Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 147 of 210
Found at i:48894768 original size:19 final size:19
Alignment explanation
Indices: 48894744--48894784 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
48894734 TCATCCCTCA
*
48894744 TCTCATCATCCCTCTCATC
1 TCTCATCATCCCTCTCAAC
* *
48894763 TCTCATCCTCTCTCTCAAC
1 TCTCATCATCCCTCTCAAC
48894782 TCT
1 TCT
48894785 TTTAGCTCTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.15, C:0.46, G:0.00, T:0.39
Consensus pattern (19 bp):
TCTCATCATCCCTCTCAAC
Found at i:48898198 original size:23 final size:23
Alignment explanation
Indices: 48898172--48898217 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
48898162 TTAAAAAATT
48898172 TTAAGT-AAATAAAAAATAATTAA
1 TTAAGTAAAAT-AAAAATAATTAA
*
48898195 TTAATTAAAATAAAAATAATTAA
1 TTAAGTAAAATAAAAATAATTAA
48898218 GAATTATCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (23 bp):
TTAAGTAAAATAAAAATAATTAA
Found at i:48899061 original size:24 final size:24
Alignment explanation
Indices: 48899029--48899077 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
48899019 ACAAACACTA
48899029 GTTGGTCAAATTAACGAAAGATGT
1 GTTGGTCAAATTAACGAAAGATGT
48899053 GTTGGTCAAATTAACGAAAGATGT
1 GTTGGTCAAATTAACGAAAGATGT
48899077 G
1 G
48899078 CCTGTGGGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.29
Consensus pattern (24 bp):
GTTGGTCAAATTAACGAAAGATGT
Found at i:48916054 original size:5 final size:5
Alignment explanation
Indices: 48916045--48916078 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
48916035 TCTCATTTGC
*
48916045 ATTTA GTTTA ATTTA ATTTA ATTTA ATTTA ATTT
1 ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTT
48916079 TAACAACTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (5 bp):
ATTTA
Found at i:48927130 original size:27 final size:28
Alignment explanation
Indices: 48927085--48927139 Score: 103
Period size: 27 Copynumber: 2.0 Consensus size: 28
48927075 AATGAGTTAG
48927085 AAGAGTTTCGAATGTTCTCATATAAAAA
1 AAGAGTTTCGAATGTTCTCATATAAAAA
48927113 AAGAGTTTC-AATGTTCTCATATAAAAA
1 AAGAGTTTCGAATGTTCTCATATAAAAA
48927140 TGCCAAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 18 0.67
28 9 0.33
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.33
Consensus pattern (28 bp):
AAGAGTTTCGAATGTTCTCATATAAAAA
Found at i:48932651 original size:29 final size:28
Alignment explanation
Indices: 48932619--48932812 Score: 138
Period size: 29 Copynumber: 6.7 Consensus size: 28
48932609 GTCGTAACTG
*
48932619 TCCCTTTTCATATTCAATGGTCGAAACCA
1 TCCCTTTTCATATTCGATGG-CGAAACCA
* **
48932648 TCCCTTTTCATTAATCGATGGTCGTCACCA
1 TCCCTTTTCA-TATTCGATGG-CGAAACCA
* * * *
48932678 TCCCTTTTCATAATCGATAGCCAAAGCTA
1 TCCCTTTTCATATTCGATGGCGAAA-CCA
* * ** *
48932707 TCCCCTTTCAGATTCGATGGTCGTCATCA
1 TCCCTTTTCATATTCGATGG-CGAAACCA
**
48932736 TCCCTTTTCATAGTT-GATGGCTGTCACCA
1 TCCCTTTTCATA-TTCGATGGC-GAAACCA
* * * *
48932765 TCCCTTTTCATAATCGATAGCTGAAGCTA
1 TCCCTTTTCATATTCGATGGC-GAAACCA
48932794 TCCCTTTTCATATTCGATG
1 TCCCTTTTCATATTCGATG
48932813 ATCGCCGATA
Statistics
Matches: 130, Mismatches: 29, Indels: 12
0.76 0.17 0.07
Matches are distributed among these distances:
28 4 0.03
29 97 0.75
30 29 0.22
ACGTcount: A:0.23, C:0.28, G:0.13, T:0.36
Consensus pattern (28 bp):
TCCCTTTTCATATTCGATGGCGAAACCA
Found at i:48932768 original size:58 final size:58
Alignment explanation
Indices: 48932605--48932782 Score: 153
Period size: 58 Copynumber: 3.1 Consensus size: 58
48932595 TGTGCTAAAA
* ** * * * * *
48932605 GATGGTCGTAACTGTCCCTTTTCATATTCAATGGTCGAAACCATCCCTTTTCATTAATC
1 GATGGTCGTCACCATCCCTTTTCATAATCGATAG-CCAAACCATCCCTTTTCATGAATC
* * *
48932664 GATGGTCGTCACCATCCCTTTTCATAATCGATAGCCAAAGCTATCCCCTTTCA-GATTC
1 GATGGTCGTCACCATCCCTTTTCATAATCGATAGCCAAA-CCATCCCTTTTCATGAATC
* * * * ***
48932722 GATGGTCGTCATCATCCCTTTTCATAGTTGATGGCTGTCACCATCCCTTTTCAT-AATC
1 GATGGTCGTCACCATCCCTTTTCATAATCGATAGC-CAAACCATCCCTTTTCATGAATC
48932780 GAT
1 GAT
48932783 AGCTGAAGCT
Statistics
Matches: 95, Mismatches: 21, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
58 55 0.58
59 40 0.42
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.35
Consensus pattern (58 bp):
GATGGTCGTCACCATCCCTTTTCATAATCGATAGCCAAACCATCCCTTTTCATGAATC
Found at i:48932777 original size:87 final size:88
Alignment explanation
Indices: 48932619--48932812 Score: 275
Period size: 87 Copynumber: 2.2 Consensus size: 88
48932609 GTCGTAACTG
*
48932619 TCCCTTTTCATATTCAATGGTCGAAACCATCCCTTTTCATTAATCGATGGTCGTCACCATCCCTT
1 TCCCTTTTCATATTCGATGGTCGAAACCATCCCTTTTCATTAATCGATGGTCGTCACCATCCCTT
48932684 TTCATAATCGATAGCCAAAGCTA
66 TTCATAATCGATAGCCAAAGCTA
* * ** * * *
48932707 TCCCCTTTCAGATTCGATGGTCGTCATCATCCCTTTTCA-TAGTTGATGG-CTGTCACCATCCCT
1 TCCCTTTTCATATTCGATGGTCGAAACCATCCCTTTTCATTAATCGATGGTC-GTCACCATCCCT
**
48932770 TTTCATAATCGATAGCTGAAGCTA
65 TTTCATAATCGATAGCCAAAGCTA
48932794 TCCCTTTTCATATTCGATG
1 TCCCTTTTCATATTCGATG
48932813 ATCGCCGATA
Statistics
Matches: 93, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
86 1 0.01
87 59 0.63
88 33 0.35
ACGTcount: A:0.23, C:0.28, G:0.13, T:0.36
Consensus pattern (88 bp):
TCCCTTTTCATATTCGATGGTCGAAACCATCCCTTTTCATTAATCGATGGTCGTCACCATCCCTT
TTCATAATCGATAGCCAAAGCTA
Found at i:48933582 original size:20 final size:20
Alignment explanation
Indices: 48933554--48933591 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
48933544 AACTATCATG
*
48933554 TTTTCTTTATTTTATTAACC
1 TTTTATTTATTTTATTAACC
48933574 TTTTATTTATTTTATTAA
1 TTTTATTTATTTTATTAA
48933592 TTAAATAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTATTTATTTTATTAACC
Found at i:48935429 original size:12 final size:12
Alignment explanation
Indices: 48935414--48935439 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
48935404 GTAGTGGAGA
48935414 TTGGACATTTAT
1 TTGGACATTTAT
48935426 TTGGACATTTAT
1 TTGGACATTTAT
48935438 TT
1 TT
48935440 TGGTGATGTT
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:0.23, C:0.08, G:0.15, T:0.54
Consensus pattern (12 bp):
TTGGACATTTAT
Found at i:48945036 original size:19 final size:19
Alignment explanation
Indices: 48945009--48945047 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
48944999 TTCTCACAAT
* *
48945009 TAACCAAATTACCCTTTTA
1 TAACAAAATTACCATTTTA
48945028 TAACAAAATTACCATTTTA
1 TAACAAAATTACCATTTTA
48945047 T
1 T
48945048 CCTATTTTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.38
Consensus pattern (19 bp):
TAACAAAATTACCATTTTA
Found at i:48949113 original size:29 final size:30
Alignment explanation
Indices: 48949048--48949112 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
48949038 ACCAAAAATT
48949048 TATTTTAAAAATAAAAAAATAAAAAATAAA
1 TATTTTAAAAATAAAAAAATAAAAAATAAA
*
48949078 TATTTTAAAATTAAAAAAATAAAAAATAAA
1 TATTTTAAAAATAAAAAAATAAAAAATAAA
48949108 TATTT
1 TATTT
48949113 ATTATATATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (30 bp):
TATTTTAAAAATAAAAAAATAAAAAATAAA
Found at i:48954146 original size:26 final size:26
Alignment explanation
Indices: 48954089--48954150 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
48954079 TACCTACAGT
*
48954089 AGTTTGAGAATATAATAACATATATA
1 AGTTTCAGAATATAATAACATATATA
* * *
48954115 AGTTTCAGAATATCATAGCATGTATCA
1 AGTTTCAGAATATAATAACATATAT-A
48954142 A-TTTCAGAA
1 AGTTTCAGAA
48954151 CACTTACAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 29 0.94
27 2 0.06
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.34
Consensus pattern (26 bp):
AGTTTCAGAATATAATAACATATATA
Found at i:48958945 original size:39 final size:39
Alignment explanation
Indices: 48958902--48958992 Score: 121
Period size: 39 Copynumber: 2.3 Consensus size: 39
48958892 TTCACTTTTA
* *
48958902 AACATATGTCACATTACACATATAATCACATAACATTTG
1 AACATATATCACAATACACATATAATCACATAACATTTG
* * *
48958941 AACATATATCACAATACTCATATGATCACATAACA-TTC
1 AACATATATCACAATACACATATAATCACATAACATTTG
48958979 AAGCATATATCACA
1 AA-CATATATCACA
48958993 TAACAATTGA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
38 4 0.09
39 42 0.91
ACGTcount: A:0.45, C:0.22, G:0.04, T:0.29
Consensus pattern (39 bp):
AACATATATCACAATACACATATAATCACATAACATTTG
Found at i:48961018 original size:20 final size:18
Alignment explanation
Indices: 48960983--48961022 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
48960973 ACGTCGACTT
*
48960983 AATAAAATACTTTATATA
1 AATAAAATAATTTATATA
48961001 AATATAAATAATTATATATA
1 AATA-AAATAATT-TATATA
48961021 AA
1 AA
48961023 ACTTCCTACC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 7 0.37
20 8 0.42
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (18 bp):
AATAAAATAATTTATATA
Found at i:48961651 original size:17 final size:17
Alignment explanation
Indices: 48961621--48961661 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
48961611 AATAATATTA
48961621 TAAAA-ATA-TAAAAAC
1 TAAAATATATTAAAAAC
* *
48961636 TAAATTATATTAAAAAT
1 TAAAATATATTAAAAAC
48961653 TAAAATATA
1 TAAAATATA
48961662 AAAAATTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
15 4 0.19
16 3 0.14
17 14 0.67
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (17 bp):
TAAAATATATTAAAAAC
Found at i:48961665 original size:15 final size:14
Alignment explanation
Indices: 48961623--48961670 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 14
48961613 TAATATTATA
*
48961623 AAAATATAAAAACT
1 AAAATATAAAAATT
48961637 AAATTATATTAAAAATT
1 AAA--ATA-TAAAAATT
48961654 AAAATATAAAAAATT
1 AAAATAT-AAAAATT
48961669 AA
1 AA
48961671 TTTTTAAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
14 4 0.14
15 12 0.41
16 3 0.10
17 10 0.34
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (14 bp):
AAAATATAAAAATT
Found at i:48979189 original size:65 final size:64
Alignment explanation
Indices: 48979011--48979233 Score: 193
Period size: 68 Copynumber: 3.3 Consensus size: 64
48979001 GTCCATAGGA
* *
48979011 AAACATGAAATCATATTGTGTAAGACCATAGCTGAGCTT-CGACAACATATGAAGTTCCCCAAGA
1 AAACATG--ATCATATTGTGTAAGACCATAGCTG-GGTTATGACAACATATGAAG-TCCCC-AG-
48979075 GA-AT
60 GACAT
* * * * * *
48979079 AAACATGA-CATTGTATTGTGTAAGACTAAAGTTTGGCTATGACAACATTTGAAGTCCGCCAGGA
1 AAACATGATCA---TATTGTGTAAGACCATAGCTGGGTTATGACAACATATGAAGTCC-CCAGGA
48979143 TCAT
62 -CAT
*
48979147 AAACAT-ATCATATTGTGTAAGACCATAGCTGGGTTATGACAACATATGAAGTCCTCTAGGACAG
1 AAACATGATCATATTGTGTAAGACCATAGCTGGGTTATGACAACATATGAAGTCC-CCAGGACA-
48979211 T
64 T
*
48979212 AAACATGGCATCATATAGTGTA
1 AAACAT-G-ATCATATTGTGTA
48979234 TGATGCGAAC
Statistics
Matches: 126, Mismatches: 17, Indels: 24
0.75 0.10 0.14
Matches are distributed among these distances:
64 2 0.02
65 52 0.41
66 3 0.02
67 8 0.06
68 61 0.48
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (64 bp):
AAACATGATCATATTGTGTAAGACCATAGCTGGGTTATGACAACATATGAAGTCCCCAGGACAT
Found at i:48984701 original size:26 final size:26
Alignment explanation
Indices: 48984670--48984737 Score: 109
Period size: 26 Copynumber: 2.6 Consensus size: 26
48984660 ATTCCTACCT
*
48984670 ACAGCTCGTGTGAGCAGCCCCATTTC
1 ACAGCTCGTGTGAGCAGACCCATTTC
*
48984696 ACAGCTCGTGTGAGCAGACTCATTTC
1 ACAGCTCGTGTGAGCAGACCCATTTC
*
48984722 ACAGCTCGTCTGAGCA
1 ACAGCTCGTGTGAGCA
48984738 ACAATGTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.22, C:0.31, G:0.24, T:0.24
Consensus pattern (26 bp):
ACAGCTCGTGTGAGCAGACCCATTTC
Found at i:48986621 original size:20 final size:21
Alignment explanation
Indices: 48986571--48986612 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
48986561 CCTTTCAGAT
48986571 TTTC-TTA-TTTTCATTTGCA
1 TTTCATTACTTTTCATTTGCA
48986590 TTTCATTACTTTTCA-TTGCA
1 TTTCATTACTTTTCATTTGCA
48986610 TTT
1 TTT
48986613 ACTTTCTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 11 0.52
21 6 0.29
ACGTcount: A:0.17, C:0.17, G:0.05, T:0.62
Consensus pattern (21 bp):
TTTCATTACTTTTCATTTGCA
Found at i:48995617 original size:51 final size:51
Alignment explanation
Indices: 48995561--48995671 Score: 222
Period size: 51 Copynumber: 2.2 Consensus size: 51
48995551 TGTTTTCCGC
48995561 CAATCAAACGCTGGAAAAGTTGGAAATGATTTTCCGGAAAATCAATTCCTT
1 CAATCAAACGCTGGAAAAGTTGGAAATGATTTTCCGGAAAATCAATTCCTT
48995612 CAATCAAACGCTGGAAAAGTTGGAAATGATTTTCCGGAAAATCAATTCCTT
1 CAATCAAACGCTGGAAAAGTTGGAAATGATTTTCCGGAAAATCAATTCCTT
48995663 CAATCAAAC
1 CAATCAAAC
48995672 AGACCCTTAG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (51 bp):
CAATCAAACGCTGGAAAAGTTGGAAATGATTTTCCGGAAAATCAATTCCTT
Found at i:49005468 original size:13 final size:12
Alignment explanation
Indices: 49005446--49005481 Score: 63
Period size: 13 Copynumber: 2.9 Consensus size: 12
49005436 AGAGAAGAAA
49005446 AAAAATGAAAAT
1 AAAAATGAAAAT
49005458 AAAAATAGAAAAT
1 AAAAAT-GAAAAT
49005471 AAAAATGAAAA
1 AAAAATGAAAA
49005482 AGCATAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.78, C:0.00, G:0.08, T:0.14
Consensus pattern (12 bp):
AAAAATGAAAAT
Found at i:49006063 original size:14 final size:14
Alignment explanation
Indices: 49006044--49006075 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
49006034 TCCCACTACT
49006044 TCTCTAGCATTGTC
1 TCTCTAGCATTGTC
49006058 TCTCTAGCATTGTC
1 TCTCTAGCATTGTC
49006072 TCTC
1 TCTC
49006076 CAGACGAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.12, C:0.31, G:0.12, T:0.44
Consensus pattern (14 bp):
TCTCTAGCATTGTC
Found at i:49006995 original size:24 final size:23
Alignment explanation
Indices: 49006968--49007019 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
49006958 AGTACACCAC
*
49006968 AAGGCCCGAACAAAATACGCCATA
1 AAGGCCAG-ACAAAATACGCCATA
* *
49006992 AAGGCCAGACAGAATATGCCATA
1 AAGGCCAGACAAAATACGCCATA
49007015 AAGGC
1 AAGGC
49007020 ATTACTGGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 18 0.72
24 7 0.28
ACGTcount: A:0.44, C:0.25, G:0.21, T:0.10
Consensus pattern (23 bp):
AAGGCCAGACAAAATACGCCATA
Found at i:49008264 original size:29 final size:28
Alignment explanation
Indices: 49008231--49008368 Score: 170
Period size: 29 Copynumber: 4.8 Consensus size: 28
49008221 AAGGCATTCA
* *
49008231 TTTAACTGAGAT-AGCCACAAAGACATTCT
1 TTTAACAGAGATCA-CCATAAAGAC-TTCT
* *
49008260 TTTAACAGAGATGACCATAAAGGCTTCTT
1 TTTAACAGAGATCACCATAAAGACTTC-T
49008289 TTTAACAGAGATCACCATAAAGACTTCCT
1 TTTAACAGAGATCACCATAAAGACTT-CT
49008318 TTTAACAGAGATCACCATAAAGACTTCCT
1 TTTAACAGAGATCACCATAAAGACTT-CT
* *
49008347 TTTAACAGAGCTCACCACAAAG
1 TTTAACAGAGATCACCATAAAG
49008369 GGTTTCTTTT
Statistics
Matches: 99, Mismatches: 7, Indels: 6
0.88 0.06 0.05
Matches are distributed among these distances:
28 3 0.03
29 94 0.95
30 2 0.02
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.27
Consensus pattern (28 bp):
TTTAACAGAGATCACCATAAAGACTTCT
Found at i:49008300 original size:58 final size:57
Alignment explanation
Indices: 49008201--49008400 Score: 190
Period size: 58 Copynumber: 3.5 Consensus size: 57
49008191 ACAAGGCATC
* * * * *
49008201 CTTTTAACAGAGTTTACCA-CAAGGCATTCATTTAACTGAGAT-AGCCACAAAGACATT
1 CTTTTAACAGAGATAACCATAAAGGC-TTCTTTTAACAGAGATCA-CCACAAAGACATT
* *
49008258 CTTTTAACAGAGATGACCATAAAGGCTTCTTTTTAACAGAGATCACCATAAAGAC-TT
1 CTTTTAACAGAGATAACCATAAAGGCTTC-TTTTAACAGAGATCACCACAAAGACATT
* * * ***
49008315 CCTTTTAACAGAGATCACCATAAAGACTTCCTTTTAACAGAGCTCACCACAAAGGGTTT
1 -CTTTTAACAGAGATAACCATAAAGGCTT-CTTTTAACAGAGATCACCACAAAGACATT
* * *
49008374 CTTTTCACACAAATAACCATAAAGGCT
1 CTTTTAACAGAGATAACCATAAAGGCT
49008401 CACTTATACA
Statistics
Matches: 120, Mismatches: 17, Indels: 11
0.81 0.11 0.07
Matches are distributed among these distances:
57 22 0.18
58 94 0.78
59 4 0.03
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (57 bp):
CTTTTAACAGAGATAACCATAAAGGCTTCTTTTAACAGAGATCACCACAAAGACATT
Found at i:49008377 original size:29 final size:29
Alignment explanation
Indices: 49008231--49008397 Score: 167
Period size: 29 Copynumber: 5.8 Consensus size: 29
49008221 AAGGCATTCA
* * *
49008231 TTTAACTGAGAT-AGCCACAAAGACATTCT
1 TTTAACAGAGATCA-CCATAAAGACTTTCT
* *
49008260 TTTAACAGAGATGACCATAAAGGC-TTCTT
1 TTTAACAGAGATCACCATAAAGACTTTC-T
*
49008289 TTTAACAGAGATCACCATAAAGACTTCCT
1 TTTAACAGAGATCACCATAAAGACTTTCT
*
49008318 TTTAACAGAGATCACCATAAAGACTTCCT
1 TTTAACAGAGATCACCATAAAGACTTTCT
* * **
49008347 TTTAACAGAGCTCACCACAAAGGGTTTCT
1 TTTAACAGAGATCACCATAAAGACTTTCT
* * * *
49008376 TTTCACACAAATAACCATAAAG
1 TTTAACAGAGATCACCATAAAG
49008398 GCTCACTTAT
Statistics
Matches: 118, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
28 3 0.03
29 112 0.95
30 3 0.03
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.28
Consensus pattern (29 bp):
TTTAACAGAGATCACCATAAAGACTTTCT
Found at i:49008393 original size:87 final size:87
Alignment explanation
Indices: 49008231--49008397 Score: 198
Period size: 87 Copynumber: 1.9 Consensus size: 87
49008221 AAGGCATTCA
* * * *
49008231 TTTAACTGAGATAGCCACAAAGACATTCTTTTAACAGAGATGACCATAAAGGCTTCTTTTTAACA
1 TTTAACAGAGATAGCCACAAAGACATTCTTTTAACAGAGATCACCACAAAGGCTTCTTTTCAACA
*
49008296 GAGATCACCATAAAGACTTCCT
66 GAGATAACCATAAAGACTTCCT
* * *
49008318 TTTAACAGAGATCA-CCATAAAGAC-TTCCTTTTAACAGAGCTCACCACAAAGGGTTTCTTTTCA
1 TTTAACAGAGAT-AGCCACAAAGACATT-CTTTTAACAGAGATCACCACAAA-GGCTTCTTTTCA
49008381 CACA-A-ATAACCATAAAG
63 -ACAGAGATAACCATAAAG
49008398 GCTCACTTAT
Statistics
Matches: 68, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
86 2 0.03
87 51 0.75
88 12 0.18
89 3 0.04
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.28
Consensus pattern (87 bp):
TTTAACAGAGATAGCCACAAAGACATTCTTTTAACAGAGATCACCACAAAGGCTTCTTTTCAACA
GAGATAACCATAAAGACTTCCT
Found at i:49009741 original size:13 final size:13
Alignment explanation
Indices: 49009720--49009768 Score: 71
Period size: 13 Copynumber: 3.8 Consensus size: 13
49009710 AATGTGATAT
* *
49009720 CAAAGCTTTTAGG
1 CAAATCTTTCAGG
49009733 CAAATCTTTCAGG
1 CAAATCTTTCAGG
*
49009746 CAAATCTTTCAAG
1 CAAATCTTTCAGG
49009759 CAAATCTTTC
1 CAAATCTTTC
49009769 CTCACCAAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (13 bp):
CAAATCTTTCAGG
Found at i:49017114 original size:19 final size:19
Alignment explanation
Indices: 49017092--49017131 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
49017082 AGAGATGGTG
49017092 TATTATGTTTAACTATATT
1 TATTATGTTTAACTATATT
49017111 TATTATGTTTAACTATATT
1 TATTATGTTTAACTATATT
49017130 TA
1 TA
49017132 CTTGTTTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (19 bp):
TATTATGTTTAACTATATT
Found at i:49018422 original size:26 final size:26
Alignment explanation
Indices: 49018393--49018449 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 26
49018383 TCTTATCCCT
49018393 ATTTTAACCC-CAGTAAAATTTTGATG
1 ATTTTAACCCTCAGT-AAATTTTGATG
* *
49018419 ATTTT-ACCCTCGGTAAATTTTTATG
1 ATTTTAACCCTCAGTAAATTTTGATG
49018444 ATTTTA
1 ATTTTA
49018450 CCTTCGAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 19 0.70
26 8 0.30
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.46
Consensus pattern (26 bp):
ATTTTAACCCTCAGTAAATTTTGATG
Found at i:49020713 original size:79 final size:79
Alignment explanation
Indices: 49020582--49020811 Score: 424
Period size: 79 Copynumber: 2.9 Consensus size: 79
49020572 AAGGAAAACC
* * * *
49020582 AGGATTATTCCCTTATTAATAGAGAAGGCAAATGGCAAGCTAGAAAAAGGAATTATATTCTTTCC
1 AGGATTATTCTCTTATTAATAGAGAAGGCAAATGGAAAGTTATAAAAAGGAATTATATTCTTTCC
49020647 AAAAGAAAGAATAT
66 AAAAGAAAGAATAT
49020661 AGGATTATTCTCTTATTAATAGAGAAGGCAAATGGAAAGTTATAAAAAGGAATTATATTCTTTCC
1 AGGATTATTCTCTTATTAATAGAGAAGGCAAATGGAAAGTTATAAAAAGGAATTATATTCTTTCC
49020726 AAAAGAAAGAATAT
66 AAAAGAAAGAATAT
49020740 AGGATTATTCTCTTATTAATAGAGAAGGCAAATGGAAAGTTATAAAAAGGAATTATATTCTTTCC
1 AGGATTATTCTCTTATTAATAGAGAAGGCAAATGGAAAGTTATAAAAAGGAATTATATTCTTTCC
49020805 AAAAGAA
66 AAAAGAA
49020812 TATTAAGTTT
Statistics
Matches: 147, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
79 147 1.00
ACGTcount: A:0.45, C:0.09, G:0.17, T:0.29
Consensus pattern (79 bp):
AGGATTATTCTCTTATTAATAGAGAAGGCAAATGGAAAGTTATAAAAAGGAATTATATTCTTTCC
AAAAGAAAGAATAT
Found at i:49023548 original size:27 final size:27
Alignment explanation
Indices: 49023472--49023548 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 27
49023462 TCGCCATACA
* * *
49023472 TACTATTCATTTAGAGTTCA-CCATTTG
1 TACTATTCCTTCAGAGTT-AGCCATATG
*
49023499 TACTATTCCTTCAGAGTTTGCCATATG
1 TACTATTCCTTCAGAGTTAGCCATATG
*
49023526 TATTATTCCTTCAGAGTTAGCCA
1 TACTATTCCTTCAGAGTTAGCCA
49023549 CACATATTGT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.25, C:0.21, G:0.13, T:0.42
Consensus pattern (27 bp):
TACTATTCCTTCAGAGTTAGCCATATG
Found at i:49023556 original size:27 final size:27
Alignment explanation
Indices: 49023502--49023566 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
49023492 CCATTTGTAC
* * **
49023502 TATTCCTTCAGAGTTTGCCATATGTAT
1 TATTCCTTCAGAGTTAGCCACACATAT
49023529 TATTCCTTCAGAGTTAGCCACACATAT
1 TATTCCTTCAGAGTTAGCCACACATAT
* *
49023556 TGTTTCTTCAG
1 TATTCCTTCAG
49023567 GGATTTTCAC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.42
Consensus pattern (27 bp):
TATTCCTTCAGAGTTAGCCACACATAT
Found at i:49023720 original size:27 final size:27
Alignment explanation
Indices: 49023672--49023789 Score: 116
Period size: 27 Copynumber: 4.4 Consensus size: 27
49023662 CGAAGACATT
* *
49023672 CATTTCCATAGATTGCCTCAAAGGCTTC
1 CATTT-CATAGATTACCACAAAGGCTTC
* *
49023700 CATTTCATAGATTTCTACAAAGGCTTC
1 CATTTCATAGATTACCACAAAGGCTTC
*
49023727 CATTT--TAGATACACCACAAAGGCTTC
1 CATTTCATAGAT-TACCACAAAGGCTTC
* * *
49023753 CA-TTCATAGATTGCCACACAGGCTTT
1 CATTTCATAGATTACCACAAAGGCTTC
*
49023779 CATTTCCTAGA
1 CATTTCATAGA
49023790 GTGTTCACGA
Statistics
Matches: 75, Mismatches: 11, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
25 7 0.09
26 27 0.36
27 36 0.48
28 5 0.07
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (27 bp):
CATTTCATAGATTACCACAAAGGCTTC
Found at i:49023752 original size:26 final size:26
Alignment explanation
Indices: 49023690--49023783 Score: 91
Period size: 26 Copynumber: 3.6 Consensus size: 26
49023680 TAGATTGCCT
** *
49023690 CAAAGGCTTCCATTTCATAGATTTCTA
1 CAAAGGCTTCCATTT-ATAGATCACCA
49023717 CAAAGGCTTCCATTT-TAGATACACCA
1 CAAAGGCTTCCATTTATAGAT-CACCA
* **
49023743 CAAAGGCTTCCATTCATAGATTGCCA
1 CAAAGGCTTCCATTTATAGATCACCA
* *
49023769 CACAGGCTTTCATTT
1 CAAAGGCTTCCATTT
49023784 CCTAGAGTGT
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
25 5 0.09
26 31 0.55
27 20 0.36
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.32
Consensus pattern (26 bp):
CAAAGGCTTCCATTTATAGATCACCA
Found at i:49025694 original size:19 final size:19
Alignment explanation
Indices: 49025672--49025708 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
49025662 TCAAATGTAA
*
49025672 CTCTTTTCTTCTTTCTTTT
1 CTCTTTTCTTCTTCCTTTT
*
49025691 CTCTTTTTTTCTTCCTTT
1 CTCTTTTCTTCTTCCTTT
49025709 AGCTTTTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (19 bp):
CTCTTTTCTTCTTCCTTTT
Found at i:49025708 original size:12 final size:12
Alignment explanation
Indices: 49025673--49025704 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
49025663 CAAATGTAAC
49025673 TCTTTTCTTCTT
1 TCTTTTCTTCTT
49025685 TCTTTTC-TCTT
1 TCTTTTCTTCTT
49025696 T-TTTTCTTC
1 TCTTTTCTTC
49025705 CTTTAGCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 5 0.26
11 7 0.37
12 7 0.37
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (12 bp):
TCTTTTCTTCTT
Found at i:49028754 original size:26 final size:27
Alignment explanation
Indices: 49028709--49028768 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 27
49028699 TCGCCATACA
* * *
49028709 TACTATTCCTTTAGAGTTTG-GATATG
1 TACTATTCCTTAAAAGTTTGTCATATG
* *
49028735 TACTATTCCTTAAAATTTTGTCATGTG
1 TACTATTCCTTAAAAGTTTGTCATATG
49028762 TACTATT
1 TACTATT
49028769 TCTTCAGAGT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 17 0.61
27 11 0.39
ACGTcount: A:0.25, C:0.13, G:0.13, T:0.48
Consensus pattern (27 bp):
TACTATTCCTTAAAAGTTTGTCATATG
Found at i:49028948 original size:27 final size:27
Alignment explanation
Indices: 49028906--49029099 Score: 186
Period size: 26 Copynumber: 7.3 Consensus size: 27
49028896 CACGAGGAAA
49028906 TTCC-TTTCCATAGATTGCCACAAAGGC
1 TTCCATTT-CATAGATTGCCACAAAGGC
*
49028933 TTACATTTCATAGATTGCCACAAA-GC
1 TTCCATTTCATAGATTGCCACAAAGGC
* **
49028959 TTCTATTT--TAGATACACCACAAAGGC
1 TTCCATTTCATAGAT-TGCCACAAAGGC
* * *
49028985 TTTCATTT--TAGATACGCCATAAAGGC
1 TTCCATTTCATAGAT-TGCCACAAAGGC
*
49029011 TTCCATTTCATAGATTGCCACAAATGC
1 TTCCATTTCATAGATTGCCACAAAGGC
* * * *
49029038 TTCCATTTCAGACA-CGCCACAAAAGC
1 TTCCATTTCATAGATTGCCACAAAGGC
* *
49029064 TTCCACTTCATAGATTGCCACAAATGC
1 TTCCATTTCATAGATTGCCACAAAGGC
49029091 TTCCATTTC
1 TTCCATTTC
49029100 TTGGTGTGTT
Statistics
Matches: 138, Mismatches: 23, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
24 5 0.04
25 7 0.05
26 60 0.43
27 58 0.42
28 8 0.06
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (27 bp):
TTCCATTTCATAGATTGCCACAAAGGC
Found at i:49029045 original size:53 final size:52
Alignment explanation
Indices: 49028906--49029098 Score: 196
Period size: 53 Copynumber: 3.7 Consensus size: 52
49028896 CACGAGGAAA
* *
49028906 TTCC-TTTCCATAGATTGCCACAAAGGCTTACATTTCATAGAT-TGCCACAAAGC
1 TTCCATTT-CATAGATTGCCACAAAGGCTTCCATTT--TAGATACGCCACAAAGC
* ** * *
49028959 TTCTATTT--TAGATACACCACAAAGGCTTTCATTTTAGATACGCCATAAAGGC
1 TTCCATTTCATAGAT-TGCCACAAAGGCTTCCATTTTAGATACGCCACAAA-GC
* * *
49029011 TTCCATTTCATAGATTGCCACAAATGCTTCCATTTCAGACACGCCACAAAAGC
1 TTCCATTTCATAGATTGCCACAAAGGCTTCCATTTTAGATACGCCAC-AAAGC
* *
49029064 TTCCACTTCATAGATTGCCACAAATGCTTCCATTT
1 TTCCATTTCATAGATTGCCACAAAGGCTTCCATTT
49029099 CTTGGTGTGT
Statistics
Matches: 118, Mismatches: 15, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
50 5 0.04
51 12 0.10
52 26 0.22
53 64 0.54
54 11 0.09
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.31
Consensus pattern (52 bp):
TTCCATTTCATAGATTGCCACAAAGGCTTCCATTTTAGATACGCCACAAAGC
Found at i:49029267 original size:50 final size:50
Alignment explanation
Indices: 49029207--49029307 Score: 130
Period size: 50 Copynumber: 2.0 Consensus size: 50
49029197 TTCCTTTAGT
* * * **
49029207 TCTTTCCATATGATGCCATAGCGCACTAGTTATTATCTTACATGATATGG
1 TCTTTCCATATGACGCCATAGCCCACTAGTTATGATCTTACACAATATGG
* * *
49029257 TCTTTGCATATGACGCTATAGCCCACTAGTTATGGTCTTACACAATATGG
1 TCTTTCCATATGACGCCATAGCCCACTAGTTATGATCTTACACAATATGG
49029307 T
1 T
49029308 GCCATGAACA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.37
Consensus pattern (50 bp):
TCTTTCCATATGACGCCATAGCCCACTAGTTATGATCTTACACAATATGG
Found at i:49034050 original size:40 final size:40
Alignment explanation
Indices: 49033976--49034135 Score: 178
Period size: 40 Copynumber: 4.0 Consensus size: 40
49033966 AAAAACACCA
* *
49033976 CTATAGATCGAGCATTAGCGGCG-TTTTTCAAAAAATGCCG
1 CTATAGGTCGAGCATTAGCAGCGCTTTTT-AAAAAATGCCG
* * *
49034016 CTATAGGTCGAGCATTAGCAGCGCTTCTTGAAAAATACCG
1 CTATAGGTCGAGCATTAGCAGCGCTTTTTAAAAAATGCCG
* ** * * *
49034056 CTATAGGTCTAGCATTAGTGGCACTTTTTGAAAAATGCCT
1 CTATAGGTCGAGCATTAGCAGCGCTTTTTAAAAAATGCCG
* * *
49034096 CTATAGGTCGACCATTAGTAGCGCTTTTTAAAAAACGCCG
1 CTATAGGTCGAGCATTAGCAGCGCTTTTTAAAAAATGCCG
49034136 TAAAAGAATT
Statistics
Matches: 100, Mismatches: 19, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
40 96 0.96
41 4 0.04
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (40 bp):
CTATAGGTCGAGCATTAGCAGCGCTTTTTAAAAAATGCCG
Found at i:49034090 original size:80 final size:80
Alignment explanation
Indices: 49033966--49034131 Score: 208
Period size: 80 Copynumber: 2.1 Consensus size: 80
49033956 GCGTTTGGAT
* *
49033966 AAAAACACCACTATAGATCGAGCATTAGCGGCGTTTTTCAAAAAATGCCGCTATAGGTCGAGCAT
1 AAAAACACCACTATAGATCGAGCATTAGCGGCCTTTTTCAAAAAATGCCGCTATAGGTCGACCAT
*
49034031 TAGCAGCGCTTCTTG
66 TAGCAGCGCTTCTTA
* * * * * * *
49034046 AAAAATACCGCTATAGGTCTAGCATTAGTGGCACTTTTT-GAAAAATGCCTCTATAGGTCGACCA
1 AAAAACACCACTATAGATCGAGCATTAGCGGC-CTTTTTCAAAAAATGCCGCTATAGGTCGACCA
* *
49034110 TTAGTAGCGCTTTTTA
65 TTAGCAGCGCTTCTTA
49034126 AAAAAC
1 AAAAAC
49034132 GCCGTAAAAG
Statistics
Matches: 72, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
80 67 0.93
81 5 0.07
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (80 bp):
AAAAACACCACTATAGATCGAGCATTAGCGGCCTTTTTCAAAAAATGCCGCTATAGGTCGACCAT
TAGCAGCGCTTCTTA
Found at i:49034370 original size:103 final size:99
Alignment explanation
Indices: 49034171--49034374 Score: 264
Period size: 103 Copynumber: 2.0 Consensus size: 99
49034161 AGCTTTAGTG
* * * * *
49034171 GCATTAGCGGCGCTTCTTGAAAACCGCCGCAAAAAATTTAAGCACATTGAGCTTTAGTGACATTG
1 GCATTAGCGGCACTTCTTGAAAAACACCACAAAAAATTTAAGCACATTGAGCTTTAGTGACATTA
* *
49034236 GCAGCACTTTTTGAAAAACACCGCTATAGATCGA
66 GCAGCACTTTTTGAAAAACAACGCTACAGATCGA
* * *
49034270 GCATTAGCGGCACTTTTTGAAAAACACCACAAAAAATTTAAGCACTGTTGTTGAGCTTTAGTGGC
1 GCATTAGCGGCACTTCTTGAAAAACACCACAAAAAATTTAAGCAC----ATTGAGCTTTAGTGAC
* *
49034335 ATTAGCGGCGCTTTTTGAAAAACAACGCTACAGATCGA
62 ATTAGCAGCACTTTTTGAAAAACAACGCTACAGATCGA
49034373 GC
1 GC
49034375 TTTATGGTTT
Statistics
Matches: 89, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
99 40 0.45
103 49 0.55
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (99 bp):
GCATTAGCGGCACTTCTTGAAAAACACCACAAAAAATTTAAGCACATTGAGCTTTAGTGACATTA
GCAGCACTTTTTGAAAAACAACGCTACAGATCGA
Found at i:49034400 original size:7 final size:7
Alignment explanation
Indices: 49034375--49034462 Score: 59
Period size: 7 Copynumber: 12.4 Consensus size: 7
49034365 CAGATCGAGC
49034375 TTTATGG
1 TTTATGG
*
49034382 TTTAAGG
1 TTTATGG
*
49034389 ATTATGG
1 TTTATGG
49034396 TTTATGG
1 TTTATGG
**
49034403 TTTGGGG
1 TTTATGG
* *
49034410 TTTAAGA
1 TTTATGG
*
49034417 TTTAGGG
1 TTTATGG
*
49034424 ATTATGG
1 TTTATGG
*
49034431 GTTATGG
1 TTTATGG
*
49034438 GTTATGGG
1 TTTAT-GG
* *
49034446 TTAAGGG
1 TTTATGG
49034453 TTTATGG
1 TTTATGG
49034460 TTT
1 TTT
49034463 TTTTATGATT
Statistics
Matches: 61, Mismatches: 19, Indels: 2
0.74 0.23 0.02
Matches are distributed among these distances:
7 57 0.93
8 4 0.07
ACGTcount: A:0.19, C:0.00, G:0.34, T:0.47
Consensus pattern (7 bp):
TTTATGG
Found at i:49034671 original size:7 final size:7
Alignment explanation
Indices: 49034659--49034723 Score: 78
Period size: 7 Copynumber: 9.1 Consensus size: 7
49034649 TAAGGATTAT
49034659 GGGTTTA
1 GGGTTTA
49034666 GGGTTTA
1 GGGTTTA
49034673 GGGTTTA
1 GGGTTTA
*
49034680 TGGTTTA
1 GGGTTTA
*
49034687 TGGGTTTG
1 -GGGTTTA
*
49034695 GGGTTAA
1 GGGTTTA
49034702 GGG-TTA
1 GGGTTTA
49034708 GGGGTTTA
1 -GGGTTTA
49034716 GGGTTTA
1 GGGTTTA
49034723 G
1 G
49034724 ATTAATTAGT
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
6 2 0.04
7 39 0.80
8 8 0.16
ACGTcount: A:0.14, C:0.00, G:0.45, T:0.42
Consensus pattern (7 bp):
GGGTTTA
Found at i:49034672 original size:22 final size:22
Alignment explanation
Indices: 49034647--49034693 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
49034637 GAGTTACTAT
49034647 TTTAAGGATTATGGGTTTA-GGG
1 TTTAAGGATTAT-GGTTTATGGG
* *
49034669 TTTAGGGTTTATGGTTTATGGG
1 TTTAAGGATTATGGTTTATGGG
49034691 TTT
1 TTT
49034694 GGGGTTAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.17, C:0.00, G:0.34, T:0.49
Consensus pattern (22 bp):
TTTAAGGATTATGGTTTATGGG
Found at i:49034679 original size:29 final size:29
Alignment explanation
Indices: 49034647--49034706 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
49034637 GAGTTACTAT
*
49034647 TTTAAGGATTATGGGTTTAGGGTTTAGGG
1 TTTAAGGATTATGGGTTTAGGGTTAAGGG
* * *
49034676 TTTATGGTTTATGGGTTTGGGGTTAAGGG
1 TTTAAGGATTATGGGTTTAGGGTTAAGGG
49034705 TT
1 TT
49034707 AGGGGTTTAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.17, C:0.00, G:0.38, T:0.45
Consensus pattern (29 bp):
TTTAAGGATTATGGGTTTAGGGTTAAGGG
Found at i:49034713 original size:29 final size:29
Alignment explanation
Indices: 49034655--49034723 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
49034645 ATTTTAAGGA
* *
49034655 TTATGGGTTTAGGGTTTAGGGTTTATGGT
1 TTATGGGTTTAGGGTTAAGGGTTTAGGGT
*
49034684 TTATGGGTTTGGGGTTAAGGG-TTAGGGGT
1 TTATGGGTTTAGGGTTAAGGGTTTA-GGGT
49034713 TTA-GGGTTTAG
1 TTATGGGTTTAG
49034724 ATTAATTAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 10 0.29
29 25 0.71
ACGTcount: A:0.14, C:0.00, G:0.42, T:0.43
Consensus pattern (29 bp):
TTATGGGTTTAGGGTTAAGGGTTTAGGGT
Found at i:49035354 original size:11 final size:11
Alignment explanation
Indices: 49035312--49035367 Score: 60
Period size: 11 Copynumber: 5.2 Consensus size: 11
49035302 TCCTATTTCA
49035312 AATTTCCTCTC
1 AATTTCCTCTC
* * *
49035323 AATGTCTTCTA
1 AATTTCCTCTC
49035334 AATTTCCTCTC
1 AATTTCCTCTC
*
49035345 AATTTGCTCTC
1 AATTTCCTCTC
*
49035356 AAATTCCT-TC
1 AATTTCCTCTC
49035366 AA
1 AA
49035368 AATTTCTCTA
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
10 4 0.11
11 32 0.89
ACGTcount: A:0.25, C:0.29, G:0.04, T:0.43
Consensus pattern (11 bp):
AATTTCCTCTC
Found at i:49035400 original size:51 final size:51
Alignment explanation
Indices: 49035343--49035440 Score: 144
Period size: 51 Copynumber: 1.9 Consensus size: 51
49035333 AAATTTCCTC
49035343 TCAATTTGCTCTCAAATTCCT-TCAAAATTTCTCTAAAATCCATATTTATTT
1 TCAATTTGCTCTCAAATTCCTCT-AAAATTTCTCTAAAATCCATATTTATTT
* * * *
49035394 TCAATTTGCTCTCAAGTTCCTCTTAAATTTCTCTTAAATCCCTATTT
1 TCAATTTGCTCTCAAATTCCTCTAAAATTTCTCTAAAATCCATATTT
49035441 TTAAAAAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 41 0.98
52 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.03, T:0.46
Consensus pattern (51 bp):
TCAATTTGCTCTCAAATTCCTCTAAAATTTCTCTAAAATCCATATTTATTT
Found at i:49036595 original size:7 final size:7
Alignment explanation
Indices: 49036583--49036615 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
49036573 TAGTCGATTG
49036583 GTATTTA
1 GTATTTA
49036590 GTATTTA
1 GTATTTA
49036597 GTATTTA
1 GTATTTA
*
49036604 ATATTTA
1 GTATTTA
49036611 GTATT
1 GTATT
49036616 ACTTATATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:49037868 original size:114 final size:113
Alignment explanation
Indices: 49037507--49038359 Score: 1129
Period size: 114 Copynumber: 7.5 Consensus size: 113
49037497 AAAATAAGAA
* * *
49037507 TTAGTGGCGTTTTTAAGAAAGCGCCGCTAATGATCAGGGATTTAGCGG-AGTTTTTGTGAAAGCG
1 TTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCA-TTTTTG-GAAAGCG
* * * * * *
49037571 CTGTAAAAAAACCTAATCCCAACGATGCCATTTTCTGAGTTTTCGGGGAT
64 CCGCAAAAAAAACTAAGCCCAACGACGCCATTTTCTGAGCTTTCGGGGAT
* * * * *
49037621 TTAGCAGCATTTTTAAAAAAGCGCCGCTAATGTTCAGGGCTTTAGCGGCGTTTTTGGAAAAGCGC
1 TTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGG-AAAGCGC
* * * *
49037686 TGC-AAAAAAACTAAGCCCAACAACACCATTTTCTGAGCTCTCGGGGAT
65 CGCAAAAAAAACTAAGCCCAACGACGCCATTTTCTGAGCTTTCGGGGAT
* * *
49037734 TTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCGTTTTTGAGAAAGCAC
1 TTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCATTTTTG-GAAAGCGC
* * * *
49037799 CGCAAAAAAACCTGAGCCCAACAACGCCGTTTTCTGAGCTTTCGGGGAT
65 CGCAAAAAAAACTAAGCCCAACGACGCCATTTTCTGAGCTTTCGGGGAT
* * * *
49037848 TTAACTGTGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGC
1 TTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCATTTTTG-GAAAGCGC
* * * *
49037913 CGCAAAAAAACCTAATCCCAACGACGCCGTTTCCTGAGCTTTC-GGGAT
65 CGCAAAAAAAACTAAGCCCAACGACGCCATTTTCTGAGCTTTCGGGGAT
* *
49037961 TTAACGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGGGAAAGCGC
1 TTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCATTTTT-GGAAAGCGC
* * *
49038026 CGCAAAAAAAACTAAGCCCAGC-AGTGCCATTTTCTGAGCTCTCGGGGAT
65 CGCAAAAAAAACTAAGCCCAACGA-CGCCATTTTCTGAGCTTTCGGGGAT
*
49038075 TTAGCGGCGTTTTTAAGAAAGCACCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGGTAAAGCGC
1 TTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGG-AAAGCGC
** * **
49038140 CGCAAAAAAAACTAAGCCCAACGGTGCCGTTTTCTGAGCTTTTAGGGAT
65 CGCAAAAAAAACTAAGCCCAACGACGCCATTTTCTGAGCTTTCGGGGAT
** * *
49038189 TTAGCAACGTTTTTAAGGAAGCACCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGGGAAAGCGC
1 TTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCATTTTT-GGAAAGCGC
* * *
49038254 CGCAAAAAAAACTAAGCCCAACGGCACCATTTTCTAAGCTTTCGGGGAT
65 CGCAAAAAAAACTAAGCCCAACGACGCCATTTTCTGAGCTTTCGGGGAT
*
49038303 TTAGCGGCGTTTTTAAGAAAGCACCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGG
1 TTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGG
49038360 NNNNNNNNNN
Statistics
Matches: 661, Mismatches: 68, Indels: 21
0.88 0.09 0.03
Matches are distributed among these distances:
112 1 0.00
113 200 0.30
114 458 0.69
115 2 0.00
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.27
Consensus pattern (113 bp):
TTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGGAAAGCGCC
GCAAAAAAAACTAAGCCCAACGACGCCATTTTCTGAGCTTTCGGGGAT
Found at i:49037912 original size:227 final size:226
Alignment explanation
Indices: 49037507--49038359 Score: 1152
Period size: 227 Copynumber: 3.8 Consensus size: 226
49037497 AAAATAAGAA
* * *
49037507 TTAGTGGCGTTTTTAAGAAAGCGCCGCTAATGATCAGGGATTTAGCGG-AGTTTTTGTGAAAGCG
1 TTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCA-TTTTTGGGAAAGCG
* * * * * * * * *
49037571 CTGTAAAAAAACCTAATCCCAACGATGCCATTTTCTGAGTTTTCGGGGATTTAGCAGCATTTTTA
65 CCGCAAAAAAAACTAAGCCCAACAACGCCATTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTA
* * * * *
49037636 AAAAAGCGCCGCTAATGTTCAGGGCTTTAGCGGCGTTTTTGGAAAAGCGCTGCAAAAAAACTAAG
130 AGAAAGCACCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGGAAAAGCGCCGCAAAAAAACTAAG
* * * *
49037701 CCCAACAACACCATTTTCTGAGCTCTCGGGGAT
195 CCCAACGACGCCGTTTTCTGAGCTTTC-GGGAT
* * *
49037734 TTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCGTTTTTGAGAAAGCAC
1 TTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCATTTTTGGGAAAGCGC
* * * * * *
49037799 CGCAAAAAAACCTGAGCCCAACAACGCCGTTTTCTGAGCTTTCGGGGATTTAACTGTGTTTTTAA
66 CGCAAAAAAAACTAAGCCCAACAACGCCATTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAA
* *
49037864 GAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTT-GAGAAAGCGCCGCAAAAAAACCTAA
131 GAAAGCACCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGGA-AAAGCGCCGCAAAAAAA-CTAA
* *
49037928 TCCCAACGACGCCGTTTCCTGAGCTTTCGGGAT
194 GCCCAACGACGCCGTTTTCTGAGCTTTCGGGAT
* * *
49037961 TTAACGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGGGAAAGCGC
1 TTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCATTTTTGGGAAAGCGC
* ** *
49038026 CGCAAAAAAAACTAAGCCCAGCAGTGCCATTTTCTGAGCTCTCGGGGATTTAGCGGCGTTTTTAA
66 CGCAAAAAAAACTAAGCCCAACAACGCCATTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAA
*
49038091 GAAAGCACCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGGTAAAGCGCCGCAAAAAAAACTAAG
131 GAAAGCACCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGGAAAAGCGCCGC-AAAAAAACTAAG
** *
49038156 CCCAACGGTGCCGTTTTCTGAGCTTTTAGGGAT
195 CCCAACGACGCCGTTTTCTGAGC-TTTCGGGAT
** * * *
49038189 TTAGCAACGTTTTTAAGGAAGCACCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGGGAAAGCGC
1 TTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCATTTTTGGGAAAGCGC
** * *
49038254 CGCAAAAAAAACTAAGCCCAACGGCACCATTTTCTAAGCTTTCGGGGATTTAGCGGCGTTTTTAA
66 CGCAAAAAAAACTAAGCCCAACAACGCCATTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAA
49038319 GAAAGCACCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGG
131 GAAAGCACCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGG
49038360 NNNNNNNNNN
Statistics
Matches: 558, Mismatches: 62, Indels: 11
0.88 0.10 0.02
Matches are distributed among these distances:
226 2 0.00
227 355 0.64
228 201 0.36
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.27
Consensus pattern (226 bp):
TTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCATTTTTGGGAAAGCGC
CGCAAAAAAAACTAAGCCCAACAACGCCATTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAA
GAAAGCACCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGGAAAAGCGCCGCAAAAAAACTAAGC
CCAACGACGCCGTTTTCTGAGCTTTCGGGAT
Found at i:49038145 original size:341 final size:341
Alignment explanation
Indices: 49037514--49038359 Score: 1237
Period size: 341 Copynumber: 2.5 Consensus size: 341
49037504 GAATTAGTGG
* * * * * *
49037514 CGTTTTTAAGAAAGCGCCGCTAATGATCAGGGATTTAGCGGAGTTTTTGTGAAAGCGCTGTAAAA
1 CGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAA
* * * *
49037579 AAACCTAATCCCAACGATGCCATTTTCTGAGTTTTCGGGGATTTAGCAGCATTTTTAAAAAAGCG
66 AAACCTAATCCCAACGACGCCATTTTCTGAGCTTTCGGGGATTTAGCGGCATTTTTAAGAAAGCG
* * *
49037644 CCGCTAATGTTCAGGGCTTTAGCGGCGTTTTTGGAAAAGCGCTGCAAAAAAACTAAGCCCAACAA
131 CCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGGAAAAGCGCCGCAAAAAAACTAAGCCCAACAA
*
49037709 CACCATTTTCTGAGCTCTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGA
196 CACCATTTTCTGAGCTCTCGGGGATTTAGCGGCGTTTTTAAGAAAGCACCGCTAATGCTCAGGGA
* * *
49037774 TTTAGCGGCGTTTTTGAGAAAGCACCGCAAAAAAACCTGAGCCCAACAACGCCGTTTTCTGAGCT
261 TTTAGCGGCATTTTTGAGAAAGCACCGCAAAAAAAACTAAGCCCAACAACGCCGTTTTCTGAGCT
* **
49037839 TTCGGGGATTTAACTG
326 TTCAGGGATTTAACAA
*
49037855 TGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAA
1 CGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAA
* * *
49037920 AAACCTAATCCCAACGACGCCGTTTCCTGAGCTTTC-GGGATTTAACGGCATTTTTAAGAAAGCG
66 AAACCTAATCCCAACGACGCCATTTTCTGAGCTTTCGGGGATTTAGCGGCATTTTTAAGAAAGCG
* *
49037984 CCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGGGAAAGCGCCGCAAAAAAAACTAAGCCCAGCA
131 CCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGGAAAAGCGCCGC-AAAAAAACTAAGCCCAACA
***
49038049 GTGCCATTTTCTGAGCTCTCGGGGATTTAGCGGCGTTTTTAAGAAAGCACCGCTAATGCTCAGGG
195 ACACCATTTTCTGAGCTCTCGGGGATTTAGCGGCGTTTTTAAGAAAGCACCGCTAATGCTCAGGG
* * ***
49038114 CTTTAGCGGCATTTTTG-GTAAAGCGCCGCAAAAAAAACTAAGCCCAACGGTGCCGTTTTCTGAG
260 ATTTAGCGGCATTTTTGAG-AAAGCACCGCAAAAAAAACTAAGCCCAACAACGCCGTTTTCTGAG
* *
49038178 CTTTTAGGGATTTAGCAA
324 CTTTCAGGGATTTAACAA
* * * *
49038196 CGTTTTTAAGGAAGCACCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGGGAAAGCGCCGCAAAA
1 CGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAA
* * * * * * *
49038261 AAAACTAAGCCCAACGGCACCATTTTCTAAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCA
66 AAACCTAATCCCAACGACGCCATTTTCTGAGCTTTCGGGGATTTAGCGGCATTTTTAAGAAAGCG
49038326 CCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGG
131 CCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGG
49038360 NNNNNNNNNN
Statistics
Matches: 451, Mismatches: 51, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
340 67 0.15
341 325 0.72
342 59 0.13
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (341 bp):
CGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAA
AAACCTAATCCCAACGACGCCATTTTCTGAGCTTTCGGGGATTTAGCGGCATTTTTAAGAAAGCG
CCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGGAAAAGCGCCGCAAAAAAACTAAGCCCAACAA
CACCATTTTCTGAGCTCTCGGGGATTTAGCGGCGTTTTTAAGAAAGCACCGCTAATGCTCAGGGA
TTTAGCGGCATTTTTGAGAAAGCACCGCAAAAAAAACTAAGCCCAACAACGCCGTTTTCTGAGCT
TTCAGGGATTTAACAA
Found at i:49040255 original size:5 final size:5
Alignment explanation
Indices: 49040245--49040270 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
49040235 TTTAAATTTG
49040245 AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT A
49040271 CAAACCAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:49043131 original size:22 final size:20
Alignment explanation
Indices: 49043095--49043780 Score: 636
Period size: 22 Copynumber: 32.0 Consensus size: 20
49043085 TAAATACCCT
49043095 AACCCTAACCCTTAACTTAA
1 AACCCTAACCCTTAACTTAA
*
49043115 AACTCCTAACCCCTTAACCTAAA
1 AAC-CCTAA-CCCTTAA-CTTAA
*
49043138 AACACTAACCCTTAACTTTAA
1 AACCCTAACCCTTAAC-TTAA
*
49043159 AACCCTAAACCCTTAACCTAAA
1 AACCCT-AACCCTTAA-CTTAA
* *
49043181 AACTCTAACCATTAACTTTAA
1 AACCCTAACCCTTAAC-TTAA
49043202 AACCCTAACCCCTTAACTTTAA
1 AACCCTAA-CCCTTAAC-TTAA
*
49043224 AACCCTAACCTTTAACTTTAA
1 AACCCTAACCCTTAAC-TTAA
* * *
49043245 AACTCTAAACCATTAACCTAAAA
1 AACCCT-AACCCTTAA-CT-TAA
* *
49043268 AACCCTAAACTCTTAAATTAAA
1 AACCCT-AACCCTTAACTT-AA
* *
49043290 AACCCTAAACCTTAATCTGAA
1 AACCCTAACCCTTAA-CTTAA
49043311 AACCCTAACCCTTAACTTTAA
1 AACCCTAACCCTTAAC-TTAA
* *
49043332 AGCCCTAGACTCTTAACTTAAA
1 AACCCTA-ACCCTTAACTT-AA
49043354 AACCCTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTT-AA
* *
49043376 AACACTAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTT-AA
* *
49043397 AACCCTAAACCCTTATCCTAAA
1 AACCCT-AACCCTTA-ACTTAA
* *
49043419 AACCTTAACCCTTAACTTGA
1 AACCCTAACCCTTAACTTAA
49043439 AACCCTAA-CCTTAACTTTAA
1 AACCCTAACCCTTAAC-TTAA
49043459 AACCCTAGACCCTTAACTTAAA
1 AACCCTA-ACCCTTAACTT-AA
49043481 AACCCTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTT-AA
* *
49043503 AACCTTAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTT-AA
*
49043524 AACCCTAAACCCTTAACCTAAA
1 AACCCT-AACCCTTAA-CTTAA
*
49043546 AACCCTAACCCTTAACCTAA
1 AACCCTAACCCTTAACTTAA
* **
49043566 AACGCTAAATCTTAACTTTAA
1 AACCCTAACCCTTAAC-TTAA
*
49043587 AACCCTGGACCCTTAACTTAA
1 AACCCT-AACCCTTAACTTAA
49043608 AACCCTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTT-AA
* *
49043630 AACCCCAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTT-AA
*
49043651 AACCCTAAACCCTTAACCTAA
1 AACCCT-AACCCTTAACTTAA
*
49043672 TAACCTTAACCCTTAACTTGAA
1 -AACCCTAACCCTTAACTT-AA
* *
49043694 AACCTTAAACCTTTAACTTTAA
1 AACCCT-AACCCTTAAC-TTAA
49043716 AACCCTAGACCCTTAACTTTAA
1 AACCCTA-ACCCTTAAC-TTAA
49043738 AACCCTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTT-AA
49043760 AACCCTAACCCTTAACTTAA
1 AACCCTAACCCTTAACTTAA
49043780 A
1 A
49043781 TATAATTTGA
Statistics
Matches: 561, Mismatches: 68, Indels: 74
0.80 0.10 0.11
Matches are distributed among these distances:
19 7 0.01
20 45 0.08
21 229 0.41
22 249 0.44
23 31 0.06
ACGTcount: A:0.42, C:0.31, G:0.01, T:0.26
Consensus pattern (20 bp):
AACCCTAACCCTTAACTTAA
Found at i:49043152 original size:43 final size:42
Alignment explanation
Indices: 49043095--49043780 Score: 721
Period size: 43 Copynumber: 16.0 Consensus size: 42
49043085 TAAATACCCT
*
49043095 AACCCT-AACCCTTAACTTAAAACTCCTAACCCCTTAACCTAAA
1 AACCCTAAACCCTTAACTTAAAAC-CCTAA-CCCTTAACTTAAA
* *
49043138 AACACT-AACCCTTAACTTTAAAACCCTAAACCCTTAACCTAAA
1 AACCCTAAACCCTTAAC-TTAAAACCCT-AACCCTTAACTTAAA
* * *
49043181 AACTCT-AACCATTAACTTTAAAACCCTAACCCCTTAACTTTAA
1 AACCCTAAACCCTTAAC-TTAAAACCCTAA-CCCTTAACTTAAA
* * * *
49043224 AACCCT-AACCTTTAACTTTAAAACTCTAAACCATTAACCTAAAA
1 AACCCTAAACCCTTAAC-TTAAAACCCT-AACCCTTAA-CTTAAA
* * * *
49043268 AACCCTAAACTCTTAAATTAAAAACCCTAAACCTTAA-TCTGAA
1 AACCCTAAACCCTTAACTT-AAAACCCTAACCCTTAACT-TAAA
* *
49043311 AACCCT-AACCCTTAACTTTAAAGCCCTAGACTCTTAACTTAAA
1 AACCCTAAACCCTTAAC-TTAAAACCCTA-ACCCTTAACTTAAA
* *
49043354 AACCCTAAACCCTTAACTTAAAAACACTAACCCTTAAATTAAA
1 AACCCTAAACCCTTAACTT-AAAACCCTAACCCTTAACTTAAA
* * * *
49043397 AACCCTAAACCCTTATCCTAAAAACCTTAACCCTTAACTT-GA
1 AACCCTAAACCCTTA-ACTTAAAACCCTAACCCTTAACTTAAA
49043439 AACCCT-AA-CCTTAACTTTAAAACCCTAGACCCTTAACTTAAA
1 AACCCTAAACCCTTAAC-TTAAAACCCTA-ACCCTTAACTTAAA
* *
49043481 AACCCTAAACCCTTAACTTAAAAACCTTAACCCTTAAATTAAA
1 AACCCTAAACCCTTAACTT-AAAACCCTAACCCTTAACTTAAA
* *
49043524 AACCCTAAACCCTTAACCTAAAAACCCTAACCCTTAACCT-AA
1 AACCCTAAACCCTTAA-CTTAAAACCCTAACCCTTAACTTAAA
* * *
49043566 AACGCTAAA-TCTTAACTTTAAAACCCTGGACCCTTAACTT-AA
1 AACCCTAAACCCTTAAC-TTAAAACCCT-AACCCTTAACTTAAA
* *
49043608 AACCCTAAACCCTTAACTTAAAAACCCCAACCCTTAAATTAAA
1 AACCCTAAACCCTTAACTT-AAAACCCTAACCCTTAACTTAAA
* * *
49043651 AACCCTAAACCCTTAACCTAATAACCTTAACCCTTAACTTGAA
1 AACCCTAAACCCTTAACTTAA-AACCCTAACCCTTAACTTAAA
* * *
49043694 AACCTTAAACCTTTAACTTTAAAACCCTAGACCCTTAACTTTAA
1 AACCCTAAACCCTTAAC-TTAAAACCCTA-ACCCTTAACTTAAA
49043738 AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTT-AAAACCCTAACCCTTAACTTAAA
49043781 TATAATTTGA
Statistics
Matches: 545, Mismatches: 68, Indels: 60
0.81 0.10 0.09
Matches are distributed among these distances:
39 1 0.00
40 15 0.03
41 27 0.05
42 77 0.14
43 304 0.56
44 107 0.20
45 14 0.03
ACGTcount: A:0.42, C:0.31, G:0.01, T:0.26
Consensus pattern (42 bp):
AACCCTAAACCCTTAACTTAAAACCCTAACCCTTAACTTAAA
Found at i:49045384 original size:24 final size:24
Alignment explanation
Indices: 49045338--49045385 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
49045328 TAGTTAAGCG
49045338 TCATAAATAATATTTTATGAATGTA
1 TCATAAATAATA-TTTATGAATGTA
49045363 TCATAAATACATA-TTATGAATGT
1 TCATAAATA-ATATTTATGAATGT
49045386 GATTTCCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 10 0.45
25 9 0.41
26 3 0.14
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.42
Consensus pattern (24 bp):
TCATAAATAATATTTATGAATGTA
Found at i:49048776 original size:24 final size:24
Alignment explanation
Indices: 49048746--49048802 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
49048736 TTAACTCACT
* *
49048746 TTAGGGTTTGTAATTAACTTTAGA
1 TTAGGGTTTGCAACTAACTTTAGA
* *
49048770 TTAGGGTTGGCAACTAACTTTGGA
1 TTAGGGTTTGCAACTAACTTTAGA
49048794 TTAGGGTTT
1 TTAGGGTTT
49048803 TAGGGTGGAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.25, C:0.07, G:0.26, T:0.42
Consensus pattern (24 bp):
TTAGGGTTTGCAACTAACTTTAGA
Found at i:49049327 original size:134 final size:134
Alignment explanation
Indices: 49049087--49049332 Score: 465
Period size: 134 Copynumber: 1.8 Consensus size: 134
49049077 CTCCCTAAGG
* *
49049087 GATTTAGCCACTCATGTTATTCATAGTCTCTCTCTCGATTGATTAAATCATGTGAAAAACACAAA
1 GATTTAGCCACTCATGTTATTCATAGTCTCGCTCTCGATTGAATAAATCATGTGAAAAACACAAA
49049152 CAATTCGGAAGAGAAAAAAAATTGAATAATTGATGATTTGATCTCGATTCGGAATAATGAATAAT
66 CAATTCGGAAGAGAAAAAAAATTGAATAATTGATGATTTGATCTCGATTCGGAATAATGAATAAT
49049217 TGAT
131 TGAT
49049221 GATTTAGCCACTCATGTTATTCATAGTCTCGCTCTCGATTGAATAAATCATGTGAAAAACACAAA
1 GATTTAGCCACTCATGTTATTCATAGTCTCGCTCTCGATTGAATAAATCATGTGAAAAACACAAA
*
49049286 CGATTCGGAAGAGAAAAAAAATTGAATAATTGATGATTTGATCTCGA
66 CAATTCGGAAGAGAAAAAAAATTGAATAATTGATGATTTGATCTCGA
49049333 ATAAGGAACG
Statistics
Matches: 109, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
134 109 1.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (134 bp):
GATTTAGCCACTCATGTTATTCATAGTCTCGCTCTCGATTGAATAAATCATGTGAAAAACACAAA
CAATTCGGAAGAGAAAAAAAATTGAATAATTGATGATTTGATCTCGATTCGGAATAATGAATAAT
TGAT
Found at i:49050835 original size:19 final size:18
Alignment explanation
Indices: 49050798--49050836 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
49050788 ACAAACATCC
* *
49050798 AATTAAAAATAAAATAAG
1 AATTAAAAACAAAAAAAG
49050816 AATTAAAAACAAAAGAAAG
1 AATTAAAAACAAAA-AAAG
49050835 AA
1 AA
49050837 AAGTATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.74, C:0.03, G:0.08, T:0.15
Consensus pattern (18 bp):
AATTAAAAACAAAAAAAG
Found at i:49051407 original size:18 final size:18
Alignment explanation
Indices: 49051369--49051408 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
49051359 GGGGTCTCCA
*
49051369 CCTCATCATCATCCTCTT
1 CCTCATCATCATCCTCAT
* *
49051387 CCTCGTCATCATCGTCAT
1 CCTCATCATCATCCTCAT
49051405 CCTC
1 CCTC
49051409 CTCTCCTGGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.15, C:0.45, G:0.05, T:0.35
Consensus pattern (18 bp):
CCTCATCATCATCCTCAT
Found at i:49052069 original size:15 final size:16
Alignment explanation
Indices: 49052040--49052074 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
49052030 TTGTAAAAAT
*
49052040 ATATAAAATTTTAATA
1 ATATAAAATTATAATA
49052056 ATATAAAA-TATAATA
1 ATATAAAATTATAATA
49052071 ATAT
1 ATAT
49052075 TTATTAGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
ATATAAAATTATAATA
Found at i:49052636 original size:20 final size:18
Alignment explanation
Indices: 49052586--49052637 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
49052576 TATCAAGATA
49052586 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
49052603 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAAT-A-TTT
49052623 AATATTAAATTAATA
1 AATATTAAATTAATA
49052638 AAATACTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 11 0.37
18 1 0.03
19 3 0.10
20 15 0.50
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:49052694 original size:68 final size:69
Alignment explanation
Indices: 49052552--49052697 Score: 188
Period size: 68 Copynumber: 2.1 Consensus size: 69
49052542 CTTAATCACT
* *
49052552 ATAATATTAAATTAATATAATACTTATCAAGATAAATATTAAATTAAATTTAATATTAAGATAAT
1 ATAATATTAAATTAATAAAATACTTATCAAGATAAATATTAAATTAAATTTAATATGAAGATAAT
**
49052617 CACT
66 CAAA
* * * *
49052621 TTAATATTAAATTAATAAAATAC-TATTAAGATAAGTATTAAATTAAATTTAATATGAA-ATCTA
1 ATAATATTAAATTAATAAAATACTTATCAAGATAAATATTAAATTAAATTTAATATGAAGAT-AA
*
49052684 TTAAA
65 TCAAA
49052689 ATAATATTA
1 ATAATATTA
49052698 TTTTTGAAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
67 2 0.03
68 43 0.65
69 21 0.32
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.40
Consensus pattern (69 bp):
ATAATATTAAATTAATAAAATACTTATCAAGATAAATATTAAATTAAATTTAATATGAAGATAAT
CAAA
Found at i:49058993 original size:70 final size:70
Alignment explanation
Indices: 49058918--49059132 Score: 189
Period size: 70 Copynumber: 3.1 Consensus size: 70
49058908 TGTACAAGTA
49058918 ATATTTTGTATGAATAAAATTCATATATTAATTATTTCCTTTCCAAAAGAATATTAATTTCATGT
1 ATATTTTGTATGAATAAAATTCATATATTAATTATTTCCTTTCCAAAAGAATATTAATTTCATGT
49058983 CTTTT
66 CTTTT
* * * * * * ***
49058988 ATATTTTG-ACCGAA-ATTAATT-A-ATA-TAATTGTTT-ATATT--AATA-AAT-TCGATACAA
1 ATATTTTGTA-TGAATA-AAATTCATATATTAATTATTTCCT-TTCCAAAAGAATAT-TA-ATTT
** *
49059043 CATGTACAAGTA
61 CATGT-C-TTTT
49059055 ATATTTTGTATGAATAAAATTCATATATTAATTATTTCCTTTCCAAAAGAATATTAATTTCATGT
1 ATATTTTGTATGAATAAAATTCATATATTAATTATTTCCTTTCCAAAAGAATATTAATTTCATGT
49059120 CTTTT
66 CTTTT
49059125 ATATTTTG
1 ATATTTTG
49059133 ACCGAAATTA
Statistics
Matches: 104, Mismatches: 24, Indels: 34
0.64 0.15 0.21
Matches are distributed among these distances:
63 1 0.01
64 4 0.04
65 9 0.09
66 2 0.02
67 26 0.25
68 6 0.06
69 6 0.06
70 34 0.33
71 2 0.02
72 9 0.09
73 4 0.04
74 1 0.01
ACGTcount: A:0.38, C:0.09, G:0.07, T:0.46
Consensus pattern (70 bp):
ATATTTTGTATGAATAAAATTCATATATTAATTATTTCCTTTCCAAAAGAATATTAATTTCATGT
CTTTT
Found at i:49059062 original size:67 final size:67
Alignment explanation
Indices: 49058851--49059062 Score: 168
Period size: 67 Copynumber: 3.1 Consensus size: 67
49058841 CATGCCTTTT
*
49058851 ATATTTTGACCGAAATTAATTAATATTATTGTTTATATTAATAAATTCGATACAACATGTACAAG
1 ATATTTTGACCGAAATTAATTAATATAATTGTTTATATTAATAAATTCGATACAACATGTACAAG
49058916 TA
66 TA
* * * * * * ***
49058918 ATATTTTGTA-TG-AATAAAATTCATATATTAATTATTTCCT-TTCCAAAAGAATAT-TA-ATTT
1 ATATTTTG-ACCGAAAT-TAATT-A-ATA-TAATTGTTT-ATATT--AATA-AAT-TCGATACAA
** *
49058978 CATGT-C-TTTT
56 CATGTACAAGTA
49058988 ATATTTTGACCGAAATTAATTAATATAATTGTTTATATTAATAAATTCGATACAACATGTACAAG
1 ATATTTTGACCGAAATTAATTAATATAATTGTTTATATTAATAAATTCGATACAACATGTACAAG
49059053 TA
66 TA
49059055 ATATTTTG
1 ATATTTTG
49059063 TATGAATAAA
Statistics
Matches: 103, Mismatches: 25, Indels: 34
0.64 0.15 0.21
Matches are distributed among these distances:
63 1 0.01
64 4 0.04
65 9 0.09
66 5 0.05
67 32 0.31
68 5 0.05
69 5 0.05
70 23 0.22
71 5 0.05
72 9 0.09
73 4 0.04
74 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.08, T:0.43
Consensus pattern (67 bp):
ATATTTTGACCGAAATTAATTAATATAATTGTTTATATTAATAAATTCGATACAACATGTACAAG
TA
Found at i:49059318 original size:138 final size:137
Alignment explanation
Indices: 49058838--49059361 Score: 786
Period size: 137 Copynumber: 3.8 Consensus size: 137
49058828 TTTTATTGAT
* * *
49058838 TTTCATGCCTTTTATATTTTGACCGAAATTAATTAATATTATTGTTTATATTAATAAATTCGATA
1 TTTCATGTCTTTTATATTTTGACCGAAATTAATTAATATAACTGTTTATATTAATAAATTCGATA
* *
49058903 CAACATGTACAAGTAATATTTTGTATGAATAAAATTCATATATTAATTATTTCCTTTCCAAAAGA
66 AAACATATACAAGTAATATTTTGTATGAATAAAATTCATATATTAATTATTTCCTTTCCAAAAGA
49058968 ATATTAA
131 ATATTAA
*
49058975 TTTCATGTCTTTTATATTTTGACCGAAATTAATTAATATAATTGTTTATATTAATAAATTCGATA
1 TTTCATGTCTTTTATATTTTGACCGAAATTAATTAATATAACTGTTTATATTAATAAATTCGATA
* *
49059040 CAACATGTACAAGTAATATTTTGTATGAATAAAATTCATATATTAATTATTTCCTTTCCAAAAGA
66 AAACATATACAAGTAATATTTTGTATGAATAAAATTCATATATTAATTATTTCCTTTCCAAAAGA
49059105 ATATTAA
131 ATATTAA
* * *
49059112 TTTCATGTCTTTTATATTTTGACCGAAATTAATTAATATAACTGTTTATATTGATAAATTTGGTA
1 TTTCATGTCTTTTATATTTTGACCGAAATTAATTAATATAACTGTTTATATTAATAAATTCGATA
* * * * * *
49059177 AAATATATACAATTAATATTTTGTATAAATCAAATTCATATATTAATTATATT-ATTTCCAAAAT
66 AAACATATACAAGTAATATTTTGTATGAATAAAATTCATATATTAATTAT-TTCCTTTCCAAAAG
49059241 AATATTAA
130 AATATTAA
*
49059249 TTTCTATGTCTTTTATATTTTGATC-AGAATTAATTAATATAACTGTTTATATTAATAAATTC-A
1 TTTC-ATGTCTTTTATATTTTGACCGA-AATTAATTAATATAACTGTTTATATTAATAAATTCGA
* * *
49059312 GTAAAATATATACAACTAAATATTTTGTA-GAATCAAATTCATATATTAAT
64 -TAAAACATATACAAGT-AATATTTTGTATGAATAAAATTCATATATTAAT
49059362 AATATCTATG
Statistics
Matches: 362, Mismatches: 20, Indels: 9
0.93 0.05 0.02
Matches are distributed among these distances:
137 262 0.72
138 89 0.25
139 11 0.03
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.45
Consensus pattern (137 bp):
TTTCATGTCTTTTATATTTTGACCGAAATTAATTAATATAACTGTTTATATTAATAAATTCGATA
AAACATATACAAGTAATATTTTGTATGAATAAAATTCATATATTAATTATTTCCTTTCCAAAAGA
ATATTAA
Found at i:49062323 original size:9 final size:9
Alignment explanation
Indices: 49062309--49062366 Score: 53
Period size: 9 Copynumber: 6.4 Consensus size: 9
49062299 TTTGGTTAAA
49062309 AATTACCCG
1 AATTACCCG
49062318 AATTACCCG
1 AATTACCCG
* *
49062327 AACTAACCG
1 AATTACCCG
* **
49062336 AATTGCCAA
1 AATTACCCG
*
49062345 AAATACCCG
1 AATTACCCG
*
49062354 AATTACTCG
1 AATTACCCG
49062363 AATT
1 AATT
49062367 TTTTTTTTAA
Statistics
Matches: 36, Mismatches: 13, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.40, C:0.28, G:0.10, T:0.22
Consensus pattern (9 bp):
AATTACCCG
Found at i:49062475 original size:40 final size:39
Alignment explanation
Indices: 49062429--49062517 Score: 124
Period size: 39 Copynumber: 2.3 Consensus size: 39
49062419 GACTTTAGTA
* *
49062429 AATTGGGTTGTCTTTTAGTTTTAGTTTTATTGGATTGGGT
1 AATTGGGTTGAC-TTTAGTTTTAATTTTATTGGATTGGGT
** *
49062469 AATTGGGTAAACTTTAGTTTTAATTTTATTGGGTTGGGT
1 AATTGGGTTGACTTTAGTTTTAATTTTATTGGATTGGGT
49062508 AATTGGGTTG
1 AATTGGGTTG
49062518 GGTAATTGAG
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
39 33 0.79
40 9 0.21
ACGTcount: A:0.19, C:0.02, G:0.28, T:0.51
Consensus pattern (39 bp):
AATTGGGTTGACTTTAGTTTTAATTTTATTGGATTGGGT
Found at i:49062514 original size:13 final size:13
Alignment explanation
Indices: 49062496--49062525 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
49062486 TTTTAATTTT
49062496 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
49062509 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
49062522 ATTG
1 ATTG
49062526 AGTTTGGGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.43, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:49065330 original size:12 final size:12
Alignment explanation
Indices: 49065313--49065343 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
49065303 GAATCTATCC
49065313 TCGCTTTGTTCA
1 TCGCTTTGTTCA
49065325 TCGCTTTGTTCA
1 TCGCTTTGTTCA
49065337 TCGCTTT
1 TCGCTTT
49065344 CACCGTTGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.06, C:0.26, G:0.16, T:0.52
Consensus pattern (12 bp):
TCGCTTTGTTCA
Found at i:49074509 original size:45 final size:45
Alignment explanation
Indices: 49074445--49074531 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
49074435 TGAAGCGAAA
* * * *
49074445 ATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCCACCGGAC
1 ATCATTGATTAATAAGGTGGTTACTATGTGATGAATCCACCGGAC
49074490 ATCATTGATTAATAAGGTGGTTACTATGTGATGAATCCACCG
1 ATCATTGATTAATAAGGTGGTTACTATGTGATGAATCCACCG
49074532 AGTATTTGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.33
Consensus pattern (45 bp):
ATCATTGATTAATAAGGTGGTTACTATGTGATGAATCCACCGGAC
Found at i:49079107 original size:18 final size:18
Alignment explanation
Indices: 49079086--49079122 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
49079076 AGAGGAAGTT
49079086 GTTGCTAAAGAA-GAAAAA
1 GTTGCTAAA-AATGAAAAA
49079104 GTTGCTAAAAATGAAAAA
1 GTTGCTAAAAATGAAAAA
49079122 G
1 G
49079123 AAAGAGAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.54, C:0.05, G:0.22, T:0.19
Consensus pattern (18 bp):
GTTGCTAAAAATGAAAAA
Found at i:49083444 original size:25 final size:24
Alignment explanation
Indices: 49083416--49083488 Score: 103
Period size: 25 Copynumber: 3.0 Consensus size: 24
49083406 GACACACCAT
49083416 AGCTCGTATGAGCTTACCGATTTGC
1 AGCTCGTATGAGCTTACCGATTT-C
*
49083441 AGCTCGTGA-GAGCTTATCGATTCTC
1 AGCTCGT-ATGAGCTTACCGATT-TC
49083466 AGCTCGTATGAGCTTACCGATTT
1 AGCTCGTATGAGCTTACCGATTT
49083489 ATAGCTCGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
24 2 0.05
25 39 0.91
26 2 0.05
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (24 bp):
AGCTCGTATGAGCTTACCGATTTC
Found at i:49083494 original size:25 final size:25
Alignment explanation
Indices: 49083414--49083528 Score: 101
Period size: 25 Copynumber: 4.6 Consensus size: 25
49083404 CGGACACACC
49083414 ATAGCTCGTATGAGCTTACCGATTT
1 ATAGCTCGTATGAGCTTACCGATTT
** *
49083439 GCAGCTCGTGA-GAGCTTATCGATTCT
1 ATAGCTCGT-ATGAGCTTACCGATT-T
*
49083465 -CAGCTCGTATGAGCTTACCGATTT
1 ATAGCTCGTATGAGCTTACCGATTT
* * * *
49083489 ATAGCTCG-AGAGAGCATACCGGTTC
1 ATAGCTCGTA-TGAGCTTACCGATTT
*
49083514 ATTGCTCGTATGAGC
1 ATAGCTCGTATGAGC
49083529 ATACATGTAT
Statistics
Matches: 73, Mismatches: 11, Indels: 12
0.76 0.11 0.12
Matches are distributed among these distances:
24 3 0.04
25 67 0.92
26 3 0.04
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (25 bp):
ATAGCTCGTATGAGCTTACCGATTT
Found at i:49083521 original size:50 final size:50
Alignment explanation
Indices: 49083416--49083528 Score: 147
Period size: 50 Copynumber: 2.3 Consensus size: 50
49083406 GACACACCAT
* * * *
49083416 AGCTCGTATGAGCTTACCGATTTGCAGCTCGTGAGAGCTTATCGATTCTC
1 AGCTCGTATGAGCTTACCGATTTACAGCTCGAGAGAGCATACCGATTCTC
* *
49083466 AGCTCGTATGAGCTTACCGATTTATAGCTCGAGAGAGCATACCGGTTCAT-
1 AGCTCGTATGAGCTTACCGATTTACAGCTCGAGAGAGCATACCGATTC-TC
*
49083516 TGCTCGTATGAGC
1 AGCTCGTATGAGC
49083529 ATACATGTAT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 54 0.98
51 1 0.02
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (50 bp):
AGCTCGTATGAGCTTACCGATTTACAGCTCGAGAGAGCATACCGATTCTC
Found at i:49085502 original size:19 final size:20
Alignment explanation
Indices: 49085467--49085513 Score: 87
Period size: 19 Copynumber: 2.4 Consensus size: 20
49085457 TACATTATCT
49085467 AAATAATAACAAAAAAATAG
1 AAATAATAACAAAAAAATAG
49085487 AAATAATAAC-AAAAAATAG
1 AAATAATAACAAAAAAATAG
49085506 AAATAATA
1 AAATAATA
49085514 TAATAATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 17 0.63
20 10 0.37
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.17
Consensus pattern (20 bp):
AAATAATAACAAAAAAATAG
Found at i:49090274 original size:161 final size:161
Alignment explanation
Indices: 49090009--49090298 Score: 553
Period size: 161 Copynumber: 1.8 Consensus size: 161
49089999 TTGATTTATT
*
49090009 AACATTGCTCAAAGAGCCAAAAATAGGTGAACGTGGCGGCACTGTCTAGCATGAAGATTGTCTTT
1 AACATTGCTCAAAGAGCCAAAAATAGGTGAACGTGGCGGCACTCTCTAGCATGAAGATTGTCTTT
49090074 GCTTTAAATTTGAAGCCAAAAAAAAAACCATTTATGTCTAAATGAACTATATGTAATTAAGATTG
66 GCTTTAAATTTGAAGCCAAAAAAAAAACCATTTATGTCTAAATGAACTATATGTAATTAAGATTG
49090139 TTTTTGTTTAATTGTTGAATACTAAATAAAA
131 TTTTTGTTTAATTGTTGAATACTAAATAAAA
*
49090170 AACATTGCTCAAAGAGCCAAAAATAGGTGAACGTGGCGGTACTCTCTAGCATGAAGATTGTCTTT
1 AACATTGCTCAAAGAGCCAAAAATAGGTGAACGTGGCGGCACTCTCTAGCATGAAGATTGTCTTT
*
49090235 GCTTTAAATTTGAAGCCAAAACAAAAACCATTTATGTCTAAATGAACTATATGTAATTAAGATT
66 GCTTTAAATTTGAAGCCAAAAAAAAAACCATTTATGTCTAAATGAACTATATGTAATTAAGATT
49090299 CAATTCTAAG
Statistics
Matches: 126, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
161 126 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (161 bp):
AACATTGCTCAAAGAGCCAAAAATAGGTGAACGTGGCGGCACTCTCTAGCATGAAGATTGTCTTT
GCTTTAAATTTGAAGCCAAAAAAAAAACCATTTATGTCTAAATGAACTATATGTAATTAAGATTG
TTTTTGTTTAATTGTTGAATACTAAATAAAA
Found at i:49092463 original size:3 final size:3
Alignment explanation
Indices: 49092457--49092502 Score: 74
Period size: 3 Copynumber: 15.0 Consensus size: 3
49092447 CCATTACTAC
*
49092457 TAT TAT TAT TAT TAAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
49092503 CTTTTTTTAC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
3 38 0.95
4 2 0.05
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:49096254 original size:16 final size:15
Alignment explanation
Indices: 49096223--49096263 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
49096213 TTGTTTATTA
49096223 AATTAATTTT-AATT
1 AATTAATTTTCAATT
49096237 AATTAATTTTCCAATT
1 AATTAATTTT-CAATT
*
49096253 AAATAATTTTC
1 AATTAATTTTC
49096264 TCAACCCAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 10 0.42
15 1 0.04
16 13 0.54
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.51
Consensus pattern (15 bp):
AATTAATTTTCAATT
Found at i:49097791 original size:14 final size:15
Alignment explanation
Indices: 49097771--49097808 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
49097761 GTTCCAACAG
49097771 AGGTTTAGG-CTTTA
1 AGGTTTAGGTCTTTA
* *
49097785 GGGTTTAGGTTTTTA
1 AGGTTTAGGTCTTTA
49097800 AGGTTTAGG
1 AGGTTTAGG
49097809 AATAGGTGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.18, C:0.03, G:0.34, T:0.45
Consensus pattern (15 bp):
AGGTTTAGGTCTTTA
Found at i:49102932 original size:14 final size:14
Alignment explanation
Indices: 49102913--49102944 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
49102903 AAATAGGTAA
*
49102913 GTACTGCGAGGATT
1 GTACTGCGAGGATC
49102927 GTACTGCGAGGATC
1 GTACTGCGAGGATC
49102941 GTAC
1 GTAC
49102945 CTAAGGGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.22, C:0.19, G:0.34, T:0.25
Consensus pattern (14 bp):
GTACTGCGAGGATC
Found at i:49110178 original size:29 final size:30
Alignment explanation
Indices: 49110133--49110205 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 30
49110123 CTATCACATT
49110133 ATGAAAAGGGATAGTGACAACCATC-AACA
1 ATGAAAAGGGATAGTGACAACCATCGAACA
* * *
49110162 ATGAAAAAGGATGGTGACGACCATCGAACA
1 ATGAAAAGGGATAGTGACAACCATCGAACA
49110192 ATGAAAAGGGATAG
1 ATGAAAAGGGATAG
49110206 CTTTAGCTAC
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
29 22 0.58
30 16 0.42
ACGTcount: A:0.47, C:0.14, G:0.26, T:0.14
Consensus pattern (30 bp):
ATGAAAAGGGATAGTGACAACCATCGAACA
Found at i:49110288 original size:60 final size:61
Alignment explanation
Indices: 49110057--49110293 Score: 223
Period size: 60 Copynumber: 4.0 Consensus size: 61
49110047 ATGGCGTATC
* * * * * * *
49110057 GACGATCATCAACTAATGAAAAGGGATAGCTTCGGCTATCAAAATAATGAAAAGGGATAGC
1 GACGACCATCAAATAATGAAAAGGGATAGCTTCAGCTATCAAACTAATGAAAAAGGATGGT
** * * * * * *
49110118 CTCGACTATCACATTATGAAAAGGGATAG-TGACAACCATC-AAC-AATGAAAAAGGATGGT
1 GACGACCATCAAATAATGAAAAGGGATAGCT-TCAGCTATCAAACTAATGAAAAAGGATGGT
* * * * *
49110177 GACGACCATCGAACAATGAAAAGGGATAGCTTTAGCTACCAAA-TTATGAAAAAGGATGGT
1 GACGACCATCAAATAATGAAAAGGGATAGCTTCAGCTATCAAACTAATGAAAAAGGATGGT
* * *
49110237 GACGACCATCAAATAATGAAAAGGGATAGCTTCGGCTATCAAGCTAA-GAAAAGGGAT
1 GACGACCATCAAATAATGAAAAGGGATAGCTTCAGCTATCAAACTAATGAAAAAGGAT
49110294 AGCTTCGACT
Statistics
Matches: 135, Mismatches: 36, Indels: 11
0.74 0.20 0.06
Matches are distributed among these distances:
59 39 0.29
60 67 0.50
61 29 0.21
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.19
Consensus pattern (61 bp):
GACGACCATCAAATAATGAAAAGGGATAGCTTCAGCTATCAAACTAATGAAAAAGGATGGT
Found at i:49110315 original size:90 final size:88
Alignment explanation
Indices: 49110057--49110321 Score: 234
Period size: 90 Copynumber: 2.9 Consensus size: 88
49110047 ATGGCGTATC
* * * *
49110057 GACGATCATCAACTAATGAAAAGGGATAGCTTCGGCTATCAAAATAATGAAAAGGGATAGCCTCG
1 GACGACCATCAAATAATGAAAAGGGATAGCTTCGGCTATC-AACTAATGAAAAGGGATAGCTTCG
* *
49110122 ACTATCACATTATGAAAAGGGATAGT
65 ACTAT-A-ACTATGAAAAAGGATAGT
* * * * * * *
49110148 GACAACCATC-AACAATGAAAAAGGAT-GGTGACGACCATCGAAC-AATGAAAAGGGATAGCTT-
1 GACGACCATCAAATAATGAAAAGGGATAGCT-TCGGCTATC-AACTAATGAAAAGGGATAGCTTC
* * * *
49110209 TAGCTACCAAATTATGAAAAAGGATGGT
64 GA-CTA--TAACTATGAAAAAGGATAGT
49110237 GACGACCATCAAATAATGAAAAGGGATAGCTTCGGCTATCAAGCTAA-GAAAAGGGATAGCTTCG
1 GACGACCATCAAATAATGAAAAGGGATAGCTTCGGCTATCAA-CTAATGAAAAGGGATAGCTTCG
*
49110301 ACTATTGAGCTATGAAAAAGG
65 ACTA-T-AACTATGAAAAAGG
49110322 GTTGGGATAA
Statistics
Matches: 136, Mismatches: 28, Indels: 21
0.74 0.15 0.11
Matches are distributed among these distances:
88 1 0.01
89 49 0.36
90 73 0.54
91 13 0.10
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (88 bp):
GACGACCATCAAATAATGAAAAGGGATAGCTTCGGCTATCAACTAATGAAAAGGGATAGCTTCGA
CTATAACTATGAAAAAGGATAGT
Found at i:49110318 original size:30 final size:30
Alignment explanation
Indices: 49110064--49110318 Score: 123
Period size: 30 Copynumber: 8.5 Consensus size: 30
49110054 ATCGACGATC
*
49110064 ATCAA-CTAATGAAAAGGGATAGCTTCGGCT
1 ATCAAGCT-ATGAAAAGGGATAGCTTCGACT
** *
49110094 ATCAAAATAATGAAAAGGGATAGCCTCGACT
1 ATCAAGCT-ATGAAAAGGGATAGCTTCGACT
* * * *
49110125 ATCACA-TTATGAAAAGGGATAG-TGACAACC
1 ATCA-AGCTATGAAAAGGGATAGCT-TCGACT
* * * * *
49110155 ATCAA-CAATGAAAAAGGAT-GGTGACGACC
1 ATCAAGCTATGAAAAGGGATAGCT-TCGACT
* *
49110184 ATCGAA-CAATGAAAAGGGATAGCTT-TAGCT
1 ATC-AAGCTATGAAAAGGGATAGCTTCGA-CT
* ** * * * *
49110214 ACCAAATTATGAAAAAGGAT-GGTGACGACC
1 ATCAAGCTATGAAAAGGGATAGCT-TCGACT
* *
49110244 ATCAA-ATAATGAAAAGGGATAGCTTCGGCT
1 ATCAAGCT-ATGAAAAGGGATAGCTTCGACT
*
49110274 ATCAAGCTAAGAAAAGGGATAGCTTCGACT
1 ATCAAGCTATGAAAAGGGATAGCTTCGACT
**
49110304 ATTGAGCTATGAAAA
1 ATCAAGCTATGAAAA
49110319 AGGGTTGGGA
Statistics
Matches: 174, Mismatches: 38, Indels: 26
0.73 0.16 0.11
Matches are distributed among these distances:
28 1 0.01
29 28 0.16
30 111 0.64
31 33 0.19
32 1 0.01
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.20
Consensus pattern (30 bp):
ATCAAGCTATGAAAAGGGATAGCTTCGACT
Found at i:49112294 original size:137 final size:138
Alignment explanation
Indices: 49112042--49112321 Score: 359
Period size: 137 Copynumber: 2.0 Consensus size: 138
49112032 CACACGAGCT
* * * ** *
49112042 GTAAAATGGGTCTGCTCACACAAGCTATCGATCGGAATGTAAGCTACACGATGCTACTCACATAA
1 GTAACATGGGTCTGCTCACAAAAGCTATCGATCGAAACATAAGCTACACAATGCTACTCACATAA
* * *
49112107 GCTATCGAGTATCCACAACTAATGCCGGACCTTAGACATCGGTAGGACATTCAAGACGAACACCC
66 GCTATCGAGAATCCACAACTAATGCCGCACCTCAGACATCGGTAGGACATTCAAGACGAACA-CC
49112172 T-AAACATG
130 TGAAACATG
* * *
49112180 GTAACATGGGTCTGCTCACAAAAGTTGTCGATCGAAACAT-AGCTACACAATGCTGCTCACCA-A
1 GTAACATGGGTCTGCTCACAAAAGCTATCGATCGAAACATAAGCTACACAATGCTACTCA-CATA
* * * * * *
49112243 AGCTATCGAGAATCCGCAACTAATGTCGCACCTCAGACATCGGTAGGACATTTACGACTACCACC
65 AGCTATCGAGAATCCACAACTAATGCCGCACCTCAGACATCGGTAGGACATTCAAGACGAACACC
49112308 TGAAACATG
130 TGAAACATG
49112317 GTAAC
1 GTAAC
49112322 CCTAATGACA
Statistics
Matches: 122, Mismatches: 18, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
136 3 0.02
137 84 0.69
138 35 0.29
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (138 bp):
GTAACATGGGTCTGCTCACAAAAGCTATCGATCGAAACATAAGCTACACAATGCTACTCACATAA
GCTATCGAGAATCCACAACTAATGCCGCACCTCAGACATCGGTAGGACATTCAAGACGAACACCT
GAAACATG
Found at i:49114071 original size:137 final size:136
Alignment explanation
Indices: 49113764--49114149 Score: 461
Period size: 137 Copynumber: 2.8 Consensus size: 136
49113754 ATGTCATTAT
* * * *
49113764 GGTTACCATGTTTCGGGTGTTGGTCTTGAATGTCCTATCGGTGGCTGAGTTTGACATTAGTTGCG
1 GGTTACCATGTTTCGGGTG-TAGTCTTGAATGTCCTACCGATGGCTGAGGTTGACATTAGTTGCG
* * * *
49113829 GATACTCGACAGCTTATGT-AAGGAGTAGCATCGTGTAGCTTACATTTCGACCGACAGCTTGAGT
65 GATACTCGATAGCTTGTGTGAA-CA--A-CATCGTGTAGCTTACATTTCGACCGACAGCCTGAGT
49113893 GAGTAAACCCA
126 GAGTAAACCCA
* * * *
49113904 GGTTACCATGTTTCGGGTGTTGTTCCTGAATGTCCTACCGATGGCTGAGGCTGGCATTAGTTGCG
1 GGTTACCATGTTTCGGGTGTAG-TCTTGAATGTCCTACCGATGGCTGAGGTTGACATTAGTTGCG
* * * *
49113969 GACACTCGATAGCTTGTGTGAACAACATTGTGTAGCTTACATTTCGACCGATAGCCTGTGTGAG-
65 GATACTCGATAGCTTGTGTGAACAACATCGTGTAGCTTACATTTCGACCGACAGCCTGAGTGAGT
*
49114033 AAGACCTA
130 AA-ACCCA
* * *
49114041 GGTTACCATGTTTCGGGTGCCAGTCTTGAATGTCCTACCGATGGCTGAGGTTCGCCATTAGTTAC
1 GGTTACCATGTTTCGGGTG-TAGTCTTGAATGTCCTACCGATGGCTGAGGTT-GACATTAGTTGC
* * * *
49114106 GAATACTCAATAGCTTGTGTGAGCAGCATCGTGTAGCTTACATT
64 GGATACTCGATAGCTTGTGTGAACAACATCGTGTAGCTTACATT
49114150 CTGACCGTTA
Statistics
Matches: 213, Mismatches: 28, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
136 2 0.01
137 85 0.40
138 50 0.23
139 2 0.01
140 72 0.34
141 2 0.01
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (136 bp):
GGTTACCATGTTTCGGGTGTAGTCTTGAATGTCCTACCGATGGCTGAGGTTGACATTAGTTGCGG
ATACTCGATAGCTTGTGTGAACAACATCGTGTAGCTTACATTTCGACCGACAGCCTGAGTGAGTA
AACCCA
Found at i:49117816 original size:42 final size:42
Alignment explanation
Indices: 49117757--49117924 Score: 336
Period size: 42 Copynumber: 4.0 Consensus size: 42
49117747 TTTCTCGTTC
49117757 TTATTGTTTATTCTATCAAACATGCTTCATCTGTAAAAGATG
1 TTATTGTTTATTCTATCAAACATGCTTCATCTGTAAAAGATG
49117799 TTATTGTTTATTCTATCAAACATGCTTCATCTGTAAAAGATG
1 TTATTGTTTATTCTATCAAACATGCTTCATCTGTAAAAGATG
49117841 TTATTGTTTATTCTATCAAACATGCTTCATCTGTAAAAGATG
1 TTATTGTTTATTCTATCAAACATGCTTCATCTGTAAAAGATG
49117883 TTATTGTTTATTCTATCAAACATGCTTCATCTGTAAAAGATG
1 TTATTGTTTATTCTATCAAACATGCTTCATCTGTAAAAGATG
49117925 GTCATTGACC
Statistics
Matches: 126, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 126 1.00
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (42 bp):
TTATTGTTTATTCTATCAAACATGCTTCATCTGTAAAAGATG
Found at i:49119647 original size:22 final size:22
Alignment explanation
Indices: 49119619--49119661 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
49119609 TATTTTTATT
*
49119619 ATTAAAATAAAGGAAACATAAG
1 ATTAAAATAAAGAAAACATAAG
49119641 ATTAAAATAAAGAAAACATAA
1 ATTAAAATAAAGAAAACATAA
49119662 TGTTTTCTTC
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:0.67, C:0.05, G:0.09, T:0.19
Consensus pattern (22 bp):
ATTAAAATAAAGAAAACATAAG
Found at i:49120771 original size:138 final size:137
Alignment explanation
Indices: 49120519--49120917 Score: 532
Period size: 138 Copynumber: 2.9 Consensus size: 137
49120509 TCATTAGGTT
* * *
49120519 TACCATGTTTCAGGTGCTGTTCTTGAATGTCCTACCGG-TGGCTGAGTTCCGATCATTAGTTGCA
1 TACCATGTTTCGGGTGCTG-TCTTGAATGTCCTA-CGGATGGCTGAGGTCTGA-CATTAGTTGCA
* * * * * * * *
49120583 TATACTCGACAGCTTGTGTGAACAACATCGTGTAGCTTACATTCCAACCAATAGCTTGTGTGAGC
63 AATACTCGATAGCTTGTGTGAGCAACATCGTGTAGCTTACATTTCGACCAACAACTTGTATGAGC
49120648 AAACCCAGGG
128 AAACCCAGGG
* **
49120658 TACCATGTTTCGGGTGCTCGTCTTGAATGTCCTACGGATGGCTGAGGTCTGGCATTAGTTGCCGA
1 TACCATGTTTCGGGTGCT-GTCTTGAATGTCCTACGGATGGCTGAGGTCTGACATTAGTTGCAAA
* *
49120723 TATTCGATAGCTTGTGTGAGCAACATCGTGTAGCTTACATTTCGACCAACAACTTGTATGAGCAG
65 TACTCGATAGCTTGTGTGAGCAACATCGTGTAGCTTACATTTCGACCAACAACTTGTATGAGCAA
* *
49120788 ACCTAGGT
130 ACCCAGGG
* *
49120796 TACCATGTTTCGGGTGCTGGTCTTGAATGTCCTACCGATGGCTGAGGT-TCGACATTATTTGCAA
1 TACCATGTTTCGGGTGCT-GTCTTGAATGTCCTACGGATGGCTGAGGTCT-GACATTAGTTGCAA
* *
49120860 ATACTCGATAGCTTGTGTGAGCAACATCGTGTAGCTTACATTTTGACCAACAAATTGT
64 ATACTCGATAGCTTGTGTGAGCAACATCGTGTAGCTTACATTTCGACCAACAACTTGT
49120918 GTGAAAAGGC
Statistics
Matches: 231, Mismatches: 26, Indels: 7
0.88 0.10 0.03
Matches are distributed among these distances:
137 1 0.00
138 187 0.81
139 42 0.18
140 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (137 bp):
TACCATGTTTCGGGTGCTGTCTTGAATGTCCTACGGATGGCTGAGGTCTGACATTAGTTGCAAAT
ACTCGATAGCTTGTGTGAGCAACATCGTGTAGCTTACATTTCGACCAACAACTTGTATGAGCAAA
CCCAGGG
Found at i:49129620 original size:5 final size:5
Alignment explanation
Indices: 49129610--49129637 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
49129600 TACATACGTA
49129610 CAAAT CAAAT CAAAT CAAAT CAAAT CAA
1 CAAAT CAAAT CAAAT CAAAT CAAAT CAA
49129638 TAAATATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.21, G:0.00, T:0.18
Consensus pattern (5 bp):
CAAAT
Found at i:49131898 original size:11 final size:11
Alignment explanation
Indices: 49131878--49131909 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
49131868 ACGATAAATT
49131878 AATAATAAAGTA
1 AATAA-AAAGTA
49131890 AATAAAAAGTA
1 AATAAAAAGTA
49131901 AATAAAAAG
1 AATAAAAAG
49131910 ATTTTCTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.75
12 5 0.25
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19
Consensus pattern (11 bp):
AATAAAAAGTA
Found at i:49147733 original size:7 final size:7
Alignment explanation
Indices: 49147721--49147746 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
49147711 AATTGAAGGT
49147721 AATTCTC
1 AATTCTC
49147728 AATTCTC
1 AATTCTC
49147735 AATTCTC
1 AATTCTC
49147742 AATTC
1 AATTC
49147747 ATTTTTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.27, G:0.00, T:0.42
Consensus pattern (7 bp):
AATTCTC
Found at i:49175603 original size:13 final size:13
Alignment explanation
Indices: 49175585--49175609 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49175575 CTGTGATAAA
49175585 ACATGAAAATATC
1 ACATGAAAATATC
49175598 ACATGAAAATAT
1 ACATGAAAATAT
49175610 GTAGGTGTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.12, G:0.08, T:0.24
Consensus pattern (13 bp):
ACATGAAAATATC
Found at i:49175692 original size:37 final size:37
Alignment explanation
Indices: 49175650--49175722 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
49175640 TTGTTATAGA
49175650 AATTTGGAAAACCATTTT-TAAAAGATCATTTTTGAGG
1 AATTTGGAAAACC-TTTTCTAAAAGATCATTTTTGAGG
*
49175687 AATTTGGAAAATCTTTTCTAAAAGATCATTTTTGAG
1 AATTTGGAAAACCTTTTCTAAAAGATCATTTTTGAG
49175723 TTTTGCGTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 4 0.12
37 30 0.88
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.40
Consensus pattern (37 bp):
AATTTGGAAAACCTTTTCTAAAAGATCATTTTTGAGG
Found at i:49188144 original size:48 final size:48
Alignment explanation
Indices: 49188084--49188186 Score: 170
Period size: 48 Copynumber: 2.1 Consensus size: 48
49188074 GACGACTCTC
* *
49188084 GGTGGCCTGCACATAGTCCATGCCACCCTTGTATCTTAACAGAATATT
1 GGTGGCCAGCACAGAGTCCATGCCACCCTTGTATCTTAACAGAATATT
* *
49188132 GGTGGCCAGCACAGAGTCCGTGCCACCCTTGTATCTTAGCAGAATATT
1 GGTGGCCAGCACAGAGTCCATGCCACCCTTGTATCTTAACAGAATATT
49188180 GGTGGCC
1 GGTGGCC
49188187 TACACACAGT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (48 bp):
GGTGGCCAGCACAGAGTCCATGCCACCCTTGTATCTTAACAGAATATT
Found at i:49188203 original size:48 final size:48
Alignment explanation
Indices: 49188084--49188205 Score: 158
Period size: 48 Copynumber: 2.5 Consensus size: 48
49188074 GACGACTCTC
* *
49188084 GGTGGCCTGCACATAGTCCA-TGCCACCCTTGTATCTTAACAGAATATT
1 GGTGGCCAGCACACAGT-CAGTGCCACCCTTGTATCTTAACAGAATATT
* * *
49188132 GGTGGCCAGCACAGAGTCCGTGCCACCCTTGTATCTTAGCAGAATATT
1 GGTGGCCAGCACACAGTCAGTGCCACCCTTGTATCTTAACAGAATATT
*
49188180 GGTGGCCTA-CACACAGTTAGTGCCAC
1 GGTGGCC-AGCACACAGTCAGTGCCAC
49188206 ATATGCGACC
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
47 1 0.02
48 63 0.97
49 1 0.02
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (48 bp):
GGTGGCCAGCACACAGTCAGTGCCACCCTTGTATCTTAACAGAATATT
Found at i:49189740 original size:28 final size:28
Alignment explanation
Indices: 49189707--49189761 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
49189697 TTCATCTTCA
*
49189707 AGATAGTTCTTGGCGAACATTCCACATG
1 AGATAGTCCTTGGCGAACATTCCACATG
* * *
49189735 AGATAGTCCTTGGTGGACTTTCCACAT
1 AGATAGTCCTTGGCGAACATTCCACAT
49189762 AAGACAATCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (28 bp):
AGATAGTCCTTGGCGAACATTCCACATG
Found at i:49190315 original size:13 final size:14
Alignment explanation
Indices: 49190299--49190328 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
49190289 ATAATGTTAT
49190299 ATTTT-AATAATTC
1 ATTTTAAATAATTC
49190312 ATTTTAAATAATTC
1 ATTTTAAATAATTC
49190326 ATT
1 ATT
49190329 AATAAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (14 bp):
ATTTTAAATAATTC
Found at i:49190810 original size:19 final size:19
Alignment explanation
Indices: 49190788--49190827 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
49190778 ATCCCTCATA
*
49190788 TCATCATCCCTCTCATCTC
1 TCATCATCCCTCTCAACTC
* *
49190807 TCATCCTCTCTCTCAACTC
1 TCATCATCCCTCTCAACTC
49190826 TC
1 TC
49190828 TTAGCTCTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.15, C:0.47, G:0.00, T:0.38
Consensus pattern (19 bp):
TCATCATCCCTCTCAACTC
Found at i:49190814 original size:15 final size:16
Alignment explanation
Indices: 49190776--49190821 Score: 53
Period size: 15 Copynumber: 3.0 Consensus size: 16
49190766 ACTTCATCCT
*
49190776 TCATCC-CTCATATCA
1 TCATCCTCTCATCTCA
49190791 TCATCCCTCTCATCTC-
1 TCAT-CCTCTCATCTCA
49190807 TCATCCTCTC-TCTCA
1 TCATCCTCTCATCTCA
49190822 ACTCTCTTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 4 0.15
15 10 0.37
16 6 0.22
17 7 0.26
ACGTcount: A:0.17, C:0.46, G:0.00, T:0.37
Consensus pattern (16 bp):
TCATCCTCTCATCTCA
Found at i:49192844 original size:20 final size:20
Alignment explanation
Indices: 49192807--49192845 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
49192797 GGAGAAACCA
*
49192807 AAGAAAATGATACAAAAAAG
1 AAGAAAATGATAAAAAAAAG
49192827 AAGAAAAT-ATAAACAAAAA
1 AAGAAAATGATAAA-AAAAA
49192846 TGAGAAGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.74, C:0.05, G:0.10, T:0.10
Consensus pattern (20 bp):
AAGAAAATGATAAAAAAAAG
Found at i:49194450 original size:27 final size:27
Alignment explanation
Indices: 49194417--49194717 Score: 208
Period size: 27 Copynumber: 11.1 Consensus size: 27
49194407 CCACCATGAA
* *
49194417 TATCTAATGTAGGAAGTTTGCAAGGAC
1 TATCTAATGTGGGAAGTCTGCAAGGAC
* * ** * *
49194444 TACCTAAT-TGGGAAGCCAACCAGGAA
1 TATCTAATGTGGGAAGTCTGCAAGGAC
* * *
49194470 TATCTAATGTGGGAAGTCTGCCAGTAA
1 TATCTAATGTGGGAAGTCTGCAAGGAC
* *
49194497 TAACTAATGTGGGAAGTCTGCTAGGAC
1 TATCTAATGTGGGAAGTCTGCAAGGAC
49194524 TATCTAATGTGGGAAGTCTGTCAA-GAC
1 TATCTAATGTGGGAAGTCTG-CAAGGAC
**
49194551 TATCTAATGTGAGG-AGTCTGTTAGGAC
1 TATCTAATGTG-GGAAGTCTGCAAGGAC
49194578 TATCTAATGTGGGAAGTC--CATTAGGAC
1 TATCTAATGTGGGAAGTCTGCA--AGGAC
* ** *
49194605 TATCTAATGTGAGATTTCTATC-AGGAC
1 TATCTAATGTGGGAAGTCT-GCAAGGAC
49194632 TATCTAATGTGGGAAGT-TCGTC-AGGAC
1 TATCTAATGTGGGAAGTCT-G-CAAGGAC
* * *
49194659 CATCTTAATGT-GGAAGTCTATCAA-AAC
1 TATC-TAATGTGGGAAGTCT-GCAAGGAC
* **
49194686 TATCTAATATAGGGAAAGTCTGTTAGGAC
1 TATCTAATGT-GGG-AAGTCTGCAAGGAC
49194715 TAT
1 TAT
49194718 TGTTGTGAAG
Statistics
Matches: 215, Mismatches: 41, Indels: 34
0.74 0.14 0.12
Matches are distributed among these distances:
26 27 0.13
27 161 0.75
28 15 0.07
29 11 0.05
30 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.30
Consensus pattern (27 bp):
TATCTAATGTGGGAAGTCTGCAAGGAC
Found at i:49194585 original size:81 final size:81
Alignment explanation
Indices: 49194417--49194677 Score: 269
Period size: 81 Copynumber: 3.2 Consensus size: 81
49194407 CCACCATGAA
* * * * * * * *
49194417 TATCTAATGTAGGAAGTTTGCAAGGACTACCTAAT-TGGGAAGCCAACCAGGAATATCTAATGTG
1 TATCTAATGTGGGAAGTCTGCTAGGACTATCTAATGTGGGAAGTCTATCAGGACTATCTAATGTG
* * *
49194481 GGAAGTCTGCCAGTAA
66 GGAAGTCTGTCAGGAC
* * *
49194497 TAACTAATGTGGGAAGTCTGCTAGGACTATCTAATGTGGGAAGTCTGTCAAGACTATCTAATGTG
1 TATCTAATGTGGGAAGTCTGCTAGGACTATCTAATGTGGGAAGTCTATCAGGACTATCTAATGTG
*
49194562 AGG-AGTCTGTTAGGAC
66 -GGAAGTCTGTCAGGAC
*** * **
49194578 TATCTAATGTGGGAAGTCCATTAGGACTATCTAATGTGAGATTTCTATCAGGACTATCTAATGTG
1 TATCTAATGTGGGAAGTCTGCTAGGACTATCTAATGTGGGAAGTCTATCAGGACTATCTAATGTG
49194643 GGAAGT-TCGTCAGGAC
66 GGAAGTCT-GTCAGGAC
*
49194659 CATCTTAATGT-GGAAGTCT
1 TATC-TAATGTGGGAAGTCT
49194678 ATCAAAACTA
Statistics
Matches: 149, Mismatches: 27, Indels: 9
0.81 0.15 0.05
Matches are distributed among these distances:
80 33 0.22
81 108 0.72
82 8 0.05
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (81 bp):
TATCTAATGTGGGAAGTCTGCTAGGACTATCTAATGTGGGAAGTCTATCAGGACTATCTAATGTG
GGAAGTCTGTCAGGAC
Found at i:49196457 original size:16 final size:17
Alignment explanation
Indices: 49196436--49196468 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
49196426 AATAATAAGA
49196436 GCAAAAGGAT-AATTTT
1 GCAAAAGGATGAATTTT
*
49196452 GCAAAAGTATGAATTTT
1 GCAAAAGGATGAATTTT
49196469 TGACTGAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.42, C:0.06, G:0.18, T:0.33
Consensus pattern (17 bp):
GCAAAAGGATGAATTTT
Found at i:49205949 original size:26 final size:27
Alignment explanation
Indices: 49205920--49206047 Score: 127
Period size: 26 Copynumber: 4.8 Consensus size: 27
49205910 TATTAAAAGT
* *
49205920 AAGCTTTTGTGGCTATCTCT-AAATGA
1 AAGCCTTTGTGGCTATCTCTGAAAGGA
49205946 AAGCCTTTGTGGCTATCTCTGAAAGGA
1 AAGCCTTTGTGGCTATCTCTGAAAGGA
* * *
49205973 AA-CCTTTGTGGCGATCTCTGTTAAAAGT
1 AAGCCTTTGTGGCTATCTCTG--AAAGGA
* *
49206001 GAGCCTTTGTGGCTATCTCTGAATGG-
1 AAGCCTTTGTGGCTATCTCTGAAAGGA
* * *
49206027 AAGCCATGGTGGCAATCTCTG
1 AAGCCTTTGTGGCTATCTCTG
49206048 TCAAAGGACG
Statistics
Matches: 85, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
26 53 0.62
27 10 0.12
28 5 0.06
29 17 0.20
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (27 bp):
AAGCCTTTGTGGCTATCTCTGAAAGGA
Found at i:49206031 original size:81 final size:81
Alignment explanation
Indices: 49205894--49206047 Score: 209
Period size: 81 Copynumber: 1.9 Consensus size: 81
49205884 TATAAGTGAG
* * * *
49205894 CCTTTGTGGTGACCGCTATTAAAAGTAAGCTTTTGTGGCTATCTCTAAATGAAAGCCTTTGTGGC
1 CCTTTGTGGCGACCGCTATTAAAAGTAAGCCTTTGTGGCTATCTCTAAATGAAAGCCATGGTGGC
*
49205959 TATCTCTGAAAGGAAA
66 AATCTCTGAAAGGAAA
* * * * * *
49205975 CCTTTGTGGCGATCTCTGTTAAAAGTGAGCCTTTGTGGCTATCTCTGAATGGAAGCCATGGTGGC
1 CCTTTGTGGCGACCGCTATTAAAAGTAAGCCTTTGTGGCTATCTCTAAATGAAAGCCATGGTGGC
49206040 AATCTCTG
66 AATCTCTG
49206048 TCAAAGGACG
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 62 1.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (81 bp):
CCTTTGTGGCGACCGCTATTAAAAGTAAGCCTTTGTGGCTATCTCTAAATGAAAGCCATGGTGGC
AATCTCTGAAAGGAAA
Found at i:49218640 original size:50 final size:51
Alignment explanation
Indices: 49218531--49218642 Score: 138
Period size: 51 Copynumber: 2.2 Consensus size: 51
49218521 TGCATTCGAG
* * * * *
49218531 CTGCCAGAAATAGAATACTATGGTCGAGCCACTAGATAATTTGTAGATATA
1 CTGCCAGATACAGAATACTATGGTCAAGCCACCAGATAATTTGCAGATATA
* *
49218582 CTGCCAGATACAGAATATTGTGGTCAAGCCACCAGA-AATTTGCAG-TCATA
1 CTGCCAGATACAGAATACTATGGTCAAGCCACCAGATAATTTGCAGAT-ATA
49218632 CTGCCAGATAC
1 CTGCCAGATAC
49218643 TTTCTTCGTA
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
49 1 0.02
50 22 0.42
51 30 0.57
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.25
Consensus pattern (51 bp):
CTGCCAGATACAGAATACTATGGTCAAGCCACCAGATAATTTGCAGATATA
Found at i:49220854 original size:138 final size:138
Alignment explanation
Indices: 49220698--49221117 Score: 628
Period size: 138 Copynumber: 3.0 Consensus size: 138
49220688 GAACATATAC
*
49220698 ATAATTAATATA-AGAATTTGATTCATACAAAATATTAATTGTATATATTTTTCCAAATTTATTA
1 ATAATTAATATATA-AATTTGATTCATACAAAATATTAATTGTATATATTTTTCCGAATTTATTA
*** *
49220762 ATATAAACAATTATATTAATTAATTTTGGTCAAAATATAAAAGACATGGAAATTAATATTATTTT
65 ATATAAACAATTATATTAATTAATTTCAATCAAAATATAAAAGACATGGAAATTAATATTCTTTT
49220827 GGAAAGAAT
130 GGAAAGAAT
* * * * *
49220836 ATAATTAATATATAAATTTTATTCATAAAAAATATTAATTGTTTATATTTTACCGAATTTATTTA
1 ATAATTAATATATAAATTTGATTCATACAAAATATTAATTGTATATATTTTTCCGAATTTATTAA
* * *
49220901 TATAAACAATTATATTAATTAATTTCAATCAAAGTATAAAAGAAATAGAAATTAATATTCTTTTG
66 TATAAACAATTATATTAATTAATTTCAATCAAAATATAAAAGACATGGAAATTAATATTCTTTTG
49220966 GAAAGAAT
131 GAAAGAAT
* * * *
49220974 ATAATTAATATATGAAGTTGATTCATACAAAATATTAATTGCATAAATTTTAT-CGAATTTATTA
1 ATAATTAATATATAAATTTGATTCATACAAAATATTAATTGTATATATTTT-TCCGAATTTATTA
* * *
49221038 ATATAAAAAATTATATTAATTAGTTTCAATCAAAATATAAATGACATGGAAATTAATATTCTTTT
65 ATATAAACAATTATATTAATTAATTTCAATCAAAATATAAAAGACATGGAAATTAATATTCTTTT
49221103 GGAAAGAAT
130 GGAAAGAAT
49221112 ATAATT
1 ATAATT
49221118 CATTTTTCTA
Statistics
Matches: 252, Mismatches: 28, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
138 251 1.00
139 1 0.00
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.41
Consensus pattern (138 bp):
ATAATTAATATATAAATTTGATTCATACAAAATATTAATTGTATATATTTTTCCGAATTTATTAA
TATAAACAATTATATTAATTAATTTCAATCAAAATATAAAAGACATGGAAATTAATATTCTTTTG
GAAAGAAT
Found at i:49228929 original size:30 final size:30
Alignment explanation
Indices: 49228871--49228941 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 30
49228861 GCTACAGGGG
* * * * *
49228871 ACACACGACCGTGTCACCTGGTTGTGTGTC
1 ACACACGGCTGTGTCACCTAGCTATGTGTC
*
49228901 CCACACGGCTGTGTCACCTAGCTATGTGTC
1 ACACACGGCTGTGTCACCTAGCTATGTGTC
*
49228931 ATACACGGCTG
1 ACACACGGCTG
49228942 AGAGACACAC
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.18, C:0.31, G:0.25, T:0.25
Consensus pattern (30 bp):
ACACACGGCTGTGTCACCTAGCTATGTGTC
Found at i:49230051 original size:25 final size:25
Alignment explanation
Indices: 49230017--49230103 Score: 140
Period size: 25 Copynumber: 3.5 Consensus size: 25
49230007 CATTAGATCG
*
49230017 GTATGCTCTCACGAGCTATAAATTA
1 GTATGCTCTCACAAGCTATAAATTA
49230042 GTATGCTCTCACAAGCTATAAATTA
1 GTATGCTCTCACAAGCTATAAATTA
*
49230067 GTATGCTCTCACAAGCTACAAATCT-
1 GTATGCTCTCACAAGCTATAAAT-TA
49230092 GTATGCTCTCAC
1 GTATGCTCTCAC
49230104 GAGTGGTGGA
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
25 58 0.98
26 1 0.02
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (25 bp):
GTATGCTCTCACAAGCTATAAATTA
Found at i:49236269 original size:61 final size:59
Alignment explanation
Indices: 49236089--49236273 Score: 201
Period size: 61 Copynumber: 3.1 Consensus size: 59
49236079 GGCATTCTTG
* * * *
49236089 TTTAGAGTATTGCCA-AAAAGGTTGTCCTTTAAATTCAGTACTCACCACAAAGGCTTTCA
1 TTTAAAGTTTTGCCATAAAA-GTTGTCCTTTAAATTCAGTACTCGCCACAAAGGCTTTCC
* * * * * *
49236148 TGTGTAAAGTTTTGCCATAAAAGTTGTCCCTTACATCCAGTAATTGCAACAAAGGCTTTCC
1 T-T-TAAAGTTTTGCCATAAAAGTTGTCCTTTAAATTCAGTACTCGCCACAAAGGCTTTCC
* * *
49236209 TTTCAAGAGTTTTTCCATAAAAGTTGTCTTTTAGATTCAGTACTCGCCACAAAGGCTTTCC
1 TTT-AA-AGTTTTGCCATAAAAGTTGTCCTTTAAATTCAGTACTCGCCACAAAGGCTTTCC
49236270 TTTA
1 TTTA
49236274 CATTTAGTAC
Statistics
Matches: 103, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
59 2 0.02
60 5 0.05
61 92 0.89
62 4 0.04
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (59 bp):
TTTAAAGTTTTGCCATAAAAGTTGTCCTTTAAATTCAGTACTCGCCACAAAGGCTTTCC
Found at i:49236283 original size:32 final size:32
Alignment explanation
Indices: 49236238--49236302 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
49236228 AAAGTTGTCT
*
49236238 TTTAGATTCAGTACTCGCCACAAAGGCTTTCC
1 TTTACATTCAGTACTCGCCACAAAGGCTTTCC
* **
49236270 TTTACATTTAGTACTCGCCACAAATTCTTTCC
1 TTTACATTCAGTACTCGCCACAAAGGCTTTCC
49236302 T
1 T
49236303 CTCCAGAGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.25, C:0.28, G:0.11, T:0.37
Consensus pattern (32 bp):
TTTACATTCAGTACTCGCCACAAAGGCTTTCC
Found at i:49236324 original size:61 final size:61
Alignment explanation
Indices: 49236255--49236469 Score: 175
Period size: 61 Copynumber: 3.5 Consensus size: 61
49236245 TCAGTACTCG
* * *
49236255 CCACAAAGGCTTTCCTTTACATTTAGTACTCGCCACAAATTCTTTCCTCTCCAGAGTTTTT
1 CCACAAAGGCTGTCCTTTACATTTAGTACTCGCCACAAAATCTTTCCTATCCAGAGTTTTT
* * * * * * *
49236316 CCATAAAGGCTGCCCTTTACATTTATTACTTGCCACAAAATGTTTTCTATCCAAAGTTTTTT
1 CCACAAAGGCTGTCCTTTACATTTAGTACTCGCCACAAAATCTTTCCTATCCAGAG-TTTTT
* ** ** * ** * *
49236378 CCACACACACTGTCCTTTACATCCAGTACTCACCACAAAGGC-TTCCTGGTCAAGA-TTTTT
1 CCACAAAGGCTGTCCTTTACATTTAGTACTCGCCACAAAATCTTTCCT-ATCCAGAGTTTTT
* *
49236438 ACCACAAAGGCT-TTCTTATACATTTAATACTC
1 -CCACAAAGGCTGTCCTT-TACATTTAGTACTC
49236470 ACCGTAAAGG
Statistics
Matches: 116, Mismatches: 34, Indels: 8
0.73 0.22 0.05
Matches are distributed among these distances:
60 9 0.08
61 69 0.59
62 38 0.33
ACGTcount: A:0.27, C:0.28, G:0.10, T:0.35
Consensus pattern (61 bp):
CCACAAAGGCTGTCCTTTACATTTAGTACTCGCCACAAAATCTTTCCTATCCAGAGTTTTT
Found at i:49236754 original size:53 final size:54
Alignment explanation
Indices: 49236603--49236755 Score: 195
Period size: 53 Copynumber: 2.9 Consensus size: 54
49236593 CTTAATTTTC
* * * * *
49236603 TCCATACG-ATGCCATAACTCAGTAGTTACGGTCTTACACGATATGATCTTCTT
1 TCCATATGAATGCCATAACCCACTAGTTACGGTCTTACACGATATGGTCTTCTG
* * * *
49236656 TTCATATGAAT-CCATAACCCACCAGTTACTGTCTTACATGATATGGTCTTCTG
1 TCCATATGAATGCCATAACCCACTAGTTACGGTCTTACACGATATGGTCTTCTG
*
49236709 TCCATAT-TATGCCATAACCCACTAGTTACGGTCTTACACGATATGGT
1 TCCATATGAATGCCATAACCCACTAGTTACGGTCTTACACGATATGGT
49236756 TTTCAGTGCC
Statistics
Matches: 84, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
52 2 0.02
53 80 0.95
54 2 0.02
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (54 bp):
TCCATATGAATGCCATAACCCACTAGTTACGGTCTTACACGATATGGTCTTCTG
Found at i:49240943 original size:61 final size:61
Alignment explanation
Indices: 49240873--49240989 Score: 146
Period size: 61 Copynumber: 1.9 Consensus size: 61
49240863 TTACATTCAG
* * * *
49240873 TACTAGCCAC-AACGACTTTCTTGTCCATAGTTTTGCCTCAAATGTTATCCTTTACAACTGA
1 TACTAGCCACAAACGA-TTTCTTGTCCAGAGTTTTGCCACAAAGGTTATCCTGTACAACTGA
* * * *
49240934 TACTTGCCACAAAGGATTTCTTGTCCAGATTTTTGCCACAAAGGTTGTCCTGTACA
1 TACTAGCCACAAACGATTTCTTGTCCAGAGTTTTGCCACAAAGGTTATCCTGTACA
49240990 TTTTATTTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
61 43 0.91
62 4 0.09
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.35
Consensus pattern (61 bp):
TACTAGCCACAAACGATTTCTTGTCCAGAGTTTTGCCACAAAGGTTATCCTGTACAACTGA
Done.