCATATTTCA
1 CCATATTTCA
8546377 CCATA
1 CCATA
8546382 CACCTCTTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (10 bp):
CCATATTTCA
Found at i:8553057 original size:3 final size:3
Alignment explanation
Indices: 8553049--8553113 Score: 76
Period size: 3 Copynumber: 21.7 Consensus size: 3
8553039 ATATATATAT
** ** * *
8553049 ATA ATA ATA ATA ATA CCA ATA ATA ATA GGA GTA GTA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
8553097 ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA AT
8553114 TATTATTATT
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:8553118 original size:3 final size:3
Alignment explanation
Indices: 8553112--8553146 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
8553102 AATAATAATA
8553112 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
8553147 ATAAAAATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:8568421 original size:21 final size:21
Alignment explanation
Indices: 8568395--8568434 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
8568385 ATTTTACTAA
8568395 CTTATTTCCTTTCATTTTTGT
1 CTTATTTCCTTTCATTTTTGT
* *
8568416 CTTATTTCTTTTTATTTTT
1 CTTATTTCCTTTCATTTTT
8568435 TATCATTTTC
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:0.10, C:0.15, G:0.03, T:0.72
Consensus pattern (21 bp):
CTTATTTCCTTTCATTTTTGT
Found at i:8570492 original size:22 final size:21
Alignment explanation
Indices: 8570460--8570514 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 21
8570450 TTGTAAGGGT
*
8570460 TGTATCAATACCTGTTGAGA-G
1 TGTATCGATACCTG-TGAGATG
*
8570481 TGGTATCGATACC-GTGGGATG
1 T-GTATCGATACCTGTGAGATG
8570502 TGTATCGATACCT
1 TGTATCGATACCT
8570515 TAAGGAGGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
20 15 0.52
21 4 0.14
22 10 0.34
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (21 bp):
TGTATCGATACCTGTGAGATG
Found at i:8571049 original size:21 final size:21
Alignment explanation
Indices: 8571025--8571073 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
8571015 GTGTTACGAA
8571025 AATATGAACTTCGAA-CATGTG
1 AATATGAACTTCGAATCA-GTG
8571046 AATATGAACTTCGAATCAGTG
1 AATATGAACTTCGAATCAGTG
*
8571067 TATATGA
1 AATATGA
8571074 TTATACTCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 24 0.92
22 2 0.08
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (21 bp):
AATATGAACTTCGAATCAGTG
Found at i:8571299 original size:21 final size:21
Alignment explanation
Indices: 8571208--8571299 Score: 55
Period size: 21 Copynumber: 4.4 Consensus size: 21
8571198 GTCGATGGTC
* * *
8571208 TATGTGGTCATTCAGGATAAT
1 TATGTGGTCCTTCGGGACAAT
* *
8571229 TATGTGGT-CTTCTGGGATAAA
1 TATGTGGTCCTTC-GGGACAAT
* * *
8571250 T-TGTGG-CACTTTGGTACAAAC
1 TATGTGGTC-CTTCGGGAC-AAT
*
8571271 TATATGGTCCTTCGGGACAAT
1 TATGTGGTCCTTCGGGACAAT
8571292 TATGTGGT
1 TATGTGGT
8571300 ACTTTGGTGC
Statistics
Matches: 53, Mismatches: 12, Indels: 12
0.69 0.16 0.16
Matches are distributed among these distances:
20 11 0.21
21 30 0.57
22 11 0.21
23 1 0.02
ACGTcount: A:0.24, C:0.13, G:0.26, T:0.37
Consensus pattern (21 bp):
TATGTGGTCCTTCGGGACAAT
Found at i:8596961 original size:19 final size:20
Alignment explanation
Indices: 8596912--8596963 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
8596902 TCGTTGTACT
*
8596912 ATGTTGGAAATTAATGTTAGA
1 ATGTT-GAAATTGATGTTAGA
*
8596933 GTGTTGAAATTGATGTTAGA
1 ATGTTGAAATTGATGTTAGA
8596953 ATG-TGAAATTG
1 ATGTTGAAATTG
8596964 GAGTTTTTGG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 8 0.29
20 16 0.57
21 4 0.14
ACGTcount: A:0.35, C:0.00, G:0.27, T:0.38
Consensus pattern (20 bp):
ATGTTGAAATTGATGTTAGA
Found at i:8598222 original size:22 final size:22
Alignment explanation
Indices: 8598182--8598224 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
8598172 AATAGTTATT
*
8598182 ATATATGATATTTATCATGAAA
1 ATATATGATATTTACCATGAAA
* *
8598204 ATATATGATGTTTGCCATGAA
1 ATATATGATATTTACCATGAA
8598225 TGTTATTTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.40
Consensus pattern (22 bp):
ATATATGATATTTACCATGAAA
Found at i:8603525 original size:44 final size:44
Alignment explanation
Indices: 8603473--8603575 Score: 140
Period size: 44 Copynumber: 2.4 Consensus size: 44
8603463 TGTTGGAATT
*
8603473 CCAACTTATTTCTCT-CACTATGTTGGAGCTATTACCAACATTAC
1 CCAACTTATTTCCCTACACTATGTTGGAGCTA-TACCAACATTAC
* *
8603517 CCAACTTA-TTCCCTAAGATTATGTTGGAGCTATACCAACATTAC
1 CCAACTTATTTCCCT-ACACTATGTTGGAGCTATACCAACATTAC
8603561 CCAACTTA-TTCCCTA
1 CCAACTTATTTCCCTA
8603576 AGAATTCTCT
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
43 6 0.11
44 34 0.63
45 14 0.26
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.34
Consensus pattern (44 bp):
CCAACTTATTTCCCTACACTATGTTGGAGCTATACCAACATTAC
Found at i:8603576 original size:44 final size:45
Alignment explanation
Indices: 8603491--8603578 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 45
8603481 TTTCTCTCAC
8603491 TATGTTGGAGCTATTACCAACATTACCCAACTTATTCCCTAAGAT
1 TATGTTGGAGCTATTACCAACATTACCCAACTTATTCCCTAAGAT
8603536 TATGTTGGAGCTA-TACCAACATTACCCAACTTATTCCCTAAGA
1 TATGTTGGAGCTATTACCAACATTACCCAACTTATTCCCTAAGA
8603579 ATTCTCTCTT
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
44 30 0.70
45 13 0.30
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.32
Consensus pattern (45 bp):
TATGTTGGAGCTATTACCAACATTACCCAACTTATTCCCTAAGAT
Found at i:8634600 original size:30 final size:30
Alignment explanation
Indices: 8634566--8634628 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
8634556 TAGAATAAAG
8634566 TTTAAAAAGTTTAGGGACCAAAAGGGTAAT
1 TTTAAAAAGTTTAGGGACCAAAAGGGTAAT
** **
8634596 TTTAAAATTTTTAGGGACCAAAAGTTTAAT
1 TTTAAAAAGTTTAGGGACCAAAAGGGTAAT
8634626 TTT
1 TTT
8634629 CAATAGTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.37
Consensus pattern (30 bp):
TTTAAAAAGTTTAGGGACCAAAAGGGTAAT
Found at i:8637989 original size:2 final size:2
Alignment explanation
Indices: 8637982--8638009 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8637972 TGGTTCATGC
8637982 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8638010 TCATTTGGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8638732 original size:22 final size:22
Alignment explanation
Indices: 8638704--8638746 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
8638694 ATTGGTTATT
*
8638704 ATATATGATGTTTATCATGAAA
1 ATATATGATGTTTACCATGAAA
8638726 ATATATGATGTTTACCATGAA
1 ATATATGATGTTTACCATGAA
8638747 TGTTATTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.40
Consensus pattern (22 bp):
ATATATGATGTTTACCATGAAA
Found at i:8641998 original size:46 final size:45
Alignment explanation
Indices: 8641948--8642036 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 45
8641938 CATTATGCAT
8641948 TTTCATTTATGA-CA-ACTGTTCATATCTTTTTATACACTATTATAGA
1 TTTCATTTA-GAGCATACT-TTCATATC-TTTTATACACTATTATAGA
* *
8641994 TTTCATTTAGAGCATCCTTTCATGTCTTTTATACACTATTATA
1 TTTCATTTAGAGCATACTTTCATATCTTTTATACACTATTATA
8642037 CATTCTTATA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
45 19 0.49
46 18 0.46
47 2 0.05
ACGTcount: A:0.28, C:0.17, G:0.07, T:0.48
Consensus pattern (45 bp):
TTTCATTTAGAGCATACTTTCATATCTTTTATACACTATTATAGA
Found at i:8642605 original size:59 final size:59
Alignment explanation
Indices: 8642475--8642875 Score: 445
Period size: 59 Copynumber: 6.8 Consensus size: 59
8642465 CACATTTCCC
* * * * **
8642475 ATATGGAAATTCATACATTTAGTATG-ACTCTCATAACAATTT-GCACAAAAAGTGCCC-
1 ATATGGAAATTCATACACTTAGTATGAATTC-CTTAACATTTTAGCACACGAAGTGCCCT
* * * *
8642532 AT-TCCGGAAATTCATACACTTACTATGAATTCCATAATAGTTTAGCACACGAAGTGCCCT
1 ATAT--GGAAATTCATACACTTAGTATGAATTCCTTAACATTTTAGCACACGAAGTGCCCT
* *
8642592 ATATGGAAATTCATGCACTTAGTATGAATTCCTTAACAGTTTAGCACACGAAGTGCCCT
1 ATATGGAAATTCATACACTTAGTATGAATTCCTTAACATTTTAGCACACGAAGTGCCCT
* ** * *
8642651 ATATGGAAATTCATACACTTAGTATGCATTCCTTGCCTTTTTAGCACACGAAGTTCCCT
1 ATATGGAAATTCATACACTTAGTATGAATTCCTTAACATTTTAGCACACGAAGTGCCCT
* * * * *
8642710 ATCTGGAAATTCATACAGTTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCTT
1 ATATGGAAATTCATACACTTAGTATGAATTCCTTAACATTTTAGCACACGAAGTGCCCT
* * * * * *
8642769 ATCTGGAAATTCATACAATTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGTCGT
1 ATATGGAAATTCATACACTTAGTATGAATTCCTTAACATTTTAGCACACGAAGTGCCCT
* * *
8642828 ACTA--GAAATTGATACACTTAGTATGATTTCCTTATCATTTTAGCACAC
1 A-TATGGAAATTCATACACTTAGTATGAATTCCTTAACATTTTAGCACAC
8642876 TTAGTACCAT
Statistics
Matches: 304, Mismatches: 33, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
56 1 0.00
57 2 0.01
58 70 0.23
59 227 0.75
60 3 0.01
61 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.33
Consensus pattern (59 bp):
ATATGGAAATTCATACACTTAGTATGAATTCCTTAACATTTTAGCACACGAAGTGCCCT
Found at i:8648120 original size:59 final size:59
Alignment explanation
Indices: 8648056--8648536 Score: 660
Period size: 59 Copynumber: 8.2 Consensus size: 59
8648046 TCCTAAACAG
* *
8648056 TTTAGCACACGAAGTGCCCTATAC-GGAAATTCATACACTTAATATGAATTCCTTACCAT
1 TTTAGCACACGAAGTGCCCTAT-CTGGAAATTCATACACTTAGTATGATTTCCTTACCAT
* * *
8648115 TTTAGCACACGAAGTTCCCTGTCTGGAAATTTATACACTTAGTATGATTTCCTTACCAT
1 TTTAGCACACGAAGTGCCCTATCTGGAAATTCATACACTTAGTATGATTTCCTTACCAT
* * * * * * * ** **
8648174 TTTAGCACACAAAATGCCCTATTTAGAAATTCATACACCTAGTTTGAATTAATTATTAT
1 TTTAGCACACGAAGTGCCCTATCTGGAAATTCATACACTTAGTATGATTTCCTTACCAT
* *
8648233 TTTAGCACACGAAGTGCCCTATATTGAAATTCATACACTTAGTATGATTTCCTTACCAT
1 TTTAGCACACGAAGTGCCCTATCTGGAAATTCATACACTTAGTATGATTTCCTTACCAT
* * * * * *
8648292 TTTAGCACACAAAGGGCCCTATTTAGAAATTCATACGCTTAGTATGATTTCCTTGCCAT
1 TTTAGCACACGAAGTGCCCTATCTGGAAATTCATACACTTAGTATGATTTCCTTACCAT
8648351 TTTAGCACACGAAGTGCCCTATCTGGAAATTCATACACTTAGTATGATTTCCTTACCAT
1 TTTAGCACACGAAGTGCCCTATCTGGAAATTCATACACTTAGTATGATTTCCTTACCAT
* * * * *
8648410 TTTAACACACAAAGTGACCTATCTGGAAATTCATACAATTAGTATAATTTCCTTACCAT
1 TTTAGCACACGAAGTGCCCTATCTGGAAATTCATACACTTAGTATGATTTCCTTACCAT
* *
8648469 TTTAGCCCACGAAGTGCCATA-CTGGAAATTCATACACTTAGTATGATTTCCTTACCAT
1 TTTAGCACACGAAGTGCCCTATCTGGAAATTCATACACTTAGTATGATTTCCTTACCAT
8648527 TTTAGCACAC
1 TTTAGCACAC
8648537 TTAGTGCAAT
Statistics
Matches: 366, Mismatches: 55, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
58 45 0.12
59 321 0.88
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (59 bp):
TTTAGCACACGAAGTGCCCTATCTGGAAATTCATACACTTAGTATGATTTCCTTACCAT
Found at i:8653076 original size:46 final size:46
Alignment explanation
Indices: 8653026--8653113 Score: 108
Period size: 46 Copynumber: 1.9 Consensus size: 46
8653016 AAAGCATCCA
* *
8653026 TTCATA-CTTATAATGCACCATTAT-GCATTTTCATTTATGACAACTG
1 TTCATATCTTATAATACACAATTATAG-A-TTTCATTTATGACAACTG
* *
8653072 TTCATATCTTTTTATACACAATTATAGATTTCATTTATGACA
1 TTCATATCTTATAATACACAATTATAGATTTCATTTATGACA
8653114 TCCCTTCATG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
46 20 0.56
47 15 0.42
48 1 0.03
ACGTcount: A:0.32, C:0.17, G:0.07, T:0.44
Consensus pattern (46 bp):
TTCATATCTTATAATACACAATTATAGATTTCATTTATGACAACTG
Found at i:8653714 original size:59 final size:58
Alignment explanation
Indices: 8653588--8654225 Score: 728
Period size: 59 Copynumber: 10.9 Consensus size: 58
8653578 TCCCATATGA
* * * * * *
8653588 AAATTCATACATTTAGTATGA-CTCTCATAACAATTTA-CACACAAAGTGCCC-ATTCCAG
1 AAATTCATACACTTAGTATGATTTC-CTTACCATTTTAGCACACGAAGTGCCCTA-T-CAG
* * * * * * * *
8653646 ATATTCATACACTTGGTATGAATTCCTTAACAATATAGCACACGAAGTGCCCAATACAA
1 AAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTAT-CAG
* * * *
8653705 AAATTCATACACTTTGTATGAATTCCTTACCATTTTAGCACACGAAGTGCCCTATTTAT
1 AAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTA-TCAG
* * **
8653764 AAATTCATACATTTATTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATTTGG
1 AAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTA-TCAG
* * * *
8653823 AAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACATGAAGTTCCTTATATAG
1 AAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTAT-CAG
*
8653882 AAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATCTG
1 AAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATCAG
* * *
8653940 GATTTCATACACTTAGTATGATTTTCTTACCATTTTAGCACACGAAGTGCCCTATCTAG
1 AAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATC-AG
* * * * *
8653999 AAATTCATACTCTTAGTCTGATTTCCTTAACATTTTAGCACACGAAGTACCCTATCTGG
1 AAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATC-AG
* * * *
8654058 AATTTCATACACTTAGTATGATTTTCTTACCATTTTAGCACACGAAGTGCTCTATATAG
1 AAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTAT-CAG
* * * *
8654117 AAATTCATACTCTTAGTATGATTTCCTTAACATTTTAGCACACGAAGTACCCTATCTGG
1 AAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATC-AG
* *
8654176 AAATTCATACACTTTGTATGATTTCTTTACCATTTT-GCACAC-ATAGTGCC
1 AAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACGA-AGTGCC
8654226 ATTTGGTAAT
Statistics
Matches: 503, Mismatches: 68, Indels: 18
0.85 0.12 0.03
Matches are distributed among these distances:
57 1 0.00
58 94 0.19
59 406 0.81
60 2 0.00
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (58 bp):
AAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATCAG
Found at i:8654005 original size:235 final size:234
Alignment explanation
Indices: 8653648--8654225 Score: 831
Period size: 235 Copynumber: 2.5 Consensus size: 234
8653638 CATTCCAGAT
* * * * * ***
8653648 ATTCATACACTTGGTATGAATTCCTTAACAATATAGCACACGAAGTGCCCAATACAAAAATTCAT
1 ATTCATACACTTAGTATGATTTCCTTAACATTTTAGCACACGAAGTGCCCTAT-CTGGAATTCAT
* * *
8653713 ACACTTTGTATGAATTCCTTACCATTTTAGCACACGAAGTGCCCTATTTATAAATTCATACAT-T
65 ACACTTTGTATG-ATTTCTTACCATTTTAGCACACGAAGTGCCCTATCTAGAAATTCATAC-TCT
* * * *
8653777 TATTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATTTGGAAATTCATACACTTAGTAT
128 TAGTATGATTTCCTTAACATTTTAGCACACGAAGTACCCTATCTGGAAATTCATACACTTAGTAT
*
8653842 GATTTCCTTACCATTTTAGCACATGAAGTTCCT-TATATAGAA
193 GATTTCCTTACCATTTTAGCACACGAAG-TCCTCTATATAGAA
* *
8653884 ATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATCTGGATTTCATA
1 ATTCATACACTTAGTATGATTTCCTTAACATTTTAGCACACGAAGTGCCCTATCTGGAATTCATA
*
8653949 CACTTAGTATGATTTTCTTACCATTTTAGCACACGAAGTGCCCTATCTAGAAATTCATACTCTTA
66 CACTTTGTATGA-TTTCTTACCATTTTAGCACACGAAGTGCCCTATCTAGAAATTCATACTCTTA
* *
8654014 GTCTGATTTCCTTAACATTTTAGCACACGAAGTACCCTATCTGGAATTTCATACACTTAGTATGA
130 GTATGATTTCCTTAACATTTTAGCACACGAAGTACCCTATCTGGAAATTCATACACTTAGTATGA
* *
8654079 TTTTCTTACCATTTTAGCACACGAAGTGCTCTATATAGAA
195 TTTCCTTACCATTTTAGCACACGAAGTCCTCTATATAGAA
* *
8654119 ATTCATACTCTTAGTATGATTTCCTTAACATTTTAGCACACGAAGTACCCTATCTGGAAATTCAT
1 ATTCATACACTTAGTATGATTTCCTTAACATTTTAGCACACGAAGTGCCCTATCTGG-AATTCAT
8654184 ACACTTTGTATGATTTCTTTACCATTTT-GCACAC-ATAGTGCC
65 ACACTTTGTATGATTTC-TTACCATTTTAGCACACGA-AGTGCC
8654226 ATTTGGTAAT
Statistics
Matches: 308, Mismatches: 28, Indels: 13
0.88 0.08 0.04
Matches are distributed among these distances:
234 6 0.02
235 227 0.74
236 75 0.24
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.36
Consensus pattern (234 bp):
ATTCATACACTTAGTATGATTTCCTTAACATTTTAGCACACGAAGTGCCCTATCTGGAATTCATA
CACTTTGTATGATTTCTTACCATTTTAGCACACGAAGTGCCCTATCTAGAAATTCATACTCTTAG
TATGATTTCCTTAACATTTTAGCACACGAAGTACCCTATCTGGAAATTCATACACTTAGTATGAT
TTCCTTACCATTTTAGCACACGAAGTCCTCTATATAGAA
Found at i:8667380 original size:12 final size:12
Alignment explanation
Indices: 8667334--8667381 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
8667324 GATACATGAC
8667334 CTGAATTCTGTT
1 CTGAATTCTGTT
* * *
8667346 ATGATTTCTGAT
1 CTGAATTCTGTT
*
8667358 CTGGATTCTGTT
1 CTGAATTCTGTT
8667370 CTGAATTCTGTT
1 CTGAATTCTGTT
8667382 TTGATTTATG
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.17, C:0.15, G:0.19, T:0.50
Consensus pattern (12 bp):
CTGAATTCTGTT
Found at i:8676469 original size:24 final size:24
Alignment explanation
Indices: 8676388--8676489 Score: 109
Period size: 24 Copynumber: 4.2 Consensus size: 24
8676378 ATATTTTATC
*
8676388 TGATTTCTGACTTGAATTCTGTTA
1 TGATTTCTGACTTGAATTCTGTTT
* *
8676412 TGA-TACATGACCTGAATTCTGTTT
1 TGATTTC-TGACTTGAATTCTGTTT
** *
8676436 TGATACCTGACTTGAATTATGTTT
1 TGATTTCTGACTTGAATTCTGTTT
*
8676460 TGATTTCTGA-TCTGGATTCTGTTT
1 TGATTTCTGACT-TGAATTCTGTTT
8676484 TGATTT
1 TGATTT
8676490 ATGATAACTT
Statistics
Matches: 64, Mismatches: 11, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
23 3 0.05
24 60 0.94
25 1 0.02
ACGTcount: A:0.21, C:0.13, G:0.18, T:0.49
Consensus pattern (24 bp):
TGATTTCTGACTTGAATTCTGTTT
Found at i:8676479 original size:48 final size:48
Alignment explanation
Indices: 8676394--8676487 Score: 127
Period size: 48 Copynumber: 2.0 Consensus size: 48
8676384 TATCTGATTT
*
8676394 CTGACTTGAATTCTGTTATGATACATGACCTGAATTCTGTTTTGATAC
1 CTGACTTGAATTATGTTATGATACATGACCTGAATTCTGTTTTGATAC
* * * *
8676442 CTGACTTGAATTATGTTTTGATTTC-TGATCTGGATTCTGTTTTGAT
1 CTGACTTGAATTATGTTATGA-TACATGACCTGAATTCTGTTTTGAT
8676488 TTATGATAAC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
48 38 0.95
49 2 0.05
ACGTcount: A:0.21, C:0.14, G:0.18, T:0.47
Consensus pattern (48 bp):
CTGACTTGAATTATGTTATGATACATGACCTGAATTCTGTTTTGATAC
Found at i:8681205 original size:12 final size:12
Alignment explanation
Indices: 8681162--8681209 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
8681152 GATACATTAC
8681162 CTGAATTCTGTT
1 CTGAATTCTGTT
* * *
8681174 TTGATTTCTGAT
1 CTGAATTCTGTT
* *
8681186 ATGGATTCTGTT
1 CTGAATTCTGTT
8681198 CTGAATTCTGTT
1 CTGAATTCTGTT
8681210 TTGATTTATG
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.17, C:0.12, G:0.19, T:0.52
Consensus pattern (12 bp):
CTGAATTCTGTT
Found at i:8685871 original size:24 final size:24
Alignment explanation
Indices: 8685844--8685904 Score: 104
Period size: 24 Copynumber: 2.5 Consensus size: 24
8685834 ATCTAATTTC
* *
8685844 TGACTTGAATTCTGTTATGATACA
1 TGACCTGAATTCTGTTATGACACA
8685868 TGACCTGAATTCTGTTATGACACA
1 TGACCTGAATTCTGTTATGACACA
8685892 TGACCTGAATTCT
1 TGACCTGAATTCT
8685905 TTTTTGATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (24 bp):
TGACCTGAATTCTGTTATGACACA
Found at i:8695182 original size:12 final size:12
Alignment explanation
Indices: 8695139--8695186 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
8695129 GATACATGAC
*
8695139 CTGAATTATGTT
1 CTGAATTCTGTT
* *
8695151 CTGATTTCTGAT
1 CTGAATTCTGTT
* *
8695163 CCGGATTCTGTT
1 CTGAATTCTGTT
8695175 CTGAATTCTGTT
1 CTGAATTCTGTT
8695187 TTGATTTATG
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.17, C:0.17, G:0.19, T:0.48
Consensus pattern (12 bp):
CTGAATTCTGTT
Found at i:8699883 original size:12 final size:12
Alignment explanation
Indices: 8699863--8699910 Score: 78
Period size: 12 Copynumber: 4.0 Consensus size: 12
8699853 GATACATTAC
8699863 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
8699875 CTGATTTCTGAT
1 CTGAATTCTGTT
8699887 CTGAATTCTGTT
1 CTGAATTCTGTT
8699899 CTGAATTCTGTT
1 CTGAATTCTGTT
8699911 TTGCTTTAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.50
Consensus pattern (12 bp):
CTGAATTCTGTT
Found at i:8703772 original size:256 final size:256
Alignment explanation
Indices: 8703317--8703822 Score: 1003
Period size: 256 Copynumber: 2.0 Consensus size: 256
8703307 CTATAAAATA
8703317 ACCAAAATACCCCTGTAATAGAAATGACCCAAGAATATCACCAATCTAAGGAATTATTGGATATC
1 ACCAAAATACCCCTGTAATAGAAATGACCCAAGAATATCACCAATCTAAGGAATTATTGGATATC
8703382 CACGAGCTCTGAAATGAATGGAATAAGACTATGCATCAAAATGACCAAAATACCCTTATGACCTA
66 CACGAGCTCTGAAATGAATGGAATAAGACTATGCATCAAAATGACCAAAATACCCTTATGACCTA
8703447 GAATAAGTAAATGTCTAGGATTAATTAAGTAATCCAAATAAGCATAGGTGTTGGACTACCTTTAA
131 GAATAAGTAAATGTCTAGGATTAATTAAGTAATCCAAATAAGCATAGGTGTTGGACTACCTTTAA
8703512 AAGTTATGGAACACATCTTAAGTGAGTTGATCAATCGTAATGATATGTCAGTACCCTTATG
196 AAGTTATGGAACACATCTTAAGTGAGTTGATCAATCGTAATGATATGTCAGTACCCTTATG
8703573 ACCAAAATACCCCTGTAATAGAAATGACCCAAGAATATCACCAATCTAAGGAATTATTGGATATC
1 ACCAAAATACCCCTGTAATAGAAATGACCCAAGAATATCACCAATCTAAGGAATTATTGGATATC
*
8703638 CACGAGCTTTGAAATGAATGGAATAAGACTATGCATCAAAATGACCAAAATACCCTTATGACCTA
66 CACGAGCTCTGAAATGAATGGAATAAGACTATGCATCAAAATGACCAAAATACCCTTATGACCTA
8703703 GAATAAGTAAATGTCTAGGATTAATTAAGTAATCCAAATAAGCATAGGTGTTGGACTACCTTTAA
131 GAATAAGTAAATGTCTAGGATTAATTAAGTAATCCAAATAAGCATAGGTGTTGGACTACCTTTAA
8703768 AAGTTATGGAACACATCTTAAGTGAGTTGATCAATCGTAATGATATGTCAGTACC
196 AAGTTATGGAACACATCTTAAGTGAGTTGATCAATCGTAATGATATGTCAGTACC
8703823 TGGACGATAT
Statistics
Matches: 249, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
256 249 1.00
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.27
Consensus pattern (256 bp):
ACCAAAATACCCCTGTAATAGAAATGACCCAAGAATATCACCAATCTAAGGAATTATTGGATATC
CACGAGCTCTGAAATGAATGGAATAAGACTATGCATCAAAATGACCAAAATACCCTTATGACCTA
GAATAAGTAAATGTCTAGGATTAATTAAGTAATCCAAATAAGCATAGGTGTTGGACTACCTTTAA
AAGTTATGGAACACATCTTAAGTGAGTTGATCAATCGTAATGATATGTCAGTACCCTTATG
Found at i:8704726 original size:12 final size:12
Alignment explanation
Indices: 8704706--8704753 Score: 53
Period size: 12 Copynumber: 4.0 Consensus size: 12
8704696 GATACATGAC
8704706 CTGAATTCTATT
1 CTGAATTCTATT
*
8704718 CTGATTTCTGA-T
1 CTGAATTCT-ATT
* *
8704730 CTGGATTCTGTT
1 CTGAATTCTATT
8704742 CTGAATTCTATT
1 CTGAATTCTATT
8704754 TTGCTTTAAG
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
12 27 0.96
13 1 0.04
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.50
Consensus pattern (12 bp):
CTGAATTCTATT
Found at i:8709529 original size:12 final size:12
Alignment explanation
Indices: 8709483--8709530 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
8709473 GATACATGAC
*
8709483 CTGAATTATGTT
1 CTGAATTCTGTT
* *
8709495 CTGATTTCTGAT
1 CTGAATTCTGTT
*
8709507 CTGGATTCTGTT
1 CTGAATTCTGTT
8709519 CTGAATTCTGTT
1 CTGAATTCTGTT
8709531 TTGCTTTAAG
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.17, C:0.15, G:0.19, T:0.50
Consensus pattern (12 bp):
CTGAATTCTGTT
Found at i:8714304 original size:12 final size:12
Alignment explanation
Indices: 8714258--8714305 Score: 53
Period size: 12 Copynumber: 4.0 Consensus size: 12
8714248 GATACATGAC
*
8714258 CTGAATTATGTT
1 CTGAATTCTGTT
*
8714270 CTG-ATATCTGAT
1 CTGAAT-TCTGTT
*
8714282 CTGGATTCTGTT
1 CTGAATTCTGTT
8714294 CTGAATTCTGTT
1 CTGAATTCTGTT
8714306 TTGCTTTAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
11 2 0.07
12 26 0.87
13 2 0.07
ACGTcount: A:0.19, C:0.15, G:0.19, T:0.48
Consensus pattern (12 bp):
CTGAATTCTGTT
Found at i:8715411 original size:24 final size:24
Alignment explanation
Indices: 8715384--8715430 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
8715374 CATGACCTGA
*
8715384 ATTCTGTTATGATTTCTGATTTGG
1 ATTCTGTTATGAATTCTGATTTGG
* *
8715408 ATTCTGTTCTGAATTCTGTTTTG
1 ATTCTGTTATGAATTCTGATTTG
8715431 ATTTATGATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.15, C:0.11, G:0.19, T:0.55
Consensus pattern (24 bp):
ATTCTGTTATGAATTCTGATTTGG
Found at i:8715423 original size:12 final size:12
Alignment explanation
Indices: 8715380--8715427 Score: 53
Period size: 12 Copynumber: 4.0 Consensus size: 12
8715370 GATACATGAC
8715380 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
8715392 ATGATTTCTGATT
1 CTGAATTCTG-TT
*
8715405 -TGGATTCTGTT
1 CTGAATTCTGTT
8715416 CTGAATTCTGTT
1 CTGAATTCTGTT
8715428 TTGATTTATG
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
11 2 0.07
12 25 0.86
13 2 0.07
ACGTcount: A:0.17, C:0.12, G:0.19, T:0.52
Consensus pattern (12 bp):
CTGAATTCTGTT
Found at i:8718842 original size:24 final size:23
Alignment explanation
Indices: 8718770--8718842 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 23
8718760 AAATATTTTA
8718770 TCTGATTTCTGACTTGAATTCTGT
1 TCTGATTTCTGAC-TGAATTCTGT
* * * *
8718794 TATGATATATGACCTGAATTATGT
1 TCTGATTTCTGA-CTGAATTCTGT
*
8718818 TCTGATTTCTGATCTGGATTCTGT
1 TCTGATTTCTGA-CTGAATTCTGT
8718842 T
1 T
8718843 TTGGATTCTG
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
24 37 0.97
25 1 0.03
ACGTcount: A:0.21, C:0.14, G:0.18, T:0.48
Consensus pattern (23 bp):
TCTGATTTCTGACTGAATTCTGT
Found at i:8718853 original size:12 final size:12
Alignment explanation
Indices: 8718832--8718857 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8718822 ATTTCTGATC
8718832 TGGATTCTGTTT
1 TGGATTCTGTTT
8718844 TGGATTCTGTTT
1 TGGATTCTGTTT
8718856 TG
1 TG
8718858 ATTTATGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.08, G:0.27, T:0.58
Consensus pattern (12 bp):
TGGATTCTGTTT
Found at i:8722737 original size:12 final size:12
Alignment explanation
Indices: 8722691--8722738 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
8722681 GATACATGAC
* *
8722691 CTGAATTATGTC
1 CTGAATTCTGTT
* *
8722703 CTGATTTCTGAT
1 CTGAATTCTGTT
*
8722715 CTGGATTCTGTT
1 CTGAATTCTGTT
8722727 CTGAATTCTGTT
1 CTGAATTCTGTT
8722739 TTGATTTATG
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.17, C:0.17, G:0.19, T:0.48
Consensus pattern (12 bp):
CTGAATTCTGTT
Found at i:8731050 original size:59 final size:59
Alignment explanation
Indices: 8730889--8731342 Score: 555
Period size: 59 Copynumber: 7.8 Consensus size: 59
8730879 ATTTCCCATA
* * * * * *
8730889 TGGAAATTCATACATTTAGTATGA-CTCTCATAACAATTT-GCACACAAAGTGCCC-ATTC
1 TGGAAATTCATACACTTAGTATGATTTC-CTTACCATTTTAGCACACGAAGTGCCCTA-TC
* * * * * *
8730947 TAGAAATTCATACAC--ATTATGAATTCCTTAACAGTTTAGAACACGAAGTGCCCTATAC
1 TGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTAT-C
* * * *
8731005 -AGAAATTCATACACTTGGTATGAATTCCTTACCATTTTAGCACACGAAGTGCCCTATA
1 TGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATC
* * * * * *
8731063 TGGAAATTTATACACTTAGTATGATTTCCTTACCATTTTAGCACACAAAATGTCTTATA
1 TGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATC
* *
8731122 TGGAAATTCATACACTTAGTATGATTTTCTTACCATTTTTGCACACGAAGTGCCCTATC
1 TGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATC
* *
8731181 TGGAAATTCATACACTT-GTATGATTTTCTTACTATTTTAGCACACGAAGTGCCCTATC
1 TGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATC
* * *
8731239 TAGAAATTAATACACTTAGTATGATTTCCTTACCATTTTAGCACACGAAGTACCCTATC
1 TGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATC
*
8731298 TGGAAATTCATACACTTTGTATGATTTCCTTACCATTTT-GCACAC
1 TGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACAC
8731343 TTAGTGCCAT
Statistics
Matches: 348, Mismatches: 40, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
56 15 0.04
57 30 0.09
58 75 0.22
59 228 0.66
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (59 bp):
TGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATC
Found at i:8731255 original size:176 final size:176
Alignment explanation
Indices: 8730949--8731342 Score: 553
Period size: 176 Copynumber: 2.2 Consensus size: 176
8730939 GCCCATTCTA
* * * * *
8730949 GAAATTCATACAC--ATTATGAATTCCTTAACAGTTTAGAACACGAAGTGCCCTATACAGAAATT
1 GAAATTCATACACTTAGTATGATTTCCTTACCA-TTTTGCACACGAAGTGCCCTATACAGAAATT
* *
8731012 CATACACTTGGTATGAATTCCTTACCATTTTAGCACACGAAGTGCCCTATATGGAAATTTATACA
65 CATACACTTGGTATGAATTCCTTACCATTTTAGCACACGAAGTGCCCTATATAGAAATTAATACA
** *
8731077 CTTAGTATGATTTCCTTACCATTTTAGCACACAAAATGTCTTATATG
130 CTTAGTATGATTTCCTTACCATTTTAGCACACAAAATACCCTATATG
* *
8731124 GAAATTCATACACTTAGTATGATTTTCTTACCATTTTTGCACACGAAGTGCCCTAT-CTGGAAAT
1 GAAATTCATACACTTAGTATGATTTCCTTACCA-TTTTGCACACGAAGTGCCCTATAC-AGAAAT
* * * *
8731188 TCATACACTT-GTATGATTTTCTTACTATTTTAGCACACGAAGTGCCCTATCTAGAAATTAATAC
64 TCATACACTTGGTATGAATTCCTTACCATTTTAGCACACGAAGTGCCCTATATAGAAATTAATAC
* * *
8731252 ACTTAGTATGATTTCCTTACCATTTTAGCACACGAAGTACCCTATCTG
129 ACTTAGTATGATTTCCTTACCATTTTAGCACACAAAATACCCTATATG
*
8731300 GAAATTCATACACTTTGTATGATTTCCTTACCATTTTGCACAC
1 GAAATTCATACACTTAGTATGATTTCCTTACCATTTTGCACAC
8731343 TTAGTGCCAT
Statistics
Matches: 194, Mismatches: 22, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
175 23 0.12
176 122 0.63
177 49 0.25
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.35
Consensus pattern (176 bp):
GAAATTCATACACTTAGTATGATTTCCTTACCATTTTGCACACGAAGTGCCCTATACAGAAATTC
ATACACTTGGTATGAATTCCTTACCATTTTAGCACACGAAGTGCCCTATATAGAAATTAATACAC
TTAGTATGATTTCCTTACCATTTTAGCACACAAAATACCCTATATG
Found at i:8731304 original size:235 final size:232
Alignment explanation
Indices: 8730886--8731342 Score: 659
Period size: 235 Copynumber: 2.0 Consensus size: 232
8730876 CACATTTCCC
*
8730886 ATATGGAAATTCATACATTTAGTATGACTCTCATAACAATTTGCACACAAAGTGCCCATTCTAGA
1 ATATGGAAATTCATACACTTAGTATGACTCTCATAACAATTTGCACACAAAGTGCCCATTCTAGA
*
8730951 AATTCATACACATTATGAATTCCTTAACAGTTTAGAACACGAAGTGCCCTATACAGAAATTCATA
66 AATTCATACACATTATGAATTCCTTAACAGTTTAGAACACGAAGTGCCCTATACAGAAATTAATA
* * *
8731016 CACTTGGTATGAATTCCTTACCATTTTAGCACACGAAGTGCCCTATATGGAAATTTATACACTTA
131 CACTTAGTATGAATTCCTTACCATTTTAGCACACGAAGTACCCTATATGGAAATTCATACACTTA
8731081 GTATGATTTCCTTACCATTTTAGCACACAAAATGTCTT
196 GTATGATTTCCTTACCATTTT-GCACACAAAATGTCTT
* * * * * * *
8731119 ATATGGAAATTCATACACTTAGTATGATTTTCTTACCATTTTTGCACACGAAGTGCCC-TATCTG
1 ATATGGAAATTCATACACTTAGTATGACTCTCATAACA-ATTTGCACACAAAGTGCCCAT-TCTA
* * * * *
8731183 GAAATTCATACACTTGTATGATTTTCTT-ACTATTTTAGCACACGAAGTGCCCTAT-CTAGAAAT
64 GAAATTCATACACAT-TATGAATTCCTTAAC-AGTTTAGAACACGAAGTGCCCTATAC-AGAAAT
* *
8731246 TAATACACTTAGTATGATTTCCTTACCATTTTAGCACACGAAGTACCCTATCTGGAAATTCATAC
126 TAATACACTTAGTATGAATTCCTTACCATTTTAGCACACGAAGTACCCTATATGGAAATTCATAC
*
8731311 ACTTTGTATGATTTCCTTACCATTTTGCACAC
191 ACTTAGTATGATTTCCTTACCATTTTGCACAC
8731343 TTAGTGCCAT
Statistics
Matches: 199, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
233 34 0.17
234 43 0.22
235 122 0.61
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (232 bp):
ATATGGAAATTCATACACTTAGTATGACTCTCATAACAATTTGCACACAAAGTGCCCATTCTAGA
AATTCATACACATTATGAATTCCTTAACAGTTTAGAACACGAAGTGCCCTATACAGAAATTAATA
CACTTAGTATGAATTCCTTACCATTTTAGCACACGAAGTACCCTATATGGAAATTCATACACTTA
GTATGATTTCCTTACCATTTTGCACACAAAATGTCTT
Found at i:8741840 original size:35 final size:35
Alignment explanation
Indices: 8741794--8741862 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
8741784 CCTTGGAGGG
*
8741794 GACCACTACCACCTTTGTACCCTAATTCACGTGAC
1 GACCACTACCACATTTGTACCCTAATTCACGTGAC
* *
8741829 GACCACTACCACATTTGTTCCTTAATTCACGTGA
1 GACCACTACCACATTTGTACCCTAATTCACGTGA
8741863 GGTGAATTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.26, C:0.33, G:0.12, T:0.29
Consensus pattern (35 bp):
GACCACTACCACATTTGTACCCTAATTCACGTGAC
Found at i:8753737 original size:20 final size:18
Alignment explanation
Indices: 8753712--8753757 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 18
8753702 TGTACTATGC
8753712 TTGAAATTAATGTTAGAGTA
1 TTGAAATTAATGTTAGA--A
* *
8753732 TTGAAACTGATGTTAGAA
1 TTGAAATTAATGTTAGAA
8753750 TTGAAATT
1 TTGAAATT
8753758 GGATTATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 8 0.35
20 15 0.65
ACGTcount: A:0.39, C:0.02, G:0.20, T:0.39
Consensus pattern (18 bp):
TTGAAATTAATGTTAGAA
Found at i:8754269 original size:2 final size:2
Alignment explanation
Indices: 8754262--8754286 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8754252 GGTCTATGAA
8754262 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
8754287 TCATTTGGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:8757915 original size:18 final size:18
Alignment explanation
Indices: 8757882--8757916 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8757872 GAAAATGAAG
*
8757882 ATGGAGATGATAATGGAA
1 ATGGAGATGAGAATGGAA
*
8757900 ATGGAGATGAGGATGGA
1 ATGGAGATGAGAATGGA
8757917 GATGATGATG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (18 bp):
ATGGAGATGAGAATGGAA
Found at i:8762412 original size:13 final size:13
Alignment explanation
Indices: 8762368--8762405 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
8762358 CTCAATGCAC
8762368 GTCATAAATGTGT
1 GTCATAAATGTGT
*
8762381 GTCATAAATGCGT
1 GTCATAAATGTGT
8762394 GTCATAAATGTG
1 GTCATAAATGTG
8762406 CATCATAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.34
Consensus pattern (13 bp):
GTCATAAATGTGT
Found at i:8771068 original size:44 final size:43
Alignment explanation
Indices: 8770953--8771074 Score: 145
Period size: 44 Copynumber: 2.8 Consensus size: 43
8770943 CTGTGCATAA
* * *
8770953 AGCAGAAGAGCCAGCAGAAATGGTAAGGTCTTGCCCTTGCACAT
1 AGCAGAGGAGCCTG-AGAAATGGTAAGGTCTTACCCTTGCACAT
* * *
8770997 AGTAGAGGAGCCTGGGAAAATGATAAGGTCTTACCCTTGCACAT
1 AGCAGAGGAGCCTGAG-AAATGGTAAGGTCTTACCCTTGCACAT
* *
8771041 AGCAGAGGAGCCTATAGAAACGGTAAGGTCTTAC
1 AGCAGAGGAGCCT-GAGAAATGGTAAGGTCTTAC
8771075 AAGTAAAAGA
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
43 1 0.02
44 63 0.97
45 1 0.02
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.20
Consensus pattern (43 bp):
AGCAGAGGAGCCTGAGAAATGGTAAGGTCTTACCCTTGCACAT
Found at i:8771199 original size:24 final size:24
Alignment explanation
Indices: 8771172--8771233 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 24
8771162 AAATAGAATT
*
8771172 CAGATAAGATATCAGAACAAAATC
1 CAGATAAGAAATCAGAACAAAATC
* * * *
8771196 CAGAAAAGAAACCAGAACAGAATT
1 CAGATAAGAAATCAGAACAAAATC
*
8771220 CAGATCAGAAATCA
1 CAGATAAGAAATCA
8771234 AATAAAACAT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.55, C:0.18, G:0.15, T:0.13
Consensus pattern (24 bp):
CAGATAAGAAATCAGAACAAAATC
Found at i:8771217 original size:12 final size:13
Alignment explanation
Indices: 8771184--8771232 Score: 50
Period size: 12 Copynumber: 4.0 Consensus size: 13
8771174 GATAAGATAT
8771184 CAGAACA-AAATC
1 CAGAACAGAAATC
*
8771196 CAGAAAAGAAA-C
1 CAGAACAGAAATC
*
8771208 CAGAACAG-AATT
1 CAGAACAGAAATC
*
8771220 CAGATCAGAAATC
1 CAGAACAGAAATC
8771233 AAATAAAACA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
11 2 0.07
12 21 0.72
13 6 0.21
ACGTcount: A:0.55, C:0.20, G:0.14, T:0.10
Consensus pattern (13 bp):
CAGAACAGAAATC
Found at i:8775843 original size:74 final size:73
Alignment explanation
Indices: 8775720--8775950 Score: 227
Period size: 73 Copynumber: 3.2 Consensus size: 73
8775710 ACCACCTGAA
* * * ** *
8775720 GAGTCATCTCACTTGGCATAGACCCGAAAAGGGAGTCATCTAAAGAACCAAGATCATCTTAAACC
1 GAGTCATCTCATTTGACATAGAACCGTGAAGGGAGTCATCCAAAGAACCAAGATCATCTTAAACC
*
8775785 GCGAAGGG
66 ACGAAGGG
**
8775793 GAGTCATCTCATTTGACATAGAACCGTGAAGGTGAGTCATCCAAAGAACCAAGATTGTCTT-AAC
1 GAGTCATCTCATTTGACATAGAACCGTGAAGG-GAGTCATCCAAAGAACCAAGATCATCTTAAAC
8775857 CACGAAGGG
65 CACGAAGGG
* * * * * * *
8775866 GTA-TCATATCATTTGACTTAG-ACC-TACGAATGAGAGTCTTCCAAAGAACTAAGAGCAGCTTA
1 G-AGTCATCTCATTTGACATAGAACCGT--GAA-GGGAGTCATCCAAAGAACCAAGATCATCTTA
* *
8775928 AAGCACAAAGGG
62 AACCACGAAGGG
8775940 GAGTCATCTCA
1 GAGTCATCTCA
8775951 CCTGGCTTTC
Statistics
Matches: 130, Mismatches: 21, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
71 1 0.01
72 3 0.02
73 81 0.62
74 45 0.35
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.21
Consensus pattern (73 bp):
GAGTCATCTCATTTGACATAGAACCGTGAAGGGAGTCATCCAAAGAACCAAGATCATCTTAAACC
ACGAAGGG
Found at i:8776000 original size:72 final size:71
Alignment explanation
Indices: 8775899--8776278 Score: 365
Period size: 72 Copynumber: 5.3 Consensus size: 71
8775889 CTACGAATGA
* * *
8775899 GAGTCTTCCAAAGAA-CTAAGA-GCAGCTTAAAGCACAAAGGGGAGTCATCTCACCTGGCTTTCC
1 GAGTCATCCAAAGAATC-AAGACG-A-CTTAAACCATAAAGGGGAGTCATCTCACCTGGCTTTCC
*
8775962 CATGAACA-T
63 CATGAA-AGG
* * * * ***
8775971 GAGCCATCCAAATAATCAAGATCGACTTAAACCATAAAGGGAACTCATCTCACCTGGCTTTCTTG
1 GAGTCATCCAAAGAATCAAGA-CGACTTAAACCATAAAGGGGAGTCATCTCACCTGGCTTTCCCA
8776036 TGAAAGG
65 TGAAAGG
* * * * *
8776043 GAGTCATCTAAAGAATCAAGACTGACTTAGACCGTGAAGGGGAGTCATCTCACATGGCTTTCCCA
1 GAGTCATCCAAAGAATCAAGAC-GACTTAAACCATAAAGGGGAGTCATCTCACCTGGCTTTCCCA
8776108 TGAAAGG
65 TGAAAGG
* * ** * * * *
8776115 GAGTCATCTAAAGAATCAAGACCGAATTAAACTGTGAATGAGAGTCATCTCACTTGGCTTTCCCA
1 GAGTCATCCAAAGAATCAAGA-CGACTTAAACCATAAAGGGGAGTCATCTCACCTGGCTTTCCCA
*
8776180 T-TAAGG
65 TGAAAGG
* * * * *
8776186 GAAGTCATCCAAAGAATCAACACTAACTTAAACCATAAAGAGGAATCATCTCACTTGGCTTTCCC
1 G-AGTCATCCAAAGAATCAAGAC-GACTTAAACCATAAAGGGGAGTCATCTCACCTGGCTTTCCC
*
8776251 GT-AAAGG
64 ATGAAAGG
8776258 GAGTCATCCAAAGAATCAAGA
1 GAGTCATCCAAAGAATCAAGA
8776279 TCAAATTAAA
Statistics
Matches: 256, Mismatches: 44, Indels: 17
0.81 0.14 0.05
Matches are distributed among these distances:
71 27 0.11
72 225 0.88
73 3 0.01
74 1 0.00
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (71 bp):
GAGTCATCCAAAGAATCAAGACGACTTAAACCATAAAGGGGAGTCATCTCACCTGGCTTTCCCAT
GAAAGG
Found at i:8776086 original size:144 final size:144
Alignment explanation
Indices: 8775924--8776291 Score: 411
Period size: 144 Copynumber: 2.6 Consensus size: 144
8775914 CTAAGAGCAG
* * * * * *
8775924 CTTAAAGCACAAAGGGGAGTCATCTCACCTGGCTTTCCCATGAACA-TGAGCCATCCAAATAATC
1 CTTAAACCATAAAGGGGAGTCATCTCACATGGCTTTCCCATGAA-AGGGAGTCATCCAAAGAATC
* ***
8775988 AAGATCGACTTAAACCATAAAGG-GAACTCATCTCACCTGGCTTTCTTGTGAAAGGG-AGTCATC
65 AAGATCGAATTAAACCATAAAGGAG-ACTCATCTCACCTGGCTTTCCCAT-AAAGGGAAGTCATC
* * *
8776051 TAAAGAATCAAGACTGA
128 CAAAGAATCAACACTAA
* * * *
8776068 CTTAGACCGTGAAGGGGAGTCATCTCACATGGCTTTCCCATGAAAGGGAGTCATCTAAAGAATCA
1 CTTAAACCATAAAGGGGAGTCATCTCACATGGCTTTCCCATGAAAGGGAGTCATCCAAAGAATCA
* ** * * * * *
8776133 AGACCGAATTAAACTGTGAATGAGAGTCATCTCACTTGGCTTTCCCATTAAGGGAAGTCATCCAA
66 AGATCGAATTAAACCATAAAGGAGACTCATCTCACCTGGCTTTCCCATAAAGGGAAGTCATCCAA
8776198 AGAATCAACACTAA
131 AGAATCAACACTAA
* * * *
8776212 CTTAAACCATAAAGAGGAATCATCTCACTTGGCTTTCCCGT-AAAGGGAGTCATCCAAAGAATCA
1 CTTAAACCATAAAGGGGAGTCATCTCACATGGCTTTCCCATGAAAGGGAGTCATCCAAAGAATCA
*
8776276 AGATCAAATTAAACCA
66 AGATCGAATTAAACCA
8776292 CGAAGAGAAG
Statistics
Matches: 184, Mismatches: 37, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
143 40 0.22
144 143 0.78
145 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.23
Consensus pattern (144 bp):
CTTAAACCATAAAGGGGAGTCATCTCACATGGCTTTCCCATGAAAGGGAGTCATCCAAAGAATCA
AGATCGAATTAAACCATAAAGGAGACTCATCTCACCTGGCTTTCCCATAAAGGGAAGTCATCCAA
AGAATCAACACTAA
Found at i:8777476 original size:2 final size:2
Alignment explanation
Indices: 8777412--8777459 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
8777402 TAGTTTTCGA
8777412 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8777454 AT AT AT
1 AT AT AT
8777460 TTAAAATGTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8777502 original size:58 final size:55
Alignment explanation
Indices: 8777432--8777649 Score: 180
Period size: 58 Copynumber: 3.9 Consensus size: 55
8777422 ATATATATAT
* *
8777432 ATATATATATATATATATATATATATATTT-AAAATGTATTATATAATTTTTGAAAAC
1 ATATATA-ATATATAT-TATATAT-TTTTTGAAAATATATTATATAATTTTTGAAAAC
** * *
8777489 ATATATAATATATATTGCATATTGTTTTGGAAAATATA-TATAATATAGTTTTGGAAAC
1 ATATATAATATATATTATATATT-TTTT-GAAAATATATTAT-ATA-ATTTTTGAAAAC
* * * *
8777547 AT-T-T--TATATATTATATAGTTTTTT-TAAATCGTATTATATAGTTTTTGAAAAA
1 ATATATAATATATATTATATA-TTTTTTGAAAAT-ATATTATATAATTTTTGAAAAC
*
8777599 ATATATAATATATATTATATATAGTTTTTTGAAAATATATAATATAATTTT
1 ATATATAATATATA-T-TATATA-TTTTTTGAAAATATATTATATAATTTT
8777650 GAAGAAAAAA
Statistics
Matches: 128, Mismatches: 18, Indels: 29
0.73 0.10 0.17
Matches are distributed among these distances:
52 14 0.11
53 6 0.05
54 20 0.16
55 10 0.08
56 18 0.14
57 19 0.15
58 37 0.29
59 4 0.03
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.49
Consensus pattern (55 bp):
ATATATAATATATATTATATATTTTTTGAAAATATATTATATAATTTTTGAAAAC
Found at i:8777554 original size:24 final size:24
Alignment explanation
Indices: 8777507--8777610 Score: 77
Period size: 24 Copynumber: 4.2 Consensus size: 24
8777497 TATATATTGC
*
8777507 ATATTGTTTTGGAAAATATATATA
1 ATATAGTTTTGGAAAATATATATA
*
8777531 ATATAGTTTTGGAAACATTTTATATATT
1 ATATAGTTTTGGAAA-A---TATATATA
*** *
8777559 ATATAGTTTTTTTAAATCGTAT-T-
1 ATATAGTTTTGGAAAAT-ATATATA
* *
8777582 ATATAGTTTTTGAAAAAATATATA
1 ATATAGTTTTGGAAAATATATATA
8777606 ATATA
1 ATATA
8777611 TATTATATAT
Statistics
Matches: 63, Mismatches: 10, Indels: 14
0.72 0.11 0.16
Matches are distributed among these distances:
22 3 0.05
23 15 0.24
24 21 0.33
25 4 0.06
27 1 0.02
28 19 0.30
ACGTcount: A:0.40, C:0.02, G:0.10, T:0.48
Consensus pattern (24 bp):
ATATAGTTTTGGAAAATATATATA
Found at i:8777581 original size:110 final size:111
Alignment explanation
Indices: 8777441--8777639 Score: 287
Period size: 110 Copynumber: 1.8 Consensus size: 111
8777431 TATATATATA
* *
8777441 TATATATATATATATATATTTAAAATGTATTATATAATTTTTGAAAACATATATAATATATATTG
1 TATATATATATATATATATTTAAAATGTATTATATAATTTTTGAAAAAATATATAATATATATTA
*
8777506 CATATTG-TTTTGGAAAATATATATAATATAGTTTTGGAAACATTT
66 CATATAGTTTTTGGAAAATATATATAATATAGTTTTGGAAACATTT
* * *
8777551 TATATAT-TATATAGT-TTTTTTAAATCGTATTATATAGTTTTTGAAAAAATATATAATATATAT
1 TATATATATATATA-TATATTTAAAAT-GTATTATATAATTTTTGAAAAAATATATAATATATAT
* *
8777614 TATATATAGTTTTTTGAAAATATATA
64 TACATATAGTTTTTGGAAAATATATA
8777640 ATATAATTTT
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
109 14 0.18
110 49 0.63
111 15 0.19
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.48
Consensus pattern (111 bp):
TATATATATATATATATATTTAAAATGTATTATATAATTTTTGAAAAAATATATAATATATATTA
CATATAGTTTTTGGAAAATATATATAATATAGTTTTGGAAACATTT
Found at i:8777686 original size:5 final size:5
Alignment explanation
Indices: 8777664--8777705 Score: 57
Period size: 5 Copynumber: 8.0 Consensus size: 5
8777654 AAAAAAATTA
*
8777664 TATAA TATAT GTATTAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT -TA-TAT TATAT TATAT TATAT TATAT TATAT
8777706 ATTTACATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
5 27 0.79
6 4 0.12
7 3 0.09
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (5 bp):
TATAT
Found at i:8777692 original size:110 final size:110
Alignment explanation
Indices: 8777443--8777695 Score: 266
Period size: 110 Copynumber: 2.3 Consensus size: 110
8777433 TATATATATA
* * *
8777443 TATATATATATATA-TATT-TAAAAT-GTATTATATAATTTTTGAAAACATATATAATATATATT
1 TATATA-ATATATAGTATTATTAAATCATATTATATAATTTTTGAAAAAATATATAATATATATT
* * * * **
8777505 GCATATTGTTTTGGAAAATATATATAATATAGTTTTGGAAACATTT
65 ACATATAGTTTTGGAAAATATATATAATATAATTTTGGAAAAAAAT
* * * * *
8777551 TATATATTATATAGTTTTTTTAAATCGTATTATATAGTTTTTGAAAAAATATATAATATATATTA
1 TATATAATATATAGTATTATTAAATCATATTATATAATTTTTGAAAAAATATATAATATATATTA
* *
8777616 TATATAGTTTTTTG-AAA-ATATATAATATAATTTTGAAGAAAAAAAT
66 CATATAG-TTTTGGAAAATATATATAATATAATTTTG--GAAAAAAAT
* *
8777662 TATATAATATAT-GTATTATTATATTATATTATAT
1 TATATAATATATAGTATTATTAAATCATATTATAT
8777696 TATATTATAT
Statistics
Matches: 120, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
107 6 0.05
108 9 0.08
109 22 0.18
110 61 0.51
111 22 0.18
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (110 bp):
TATATAATATATAGTATTATTAAATCATATTATATAATTTTTGAAAAAATATATAATATATATTA
CATATAGTTTTGGAAAATATATATAATATAATTTTGGAAAAAAAT
Found at i:8778843 original size:44 final size:44
Alignment explanation
Indices: 8778786--8779016 Score: 363
Period size: 44 Copynumber: 5.2 Consensus size: 44
8778776 TATTCATTAT
* *
8778786 TTTCATTTATGGCATCCTTTTATGCCTTAATACACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTAATGCACCGTTATGCA
* * * * *
8778830 TTTTATTTGTGGCATCCTTTCATGCCTTATTCCACTGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTAATGCACCGTTATGCA
8778874 TTTCATTTATGGCATCCTTTCATGCCTTAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTAATGCACCGTTATGCA
*
8778918 TTTCATTTATGGAATCCTTTCATGCCTTAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTAATGCACCGTTATGCA
* **
8778962 TTTCATTTATGGCATCCTTTCATGACTTAATGCATTGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTAATGCACCGTTATGCA
8779006 TTTCATTTATG
1 TTTCATTTATG
8779017 AATTCATTTT
Statistics
Matches: 171, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 171 1.00
ACGTcount: A:0.21, C:0.22, G:0.13, T:0.45
Consensus pattern (44 bp):
TTTCATTTATGGCATCCTTTCATGCCTTAATGCACCGTTATGCA
Found at i:8782898 original size:16 final size:16
Alignment explanation
Indices: 8782877--8782909 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
8782867 TGTAGAATGA
8782877 TTTATTTAC-TTTTATT
1 TTTATTT-CTTTTTATT
8782893 TTTATTTCTTTTTATT
1 TTTATTTCTTTTTATT
8782909 T
1 T
8782910 CAATATTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 1 0.06
16 15 0.94
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTATTTCTTTTTATT
Found at i:8786031 original size:165 final size:165
Alignment explanation
Indices: 8785825--8786154 Score: 660
Period size: 165 Copynumber: 2.0 Consensus size: 165
8785815 GTTGTCATAC
8785825 CTTAATTATTATTAATTTATTTTTTATTATTATATTTAACTAAATTAATTTAGGAACCTAATTGT
1 CTTAATTATTATTAATTTATTTTTTATTATTATATTTAACTAAATTAATTTAGGAACCTAATTGT
8785890 TATATTTTATACATGTAAGGTTATTCAATAAACTTTTGAGCAATTCAGGGACTCAGCTCTAAATT
66 TATATTTTATACATGTAAGGTTATTCAATAAACTTTTGAGCAATTCAGGGACTCAGCTCTAAATT
8785955 TTCCCATTGCTGGTCAGTAGAGAAAAGAAAAAAAA
131 TTCCCATTGCTGGTCAGTAGAGAAAAGAAAAAAAA
8785990 CTTAATTATTATTAATTTATTTTTTATTATTATATTTAACTAAATTAATTTAGGAACCTAATTGT
1 CTTAATTATTATTAATTTATTTTTTATTATTATATTTAACTAAATTAATTTAGGAACCTAATTGT
8786055 TATATTTTATACATGTAAGGTTATTCAATAAACTTTTGAGCAATTCAGGGACTCAGCTCTAAATT
66 TATATTTTATACATGTAAGGTTATTCAATAAACTTTTGAGCAATTCAGGGACTCAGCTCTAAATT
8786120 TTCCCATTGCTGGTCAGTAGAGAAAAGAAAAAAAA
131 TTCCCATTGCTGGTCAGTAGAGAAAAGAAAAAAAA
8786155 ATGAAGAGGT
Statistics
Matches: 165, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
165 165 1.00
ACGTcount: A:0.37, C:0.11, G:0.12, T:0.41
Consensus pattern (165 bp):
CTTAATTATTATTAATTTATTTTTTATTATTATATTTAACTAAATTAATTTAGGAACCTAATTGT
TATATTTTATACATGTAAGGTTATTCAATAAACTTTTGAGCAATTCAGGGACTCAGCTCTAAATT
TTCCCATTGCTGGTCAGTAGAGAAAAGAAAAAAAA
Found at i:8795500 original size:254 final size:254
Alignment explanation
Indices: 8795051--8795562 Score: 979
Period size: 254 Copynumber: 2.0 Consensus size: 254
8795041 AACCACACTA
*
8795051 ATTGTAATTGTTTTGCATTATTTAAATACAACATTGACTCTGTTGTATATTATTTGAATACAAAA
1 ATTGTAACTGTTTTGCATTATTTAAATACAACATTGACTCTGTTGTATATTATTTGAATACAAAA
* * *
8795116 ATGTTAGTATCTGGTCCGACATAGTTATTAGACACTAGTTAATGAGCGAACCTGGTGTCAAATAG
66 ATGTTAGTATCTAGTCCGACATAGTTATCAGACACTAGTTAATGAGCGAACCTAGTGTCAAATAG
8795181 CTTCGGTGAAATTCTCACTAAGTTGTTGTATGATCTCCTGGTCTCACATAGCCATCAGGTCGATA
131 CTTCGGTGAAATTCTCACTAAGTTGTTGTATGATCTCCTGGTCTCACATAGCCATCAGGTCGATA
8795246 ATGGAGAGGACACCCGGTGTCACATAGTCGTTAAGCCAAGCTCTAAGGATATATGTTGT
196 ATGGAGAGGACACCCGGTGTCACATAGTCGTTAAGCCAAGCTCTAAGGATATATGTTGT
8795305 ATTGTAACTGTTTTGCATTATTTAAATACAACATTGACTCTGTTGTATATTATTTGAATACAAAA
1 ATTGTAACTGTTTTGCATTATTTAAATACAACATTGACTCTGTTGTATATTATTTGAATACAAAA
*
8795370 ATGTTAGTATCTAGTCTGACATAGTTATCAGACACTAGTTAATGAGCGAACCTAGTGTCAAATAG
66 ATGTTAGTATCTAGTCCGACATAGTTATCAGACACTAGTTAATGAGCGAACCTAGTGTCAAATAG
8795435 CTTCGGTGAAATTCTCACTAAGTTGTTGTATGATCTCCTGGTCTCACATAGCCATCAGGTCGATA
131 CTTCGGTGAAATTCTCACTAAGTTGTTGTATGATCTCCTGGTCTCACATAGCCATCAGGTCGATA
8795500 ATGGAGAGGACACCCGGTGTCACATAGTCGTTAAGCCAAGCTCTAAGGATATATGTTGT
196 ATGGAGAGGACACCCGGTGTCACATAGTCGTTAAGCCAAGCTCTAAGGATATATGTTGT
8795559 ATTG
1 ATTG
8795563 CACTGATACA
Statistics
Matches: 253, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
254 253 1.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.34
Consensus pattern (254 bp):
ATTGTAACTGTTTTGCATTATTTAAATACAACATTGACTCTGTTGTATATTATTTGAATACAAAA
ATGTTAGTATCTAGTCCGACATAGTTATCAGACACTAGTTAATGAGCGAACCTAGTGTCAAATAG
CTTCGGTGAAATTCTCACTAAGTTGTTGTATGATCTCCTGGTCTCACATAGCCATCAGGTCGATA
ATGGAGAGGACACCCGGTGTCACATAGTCGTTAAGCCAAGCTCTAAGGATATATGTTGT
Found at i:8800882 original size:15 final size:16
Alignment explanation
Indices: 8800857--8800890 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
8800847 TCAAATATCT
*
8800857 AAAAACTTAAATATAA
1 AAAAACTTAAAAATAA
8800873 AAAAAC-TAAAAATAA
1 AAAAACTTAAAAATAA
8800888 AAA
1 AAA
8800891 TTAAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (16 bp):
AAAAACTTAAAAATAA
Found at i:8801513 original size:22 final size:21
Alignment explanation
Indices: 8801486--8801533 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
8801476 TCTGTCATGT
8801486 CATCAGC-TACAATGGACTGTCA
1 CATCAGCAT-CAA-GGACTGTCA
*
8801508 CATCAGCATCGAGGACTGTCA
1 CATCAGCATCAAGGACTGTCA
8801529 CATCA
1 CATCA
8801534 TCATTGTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 14 0.58
22 9 0.38
23 1 0.04
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (21 bp):
CATCAGCATCAAGGACTGTCA
Found at i:8801862 original size:31 final size:31
Alignment explanation
Indices: 8801792--8801869 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
8801782 CTTTTAAAAC
** *
8801792 TTACAATACAGTCCCTCAACATTTAGTTCGT
1 TTACAATATGGTCCCCCAACATTTAGTTCGT
8801823 TTACAATATGGTCCCCCAACATTTAG-TCTGT
1 TTACAATATGGTCCCCCAACATTTAGTTC-GT
**
8801854 TTGTAATATGGTCCCC
1 TTACAATATGGTCCCC
8801870 GACATAACCG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
30 2 0.05
31 39 0.95
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.36
Consensus pattern (31 bp):
TTACAATATGGTCCCCCAACATTTAGTTCGT
Found at i:8803871 original size:31 final size:31
Alignment explanation
Indices: 8803833--8803899 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
8803823 CGGTTACGTC
* *
8803833 GGGGACCATATTGCAAATAGACTAAATGTTG
1 GGGGACCATATTGCAAATAGACTAAAAGTTA
8803864 GGGGACCATATTGCAAATAGACTAAAAGTTA
1 GGGGACCATATTGCAAATAGACTAAAAGTTA
8803895 GGGGA
1 GGGGA
8803900 TTGTACTGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.37, C:0.12, G:0.28, T:0.22
Consensus pattern (31 bp):
GGGGACCATATTGCAAATAGACTAAAAGTTA
Found at i:8804131 original size:5 final size:5
Alignment explanation
Indices: 8804121--8804150 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
8804111 ATCACTTTGT
*
8804121 CCTTC CCTTC CCTTC CCTTC CCTTT CCTTC
1 CCTTC CCTTC CCTTC CCTTC CCTTC CCTTC
8804151 TCTCAGATCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (5 bp):
CCTTC
Found at i:8805449 original size:21 final size:22
Alignment explanation
Indices: 8805397--8805439 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
8805387 ACAGCTTGAT
8805397 AATTTTAAAAAAATTTATATAA
1 AATTTTAAAAAAATTTATATAA
*
8805419 AATTTAAAAAAAATTATATAT
1 AATTTTAAAAAAATT-TATAT
8805440 TTTTTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
AATTTTAAAAAAATTTATATAA
Found at i:8805825 original size:18 final size:19
Alignment explanation
Indices: 8805797--8805832 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
8805787 GAAATGAGGT
8805797 TTTCAAAATTTTGGGTTTA
1 TTTCAAAATTTTGGGTTTA
*
8805816 TTTC-AAATTTTGTGTTT
1 TTTCAAAATTTTGGGTTT
8805833 TCTTTTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.22, C:0.06, G:0.14, T:0.58
Consensus pattern (19 bp):
TTTCAAAATTTTGGGTTTA
Found at i:8805850 original size:2 final size:2
Alignment explanation
Indices: 8805843--8805870 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8805833 TCTTTTTAAA
8805843 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8805871 TTTAATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8806015 original size:24 final size:25
Alignment explanation
Indices: 8805969--8806020 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 25
8805959 GAATAAAACG
8805969 TTAGGCACCAAACTGAAACGAAAAAAAA
1 TTAGGCACCAAACTG--A-GAAAAAAAA
8805997 TTAGGCACCAAACTG-GAAAAAAAA
1 TTAGGCACCAAACTGAGAAAAAAAA
8806021 GTCATACGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 9 0.38
28 15 0.62
ACGTcount: A:0.56, C:0.17, G:0.15, T:0.12
Consensus pattern (25 bp):
TTAGGCACCAAACTGAGAAAAAAAA
Found at i:8807769 original size:36 final size:36
Alignment explanation
Indices: 8807728--8807803 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
8807718 ATTTTCGGGA
*
8807728 TTTTGCTATTTTTGGCAAAATTCGAATAAATACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
8807764 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
8807800 TTTT
1 TTTT
8807804 TTAGCTATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (36 bp):
TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
Found at i:8817275 original size:31 final size:29
Alignment explanation
Indices: 8817204--8817275 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 29
8817194 AAAATTTTAG
8817204 TTAGTGACCAAAATATAAATTTTCAAAGT
1 TTAGTGACCAAAATATAAATTTTCAAAGT
* *
8817233 TTAGTTG-CCAAAGTATAAAGTTTTGGAAAGT
1 TTAG-TGACCAAAATATAAA-TTTT-CAAAGT
*
8817264 TTAGGGACCAAA
1 TTAGTGACCAAA
8817276 TAGGTACTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
29 15 0.42
30 7 0.19
31 14 0.39
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.32
Consensus pattern (29 bp):
TTAGTGACCAAAATATAAATTTTCAAAGT
Found at i:8817295 original size:30 final size:30
Alignment explanation
Indices: 8817259--8817322 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
8817249 AAAGTTTTGG
* *
8817259 AAAGTTTAGGGACCAAATAG-GTACTTTTTA
1 AAAGTTTAGGGACCAAA-AGTGTAATTTTCA
*
8817289 AAAGTTTAGGGATCAAAAGTGTAATTTTCA
1 AAAGTTTAGGGACCAAAAGTGTAATTTTCA
8817319 AAAG
1 AAAG
8817323 CTATGTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 2 0.07
30 28 0.93
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.31
Consensus pattern (30 bp):
AAAGTTTAGGGACCAAAAGTGTAATTTTCA
Found at i:8824408 original size:44 final size:43
Alignment explanation
Indices: 8824270--8824414 Score: 146
Period size: 44 Copynumber: 3.3 Consensus size: 43
8824260 TATACACCCA
* * * * * *
8824270 GTAAGGACTTAACCTGTGCACAAAGCAGAAGAGCCGGCAGAAATG
1 GTAAGGTCTTACCCT-TGCACATAGCAGAGGAGCCTG-AGAAAAG
* * * *
8824315 GTAAGGTCTTTCCCTTGCGCATAGTAGAGGAGCCTGGGAAAAAG
1 GTAAGGTCTTACCCTTGCACATAGCAGAGGAGCCTGAG-AAAAG
* *
8824359 ATAAGGTCTTACCCTTGCACATAGCAGAGGAGCCTGTAGAAACG
1 GTAAGGTCTTACCCTTGCACATAGCAGAGGAGCCTG-AGAAAAG
8824403 GTAAGGTCTTAC
1 GTAAGGTCTTAC
8824415 AAGTAAAATA
Statistics
Matches: 81, Mismatches: 17, Indels: 5
0.79 0.17 0.05
Matches are distributed among these distances:
43 1 0.01
44 67 0.83
45 13 0.16
ACGTcount: A:0.32, C:0.20, G:0.28, T:0.20
Consensus pattern (43 bp):
GTAAGGTCTTACCCTTGCACATAGCAGAGGAGCCTGAGAAAAG
Found at i:8824530 original size:24 final size:24
Alignment explanation
Indices: 8824496--8824573 Score: 95
Period size: 24 Copynumber: 3.2 Consensus size: 24
8824486 GAGATATCAT
*
8824496 AAATCAAAACAGAATTCAGATAAG
1 AAATCAGAACAGAATTCAGATAAG
* *
8824520 ATATCAGAACA-AATTCCAGAAAAG
1 AAATCAGAACAGAATT-CAGATAAG
* *
8824544 AAACCAGAACAGAATTCAGATCAG
1 AAATCAGAACAGAATTCAGATAAG
8824568 AAATCA
1 AAATCA
8824574 TATAAAACAT
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
23 4 0.09
24 36 0.82
25 4 0.09
ACGTcount: A:0.55, C:0.17, G:0.13, T:0.15
Consensus pattern (24 bp):
AAATCAGAACAGAATTCAGATAAG
Found at i:8824563 original size:12 final size:12
Alignment explanation
Indices: 8824503--8824569 Score: 50
Period size: 12 Copynumber: 5.6 Consensus size: 12
8824493 CATAAATCAA
8824503 AACAGAATTCAG
1 AACAGAATTCAG
8824515 ATA-AG-ATATCAG
1 A-ACAGAAT-TCAG
8824527 AACA-AATTCCAG
1 AACAGAATT-CAG
* **
8824539 AAAAGAAACCAG
1 AACAGAATTCAG
8824551 AACAGAATTCAG
1 AACAGAATTCAG
*
8824563 ATCAGAA
1 AACAGAA
8824570 ATCATATAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 12
0.69 0.11 0.20
Matches are distributed among these distances:
11 4 0.10
12 35 0.83
13 3 0.07
ACGTcount: A:0.54, C:0.16, G:0.15, T:0.15
Consensus pattern (12 bp):
AACAGAATTCAG
Found at i:8828964 original size:42 final size:42
Alignment explanation
Indices: 8828905--8828995 Score: 110
Period size: 42 Copynumber: 2.2 Consensus size: 42
8828895 CTGACATAAT
* * *
8828905 ATCTCACTTGACTTTCCTACGAAGAGGAGTCGTTCAAAGAAC
1 ATCTCACGTGACTTTCCTACGAAGAGGAGTCATCCAAAGAAC
* ** * *
8828947 ATCTCACGTGGCTTTCCTGTGAAGGGGAGTCATCCAAGGAAC
1 ATCTCACGTGACTTTCCTACGAAGAGGAGTCATCCAAAGAAC
8828989 ATCTCAC
1 ATCTCAC
8828996 CTGGTTTAGA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.25
Consensus pattern (42 bp):
ATCTCACGTGACTTTCCTACGAAGAGGAGTCATCCAAAGAAC
Found at i:8829173 original size:73 final size:74
Alignment explanation
Indices: 8829029--8829259 Score: 218
Period size: 73 Copynumber: 3.1 Consensus size: 74
8829019 ACCACCTGAA
* * * * * *
8829029 GAGTCATCTCACTTGGCATAGACCCG-AAAGGGGAGTCATCTAAAGAACCAAGATCATCATAAAC
1 GAGTCATCTCATTTGACATAGAACCGTGAAGGAGAGTCATCCAAAGAACCAAGATCATCATAAAC
*
8829093 CGCGAAGGG
66 CACGAAGGG
* ** *
8829102 GAGTCATCTCATTTGACATAGAACCGTGAAGGTGAGTCATCCAAAGAACCAAGATTGTC-TTAAC
1 GAGTCATCTCATTTGACATAGAACCGTGAAGGAGAGTCATCCAAAGAACCAAGATCATCATAAAC
*
8829166 CATGAAGGG
66 CACGAAGGG
* * * * * * * *
8829175 GTGTCATGTCATTTGACTTAG-ACC-TACGAAGGAGAGTCTTCCAAAGAACTAAGAGCAGCTTAA
1 GAGTCATCTCATTTGACATAGAACCGT--GAAGGAGAGTCATCCAAAGAACCAAGATCATCATAA
* *
8829238 AGCACAAAGGG
64 ACCACGAAGGG
8829249 GAGTCATCTCA
1 GAGTCATCTCA
8829260 CCTGGCTTTC
Statistics
Matches: 127, Mismatches: 27, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
71 1 0.01
72 3 0.02
73 77 0.61
74 46 0.36
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.21
Consensus pattern (74 bp):
GAGTCATCTCATTTGACATAGAACCGTGAAGGAGAGTCATCCAAAGAACCAAGATCATCATAAAC
CACGAAGGG
Found at i:8829320 original size:72 final size:72
Alignment explanation
Indices: 8829244--8829617 Score: 378
Period size: 72 Copynumber: 5.2 Consensus size: 72
8829234 TTAAAGCACA
* * * *
8829244 AAGGGGAGTCATCTCACCTGGCTTTCCCATGAAGAGGAGCCATCCAAATAATCAAGATCGACTTA
1 AAGGGGAGTCATCTCACCTGGCTTTCCCGTGAAGAGGAGTCATCCAAAGAATCAAGACCGACTTA
8829309 AACCATG
66 AACCATG
* * * *
8829316 AAGGGAACTCATCTCACCTGGCTTTCTCGTGAA-AGGGAGTCATCTAAAGAATCAAGACCGACTT
1 AAGGGGAGTCATCTCACCTGGCTTTCCCGTGAAGA-GGAGTCATCCAAAGAATCAAGACCGACTT
* *
8829380 AGACCGTG
65 AAACCATG
* * *
8829388 AAGGGGAGTCATCTCACATGGCTTTCCCGTGAA-AGGGAGTCATCTAAAGAATCAAGACCGAATT
1 AAGGGGAGTCATCTCACCTGGCTTTCCCGTGAAGA-GGAGTCATCCAAAGAATCAAGACCGACTT
**
8829452 AAACTGTG
65 AAACCATG
** * * ** * * * * *
8829460 ATTGAGAGTCATCTCACTTGGCTTTCCTATTAAG-GGAAATCATCAAAAGAATCAACACTGACTT
1 AAGGGGAGTCATCTCACCTGGCTTTCCCGTGAAGAGG-AGTCATCCAAAGAATCAAGACCGACTT
*
8829524 AAACCATA
65 AAACCATG
* * * * *
8829532 AAGAGGAATCATCTCACTTGGCTTTCCCGTAAAG-GGAGTCATCCAAAGAATCAAGATCGACTTA
1 AAGGGGAGTCATCTCACCTGGCTTTCCCGTGAAGAGGAGTCATCCAAAGAATCAAGACCGACTTA
*
8829596 AACCACG
66 AACCATG
* *
8829603 AAGAGAAGTCATCTC
1 AAGGGGAGTCATCTC
8829618 GTTTAGCTTA
Statistics
Matches: 250, Mismatches: 49, Indels: 7
0.82 0.16 0.02
Matches are distributed among these distances:
71 44 0.18
72 206 0.82
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (72 bp):
AAGGGGAGTCATCTCACCTGGCTTTCCCGTGAAGAGGAGTCATCCAAAGAATCAAGACCGACTTA
AACCATG
Found at i:8829400 original size:144 final size:143
Alignment explanation
Indices: 8829233--8829617 Score: 438
Period size: 144 Copynumber: 2.7 Consensus size: 143
8829223 CTAAGAGCAG
* * * * * *
8829233 CTTAAAGCACAAAGGGGAGTCATCTCACCTGGCTTTCCCATGAAGAGGAGCCATCCAAATAATCA
1 CTTAAACCATAAAGGGGAGTCATCTCACATGGCTTTCCCGTGAAGAGGAGTCATCCAAAGAATCA
* * * *
8829298 AGATCGACTTAAACCATGAAGGGAACTCATCTCACCTGGCTTTCTCGTGA-AAGGG-AGTCATCT
66 AGATCGACTTAAACCATGAAGAGAAGTCATCTCACCTGGCTTTC-C-T-ATAAGGGAAATCATCA
*
8829361 AAAGAATCAAGACCGA
128 AAAGAATCAACACCGA
* * * *
8829377 CTTAGACCGTGAAGGGGAGTCATCTCACATGGCTTTCCCGTGAA-AGGGAGTCATCTAAAGAATC
1 CTTAAACCATAAAGGGGAGTCATCTCACATGGCTTTCCCGTGAAGA-GGAGTCATCCAAAGAATC
* * ** * *
8829441 AAGACCGAATTAAACTGTGATTGAG-AGTCATCTCACTTGGCTTTCCTATTAAGGGAAATCATCA
65 AAGATCGACTTAAACCATGA-AGAGAAGTCATCTCACCTGGCTTTCCTA-TAAGGGAAATCATCA
*
8829505 AAAGAATCAACACTGA
128 AAAGAATCAACACCGA
* * * *
8829521 CTTAAACCATAAAGAGGAATCATCTCACTTGGCTTTCCCGTAAAG-GGAGTCATCCAAAGAATCA
1 CTTAAACCATAAAGGGGAGTCATCTCACATGGCTTTCCCGTGAAGAGGAGTCATCCAAAGAATCA
*
8829585 AGATCGACTTAAACCACGAAGAGAAGTCATCTC
66 AGATCGACTTAAACCATGAAGAGAAGTCATCTC
8829618 GTTTAGCTTA
Statistics
Matches: 198, Mismatches: 36, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
141 1 0.01
142 4 0.02
143 48 0.24
144 143 0.72
145 2 0.01
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.23
Consensus pattern (143 bp):
CTTAAACCATAAAGGGGAGTCATCTCACATGGCTTTCCCGTGAAGAGGAGTCATCCAAAGAATCA
AGATCGACTTAAACCATGAAGAGAAGTCATCTCACCTGGCTTTCCTATAAGGGAAATCATCAAAA
GAATCAACACCGA
Found at i:8830102 original size:201 final size:200
Alignment explanation
Indices: 8829685--8830242 Score: 545
Period size: 201 Copynumber: 2.8 Consensus size: 200
8829675 TAATCATCTA
* * * *
8829685 CAACATAGCTTAACTCTATAAGAGTTATATGTCAACCTAAAGAATTCAAGTTCGATTCCACTCAA
1 CAACATAGCTTAAGTCTAGAAGAGTTATCTGTCAACC-AAAGATTTCAAGTTCGATTCCACTCAA
* * * * * * **
8829750 CTCGAGAGCATATTCACTGCGTGGTAGCAATGAGAAA-CTCCTTTTCGGTCAAAATTTAGACGGA
65 CTCGAGAGCACATTAACTGCATGGTGGCAA-GAGAAACCTCCTTTT-GGTCAAAATTCAAACTAA
* * * * *
8829814 GGTCTTTAATTCTAGAAGAATACCCAAATCGATTGCGATTTAGGAATGGGAAACTACTTTCCAGC
128 GGTCTTTAAGTCTAGAAGAAGACCCAAATCGATTGCGATTTAGGAATAGGAAACTACTTCCCAAC
8829879 CTAAATTT
193 CTAAATTT
* * * *
8829887 CAATGCA-A-CTTAAGTCTAGAAAAGCTATCTGTCAATCAAAGCTTTCAAGTTCGATTCCACTCA
1 CAA--CATAGCTTAAGTCTAGAAGAGTTATCTGTCAACCAAAGATTTCAAGTTCGATTCCACTCA
8829950 ACTCGAGAGCACATTAACTGCATGGTGGCAACGAGAAACCTCCTTCTT-GTCAAAATTCAAACTA
64 ACTCGAGAGCACATTAACTGCATGGTGGCAA-GAGAAACCTCCTT-TTGGTCAAAATTCAAACTA
* * ** *
8830014 AGGTCTTCAAGTCTAGAAGAAGGCCCAAATC-AGTTGTTATTTAGTAATAAGG-AACTACTTCCC
127 AGGTCTTTAAGTCTAGAAGAAGACCCAAATCGA-TTGCGATTTAGGAAT-AGGAAACTACTTCCC
*
8830077 AACAC-AGATTT
190 AAC-CTAAATTT
* * * ** * * * *
8830088 TAACATAGCTTAAGTCTAGAAGGGTTATCTATTGACCAAAGTTTTCAAGTTCAATTCCATTCGAC
1 CAACATAGCTTAAGTCTAGAAGAGTTATCTGTCAACCAAAGATTTCAAGTTCGATTCCACTCAAC
** ** * * * * * *
8830153 TCGAGAGCACATTGGCCCCATGATGGCAATAAAGAACCACCTTTTGGCCAAAATTCAAATTAAGG
66 TCGAGAGCACATTAACTGCATGGTGGCAAGAGA-AACCTCCTTTTGGTCAAAATTCAAACTAAGG
*
8830218 CCTTTAAGTCTAGAAGAAGACCCAA
130 TCTTTAAGTCTAGAAGAAGACCCAA
8830243 GTTTGACTGT
Statistics
Matches: 292, Mismatches: 53, Indels: 23
0.79 0.14 0.06
Matches are distributed among these distances:
199 2 0.01
200 6 0.02
201 244 0.84
202 35 0.12
203 3 0.01
204 2 0.01
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (200 bp):
CAACATAGCTTAAGTCTAGAAGAGTTATCTGTCAACCAAAGATTTCAAGTTCGATTCCACTCAAC
TCGAGAGCACATTAACTGCATGGTGGCAAGAGAAACCTCCTTTTGGTCAAAATTCAAACTAAGGT
CTTTAAGTCTAGAAGAAGACCCAAATCGATTGCGATTTAGGAATAGGAAACTACTTCCCAACCTA
AATTT
Found at i:8830773 original size:2 final size:2
Alignment explanation
Indices: 8830723--8830756 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
8830713 TAGTTTTCGA
8830723 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8830757 TTAAAATGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8830790 original size:59 final size:58
Alignment explanation
Indices: 8830679--8831004 Score: 200
Period size: 58 Copynumber: 5.4 Consensus size: 58
8830669 TTAGTTATCT
* * * * * *
8830679 TATATATATTATA-GTATATTTTTAAAA-ATA-TGTATAGTTTTCGAATATATATATA
1 TATATATATTATATATATATTTTTAAAATATATTATATAATTTTTGAAAACATATATA
* *
8830734 TATATATATATATATATATATATTTAAAATGTATTATATAATTTTTGAAAACATATATA
1 TATATATAT-TATATATATATTTTTAAAATATATTATATAATTTTTGAAAACATATATA
** * * * *
8830793 -ATATATATTCCATAT-TGTTTTGGAAAATATA-TATAATATAGTTTTGGAAACATTTTATATA
1 TATATATATTATATATATATTTT-TAAAATATATTAT-ATA-ATTTTTGAAAACA---TATATA
* * * *
8830854 TTATATAGTTTTTAATATATATAGGTTTTTTAAATCGTATTATATAATTTTTGAAAAAATATATA
1 -TATATA--TATT-ATATATATA--TTTTTAAAAT-ATATTATATAATTTTTGAAAACATATATA
* *
8830919 -ATATATATTATATATAGT-TTTTTGAAAATATATAATATAATTTTAAAGAAAAACATTATATAA
1 TATATATATTATATATA-TATTTTT-AAAATATATTATATAATTTT--TG-AAAACA-TATAT-A
*
8830982 TATATGTATTATTATATTATATT
1 TATATATATTA-TATA-TATATT
8831005 ATTTTTATTT
Statistics
Matches: 207, Mismatches: 33, Indels: 51
0.71 0.11 0.18
Matches are distributed among these distances:
55 9 0.04
56 11 0.05
57 27 0.13
58 39 0.19
59 24 0.12
60 8 0.04
61 15 0.07
62 5 0.02
63 11 0.05
64 9 0.04
65 14 0.07
66 8 0.04
67 1 0.00
68 14 0.07
69 9 0.04
70 3 0.01
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.48
Consensus pattern (58 bp):
TATATATATTATATATATATTTTTAAAATATATTATATAATTTTTGAAAACATATATA
Found at i:8830851 original size:24 final size:24
Alignment explanation
Indices: 8830804--8830865 Score: 70
Period size: 28 Copynumber: 2.4 Consensus size: 24
8830794 TATATATTCC
*
8830804 ATATTGTTTTGGAAAATATATATA
1 ATATAGTTTTGGAAAATATATATA
*
8830828 ATATAGTTTTGGAAACATTTTATATATT
1 ATATAGTTTTGGAAA-A---TATATATA
8830856 ATATAGTTTT
1 ATATAGTTTT
8830866 TAATATATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 14 0.44
25 1 0.03
28 17 0.53
ACGTcount: A:0.37, C:0.02, G:0.11, T:0.50
Consensus pattern (24 bp):
ATATAGTTTTGGAAAATATATATA
Found at i:8830876 original size:16 final size:19
Alignment explanation
Indices: 8830845--8830883 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
8830835 TTTGGAAACA
8830845 TTTTATATATTATATA-GT
1 TTTTATATATTATATAGGT
8830863 TTTTA-ATA-TATATAGGT
1 TTTTATATATTATATAGGT
8830880 TTTT
1 TTTT
8830884 TAAATCGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 6 0.30
17 9 0.45
18 5 0.25
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (19 bp):
TTTTATATATTATATAGGT
Found at i:8831010 original size:126 final size:125
Alignment explanation
Indices: 8830725--8831011 Score: 307
Period size: 126 Copynumber: 2.3 Consensus size: 125
8830715 GTTTTCGAAT
* * *
8830725 ATATATATATATATATATATATATATATATATTTAAAATGTATTATATAATTTTTGAAAACATAT
1 ATATATGTAT-TAT-TATATATATAT-TAT-TTTTAAATGTATTATATAATTTTTGAAAAAATAT
* * * * * **
8830790 ATAATATATATTCCATATTGTTTTGGAAAATATATATAATATAGTTTTGGAAACATTTTATATA
62 ATAATATATATTACATATAGTTTTGGAAAATATATATAATATAATTTTAGAAAAACATTATATA
* *
8830854 TTATATAGT-TT-TTAATATATATAGGT-TTTTTAAATCGTATTATATAATTTTTGAAAAAATAT
1 ATATAT-GTATTATT-ATATATATA-TTATTTTTAAAT-GTATTATATAATTTTTGAAAAAATAT
* *
8830916 ATAATATATATTATATATAGTTTTTTG-AAA-ATATATAATATAATTTTAAAGAAAAACATTATA
62 ATAATATATATTACATATAG-TTTTGGAAAATATATATAATATAATTTT--AGAAAAACATTATA
8830979 TA
124 TA
8830981 ATATATGTATTATTATAT-TATATTATTTTTA
1 ATATATGTATTATTATATATATATTATTTTTA
8831012 TTTATTTACA
Statistics
Matches: 132, Mismatches: 16, Indels: 23
0.77 0.09 0.13
Matches are distributed among these distances:
125 24 0.18
126 59 0.45
127 39 0.30
128 3 0.02
129 6 0.05
130 1 0.01
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (125 bp):
ATATATGTATTATTATATATATATTATTTTTAAATGTATTATATAATTTTTGAAAAAATATATAA
TATATATTACATATAGTTTTGGAAAATATATATAATATAATTTTAGAAAAACATTATATA
Found at i:8832160 original size:44 final size:44
Alignment explanation
Indices: 8832103--8832333 Score: 329
Period size: 44 Copynumber: 5.2 Consensus size: 44
8832093 TATTCATTAT
* * **
8832103 TTTCATTTATGGCATCCTTTTATGCCTTAATACATAATTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTAATGCATCGTTATGCA
* * * *
8832147 TTTTATTTGTGGCATCCTTTCATGCCTTATTCCA-CTGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTAATGCATC-GTTATGCA
* *
8832191 TTTCATTTATAGCATCCTTTCATGCCTTAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTAATGCATCGTTATGCA
*
8832235 TTTCATTTATGGCATCCTTTCATGCCTTAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTAATGCATCGTTATGCA
* *
8832279 TTTCATTTATGGCATCCTTTCATGACTTAATGCATTGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTAATGCATCGTTATGCA
8832323 TTTCATTTATG
1 TTTCATTTATG
8832334 AATTCGTTTT
Statistics
Matches: 169, Mismatches: 16, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
44 168 0.99
45 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.12, T:0.45
Consensus pattern (44 bp):
TTTCATTTATGGCATCCTTTCATGCCTTAATGCATCGTTATGCA
Found at i:8840782 original size:19 final size:19
Alignment explanation
Indices: 8840758--8840802 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
8840748 CAATCATTTC
8840758 TTGAAAAGAG-TCGATCCTT
1 TTGAAAAGAGATCGAT-CTT
* *
8840777 TTGAAAAGTGATCGATTTT
1 TTGAAAAGAGATCGATCTT
8840796 TTGAAAA
1 TTGAAAA
8840803 ACATAAACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 18 0.78
20 5 0.22
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.36
Consensus pattern (19 bp):
TTGAAAAGAGATCGATCTT
Found at i:8843820 original size:254 final size:254
Alignment explanation
Indices: 8843371--8843882 Score: 970
Period size: 254 Copynumber: 2.0 Consensus size: 254
8843361 AACCACACTA
8843371 ATTGTAACTGTTTTGCATTATTTAAATACAACATTGACTCTGTTGTATATTATTTGAATACAAAA
1 ATTGTAACTGTTTTGCATTATTTAAATACAACATTGACTCTGTTGTATATTATTTGAATACAAAA
8843436 ATGTTAGTATCTGGTCCGACATAGTTATCAGACACTAGTTAATGAGCGAACCTGGTGTCAAATAG
66 ATGTTAGTATCTGGTCCGACATAGTTATCAGACACTAGTTAATGAGCGAACCTGGTGTCAAATAG
* *
8843501 CTTCGGTGAAATTCTCACTAAGTTGTTGTATGATCTCCTGGTCTCGCATAGCCATCAGGTCGATA
131 CTTCGGTGAAATTCTCACTAAGTTGTTGTATGATCTCCTAGTCTCACATAGCCATCAGGTCGATA
8843566 ATGGAGAGGACACCCGGTGTCACATAGTCATTAAGCCAAGCTCTAAGGATATATGTTGT
196 ATGGAGAGGACACCCGGTGTCACATAGTCATTAAGCCAAGCTCTAAGGATATATGTTGT
*
8843625 ATTGTAACTGTTTTGCATTATTTAAATACAACATTGACTCTGTTGTATATTATTTGAATATAAAA
1 ATTGTAACTGTTTTGCATTATTTAAATACAACATTGACTCTGTTGTATATTATTTGAATACAAAA
*
8843690 ATGTTAGTATCTGGTCTGACATAGTTATCAGACACTAGTTAATGAGCGAACCTGGTGTCAAATAG
66 ATGTTAGTATCTGGTCCGACATAGTTATCAGACACTAGTTAATGAGCGAACCTGGTGTCAAATAG
8843755 CTTCGGTGAAATTCTCACTAAGTTGTTGTATGATCTCCTAGTCTCACATAGCCATCAGGTCGATA
131 CTTCGGTGAAATTCTCACTAAGTTGTTGTATGATCTCCTAGTCTCACATAGCCATCAGGTCGATA
* *
8843820 ATGGAGAGGACACCCGGTGTCACATAGTCGTTAAGCCAAGCTCTAAGGATGTATGTTGT
196 ATGGAGAGGACACCCGGTGTCACATAGTCATTAAGCCAAGCTCTAAGGATATATGTTGT
8843879 ATTG
1 ATTG
8843883 CACTGATACA
Statistics
Matches: 252, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
254 252 1.00
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (254 bp):
ATTGTAACTGTTTTGCATTATTTAAATACAACATTGACTCTGTTGTATATTATTTGAATACAAAA
ATGTTAGTATCTGGTCCGACATAGTTATCAGACACTAGTTAATGAGCGAACCTGGTGTCAAATAG
CTTCGGTGAAATTCTCACTAAGTTGTTGTATGATCTCCTAGTCTCACATAGCCATCAGGTCGATA
ATGGAGAGGACACCCGGTGTCACATAGTCATTAAGCCAAGCTCTAAGGATATATGTTGT
Found at i:8845435 original size:21 final size:21
Alignment explanation
Indices: 8845392--8845436 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
8845382 AGAACTTGGA
*
8845392 AATGAAGAATGAGAAAATGAG
1 AATGAAGAATGAGAAAATAAG
*
8845413 AATG-AGAATGAAGAGAATAAG
1 AATGAAGAATG-AGAAAATAAG
8845434 AAT
1 AAT
8845437 ATGAAATGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.58, C:0.00, G:0.27, T:0.16
Consensus pattern (21 bp):
AATGAAGAATGAGAAAATAAG
Found at i:8858625 original size:36 final size:36
Alignment explanation
Indices: 8858573--8858703 Score: 190
Period size: 36 Copynumber: 3.6 Consensus size: 36
8858563 TATCCTTAAT
* *
8858573 AAAAGAGTAGTAAAGCAATGAAAATCTAGCCTTCAC
1 AAAAGAGTAGTGAAGCAATGCAAATCTAGCCTTCAC
8858609 AAAAGAGTAGTGAAGCAATGCAAATCTAGCCTTCAC
1 AAAAGAGTAGTGAAGCAATGCAAATCTAGCCTTCAC
* * * *
8858645 AAAAGAGTAGTGAACCAAAGCAAATCCAGCCTCCAC
1 AAAAGAGTAGTGAAGCAATGCAAATCTAGCCTTCAC
* *
8858681 GAAAGAGTAATGAAGCAATGCAA
1 AAAAGAGTAGTGAAGCAATGCAA
8858704 TCCAACCTTT
Statistics
Matches: 85, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 85 1.00
ACGTcount: A:0.46, C:0.19, G:0.19, T:0.16
Consensus pattern (36 bp):
AAAAGAGTAGTGAAGCAATGCAAATCTAGCCTTCAC
Found at i:8860161 original size:2 final size:2
Alignment explanation
Indices: 8860154--8860215 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
8860144 TCACTACTGC
8860154 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8860196 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
8860216 TAGGATAAAT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8861873 original size:13 final size:13
Alignment explanation
Indices: 8861855--8861884 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
8861845 CATAAGCTAC
*
8861855 AACAAATCAAAGA
1 AACAAAACAAAGA
8861868 AACAAAACAAAGA
1 AACAAAACAAAGA
8861881 AACA
1 AACA
8861885 TAAGGAAGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.73, C:0.17, G:0.07, T:0.03
Consensus pattern (13 bp):
AACAAAACAAAGA
Found at i:8863316 original size:22 final size:22
Alignment explanation
Indices: 8863291--8863339 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
8863281 TGACTTGGAA
* *
8863291 ATTTTATACGATTAAAATAAAT
1 ATTTTATACGAATAAAATAAAC
* *
8863313 A-TTTCTACTAATAAAATAAAC
1 ATTTTATACGAATAAAATAAAC
8863334 ATTTTA
1 ATTTTA
8863340 ACATAGGTTA
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.49, C:0.08, G:0.02, T:0.41
Consensus pattern (22 bp):
ATTTTATACGAATAAAATAAAC
Found at i:8863566 original size:2 final size:2
Alignment explanation
Indices: 8863559--8863618 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
8863549 ACTTTGTATG
8863559 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8863601 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
8863619 CACATATGAA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8868046 original size:6 final size:6
Alignment explanation
Indices: 8868035--8868077 Score: 86
Period size: 6 Copynumber: 7.2 Consensus size: 6
8868025 TCGTCTCGGC
8868035 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
8868078 AATACGTGTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.00, C:0.16, G:0.49, T:0.35
Consensus pattern (6 bp):
TCGTGG
Found at i:8873986 original size:6 final size:6
Alignment explanation
Indices: 8873975--8874023 Score: 80
Period size: 6 Copynumber: 8.2 Consensus size: 6
8873965 TTGACTCGGC
* *
8873975 TCGTGG TCGTGG TCGAGG TCGAGG TCGTGG TCGTGG TCGTGG TCGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
8874023 T
1 T
8874024 AATACGTGTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.04, C:0.16, G:0.49, T:0.31
Consensus pattern (6 bp):
TCGTGG
Found at i:8877490 original size:5 final size:5
Alignment explanation
Indices: 8877480--8877658 Score: 326
Period size: 5 Copynumber: 36.2 Consensus size: 5
8877470 AAATATTAAA
8877480 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
8877530 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
* *
8877580 -A-AT AATCT AATCT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
8877628 AATAT AATAT AATAT AATAT AATAT AATAT A
1 AATAT AATAT AATAT AATAT AATAT AATAT A
8877659 TAGATATATT
Statistics
Matches: 170, Mismatches: 2, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
3 2 0.01
4 2 0.01
5 166 0.98
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (5 bp):
AATAT
Found at i:8877590 original size:8 final size:8
Alignment explanation
Indices: 8877483--8877660 Score: 97
Period size: 8 Copynumber: 23.0 Consensus size: 8
8877473 TATTAAAAAT
8877483 ATAATATA
1 ATAATATA
8877491 AT-ATA-A
1 ATAATATA
8877497 TATAATATA
1 -ATAATATA
8877506 AT-ATA-A
1 ATAATATA
8877512 TATAATATA
1 -ATAATATA
8877521 AT-ATA-A
1 ATAATATA
8877527 TATAATATA
1 -ATAATATA
8877536 AT-ATA-A
1 ATAATATA
8877542 TATAATATA
1 -ATAATATA
8877551 AT-ATA-A
1 ATAATATA
8877557 TATAATATA
1 -ATAATATA
8877566 AT-ATA-A
1 ATAATATA
8877572 TATAATATA
1 -ATAATATA
*
8877581 ATAATCTA
1 ATAATATA
8877589 ATCTAATATA
1 A--TAATATA
8877599 AT-ATA-A
1 ATAATATA
8877605 TATAATATA
1 -ATAATATA
8877614 AT-ATA-A
1 ATAATATA
8877620 TATAATATA
1 -ATAATATA
8877629 AT-ATA-A
1 ATAATATA
8877635 TATAATATAA
1 -ATAATAT-A
8877645 TATAATATA
1 -ATAATATA
8877654 AT-ATATA
1 ATAATATA
8877661 GATATATTAA
Statistics
Matches: 138, Mismatches: 2, Indels: 61
0.69 0.01 0.30
Matches are distributed among these distances:
6 9 0.07
7 50 0.36
8 54 0.39
9 9 0.07
10 16 0.12
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (8 bp):
ATAATATA
Found at i:8882803 original size:69 final size:66
Alignment explanation
Indices: 8882723--8882897 Score: 214
Period size: 66 Copynumber: 2.6 Consensus size: 66
8882713 GGGGTACACT
8882723 TTTTTTGCTTGTTTAATTTAATTT-TACATTGAAAGCTGATTTGTTTAA-TTGATGAGGAAATAA
1 TTTTTTGCTTGTTTAATTTAATTTGT--A---AAAGCTGATTTGTTTAATTTGATGAGGAAATAA
8882786 GAATTA
61 GAATTA
* * * *
8882792 TTTTTTGCTTGTTTAA-TTGATTTGTAAAAGTTGATTTGTTTAATTTGATGTGTAAATAAGAATT
1 TTTTTTGCTTGTTTAATTTAATTTGTAAAAGCTGATTTGTTTAATTTGATGAGGAAATAAGAATT
8882856 A
66 A
* *
8882857 TTGTTTTGCTTGTTTAA-TTGATTTGTAAAAGTTGATTTGTT
1 TT-TTTTGCTTGTTTAATTTAATTTGTAAAAGCTGATTTGTT
8882898 GTTTTAAATT
Statistics
Matches: 99, Mismatches: 4, Indels: 9
0.88 0.04 0.08
Matches are distributed among these distances:
64 16 0.16
65 21 0.21
66 38 0.38
67 1 0.01
68 6 0.06
69 17 0.17
ACGTcount: A:0.28, C:0.03, G:0.17, T:0.52
Consensus pattern (66 bp):
TTTTTTGCTTGTTTAATTTAATTTGTAAAAGCTGATTTGTTTAATTTGATGAGGAAATAAGAATT
A
Found at i:8882879 original size:66 final size:64
Alignment explanation
Indices: 8882754--8882897 Score: 243
Period size: 66 Copynumber: 2.2 Consensus size: 64
8882744 TTTTACATTG
*
8882754 AAAGCTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTGTTTAATTGATTTGTA
1 AAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTGTTTAATTGATTTGTA
* *
8882818 AAAGTTGATTTGTTTAATTTGATGTGTAAATAAGAATTATTGTTTTGCTTGTTTAATTGATTTGT
1 AAAGTTGATTTGTTTAA-TTGATGAGGAAATAAGAATTATT-TTTTGCTTGTTTAATTGATTTGT
8882883 A
64 A
8882884 AAAGTTGATTTGTT
1 AAAGTTGATTTGTT
8882898 GTTTTAAATT
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
64 16 0.21
65 21 0.28
66 38 0.51
ACGTcount: A:0.30, C:0.02, G:0.19, T:0.49
Consensus pattern (64 bp):
AAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTGTTTAATTGATTTGTA
Found at i:8883372 original size:18 final size:18
Alignment explanation
Indices: 8883349--8883384 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
8883339 AAGTCGGTTG
*
8883349 TGATTGGGATTTAGATTT
1 TGATTGCGATTTAGATTT
*
8883367 TGATTGCGATTTTGATTT
1 TGATTGCGATTTAGATTT
8883385 CCTTTTGCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.03, G:0.25, T:0.53
Consensus pattern (18 bp):
TGATTGCGATTTAGATTT
Found at i:8886651 original size:18 final size:18
Alignment explanation
Indices: 8886628--8886693 Score: 69
Period size: 18 Copynumber: 3.5 Consensus size: 18
8886618 AAAACATTTG
8886628 TGTTGCGAAACTAAAATC
1 TGTTGCGAAACTAAAATC
* *
8886646 TGTTGCGAAATTAAATTC
1 TGTTGCGAAACTAAAATC
* *
8886664 GTGTTGCGAATTCAAAAATC
1 -TGTTGCGAA-ACTAAAATC
8886684 TAGTTGCGAA
1 T-GTTGCGAA
8886694 TTTGAAATTC
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
18 16 0.41
19 10 0.26
20 13 0.33
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.32
Consensus pattern (18 bp):
TGTTGCGAAACTAAAATC
Found at i:8886670 original size:19 final size:19
Alignment explanation
Indices: 8886644--8886771 Score: 123
Period size: 19 Copynumber: 6.5 Consensus size: 19
8886634 GAAACTAAAA
*
8886644 TCTGTTGCGAAATT-AAAT
1 TCTGTTGCGAATTTGAAAT
** *
8886662 TCGTGTTGCGAATTCAAAAA
1 TC-TGTTGCGAATTTGAAAT
8886682 TCTAGTTGCGAATTTGAAAT
1 TCT-GTTGCGAATTTGAAAT
*
8886702 TCAGTTGCGAATTTGAAAT
1 TCTGTTGCGAATTTGAAAT
*
8886721 TCAGTTGCGAATTTGAAAT
1 TCTGTTGCGAATTTGAAAT
* *
8886740 TCCGCGTTGCGAATTTGACATT
1 T-C-TGTTGCGAATTTGA-AAT
*
8886762 TGTGTTGCGA
1 TCTGTTGCGA
8886772 TTTACAAATT
Statistics
Matches: 93, Mismatches: 11, Indels: 10
0.82 0.10 0.09
Matches are distributed among these distances:
18 2 0.02
19 47 0.51
20 28 0.30
21 13 0.14
22 3 0.03
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (19 bp):
TCTGTTGCGAATTTGAAAT
Found at i:8886691 original size:20 final size:19
Alignment explanation
Indices: 8886647--8886757 Score: 125
Period size: 19 Copynumber: 5.7 Consensus size: 19
8886637 ACTAAAATCT
* *
8886647 GTTGCGAAATT-AAATTCGT
1 GTTGCGAATTTGAAATTC-A
** *
8886666 GTTGCGAATTCAAAAATCTA
1 GTTGCGAATTTGAAATTC-A
8886686 GTTGCGAATTTGAAATTCA
1 GTTGCGAATTTGAAATTCA
8886705 GTTGCGAATTTGAAATTCA
1 GTTGCGAATTTGAAATTCA
*
8886724 GTTGCGAATTTGAAATTCCGC
1 GTTGCGAATTTGAAATT-C-A
8886745 GTTGCGAATTTGA
1 GTTGCGAATTTGA
8886758 CATTTGTGTT
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
19 46 0.57
20 21 0.26
21 13 0.16
ACGTcount: A:0.31, C:0.13, G:0.22, T:0.35
Consensus pattern (19 bp):
GTTGCGAATTTGAAATTCA
Found at i:8886732 original size:38 final size:40
Alignment explanation
Indices: 8886640--8886757 Score: 145
Period size: 39 Copynumber: 3.0 Consensus size: 40
8886630 TTGCGAAACT
* * **
8886640 AAAATCT-GTTGCGAAATT-AAATTCGTGTTGCGAATTCA
1 AAAATCTAGTTGCGAATTTGAAATTCGAGTTGCGAATTTG
8886678 AAAATCTAGTTGCGAATTTGAAATTC-AGTTGCGAATTTG
1 AAAATCTAGTTGCGAATTTGAAATTCGAGTTGCGAATTTG
* *
8886717 AAATTC-AGTTGCGAATTTGAAATTCCGCGTTGCGAATTTG
1 AAAATCTAGTTGCGAATTTGAAATT-CGAGTTGCGAATTTG
8886757 A
1 A
8886758 CATTTGTGTT
Statistics
Matches: 70, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
38 25 0.36
39 26 0.37
40 19 0.27
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (40 bp):
AAAATCTAGTTGCGAATTTGAAATTCGAGTTGCGAATTTG
Found at i:8886786 original size:40 final size:40
Alignment explanation
Indices: 8886647--8886790 Score: 120
Period size: 40 Copynumber: 3.7 Consensus size: 40
8886637 ACTAAAATCT
* * ** *
8886647 GTTGCGAAATT-AAATT-CGTGTTGCGAATTCAAAAATCTA
1 GTTGCGAATTTCAAATTCCGCGTTGCGAATTTGAAATTC-A
* *
8886686 GTTGCGAATTTGAAATT-C-AGTTGCGAATTTGAAATTCA
1 GTTGCGAATTTCAAATTCCGCGTTGCGAATTTGAAATTCA
* * **
8886724 GTTGCGAATTTGAAATTCCGCGTTGCGAATTTGACATTTGT
1 GTTGCGAATTTCAAATTCCGCGTTGCGAATTTGA-AATTCA
8886765 GTTGCG-ATTTACAAATT-CGCGTTGCG
1 GTTGCGAATTT-CAAATTCCGCGTTGCG
8886791 GTTTACATAT
Statistics
Matches: 90, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
38 18 0.20
39 26 0.29
40 32 0.36
41 14 0.16
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (40 bp):
GTTGCGAATTTCAAATTCCGCGTTGCGAATTTGAAATTCA
Found at i:8886788 original size:20 final size:20
Alignment explanation
Indices: 8886765--8886848 Score: 87
Period size: 20 Copynumber: 4.2 Consensus size: 20
8886755 TGACATTTGT
8886765 GTTGCGATTTACAAATTCGC
1 GTTGCGATTTACAAATTCGC
* *
8886785 GTTGCGGTTTACATATTCGC
1 GTTGCGATTTACAAATTCGC
** *
8886805 GTTGCGCATTTGGAAAATCGC
1 GTTGCG-ATTTACAAATTCGC
** *
8886826 AATGCGATTTACATATTCGC
1 GTTGCGATTTACAAATTCGC
8886846 GTT
1 GTT
8886849 ACGGAATTGG
Statistics
Matches: 48, Mismatches: 15, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
20 35 0.73
21 13 0.27
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.36
Consensus pattern (20 bp):
GTTGCGATTTACAAATTCGC
Found at i:8889226 original size:21 final size:21
Alignment explanation
Indices: 8889200--8889248 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
8889190 GCAAACAAAG
8889200 GCATAAGTCTTATGGAATCTT
1 GCATAAGTCTTATGGAATCTT
*
8889221 GCATAAGTCTTATGGACTCTT
1 GCATAAGTCTTATGGAATCTT
*
8889242 ACATAAG
1 GCATAAG
8889249 GTTCCTATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (21 bp):
GCATAAGTCTTATGGAATCTT
Found at i:8891881 original size:25 final size:24
Alignment explanation
Indices: 8891853--8891913 Score: 59
Period size: 25 Copynumber: 2.5 Consensus size: 24
8891843 AAACTTAATT
*
8891853 AAAATAATTAAAATAATAAAAAATA
1 AAAATAATTAAAACAATAAAAAA-A
* * * *
8891878 AAAACAGTAAAAACAATAAATAAA
1 AAAATAATTAAAACAATAAAAAAA
*
8891902 AAAATAAGTAAA
1 AAAATAATTAAA
8891914 CAGACCTAAT
Statistics
Matches: 27, Mismatches: 9, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
24 9 0.33
25 18 0.67
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.18
Consensus pattern (24 bp):
AAAATAATTAAAACAATAAAAAAA
Done.