Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 139 of 216
Found at i:44109695 original size:17 final size:17
Alignment explanation
Indices: 44109673--44109707 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
44109663 AGATTTAACA
44109673 AGCAAACAAGCTTACAT
1 AGCAAACAAGCTTACAT
44109690 AGCAAACAAGCTTACAT
1 AGCAAACAAGCTTACAT
44109707 A
1 A
44109708 CCTTATGCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.23, G:0.11, T:0.17
Consensus pattern (17 bp):
AGCAAACAAGCTTACAT
Found at i:44117673 original size:39 final size:40
Alignment explanation
Indices: 44117565--44117749 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
44117555 TCGAATGATG
* * *
44117565 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
44117604 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
44117645 TCCGGGCTAAG-CCCGCAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
44117684 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
44117723 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
44117750 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 34 0.28
40 78 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:44117771 original size:79 final size:79
Alignment explanation
Indices: 44117618--44117782 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
44117608 GGACTAAGAT
* * **
44117618 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGCAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
44117683 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
44117697 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
44117760 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
44117776 CCGAAGG
1 CCGAAGG
44117783 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.66
80 23 0.32
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:44132806 original size:21 final size:23
Alignment explanation
Indices: 44132781--44132826 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
44132771 TTTTTGCTAC
44132781 ATCAATTTATT-TA-ATTT-TTAT
1 ATCAATTT-TTATAGATTTGTTAT
44132802 ATCAATTTTTATAGATTTGTTAT
1 ATCAATTTTTATAGATTTGTTAT
44132825 AT
1 AT
44132827 AAATATTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 2 0.09
21 10 0.45
22 4 0.18
23 6 0.27
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (23 bp):
ATCAATTTTTATAGATTTGTTAT
Found at i:44133986 original size:6 final size:6
Alignment explanation
Indices: 44133977--44134004 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
44133967 ATTTTTTCAT
44133977 CATCAC CATCAC CATCAC CATCAC CATC
1 CATCAC CATCAC CATCAC CATCAC CATC
44134005 CGTGACAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.50, G:0.00, T:0.18
Consensus pattern (6 bp):
CATCAC
Found at i:44142486 original size:103 final size:103
Alignment explanation
Indices: 44142298--44142662 Score: 605
Period size: 102 Copynumber: 3.6 Consensus size: 103
44142288 TAGCCGTTAT
* *
44142298 TGGTGGAT-CCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
44142362 AATCAGCACATAGCAACCCCCTTTTTATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
44142400 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
44142465 AATCAGCACATAGCAACCCCC-TTTCATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
44142502 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTC-GGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
44142566 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTT-TCATTTCAAAGATA
* * **
44142605 TGGTGGATCA-CGCACATAGCACCACC-ATAAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
44142663 TTTATATACA
Statistics
Matches: 251, Mismatches: 8, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
101 25 0.10
102 114 0.45
103 111 0.44
104 1 0.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (103 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
Found at i:44142564 original size:26 final size:26
Alignment explanation
Indices: 44142534--44142585 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
44142524 CACCAATGAA
*
44142534 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
44142560 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
44142586 CTTTCACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.35, G:0.23, T:0.13
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:44143024 original size:29 final size:29
Alignment explanation
Indices: 44142991--44143054 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
44142981 TAATCCACCA
44142991 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
44143020 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
44143050 CCCAA
1 CCCAA
44143055 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:44143028 original size:30 final size:30
Alignment explanation
Indices: 44142998--44143054 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
44142988 CCACCCAACT
44142998 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
44143027 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
44143055 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:44150000 original size:26 final size:26
Alignment explanation
Indices: 44149970--44150021 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
44149960 CACCAATGAA
*
44149970 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
44149996 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
44150022 CTTTTCACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.35, G:0.23, T:0.13
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:44150067 original size:104 final size:104
Alignment explanation
Indices: 44149834--44150198 Score: 584
Period size: 104 Copynumber: 3.6 Consensus size: 104
44149824 TGTTAACCGT
* *
44149834 TATGGTGGATCTCGCACTTAGCACCACCACTGAATC-GGGAATCAGCACTTAGCAACCCCTCGGG
1 TATGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTC-GG
*
44149898 GGAATCAGCACATAGCAACCCCCTTTT--TATTTCAAAGA
65 GGAATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGA
44149936 TATGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGG
1 TATGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGG
44150001 GAATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGA
66 GAATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGA
44150040 TATGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTC-GG
1 TATGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGG
44150104 GAATCAGCACATAGCAA-CCCC-TTTCACATTTCAAAGA
66 GAATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGA
* * * **
44150141 TATGGT-GATCA-CGCACATAGCACCACCCATAAATCGGGGAATCAGCACACAGCAACCC
1 TATGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCC
44150199 TTTAATATAC
Statistics
Matches: 251, Mismatches: 8, Indels: 10
0.93 0.03 0.04
Matches are distributed among these distances:
100 45 0.18
101 23 0.09
102 67 0.27
103 44 0.18
104 72 0.29
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.20
Consensus pattern (104 bp):
TATGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGG
GAATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGA
Found at i:44150105 original size:25 final size:25
Alignment explanation
Indices: 44150077--44150125 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
44150067 CAATGAATCG
*
44150077 GGGAATCAGCACTTAGCAACCCCTC
1 GGGAATCAGCACATAGCAACCCCTC
44150102 GGGAATCAGCACATAGCAACCCCT
1 GGGAATCAGCACATAGCAACCCCT
44150126 TTCACATTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.35, G:0.20, T:0.14
Consensus pattern (25 bp):
GGGAATCAGCACATAGCAACCCCTC
Found at i:44150559 original size:29 final size:29
Alignment explanation
Indices: 44150526--44150589 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
44150516 TAATCCACCA
44150526 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
44150555 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
44150585 CCCAA
1 CCCAA
44150590 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:44150563 original size:30 final size:30
Alignment explanation
Indices: 44150533--44150589 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
44150523 CCACCCAACT
44150533 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
44150562 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
44150590 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:44163901 original size:37 final size:37
Alignment explanation
Indices: 44163851--44163929 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
44163841 TTATTACGAA
* *
44163851 GTCTTACCCGGACACAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
44163888 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
44163925 GTCTT
1 GTCTT
44163930 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:44164135 original size:47 final size:47
Alignment explanation
Indices: 44164048--44164677 Score: 1035
Period size: 47 Copynumber: 13.4 Consensus size: 47
44164038 CCCTTCGGGA
* * * * * * *
44164048 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
44164095 CCTGTCACATATATACACTTTCACATTCCTCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44164142 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
44164189 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
44164236 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
44164283 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
44164330 CTTGTCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44164377 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
44164424 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
44164471 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
44164518 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
44164565 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
44164612 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44164659 CTTATCACATATATACACT
1 CTTATCACATATATACACT
44164678 GTCTTGGCTG
Statistics
Matches: 547, Mismatches: 36, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 547 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:44167713 original size:38 final size:38
Alignment explanation
Indices: 44167671--44167751 Score: 101
Period size: 38 Copynumber: 2.1 Consensus size: 38
44167661 ATAAATGATT
*
44167671 TTAAAACCATTAAAATT-ATTTTTTTAAATATAAAATTA
1 TTAAAACCATT-AAATTAATTTTTTCAAATATAAAATTA
** **
44167709 TTAAAATTATTGTATTAATTTTTTCAAATATAAAATTA
1 TTAAAACCATTAAATTAATTTTTTCAAATATAAAATTA
44167747 TTAAA
1 TTAAA
44167752 TTAAATTCTA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 3 0.08
38 34 0.92
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.47
Consensus pattern (38 bp):
TTAAAACCATTAAATTAATTTTTTCAAATATAAAATTA
Found at i:44169724 original size:20 final size:21
Alignment explanation
Indices: 44169686--44169724 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
44169676 TATTGGCATT
*
44169686 TAGTTGAGTAGTTGGATTGTA
1 TAGTTGAGTAGTTGAATTGTA
*
44169707 TAGTTGA-TAGTTTAATTG
1 TAGTTGAGTAGTTGAATTG
44169725 GTAGCTAGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (21 bp):
TAGTTGAGTAGTTGAATTGTA
Found at i:44171267 original size:14 final size:17
Alignment explanation
Indices: 44171232--44171267 Score: 51
Period size: 14 Copynumber: 2.3 Consensus size: 17
44171222 GGAATGGTGA
44171232 ATTGATGAGAAATTGAG
1 ATTGATGAGAAATTGAG
44171249 ATTGAT-AG-AATTG-G
1 ATTGATGAGAAATTGAG
44171263 ATTGA
1 ATTGA
44171268 ATTTATAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 6 0.32
15 5 0.26
16 2 0.11
17 6 0.32
ACGTcount: A:0.39, C:0.00, G:0.28, T:0.33
Consensus pattern (17 bp):
ATTGATGAGAAATTGAG
Found at i:44171380 original size:43 final size:43
Alignment explanation
Indices: 44171318--44171598 Score: 213
Period size: 43 Copynumber: 6.5 Consensus size: 43
44171308 TAGGTGACTT
* * * * *
44171318 TTCGGTTTATTCCAATGATGCACTATGTGTGCCAATAGATTTAC
1 TTCGGTTTA-TCCAATGATGCACTGTGTGTGACAGTATACTTAC
* * *
44171362 TTCGGTTTATCCAATGATGCACTGTGTGTGATAGTATAGTTGC
1 TTCGGTTTATCCAATGATGCACTGTGTGTGACAGTATACTTAC
* * * *
44171405 TTCAGCTTATCCAATGATGCACTGTGTGTGTCGGTATACTTAC
1 TTCGGTTTATCCAATGATGCACTGTGTGTGACAGTATACTTAC
* * * * ** * * *
44171448 TTCGGTTTATACGATGATGCATTGTGGGTGTTAGAATAATTGC
1 TTCGGTTTATCCAATGATGCACTGTGTGTGACAGTATACTTAC
* * * * *
44171491 TTCGGTATATTCGATGATGCACTGTGTGTGCCAGTATAGTTAC
1 TTCGGTTTATCCAATGATGCACTGTGTGTGACAGTATACTTAC
* * * * * * *
44171534 TTCTGTATATCCAATGATACATTGTGGGTG-CTAGTATATTTGC
1 TTCGGTTTATCCAATGATGCACTGTGTGTGAC-AGTATACTTAC
* * *
44171577 TTTGGTATATCCGATGATGCAC
1 TTCGGTTTATCCAATGATGCAC
44171599 AATTGGTTCC
Statistics
Matches: 189, Mismatches: 47, Indels: 3
0.79 0.20 0.01
Matches are distributed among these distances:
42 1 0.01
43 179 0.95
44 9 0.05
ACGTcount: A:0.22, C:0.16, G:0.23, T:0.39
Consensus pattern (43 bp):
TTCGGTTTATCCAATGATGCACTGTGTGTGACAGTATACTTAC
Found at i:44171491 original size:86 final size:86
Alignment explanation
Indices: 44171328--44171598 Score: 301
Period size: 86 Copynumber: 3.2 Consensus size: 86
44171318 TTCGGTTTAT
* * * * * *
44171328 TCCAATGATGCACTATGTGTGCCAATAGATTTACTTCGGTTTATCCAATGATGCACTGTGTGTGA
1 TCCAATGATGCACTGTGTGTGCCAGTATACTTACTTCGGTTTATCCAATGATGCATTGTGGGTGA
*
44171393 TAGTATAGTTGCTTCAGCT-TA
66 TAGTATAATTGCTTC-GCTATA
* * * * *
44171414 TCCAATGATGCACTGTGTGTGTCGGTATACTTACTTCGGTTTATACGATGATGCATTGTGGGTGT
1 TCCAATGATGCACTGTGTGTGCCAGTATACTTACTTCGGTTTATCCAATGATGCATTGTGGGTGA
* *
44171479 TAGAATAATTGCTTCGGTATA
66 TAGTATAATTGCTTCGCTATA
* * * * * * *
44171500 TTCGATGATGCACTGTGTGTGCCAGTATAGTTACTTCTGTATATCCAATGATACATTGTGGGTGC
1 TCCAATGATGCACTGTGTGTGCCAGTATACTTACTTCGGTTTATCCAATGATGCATTGTGGGTGA
* * *
44171565 TAGTATATTTGCTTTGGTATA
66 TAGTATAATTGCTTCGCTATA
*
44171586 TCCGATGATGCAC
1 TCCAATGATGCAC
44171599 AATTGGTTCC
Statistics
Matches: 155, Mismatches: 29, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
85 2 0.01
86 153 0.99
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.38
Consensus pattern (86 bp):
TCCAATGATGCACTGTGTGTGCCAGTATACTTACTTCGGTTTATCCAATGATGCATTGTGGGTGA
TAGTATAATTGCTTCGCTATA
Found at i:44171571 original size:129 final size:129
Alignment explanation
Indices: 44171361--44171597 Score: 298
Period size: 129 Copynumber: 1.8 Consensus size: 129
44171351 AATAGATTTA
* * * *
44171361 CTTCGGTTTATCCAATGATGCACTGTGTGTGATAGTATAGTTGCTTCAGCTTATCCAATGATGCA
1 CTTCGGTATATCCAATGATGCACTGTGTGTGACAGTATAGTTACTTCAGCTTATCCAATGATACA
* * *
44171426 CTGTGTGTGTCGGTATACTTACTTCGGTTTATACGATGATGCATTGTGGGTGTTAGAATAATTG
66 CTGTGGGTGTCAGTATACTTACTTCGGTATATACGATGATGCATTGTGGGTGTTAGAATAATTG
* * * *
44171490 CTTCGGTATATTCGATGATGCACTGTGTGTGCCAGTATAGTTACTTCTG-TATATCCAATGATAC
1 CTTCGGTATATCCAATGATGCACTGTGTGTGACAGTATAGTTACTTCAGCT-TATCCAATGATAC
* * * * *
44171554 ATTGTGGGTG-CTAGTATATTTGCTTTGGTATATCCGATGATGCA
65 ACTGTGGGTGTC-AGTATACTTACTTCGGTATATACGATGATGCA
44171598 CAATTGGTTC
Statistics
Matches: 90, Mismatches: 16, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
128 2 0.02
129 88 0.98
ACGTcount: A:0.22, C:0.15, G:0.24, T:0.39
Consensus pattern (129 bp):
CTTCGGTATATCCAATGATGCACTGTGTGTGACAGTATAGTTACTTCAGCTTATCCAATGATACA
CTGTGGGTGTCAGTATACTTACTTCGGTATATACGATGATGCATTGTGGGTGTTAGAATAATTG
Found at i:44173907 original size:27 final size:27
Alignment explanation
Indices: 44173871--44174059 Score: 181
Period size: 27 Copynumber: 7.0 Consensus size: 27
44173861 AAAGGTTGTT
* *
44173871 AAATGACCAAAATACCCCCATAGGGTA
1 AAATTACCAAAATACCCCGATAGGGTA
* * *
44173898 AAATAACCAAAATTCCCTCGAT-GGTTA
1 AAATTACCAAAATACCC-CGATAGGGTA
* *
44173925 AAATTATCGAAATACCCCTGAT-GGGTA
1 AAATTACCAAAATACCCC-GATAGGGTA
* *
44173952 AAATTATCGAAATACCCCTGATA-GGTA
1 AAATTACCAAAATACCCC-GATAGGGTA
*
44173979 AAATTACCGAAATACCCTCGAT-GGGTA
1 AAATTACCAAAATACCC-CGATAGGGTA
*
44174006 AAATTACCAAAATATCCCCAAT-GGGTA
1 AAATTACCAAAATA-CCCCGATAGGGTA
**
44174033 AAATTACCAAAATACCCTAATAGGGTA
1 AAATTACCAAAATACCCCGATAGGGTA
44174060 GAATGATCGT
Statistics
Matches: 142, Mismatches: 13, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
26 7 0.05
27 128 0.90
28 7 0.05
ACGTcount: A:0.42, C:0.21, G:0.14, T:0.23
Consensus pattern (27 bp):
AAATTACCAAAATACCCCGATAGGGTA
Found at i:44174019 original size:81 final size:81
Alignment explanation
Indices: 44173871--44174059 Score: 229
Period size: 81 Copynumber: 2.3 Consensus size: 81
44173861 AAAGGTTGTT
* * * * *
44173871 AAATGACCAAAATACCCCCATAGGGTAAAATAACCAAAATTCCCTCGATGGTTAAAATTATCGAA
1 AAATTACCAAAATACCCCCATAGGGTAAAATAACCAAAATACCCTCGATGGGTAAAATTACCAAA
*
44173936 ATA-CCCCTGATGGGTA
66 ATATCCCC-AATGGGTA
* * * * *
44173952 AAATTATCGAAATACCCCTGATA-GGTAAAATTACCGAAATACCCTCGATGGGTAAAATTACCAA
1 AAATTACCAAAATACCCC-CATAGGGTAAAATAACCAAAATACCCTCGATGGGTAAAATTACCAA
44174016 AATATCCCCAATGGGTA
65 AATATCCCCAATGGGTA
**
44174033 AAATTACCAAAATACCCTAATAGGGTA
1 AAATTACCAAAATACCCCCATAGGGTA
44174060 GAATGATCGT
Statistics
Matches: 90, Mismatches: 15, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
80 3 0.03
81 80 0.89
82 7 0.08
ACGTcount: A:0.42, C:0.21, G:0.14, T:0.23
Consensus pattern (81 bp):
AAATTACCAAAATACCCCCATAGGGTAAAATAACCAAAATACCCTCGATGGGTAAAATTACCAAA
ATATCCCCAATGGGTA
Found at i:44174050 original size:54 final size:53
Alignment explanation
Indices: 44173871--44174049 Score: 200
Period size: 54 Copynumber: 3.3 Consensus size: 53
44173861 AAAGGTTGTT
* * * *
44173871 AAATGACCAAAATACCCCCATAGGGTAAAATAACCAAAAT-TCCCTCGATGGTTA
1 AAATTACCAAAATACCCCGAT-GGGTAAAATTACCAAAATATCCC-CGATGGGTA
* * * * *
44173925 AAATTATCGAAATACCCCTGATGGGTAAAATTATCGAAATA-CCCCTGATAGGTA
1 AAATTACCAAAATACCCC-GATGGGTAAAATTACCAAAATATCCCC-GATGGGTA
* *
44173979 AAATTACCGAAATACCCTCGATGGGTAAAATTACCAAAATATCCCCAATGGGTA
1 AAATTACCAAAATACCC-CGATGGGTAAAATTACCAAAATATCCCCGATGGGTA
44174033 AAATTACCAAAATACCC
1 AAATTACCAAAATACCC
44174050 TAATAGGGTA
Statistics
Matches: 105, Mismatches: 15, Indels: 10
0.81 0.12 0.08
Matches are distributed among these distances:
53 1 0.01
54 97 0.92
55 7 0.07
ACGTcount: A:0.42, C:0.22, G:0.13, T:0.22
Consensus pattern (53 bp):
AAATTACCAAAATACCCCGATGGGTAAAATTACCAAAATATCCCCGATGGGTA
Found at i:44190597 original size:24 final size:24
Alignment explanation
Indices: 44190545--44190597 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
44190535 ACCATATGTC
*
44190545 AACCACATCCAAACATACCACAAT
1 AACCACATCCAAACATACCAAAAT
* * *
44190569 GACCACATTCAAACATATCAAAAT
1 AACCACATCCAAACATACCAAAAT
44190593 AACCA
1 AACCA
44190598 TTAATAGCAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.51, C:0.32, G:0.02, T:0.15
Consensus pattern (24 bp):
AACCACATCCAAACATACCAAAAT
Found at i:44195285 original size:27 final size:27
Alignment explanation
Indices: 44194490--44195278 Score: 785
Period size: 27 Copynumber: 29.3 Consensus size: 27
44194480 AGAGGTCAAT
** *
44194490 AAATGACTGAAATACCTTCATATGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
* ** * * *
44194517 AAATAACCAAAATACCCTCAAACGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
* ** * *
44194544 AAATAACCAAAATACCCCTATAAGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
* * * *
44194571 GAATAACCGAAATACCCCCATAGGATA
1 AAATGACTGAAATACCCCCATAGGGTA
44194598 AAATGA-TCGAAATA-CCCCATCA-GGTA
1 AAATGACT-GAAATACCCCCAT-AGGGTA
* * * *
44194624 AAATGACCGAAATAACGCTATAGGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
**
44194651 AAATGACTGAAATACCCCTGTAGGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
* **
44194678 AAATAACCAAAATACCCCCATAGGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
44194705 AAATGACTGAAATACCCCCATAGGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
* *
44194732 GAATGATTGAAATACCCCCATAGGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
* *
44194759 GAATGACTGAAATACCCCTATAGGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
*
44194786 AAATGACCGAAATACCCCCATAGGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
* *
44194813 ATATGACCGAAATACCCCCATCA-GGTA
1 AAATGACTGAAATACCCCCAT-AGGGTA
*
44194840 AAAT-AATCGAAATACCCCCATAGGGTA
1 AAATGACT-GAAATACCCCCATAGGGTA
*
44194867 AAATGACTGAAATACCCCCATAGAGTA
1 AAATGACTGAAATACCCCCATAGGGTA
** *
44194894 AAATGACCAAAATACCCTCATAGGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
* * * **
44194921 AACTGACTAAAATACTCCCATAACGTA
1 AAATGACTGAAATACCCCCATAGGGTA
*
44194948 AAATGAAC-GAAATACCCCTATAGGGTA
1 AAATG-ACTGAAATACCCCCATAGGGTA
44194975 AAATGA-TCGAAATACCCCCATAGGGTA
1 AAATGACT-GAAATACCCCCATAGGGTA
44195002 AAATGACTGAAATACCCCCATAGGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
*
44195029 AAATGA-TCGAAATACCCCTATAGGGTA
1 AAATGACT-GAAATACCCCCATAGGGTA
* ***
44195056 AAATGA-TCAAAATACCTTGATAGGGTA
1 AAATGACT-GAAATACCCCCATAGGGTA
** * *
44195083 AAATGACCAAAATAACCCGATAGGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
* **
44195110 AAATGATTGAAATACCCTGATAGGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
* *
44195137 AAATGA-TCGATATA-CCCCATAAGGTA
1 AAATGACT-GAAATACCCCCATAGGGTA
* * *
44195163 AAATGACCGAAATGCCCCTATAGGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
* * *
44195190 AAAT-AATCGAAATAACCCTATAGGGTA
1 AAATGACT-GAAATACCCCCATAGGGTA
*
44195217 AAATGACCG-AATACCCCCATAGGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
* *
44195243 AAATGAATGAAATACCCCCATAAGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
44195270 AAATGACTG
1 AAATGACTG
44195279 TTATACCGCT
Statistics
Matches: 642, Mismatches: 99, Indels: 42
0.82 0.13 0.05
Matches are distributed among these distances:
26 69 0.11
27 566 0.88
28 7 0.01
ACGTcount: A:0.43, C:0.21, G:0.17, T:0.20
Consensus pattern (27 bp):
AAATGACTGAAATACCCCCATAGGGTA
Found at i:44195893 original size:28 final size:28
Alignment explanation
Indices: 44195691--44195898 Score: 289
Period size: 28 Copynumber: 7.5 Consensus size: 28
44195681 TTAATGCACT
44195691 ACACTGTTACTGTATTGGGCTAAGGCCC
1 ACACTGTTACTGTATTGGGCTAAGGCCC
* *
44195719 ACAGTGATT-CTGTATTGGGATAAGGCCC
1 ACACTG-TTACTGTATTGGGCTAAGGCCC
44195747 ACACTGTTACTGTATTGGGCTAAGGCCC
1 ACACTGTTACTGTATTGGGCTAAGGCCC
* *
44195775 ACACTAATT-TTGTATTGGGCTAAGGCCC
1 ACACT-GTTACTGTATTGGGCTAAGGCCC
44195803 ACACTGATT-CTGTATTGGGCTAAGGCCC
1 ACACTG-TTACTGTATTGGGCTAAGGCCC
**
44195831 ACACTGTTACTGTATTGGGCTAAGGCTT
1 ACACTGTTACTGTATTGGGCTAAGGCCC
**
44195859 TGACTGTTACTGTATTGGGCTAAGGCCC
1 ACACTGTTACTGTATTGGGCTAAGGCCC
44195887 ACACTG-TACTGT
1 ACACTGTTACTGT
44195899 CAATGAATAG
Statistics
Matches: 159, Mismatches: 16, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
27 10 0.06
28 145 0.91
29 4 0.03
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (28 bp):
ACACTGTTACTGTATTGGGCTAAGGCCC
Found at i:44204942 original size:15 final size:16
Alignment explanation
Indices: 44204922--44204951 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
44204912 TAACAACTAA
44204922 TATATAAT-TATATTT
1 TATATAATATATATTT
44204937 TATATAATATATATT
1 TATATAATATATATT
44204952 AATTGTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATATAATATATATTT
Found at i:44205764 original size:25 final size:25
Alignment explanation
Indices: 44205707--44205765 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
44205697 AAATTTCTCC
*
44205707 TAAATTTTAATTTCATTTAATTATT
1 TAAATTTTAATTTCATTGAATTATT
*
44205732 TAACTTTTCAATTT-ATTGAATT-TT
1 TAAATTTT-AATTTCATTGAATTATT
44205756 TAATATTTTA
1 TAA-ATTTTA
44205766 TGCTAATTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
24 6 0.21
25 18 0.62
26 5 0.17
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (25 bp):
TAAATTTTAATTTCATTGAATTATT
Found at i:44233986 original size:27 final size:27
Alignment explanation
Indices: 44233943--44234003 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
44233933 GGTGTCTATC
*
44233943 TGGTAGGTCCTATTAGTAACTCATATT
1 TGGTAGGTCCTACTAGTAACTCATATT
* *
44233970 TGGTAGGTGCC-ACTAGTGACTCCTATT
1 TGGTAGGT-CCTACTAGTAACTCATATT
*
44233997 TGATAGG
1 TGGTAGG
44234004 CGCTCTAGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 27 0.93
28 2 0.07
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (27 bp):
TGGTAGGTCCTACTAGTAACTCATATT
Found at i:44242216 original size:16 final size:17
Alignment explanation
Indices: 44242192--44242231 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
44242182 AAATAAAAAT
44242192 TAAATAAAATTACATT-A
1 TAAA-AAAATTACATTAA
*
44242209 TAAAAAAATTGCATTAA
1 TAAAAAAATTACATTAA
44242226 TAAAAA
1 TAAAAA
44242232 TTCACAAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (17 bp):
TAAAAAAATTACATTAA
Found at i:44242355 original size:103 final size:100
Alignment explanation
Indices: 44242212--44242549 Score: 480
Period size: 100 Copynumber: 3.4 Consensus size: 100
44242202 TACATTATAA
* * * *
44242212 AAAAATTGCATTAATAAAAATTCACAAAACACTAAACTAAACACTAATAATTTATAACCTAATCA
1 AAAAATTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAATCA
44242277 TAAATTATTAACAAAATAACTATAAAATTATTTTTTTT
66 TAAATTATTAACAAAATAACTAT--AATT-TTTTTTTT
** *
44242315 AAAAATTGTATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAGTTTATAACCTAATCA
1 AAAAATTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAATCA
*
44242380 TAAATTACTAACAAAATAACTATAA-TTTTTTTTT
66 TAAATTATTAACAAAATAACTATAATTTTTTTTTT
* * *
44242414 AAAATTTACATTACTAAAAAAATCACAAAACACTAAACTAAATACTAACAATTTATAACCTAATT
1 AAAAATTACATTACT-AAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAATC
* *****
44242479 ATAAATTATTAACAAAATAACCATAATTTTTAAAAA
65 ATAAATTATTAACAAAATAACTATAATTTTTTTTTT
44242515 AAAAATTACATTACTAAAAAATCACAAAACACTAA
1 AAAAATTACATTACTAAAAAATCACAAAACACTAA
44242550 CAATTTATAA
Statistics
Matches: 213, Mismatches: 20, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
99 20 0.09
100 91 0.43
101 20 0.09
103 82 0.38
ACGTcount: A:0.54, C:0.14, G:0.01, T:0.31
Consensus pattern (100 bp):
AAAAATTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAATCA
TAAATTATTAACAAAATAACTATAATTTTTTTTTT
Found at i:44242597 original size:88 final size:91
Alignment explanation
Indices: 44242353--44242682 Score: 325
Period size: 100 Copynumber: 3.5 Consensus size: 91
44242343 ACACTAAACT
* ***
44242353 AAACACTAACAGTTTATAACCTAATCATAAATTACTAACAAAATAACTATAATTTTTTTTTAAAA
1 AAACACTAACAATTTATAACCTAATCATAAATTACTAACAAAATAACTATAATTTTTTAAAAAAA
*
44242418 TTTACATTACTAAAAAAATCACAAAACAC
66 ATTACATTACTAAAAAAAT-AC--AACAC
* * * *
44242447 TAAACTAAATACTAACAATTTATAACCTAATTATAAATTATTAACAAAATAACCATAATTTTTAA
1 -AAAC-----ACTAACAATTTATAACCTAATCATAAATTACTAACAAAATAACTATAATTTTT-T
44242512 AAAAAAAATTACATTACT-AAAAAAT-C-ACA-
59 AAAAAAAATTACATTACTAAAAAAATACAACAC
**
44242541 AAACACTAACAATTTATAACCTAATCAT-AATTACTAACAAAATAACTATAATTTTTT---TTAA
1 AAACACTAACAATTTATAACCTAATCATAAATTACTAACAAAATAACTATAATTTTTTAAAAAAA
44242602 ATTACATTACTAAAAAAATTACAAAACGCTAAAC
66 ATTACATTACTAAAAAAA-TAC--AA--C---AC
*
44242636 TAAACACTAACAATTTATAACGTAATCATAAATTACTAACAAAATAA
1 -AAACACTAACAATTTATAACCTAATCATAAATTACTAACAAAATAA
44242683 TTAAAAATAA
Statistics
Matches: 199, Mismatches: 16, Indels: 38
0.79 0.06 0.15
Matches are distributed among these distances:
83 13 0.07
84 6 0.03
85 1 0.01
86 1 0.01
87 26 0.13
88 23 0.12
89 1 0.01
91 1 0.01
93 4 0.02
94 1 0.01
95 7 0.04
96 27 0.14
97 17 0.09
98 1 0.01
100 56 0.28
101 14 0.07
ACGTcount: A:0.53, C:0.15, G:0.01, T:0.31
Consensus pattern (91 bp):
AAACACTAACAATTTATAACCTAATCATAAATTACTAACAAAATAACTATAATTTTTTAAAAAAA
ATTACATTACTAAAAAAATACAACAC
Found at i:44242767 original size:92 final size:95
Alignment explanation
Indices: 44242541--44242786 Score: 286
Period size: 92 Copynumber: 2.6 Consensus size: 95
44242531 AAAAATCACA
* * *** ** *
44242541 AAACACTAACAATTTATAACCTAATCAT-AATTACTAACAAAATAACTATAATTTTTTTTAA-AT
1 AAACAC-AACAATTTATAACATAATCATAAATTACTAACAAAATAA-TTTAA-AAATAATAATTT
* * *
44242604 TACATTACTAAAAAAATTACAAAACGCTAAACT
63 TACATTAATAAAAAAATCACAAAACACTAAACT
*
44242637 AAACACTAACAATTTATAACGTAATCATAAATTACTAACAAAATAA-TTAAAAATAATAATTTTA
1 AAACAC-AACAATTTATAACATAATCATAAATTACTAACAAAATAATTTAAAAATAATAATTTTA
44242701 CATTAAT-AAAAAATCACAAAACACTAAACT
65 CATTAATAAAAAAATCACAAAACACTAAACT
* * *
44242731 AAACAC-ATAATTTATAACATAATCCTAAATTACTAACAAAATAATTTTAAAATAAT
1 AAACACAACAATTTATAACATAATCATAAATTACTAACAAAATAATTTAAAAATAAT
44242787 TATAAACAAA
Statistics
Matches: 132, Mismatches: 15, Indels: 9
0.85 0.10 0.06
Matches are distributed among these distances:
92 35 0.27
93 10 0.08
94 31 0.23
95 12 0.09
96 27 0.20
97 17 0.13
ACGTcount: A:0.54, C:0.14, G:0.01, T:0.30
Consensus pattern (95 bp):
AAACACAACAATTTATAACATAATCATAAATTACTAACAAAATAATTTAAAAATAATAATTTTAC
ATTAATAAAAAAATCACAAAACACTAAACT
Found at i:44242814 original size:92 final size:93
Alignment explanation
Indices: 44242329--44242835 Score: 258
Period size: 100 Copynumber: 5.4 Consensus size: 93
44242319 ATTGTATTAC
* * *
44242329 TAAAAAATCACAAAACACTAAACTAAACACTAACAGTTTATAACCTAATCATAAATTACTAACAA
1 TAAAAAATCAAAAAACACTAAACTAAACAC-AACAATTTATAACATAATCATAAATTACTAACAA
* * * ** **
44242394 AATAACTATAATTTTTTTTTAAA-ATTTACATTA
65 AATAATTAAAAATAATAATTAAACA--TA-A--A
* * * * *
44242427 CTAAAAAAATCACAAAACACTAAACTAAATACTAACAATTTATAACCTAATTATAAATTATTAAC
1 -T-AAAAAATCAAAAAACACTAAACTAAACAC-AACAATTTATAACATAATCATAAATTACTAAC
** * * ** *
44242492 AAAATAACCATAATTTTTAA--AAA-AAAAA
63 AAAATAATTAAAAATAATAATTAAACATAAA
* * * * * * *
44242520 T-TACATTACTAAAAA-A-T-CACAAAACACTAACAATTTATAACCTAATCAT-AATTACTAACA
1 TAAAAAAT-CAAAAAACACTAAACTAAACAC-AACAATTTATAACATAATCATAAATTACTAACA
* * ** ** * *
44242580 AAATAACT-ATAATTTTTTTTAAATTACATTAC
64 AAATAATTAAAAATAATAATT-AA--ACATAAA
* * * *
44242612 TAAAAAAATTACAAAACGCTAAACTAAACACTAACAATTTATAACGTAATCATAAATTACTAACA
1 T-AAAAAATCAAAAAACACTAAACTAAACAC-AACAATTTATAACATAATCATAAATTACTAACA
** *
44242677 AAATAATTAAAAATAATAATTTTACATTAA
64 AAATAATTAAAAATAATAATTAAACATAAA
* * *
44242707 TAAAAAATCACAAAACACTAAACTAAACAC-ATAATTTATAACATAATCCTAAATTACTAACAAA
1 TAAAAAATCAAAAAACACTAAACTAAACACAACAATTTATAACATAATCATAAATTACTAACAAA
* *
44242771 ATAATTTTAAAATAATTA-TAAACA-AAA
66 ATAA-TTAAAAATAATAATTAAACATAAA
* *
44242798 T-TAAATTCATAAAAA-AC---ACTAAACACAAACAATTTATA
1 TAAAAAATCA-AAAAACACTAAACTAAACAC-AACAATTTATA
44242836 GATAATAATT
Statistics
Matches: 329, Mismatches: 60, Indels: 48
0.75 0.14 0.11
Matches are distributed among these distances:
86 5 0.02
87 26 0.08
88 28 0.09
89 12 0.04
90 12 0.04
91 13 0.04
92 43 0.13
93 16 0.05
94 30 0.09
95 9 0.03
96 30 0.09
97 18 0.05
98 11 0.03
99 1 0.00
100 75 0.23
ACGTcount: A:0.55, C:0.15, G:0.01, T:0.30
Consensus pattern (93 bp):
TAAAAAATCAAAAAACACTAAACTAAACACAACAATTTATAACATAATCATAAATTACTAACAAA
ATAATTAAAAATAATAATTAAACATAAA
Found at i:44242946 original size:3 final size:3
Alignment explanation
Indices: 44242938--44242963 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
44242928 CTTTCTTTCT
44242938 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
44242964 AGCGTCACGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:44243049 original size:25 final size:25
Alignment explanation
Indices: 44243021--44243068 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
44243011 TATATATTTA
* * *
44243021 AAAATAATATTTTTTTTAAAAAAAT
1 AAAATAAAATTTATTATAAAAAAAT
44243046 AAAATAAAATTTATTATAAAAAA
1 AAAATAAAATTTATTATAAAAAA
44243069 TAGGTAGTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (25 bp):
AAAATAAAATTTATTATAAAAAAAT
Found at i:44245436 original size:44 final size:44
Alignment explanation
Indices: 44245388--44245475 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
44245378 TCTTGAACAA
* *
44245388 ATTAAAATCTAATTATTTTTAAATGTGTAACAATCACAACTTCT
1 ATTAAAATATAATTATTTTTAAATGTATAACAATCACAACTTCT
* ** *
44245432 ATTAAATTATAATTATTTTTAAATGTATAATTATCTCAACTTCT
1 ATTAAAATATAATTATTTTTAAATGTATAACAATCACAACTTCT
44245476 CTTTTATTTC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.40, C:0.11, G:0.03, T:0.45
Consensus pattern (44 bp):
ATTAAAATATAATTATTTTTAAATGTATAACAATCACAACTTCT
Found at i:44248371 original size:13 final size:13
Alignment explanation
Indices: 44248353--44248377 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44248343 AATGTGTGAT
44248353 AAATGCGTTTATC
1 AAATGCGTTTATC
44248366 AAATGCGTTTAT
1 AAATGCGTTTAT
44248378 TTGATAGAAT
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:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (13 bp):
AAATGCGTTTATC
Found at i:44253310 original size:89 final size:89
Alignment explanation
Indices: 44253201--44253470 Score: 477
Period size: 89 Copynumber: 3.0 Consensus size: 89
44253191 ATTCATACCA
* * * * * *
44253201 AATTAAGCCCCTGTTGTTAATTAAAATAATCGATTAAGTCCTTCCGTTAATAGTTTCTGTTATTG
1 AATTAAACCCCTGTTATTAATTAAAATAATCGGTTAAGCCCTTCCGTTAATAGTTTTTGTCATTG
44253266 ACTGTTAAAATAAATTGACAGACC
66 ACTGTTAAAATAAATTGACAGACC
44253290 AATTAAACCCCTGTTATTAATTAAAATAATCGGTTAAGCCCTTCCGTTAATAGTTTTTGTCATTG
1 AATTAAACCCCTGTTATTAATTAAAATAATCGGTTAAGCCCTTCCGTTAATAGTTTTTGTCATTG
44253355 ACTGTTAAAATAAATTGACAGACC
66 ACTGTTAAAATAAATTGACAGACC
44253379 AATTAAACCCCTGTTATTAATTAAAATAATCGGTTAAGCCCTTCCGTTAATAGTTTTTGTCATTG
1 AATTAAACCCCTGTTATTAATTAAAATAATCGGTTAAGCCCTTCCGTTAATAGTTTTTGTCATTG
*
44253444 ACTGTTAAAATAAATGGACAGACC
66 ACTGTTAAAATAAATTGACAGACC
44253468 AAT
1 AAT
44253471 CAAATGATGA
Statistics
Matches: 174, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
89 174 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (89 bp):
AATTAAACCCCTGTTATTAATTAAAATAATCGGTTAAGCCCTTCCGTTAATAGTTTTTGTCATTG
ACTGTTAAAATAAATTGACAGACC
Found at i:44253595 original size:10 final size:10
Alignment explanation
Indices: 44253582--44253658 Score: 52
Period size: 10 Copynumber: 8.0 Consensus size: 10
44253572 GATATAAACT
44253582 TATAAAAAAA
1 TATAAAAAAA
**
44253592 TATAAAAACT
1 TATAAAAAAA
* *
44253602 TAT-AAATAT
1 TATAAAAAAA
* *
44253611 TATCAAAAAG
1 TATAAAAAAA
44253621 TAT--AAAAA
1 TATAAAAAAA
* *
44253629 TATAATAAAG
1 TATAAAAAAA
*
44253639 TATAAAAAAT
1 TATAAAAAAA
44253649 TATAAAAAAA
1 TATAAAAAAA
44253659 ATTAATAAAA
Statistics
Matches: 52, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
8 7 0.13
9 7 0.13
10 38 0.73
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.27
Consensus pattern (10 bp):
TATAAAAAAA
Found at i:44253613 original size:29 final size:28
Alignment explanation
Indices: 44253575--44253656 Score: 85
Period size: 28 Copynumber: 2.9 Consensus size: 28
44253565 TTAAATTGAT
44253575 ATAAACTTATAAAAAAATATAAAAACTTATA
1 ATAAA-TTATAAAAAAATATAAAAA--TATA
* * *
44253606 A-ATATTATCAAAAAGTATAAAAATATA
1 ATAAATTATAAAAAAATATAAAAATATA
* *
44253633 ATAAAGTATAAAAAATTATAAAAA
1 ATAAATTATAAAAAAATATAAAAA
44253657 AAATTAATAA
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
27 5 0.12
28 18 0.42
29 17 0.40
30 2 0.05
31 1 0.02
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (28 bp):
ATAAATTATAAAAAAATATAAAAATATA
Found at i:44253652 original size:20 final size:19
Alignment explanation
Indices: 44253582--44253656 Score: 75
Period size: 19 Copynumber: 3.9 Consensus size: 19
44253572 GATATAAACT
* *
44253582 TATAAAAAAATATAAAAAC
1 TATAAAAAATTATAAAAAG
*
44253601 T-TATAAATATTATCAAAAAG
1 TATA-AAAAATTAT-AAAAAG
44253621 TAT-AAAAA-TATAATAAAG
1 TATAAAAAATTATAA-AAAG
44253639 TATAAAAAATTATAAAAA
1 TATAAAAAATTATAAAAA
44253657 AAATTAATAA
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
17 2 0.04
18 12 0.26
19 20 0.43
20 11 0.24
21 1 0.02
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (19 bp):
TATAAAAAATTATAAAAAG
Found at i:44254271 original size:21 final size:21
Alignment explanation
Indices: 44254235--44254279 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
44254225 TTTTAAAGAA
*
44254235 TTAAATACATTTTTATAAAATT
1 TTAAATACAGTTTTAT-AAATT
*
44254257 TTAAATA-AGTTTTATTAATT
1 TTAAATACAGTTTTATAAATT
44254277 TTA
1 TTA
44254280 CAATTTATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 7 0.33
21 7 0.33
22 7 0.33
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (21 bp):
TTAAATACAGTTTTATAAATT
Found at i:44254858 original size:11 final size:11
Alignment explanation
Indices: 44254835--44254881 Score: 76
Period size: 11 Copynumber: 4.2 Consensus size: 11
44254825 AACAAATCCT
44254835 CTCTCATATTTC
1 CTCTCA-ATTTC
44254847 CTCTCAATTTC
1 CTCTCAATTTC
*
44254858 CTCTCAATTTT
1 CTCTCAATTTC
44254869 CTCTCAATTTC
1 CTCTCAATTTC
44254880 CT
1 CT
44254882 TCCAAAATTC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
11 27 0.82
12 6 0.18
ACGTcount: A:0.17, C:0.34, G:0.00, T:0.49
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:44254892 original size:22 final size:22
Alignment explanation
Indices: 44254847--44254893 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
44254837 CTCATATTTC
**
44254847 CTCTCAATTTCCTCTCAATTTT
1 CTCTCAATTTCCTCTCAAAATT
44254869 CTCTCAATTTCCT-TCCAAAATT
1 CTCTCAATTTCCTCT-CAAAATT
44254891 CTC
1 CTC
44254894 ATAAATCCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.21, C:0.34, G:0.00, T:0.45
Consensus pattern (22 bp):
CTCTCAATTTCCTCTCAAAATT
Found at i:44254918 original size:51 final size:51
Alignment explanation
Indices: 44254861--44254984 Score: 178
Period size: 51 Copynumber: 2.4 Consensus size: 51
44254851 CAATTTCCTC
* * *
44254861 TCAATTTTCTCTCAATTTCCTTCCAAAATTCTCAT-AAATCCATATTTAATT
1 TCAATTTCCTCTCAATTTCCTTCCAAAAATCTC-TCAAACCCATATTTAATT
* *
44254912 TCAATTTCCTCTCAAATTCATTCCAAAAATCTCTCAAACCCATATTTAATT
1 TCAATTTCCTCTCAATTTCCTTCCAAAAATCTCTCAAACCCATATTTAATT
*
44254963 TCAATTTGCTCTCAATTTCCTT
1 TCAATTTCCTCTCAATTTCCTT
44254985 TTTTTAAAAT
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 1 0.02
51 63 0.98
ACGTcount: A:0.31, C:0.26, G:0.01, T:0.43
Consensus pattern (51 bp):
TCAATTTCCTCTCAATTTCCTTCCAAAAATCTCTCAAACCCATATTTAATT
Found at i:44256113 original size:7 final size:7
Alignment explanation
Indices: 44256097--44256128 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
44256087 TGCAAATAGA
*
44256097 TATTTTG
1 TATTTAG
44256104 TATTTAG
1 TATTTAG
44256111 TATTTAG
1 TATTTAG
44256118 TATTTAG
1 TATTTAG
44256125 TATT
1 TATT
44256129 ATGTATATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.12, T:0.62
Consensus pattern (7 bp):
TATTTAG
Found at i:44256134 original size:14 final size:13
Alignment explanation
Indices: 44256100--44256134 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 13
44256090 AAATAGATAT
44256100 TTTGTATTTAGTA
1 TTTGTATTTAGTA
44256113 TTTAGTATTTAGTA
1 TTT-GTATTTAGTA
44256127 TTATGTAT
1 TT-TGTAT
44256135 ATAACTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 3 0.15
14 16 0.80
15 1 0.05
ACGTcount: A:0.26, C:0.00, G:0.14, T:0.60
Consensus pattern (13 bp):
TTTGTATTTAGTA
Found at i:44256806 original size:18 final size:18
Alignment explanation
Indices: 44256780--44256814 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
44256770 AGGTGCGTTT
* *
44256780 CCTAGCCCTTATATGTAC
1 CCTAACCCTTACATGTAC
44256798 CCTAACCCTTACATGTA
1 CCTAACCCTTACATGTA
44256815 TCCTTTTCCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.34, G:0.09, T:0.31
Consensus pattern (18 bp):
CCTAACCCTTACATGTAC
Found at i:44257245 original size:25 final size:25
Alignment explanation
Indices: 44257216--44257329 Score: 89
Period size: 25 Copynumber: 4.7 Consensus size: 25
44257206 TTTAAATTTA
*
44257216 TTATTTGATGTAATAAAATAGAATT
1 TTATTTGATGTAATAAAATAGAAGT
**
44257241 TTATTTGATGTAATACGCATAGAAAGT
1 TTATTTGATGTAATA-AAATAG-AAGT
* ** *
44257268 TT-TTCGA-GT--T-ATTTTG-A-T
1 TTATTTGATGTAATAAAATAGAAGT
44257286 ATTATTTGATGTAATAAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGAAGT
44257312 TTATTTGATGTAATAAAA
1 TTATTTGATGTAATAAAA
44257330 ACCCTAACCT
Statistics
Matches: 67, Mismatches: 12, Indels: 20
0.68 0.12 0.20
Matches are distributed among these distances:
18 1 0.01
19 3 0.04
20 4 0.06
21 4 0.06
23 2 0.03
24 3 0.04
25 36 0.54
26 9 0.13
27 5 0.07
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.44
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:44257352 original size:22 final size:23
Alignment explanation
Indices: 44257322--44257364 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
44257312 TTATTTGATG
44257322 TAAT-AAAAACCCTAACCTAATT
1 TAATAAAAAACCCTAACCTAATT
* *
44257344 TAATTAAAAACCTTAACCTAA
1 TAATAAAAAACCCTAACCTAA
44257365 ACCCCAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.51, C:0.21, G:0.00, T:0.28
Consensus pattern (23 bp):
TAATAAAAAACCCTAACCTAATT
Found at i:44257403 original size:29 final size:29
Alignment explanation
Indices: 44257329--44258004 Score: 1063
Period size: 29 Copynumber: 23.4 Consensus size: 29
44257319 ATGTAATAAA
* ** *
44257329 AACCCTAACCTAATTTAATTAAAAACCTT
1 AACCCTAACATAACCTAATTAAAAACCCT
* * *
44257358 AA-CCT-A-A-ACCCCAATTAAAAATCCT
1 AACCCTAACATAACCTAATTAAAAACCCT
*
44257383 AACCCTAACCTAACCTAATTAAAAACCCT
1 AACCCTAACATAACCTAATTAAAAACCCT
*
44257412 AACCCTAACATAACTTAATTAAAAACCCT
1 AACCCTAACATAACCTAATTAAAAACCCT
* *
44257441 AACCCTAACCTAACCTAATTAAAAACCAT
1 AACCCTAACATAACCTAATTAAAAACCCT
44257470 AACCCTAACATAACCTAATTAAAAACCCT
1 AACCCTAACATAACCTAATTAAAAACCCT
* *
44257499 AACCCTAACATAACTTAATTAAGAACCCT
1 AACCCTAACATAACCTAATTAAAAACCCT
*
44257528 AACCCTAACATAACATAATTAAAAACCCT
1 AACCCTAACATAACCTAATTAAAAACCCT
44257557 AACCCTAACATAACCTAATTAAAAACCCT
1 AACCCTAACATAACCTAATTAAAAACCCT
* *
44257586 AACCCTAACCTAACCTAATTAAAAACCCA
1 AACCCTAACATAACCTAATTAAAAACCCT
*
44257615 AACCCTAACATAACCTAATTAAAAACCCA
1 AACCCTAACATAACCTAATTAAAAACCCT
44257644 AACCCTAACATAACCTAATTAAAAACCCT
1 AACCCTAACATAACCTAATTAAAAACCCT
*
44257673 AACCCTAACATAACATAATTAAAAACCCT
1 AACCCTAACATAACCTAATTAAAAACCCT
* *
44257702 AACCCTAACCTAACCTAATTAAAAACCCA
1 AACCCTAACATAACCTAATTAAAAACCCT
*
44257731 AACCCTAACATAACCTAATTAAAAACCCA
1 AACCCTAACATAACCTAATTAAAAACCCT
*
44257760 AACCCTAACATAACCTAATTAAAAACCCA
1 AACCCTAACATAACCTAATTAAAAACCCT
* *
44257789 AACCCTAACATAACTTAATTAAAAACCCA
1 AACCCTAACATAACCTAATTAAAAACCCT
*
44257818 AACCCTAACATAACTTAATTAAAAACCCT
1 AACCCTAACATAACCTAATTAAAAACCCT
* *
44257847 AACCCTAACCTAACCTAATTAAAAACCCA
1 AACCCTAACATAACCTAATTAAAAACCCT
44257876 AACCCTAACATAACCTAATTAAAAACCCT
1 AACCCTAACATAACCTAATTAAAAACCCT
*
44257905 AACCCTAACATAACCTAATTAAAAACCCA
1 AACCCTAACATAACCTAATTAAAAACCCT
*
44257934 AACCCTAACATAACTTAATTAAAAACCCT
1 AACCCTAACATAACCTAATTAAAAACCCT
44257963 AACCCTAACATAACCTAATTAAAAACCCT
1 AACCCTAACATAACCTAATTAAAAACCCT
44257992 AACCCTAACATAA
1 AACCCTAACATAA
44258005 TAATTTTACA
Statistics
Matches: 600, Mismatches: 43, Indels: 8
0.92 0.07 0.01
Matches are distributed among these distances:
25 14 0.02
26 3 0.00
27 2 0.00
28 3 0.00
29 578 0.96
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (29 bp):
AACCCTAACATAACCTAATTAAAAACCCT
Found at i:44261349 original size:124 final size:124
Alignment explanation
Indices: 44261128--44261477 Score: 558
Period size: 124 Copynumber: 2.8 Consensus size: 124
44261118 CCCAAACTTG
**
44261128 CTACTGTAGCAAAATCGTGTCCACGAGGGCGTAATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGTGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
* * * * *
44261193 AAGAAGCAATTTTATACTTTTTGCTCAGAAACGTGAAAAAAAATTATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAAAAACGTCAAAAAAAATTATTTCTTACATGAC
*
44261252 CTACTGTAGCAAAATAGTGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGTGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
*
44261317 TAGAAGCGATTTTATACTGTTTGCTCAAAAACGTCAAAAAAAATTATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAAAAACGTCAAAAAAAATTATTTCTTACATGAC
* * * *
44261376 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATTGCATCATCG
1 CTACTGTAGCAAAATCGTGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
*
44261441 TAGAAGCGATTTTATACTATTTGAC-CAGAAACGTCAA
66 TAGAAGCGATTTTATACTATTTG-CTCAAAAACGTCAA
44261478 CTCGAAATAA
Statistics
Matches: 210, Mismatches: 15, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
124 209 1.00
125 1 0.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (124 bp):
CTACTGTAGCAAAATCGTGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
TAGAAGCGATTTTATACTATTTGCTCAAAAACGTCAAAAAAAATTATTTCTTACATGAC
Found at i:44264693 original size:12 final size:13
Alignment explanation
Indices: 44264676--44264704 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
44264666 TTTAGATAAA
44264676 TTAATTCAT-ATT
1 TTAATTCATCATT
44264688 TTAATTCATCATT
1 TTAATTCATCATT
44264701 TTAA
1 TTAA
44264705 ACCTTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.55
Consensus pattern (13 bp):
TTAATTCATCATT
Found at i:44268471 original size:19 final size:18
Alignment explanation
Indices: 44268447--44268492 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
44268437 CGCTCCTTTT
* *
44268447 TGCATTCATTTCATGCATC
1 TGCATTCATGTCAT-CATA
44268466 TGCATTGCATGTCATCATA
1 TGCATT-CATGTCATCATA
44268485 TGCATTCA
1 TGCATTCA
44268493 AGATTATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.08
19 15 0.62
20 7 0.29
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.39
Consensus pattern (18 bp):
TGCATTCATGTCATCATA
Found at i:44277778 original size:12 final size:13
Alignment explanation
Indices: 44277761--44277789 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
44277751 TTTAGATAAA
44277761 TTAATTCAT-ATT
1 TTAATTCATCATT
44277773 TTAATTCATCATT
1 TTAATTCATCATT
44277786 TTAA
1 TTAA
44277790 ACCTTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.55
Consensus pattern (13 bp):
TTAATTCATCATT
Found at i:44282090 original size:37 final size:37
Alignment explanation
Indices: 44282040--44282145 Score: 160
Period size: 37 Copynumber: 2.9 Consensus size: 37
44282030 ATACTCCCTG
*
44282040 ATTTAGCGTGTTATAGGGTGGATTAACTCTTATGAGC
1 ATTTAGCGTGTTATAGGGTGGATTAGCTCTTATGAGC
*
44282077 ATTTAGCGTGTTATATGGTGGATTAGCTCTTATGAGC
1 ATTTAGCGTGTTATAGGGTGGATTAGCTCTTATGAGC
* *
44282114 ATTT-GACGTGTTATCGGGTAGATTAGCTCTTA
1 ATTTAG-CGTGTTATAGGGTGGATTAGCTCTTA
44282146 CGAGTGATTG
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
36 1 0.02
37 62 0.98
ACGTcount: A:0.23, C:0.11, G:0.26, T:0.40
Consensus pattern (37 bp):
ATTTAGCGTGTTATAGGGTGGATTAGCTCTTATGAGC
Found at i:44282161 original size:37 final size:37
Alignment explanation
Indices: 44282040--44282162 Score: 149
Period size: 37 Copynumber: 3.3 Consensus size: 37
44282030 ATACTCCCTG
* *
44282040 ATTTAGCGTGTTATAGGGTGGATTAACTCTTATGAGC
1 ATTTGGCGTGTTATAGGGTGGATTAGCTCTTATGAGC
* *
44282077 ATTTAGCGTGTTATATGGTGGATTAGCTCTTATGAGC
1 ATTTGGCGTGTTATAGGGTGGATTAGCTCTTATGAGC
* * * * *
44282114 ATTTGACGTGTTATCGGGTAGATTAGCTCTTACGAGTG
1 ATTTGGCGTGTTATAGGGTGGATTAGCTCTTATGAG-C
44282152 A-TTGGCGTGTT
1 ATTTGGCGTGTT
44282163 TCGATTGGAA
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
37 74 0.99
38 1 0.01
ACGTcount: A:0.21, C:0.11, G:0.28, T:0.39
Consensus pattern (37 bp):
ATTTGGCGTGTTATAGGGTGGATTAGCTCTTATGAGC
Found at i:44283239 original size:48 final size:49
Alignment explanation
Indices: 44283172--44283276 Score: 158
Period size: 48 Copynumber: 2.2 Consensus size: 49
44283162 GACACGGTTG
44283172 TGTGTCCCTATTTCAAAAGTTACACAACTT-GGGCATTCCACACGGCCA
1 TGTGTCCCTATTTCAAAAGTTACACAACTTGGGGCATTCCACACGGCCA
* ** * *
44283220 TGTGTCCTTATTTTGAAAGTTACACGACTTGGGGCATTCCACACGGCCG
1 TGTGTCCCTATTTCAAAAGTTACACAACTTGGGGCATTCCACACGGCCA
44283269 TGTGTCCC
1 TGTGTCCC
44283277 CTGTTTTTTG
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
48 26 0.52
49 24 0.48
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.30
Consensus pattern (49 bp):
TGTGTCCCTATTTCAAAAGTTACACAACTTGGGGCATTCCACACGGCCA
Found at i:44296856 original size:19 final size:19
Alignment explanation
Indices: 44296812--44296858 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
44296802 AAGAAAAGAA
**
44296812 AATAAAAG-AAGAAACTGG
1 AATAAAAGAAAGAAAAAGG
44296830 AA-AGAAAGAAAGAAAAAGG
1 AATA-AAAGAAAGAAAAAGG
44296849 AATAAAAGAA
1 AATAAAAGAA
44296859 TAAAAGAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
17 1 0.04
18 6 0.25
19 16 0.67
20 1 0.04
ACGTcount: A:0.70, C:0.02, G:0.21, T:0.06
Consensus pattern (19 bp):
AATAAAAGAAAGAAAAAGG
Found at i:44301980 original size:29 final size:29
Alignment explanation
Indices: 44301938--44302024 Score: 93
Period size: 29 Copynumber: 3.0 Consensus size: 29
44301928 CCATCAATGG
*
44301938 TACATAGTACCTGATAAATATAACACCGA
1 TACAGAGTACCTGATAAATATAACACCGA
* * *
44301967 TACAGAGTGCCTGATAACTATAACACCGG
1 TACAGAGTACCTGATAAATATAACACCGA
* * * *
44301996 TAGAAAGTACCTAATAAATGTAATCACCG
1 TACAGAGTACCTGATAAATATAA-CACCG
44302025 GCACATAGTG
Statistics
Matches: 47, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
29 42 0.89
30 5 0.11
ACGTcount: A:0.41, C:0.21, G:0.15, T:0.23
Consensus pattern (29 bp):
TACAGAGTACCTGATAAATATAACACCGA
Found at i:44303360 original size:19 final size:20
Alignment explanation
Indices: 44303325--44303364 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
44303315 AACGATTTTT
*
44303325 GAAAAATTATTACTTTCCTG
1 GAAAAATTAATACTTTCCTG
44303345 GAAAAATTAATA-TTTCCTG
1 GAAAAATTAATACTTTCCTG
44303364 G
1 G
44303365 TGTTTGGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (20 bp):
GAAAAATTAATACTTTCCTG
Found at i:44303846 original size:38 final size:36
Alignment explanation
Indices: 44303802--44303897 Score: 99
Period size: 37 Copynumber: 2.6 Consensus size: 36
44303792 AAAATATTTG
44303802 ATATTAATATATTTATAATTTTAATAAATATTATTAAA
1 ATATTAATAT-TTTATAATTTTAA-AAATATTATTAAA
* * *
44303840 ATATTAATATTTAATATTTTTGAAGAATATTATTAAA
1 ATATTAATATTTTATAATTTT-AAAAATATTATTAAA
44303877 A-ATT-ATCATTTT-TAAATTTTA
1 ATATTAAT-ATTTTAT-AATTTTA
44303898 TTATTAAAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
35 4 0.08
36 12 0.24
37 22 0.44
38 12 0.24
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (36 bp):
ATATTAATATTTTATAATTTTAAAAATATTATTAAA
Found at i:44303876 original size:37 final size:38
Alignment explanation
Indices: 44303802--44303881 Score: 103
Period size: 37 Copynumber: 2.2 Consensus size: 38
44303792 AAAATATTTG
*
44303802 ATATTAATATATTTATAATTTTAATAAATATTATTAAA
1 ATATTAATATATTAATAATTTTAATAAATATTATTAAA
* *
44303840 ATATTAATAT-TTAATATTTTTGAA-GAATATTATTAAA
1 ATATTAATATATTAATAATTTT-AATAAATATTATTAAA
44303877 A-ATTA
1 ATATTA
44303882 TCATTTTTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
36 4 0.11
37 22 0.58
38 12 0.32
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (38 bp):
ATATTAATATATTAATAATTTTAATAAATATTATTAAA
Found at i:44307237 original size:15 final size:16
Alignment explanation
Indices: 44307217--44307251 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
44307207 TTCAATTTTT
*
44307217 TAATAATTTTAAA-AA
1 TAATAATCTTAAATAA
44307232 TAATAATCTTAAATAA
1 TAATAATCTTAAATAA
44307248 TAAT
1 TAAT
44307252 CTTTCAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (16 bp):
TAATAATCTTAAATAA
Found at i:44307247 original size:13 final size:13
Alignment explanation
Indices: 44307229--44307254 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44307219 ATAATTTTAA
44307229 AAATAATAATCTT
1 AAATAATAATCTT
44307242 AAATAATAATCTT
1 AAATAATAATCTT
44307255 TCAATATTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (13 bp):
AAATAATAATCTT
Found at i:44307293 original size:16 final size:15
Alignment explanation
Indices: 44307263--44307319 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
44307253 TTTCAATATT
44307263 AATATTTTAATAATA
1 AATATTTTAATAATA
44307278 AATATTTATTATAATAATA
1 AATA--T-TT-TAATAATA
**
44307297 AATACATTAATAATA
1 AATATTTTAATAATA
*
44307312 AATGTTTT
1 AATATTTT
44307320 GCAGTCTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 17 0.52
16 1 0.03
17 1 0.03
18 2 0.06
19 12 0.36
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:44316524 original size:20 final size:20
Alignment explanation
Indices: 44316501--44316550 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
44316491 GTTCTGCCAA
* *
44316501 CTTGACTGCGAATCTGGTGG
1 CTTGACTACAAATCTGGTGG
44316521 CTTGACTACAAATCTGGTGG
1 CTTGACTACAAATCTGGTGG
44316541 CTTGACTACA
1 CTTGACTACA
44316551 TATATCTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (20 bp):
CTTGACTACAAATCTGGTGG
Found at i:44321463 original size:50 final size:50
Alignment explanation
Indices: 44321400--44321686 Score: 308
Period size: 51 Copynumber: 5.7 Consensus size: 50
44321390 TCATTCGATA
*
44321400 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACGGTT
* *
44321450 CACGTAGTAGCCTTCACATAGTACTACACACATGATCAAGTTTTACGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACGGTT
* * * *** *
44321500 CATGTAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTA-CGGTT
* * * *
44321551 CACGTAGTAGCTTTCACACAGTACTACACACGTGACCAAAGCTTCT-CGGTA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAG-TTTTACGGTT
* * * * * * * *
44321602 CACATTGTAGCCTTCACTTAGTACTACACATGTAACC-ATTATTTATCGATA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGT-TTTA-CGGTT
*
44321653 CACGTAGTAGCCTTCACACAGTACTACACACGTG
1 CACGTAGTAGCCTTCACATAGTACTACACACGTG
44321687 TTCATCGATG
Statistics
Matches: 194, Mismatches: 37, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
48 1 0.01
49 3 0.02
50 86 0.44
51 101 0.52
52 1 0.01
53 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (50 bp):
CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACGGTT
Found at i:44321640 original size:102 final size:101
Alignment explanation
Indices: 44321398--44321686 Score: 366
Period size: 102 Copynumber: 2.9 Consensus size: 101
44321388 TATCATTCGA
* * * * *** *
44321398 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTA-CGGTTCACGTAGTAGCC
1 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCC
* * * *
44321462 TTCACATAGTACTACACACATGATCAAGTTTTACGG
66 TTCACACAGTACTACACACGTGACCAAGTTCTACGG
* ** *
44321498 TTCATGTAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCT
1 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCC
44321563 TTCACACAGTACTACACACGTGACCAAAGCTTCT-CGG
66 TTCACACAGTACTACACACGTGACC-AAG-TTCTACGG
* * * *
44321600 TACACATTGTAGCCTTCACTTAGTACTACACATGTAACCATTATTTATCGATACACGTAGTAGCC
1 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCC
44321665 TTCACACAGTACTACACACGTG
66 TTCACACAGTACTACACACGTG
44321687 TTCATCGATG
Statistics
Matches: 164, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
100 39 0.24
101 37 0.23
102 85 0.52
103 3 0.02
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (101 bp):
TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCC
TTCACACAGTACTACACACGTGACCAAGTTCTACGG
Found at i:44324584 original size:23 final size:23
Alignment explanation
Indices: 44324551--44324625 Score: 123
Period size: 23 Copynumber: 3.3 Consensus size: 23
44324541 ATAAGTGCCA
* *
44324551 CACTGATATGTAGTCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
44324574 CACTGAAATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
*
44324597 CACTAAAATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
44324620 CACTGA
1 CACTGA
44324626 TCAATAACAC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (23 bp):
CACTGAAATGTAGCCGAAGCTAC
Found at i:44324878 original size:18 final size:17
Alignment explanation
Indices: 44324852--44324890 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
44324842 ATTTTCCTTC
44324852 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
44324869 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
44324887 CACA
1 CACA
44324891 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:44331040 original size:23 final size:22
Alignment explanation
Indices: 44330986--44331048 Score: 56
Period size: 23 Copynumber: 2.7 Consensus size: 22
44330976 TTTACAAATA
* *
44330986 TTTTTTTAATTATTTTATATTCTT
1 TTTTTTTACTT-TTTT-TACTCTT
44331010 TTTCTTTTACTTTTTTTACTCTT
1 TTT-TTTTACTTTTTTTACTCTT
*
44331033 TATTTTTT-CTATTTTT
1 T-TTTTTTACTTTTTTT
44331049 CTTCATTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
22 7 0.21
23 11 0.32
24 9 0.26
25 7 0.21
ACGTcount: A:0.14, C:0.10, G:0.00, T:0.76
Consensus pattern (22 bp):
TTTTTTTACTTTTTTTACTCTT
Found at i:44331514 original size:3 final size:3
Alignment explanation
Indices: 44331508--44331533 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
44331498 AAAGAAGAGA
44331508 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
44331534 AAGTAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:44333030 original size:27 final size:26
Alignment explanation
Indices: 44332999--44333063 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 26
44332989 ATATGCATAA
44332999 ATATA-ATAATAAAAA-AATATAAAAT
1 ATATATATAATAAAAATAA-ATAAAAT
*
44333024 ATGTATATATATAAAAATAAATAAAAT
1 ATATATATA-ATAAAAATAAATAAAAT
44333051 ATATATATAATAA
1 ATATATATAATAA
44333064 GATACATATG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
25 4 0.11
26 7 0.20
27 22 0.63
28 2 0.06
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (26 bp):
ATATATATAATAAAAATAAATAAAAT
Found at i:44333036 original size:33 final size:34
Alignment explanation
Indices: 44332989--44333053 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
44332979 ATATGCGTGT
*
44332989 ATATGCATAAATATAATAATAAA-AAAATATAAA
1 ATATGCATAAATATAAAAATAAATAAAATATAAA
* *
44333022 ATATGTATATATATAAAAATAAATAAAATATA
1 ATATGCATAAATATAAAAATAAATAAAATATA
44333054 TATATAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 20 0.71
34 8 0.29
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.31
Consensus pattern (34 bp):
ATATGCATAAATATAAAAATAAATAAAATATAAA
Found at i:44334544 original size:50 final size:50
Alignment explanation
Indices: 44334489--44335169 Score: 411
Period size: 50 Copynumber: 13.6 Consensus size: 50
44334479 GCACCGCTAA
* *
44334489 GGAAATCAGATCCGCCGTTGTGGCTTTAATCTTTTTAATTGCGCTGTCGG
1 GGAAATCAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCAG
* * ** **** * * *
44334539 GGAAATCAGATCTGCCGTTGTGACTTCAATCTACTCCGCTGCACCGCCAG
1 GGAAATCAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCAG
* * * * *
44334589 GGAAGTAAGATCTGCCATTGTGGCTTCAATCTTTTTAATTGCGCTGTCGG
1 GGAAATCAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCAG
* * * * ** ** * * * *
44334639 GGAAACCAGATACGCCGTTGTGACTTTAATCTGCTCCACTGC-ATCGCCAA
1 GGAAATCAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCT-GTCAG
* * * *
44334689 GGAAGTAAGATCCGCCGTTGTGGCTTCAATCCTTTTAATTACGCTGTCAG
1 GGAAATCAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCAG
* * ** **** * * * *
44334739 GGAAACCAGATCTGCCGTTGTGGCTTCAATCTACTCCGCTACACCGCCAG
1 GGAAATCAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCAG
* *
44334789 GGAAATAAGATCCGCCGTTATGGCTTCAATCTTTTTAATTGCGCTGTC-G
1 GGAAATCAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCAG
* * ** **** * * *
44334838 AGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCGCTGCACCGCCAG
1 -GGAAATCAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCAG
* * ** *
44334889 GGAAGTAAGATCCGTTGTTGTGGCTTCAATC-TTTTAATTGCGCTGTCGG
1 GGAAATCAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCAG
* * * ** ** * * * * *
44334938 GGAAACCAAATCCGCCGTTGTGACTTCAATCTGCTCCACTAC-ATCGCCAA
1 GGAAATCAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCT-GTCAG
* * * * *
44334988 GGAAGTAAGATCCGCCGTTGTGGTTTCAATCCTTTTAATTGCGCTGTCGG
1 GGAAATCAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCAG
* * * ** ** * * *
44335038 GGAAACCAGATCTGCCGTTGTGACTTCAATCTGCTCCACTGC-ATCGCCAG
1 GGAAATCAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCT-GTCAG
* * * *
44335088 GGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGTTGTCGG
1 GGAAATCAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCAG
*
44335138 GGAAA-CTAGATCCGCCGTTGTGACTTCAATCT
1 GGAAATC-AGATCCGCCGTTGTGGCTTCAATCT
44335170 ACTCCGCTAC
Statistics
Matches: 439, Mismatches: 182, Indels: 20
0.68 0.28 0.03
Matches are distributed among these distances:
49 36 0.08
50 399 0.91
51 4 0.01
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.29
Consensus pattern (50 bp):
GGAAATCAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCAG
Found at i:44334610 original size:100 final size:100
Alignment explanation
Indices: 44334477--44335203 Score: 1042
Period size: 100 Copynumber: 7.3 Consensus size: 100
44334467 ACCTGTTAAA
* * * *
44334477 CTGCACCGCTAAGGAAATCAGATCCGCCGTTGTGGCTTTAATCTTTTTAATTGCGCTGTCGGGGA
1 CTGCACCGCCAAGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGA
* * *
44334542 AATCAGATCTGCCGTTGTGACTTCAATCTACTCCG
66 AACCAGATCCGCCGTTGTGACTTCAATCTGCTCCG
* * *
44334577 CTGCACCGCCAGGGAAGTAAGATCTGCCATTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGA
1 CTGCACCGCCAAGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGA
* * *
44334642 AACCAGATACGCCGTTGTGACTTTAATCTGCTCCA
66 AACCAGATCCGCCGTTGTGACTTCAATCTGCTCCG
* * * *
44334677 CTGCATCGCCAAGGAAGTAAGATCCGCCGTTGTGGCTTCAATCCTTTTAATTACGCTGTCAGGGA
1 CTGCACCGCCAAGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGA
* * *
44334742 AACCAGATCTGCCGTTGTGGCTTCAATCTACTCCG
66 AACCAGATCCGCCGTTGTGACTTCAATCTGCTCCG
* * * * *
44334777 CTACACCGCCAGGGAAATAAGATCCGCCGTTATGGCTTCAATCTTTTTAATTGCGCTGTCGAGGA
1 CTGCACCGCCAAGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGA
44334842 AACCAGATCCGCCGTTGTGACTTCAATCTGCTCCG
66 AACCAGATCCGCCGTTGTGACTTCAATCTGCTCCG
* **
44334877 CTGCACCGCCAGGGAAGTAAGATCCGTTGTTGTGGCTTCAATC-TTTTAATTGCGCTGTCGGGGA
1 CTGCACCGCCAAGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGA
* *
44334941 AACCAAATCCGCCGTTGTGACTTCAATCTGCTCCA
66 AACCAGATCCGCCGTTGTGACTTCAATCTGCTCCG
* * * *
44334976 CTACATCGCCAAGGAAGTAAGATCCGCCGTTGTGGTTTCAATCCTTTTAATTGCGCTGTCGGGGA
1 CTGCACCGCCAAGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGA
* *
44335041 AACCAGATCTGCCGTTGTGACTTCAATCTGCTCCA
66 AACCAGATCCGCCGTTGTGACTTCAATCTGCTCCG
* * *
44335076 CTGCATCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGTTGTCGGGGA
1 CTGCACCGCCAAGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGA
* *
44335141 AACTAGATCCGCCGTTGTGACTTCAATCTACTCCG
66 AACCAGATCCGCCGTTGTGACTTCAATCTGCTCCG
* * * *
44335176 CTACAACGCTAAGGAAATAAGATCCGCC
1 CTGCACCGCCAAGGAAGTAAGATCCGCC
44335204 ATTTTTAACC
Statistics
Matches: 558, Mismatches: 68, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
99 90 0.16
100 468 0.84
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.28
Consensus pattern (100 bp):
CTGCACCGCCAAGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGA
AACCAGATCCGCCGTTGTGACTTCAATCTGCTCCG
Found at i:44336568 original size:15 final size:15
Alignment explanation
Indices: 44336548--44336580 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
44336538 TCACATATTT
44336548 TTTCTTCTCTTTTTC
1 TTTCTTCTCTTTTTC
*
44336563 TTTCTTTTCTTTTTC
1 TTTCTTCTCTTTTTC
44336578 TTT
1 TTT
44336581 TTTGCGACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTCTTCTCTTTTTC
Found at i:44339761 original size:16 final size:16
Alignment explanation
Indices: 44339736--44339770 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
44339726 TTCTATAATG
44339736 AAATGCCATGCAGTCA
1 AAATGCCATGCAGTCA
* *
44339752 AAATGTCATGCATTCA
1 AAATGCCATGCAGTCA
44339768 AAA
1 AAA
44339771 CAAAACACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.20, G:0.14, T:0.23
Consensus pattern (16 bp):
AAATGCCATGCAGTCA
Found at i:44341413 original size:34 final size:36
Alignment explanation
Indices: 44341365--44341437 Score: 96
Period size: 34 Copynumber: 2.1 Consensus size: 36
44341355 ATATGCGTGT
*
44341365 ATATGCATAAATATAATAAT-AA-AAAATATATAAA
1 ATATGCATAAATATAAAAATAAATAAAATATATAAA
* * *
44341399 ATATGTATATATATAAAAATAAATAAAATATATATA
1 ATATGCATAAATATAAAAATAAATAAAATATATAAA
44341435 ATA
1 ATA
44341438 AGATACATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 17 0.52
35 2 0.06
36 14 0.42
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (36 bp):
ATATGCATAAATATAAAAATAAATAAAATATATAAA
Found at i:44354755 original size:12 final size:12
Alignment explanation
Indices: 44354735--44354770 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
44354725 TTTTTAATTA
*
44354735 ATTAATATTATT
1 ATTACTATTATT
44354747 ATTACTATTATT
1 ATTACTATTATT
*
44354759 ATTGCTATTATT
1 ATTACTATTATT
44354771 TATATATTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.58
Consensus pattern (12 bp):
ATTACTATTATT
Found at i:44354930 original size:17 final size:17
Alignment explanation
Indices: 44354908--44354940 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
44354898 AATAATAATA
44354908 TTATTATTATTATTTAC
1 TTATTATTATTATTTAC
44354925 TTATTATTATTATTTA
1 TTATTATTATTATTTA
44354941 TTTTAATTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (17 bp):
TTATTATTATTATTTAC
Found at i:44355661 original size:22 final size:22
Alignment explanation
Indices: 44355618--44355662 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
44355608 TCGTGGACCA
* *
44355618 AAATCATTATTTTAATAAAACC
1 AAATCATTATATTAAAAAAACC
44355640 AAATCATT-TATTAAAAACAACC
1 AAATCATTATATTAAAAA-AACC
44355662 A
1 A
44355663 CTTTTTGAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (22 bp):
AAATCATTATATTAAAAAAACC
Found at i:44361576 original size:45 final size:45
Alignment explanation
Indices: 44361515--44362239 Score: 993
Period size: 45 Copynumber: 16.1 Consensus size: 45
44361505 GGAGTAGGTT
* * *
44361515 GAAGATAGCAGATCTTGTCTTCCTGTATTGACAACGAAGTAGATT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * *
44361560 AAAGATAGCAGGTCTTGTCTTCCTGTATTGGTAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
**
44361605 GAAGATAGCAGGCCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
**
44361650 GAAGATAGCAGGCCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * *
44361695 GAAGATAGTAGATATTGCCTTCCTGTATTGGCAGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * *
44361740 GAAGATAGCAGGTCTTGTCTTCCTATATTGGTAGCGAAGTAGATT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* *
44361785 GAAGATAGCAGGTCTTGTCTTCCTGTATTGGCAGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
*
44361830 GAAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* *
44361875 GAAGATAGCAAATGTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * * * * *
44361920 AAACATAGTAGGTTTTATCTTCCTATATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * * * *
44361965 AAAGATAGTAGGTCTTGTCTTCCTATATTGACAGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* *
44362010 GAAGATAGTAGATCTTGTCTTCCTATATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* *
44362055 GAAGATAGCAGGTATTGTCTTCCTGTATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* **
44362100 GAAGATGGCAGATCTTGTCTT-CTCGTATTGGCAGTAAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCT-GTATTGGCAGCGAAGTAGATC
* * *
44362145 GAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAATAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * *
44362190 GAAGATAGCAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
44362235 GAAGA
1 GAAGA
44362240 CATCAGCCTT
Statistics
Matches: 607, Mismatches: 71, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
44 2 0.00
45 603 0.99
46 2 0.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (45 bp):
GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
Found at i:44365280 original size:101 final size:101
Alignment explanation
Indices: 44365114--44365429 Score: 502
Period size: 101 Copynumber: 3.2 Consensus size: 101
44365104 TGAGTACTTC
* * * *
44365114 TGATTAGTGACAAGTGATAAGTGCTAGTTTAGCTACATTTATCTGATCAGTGATAAGTGACAAGT
1 TGATAAGTGACAAGTGATAAGTGGTAGTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGT
44365179 GATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG
66 GATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG
*
44365215 TGATAAGTGACAAGTGATAAGTGGTAGTTTAGCTACACTTATCTGATCAGTGACAAGTGATAAGT
1 TGATAAGTGACAAGTGATAAGTGGTAGTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGT
*
44365280 GAT-A---GT---TTTAGCTGCACTTATCTGATCAG
66 GATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG
* *
44365309 TGATAAGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCGGTGACAAGTGACAAGT
1 TGATAAGTGACAAGTGATAAGTGGTAGTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGT
44365374 GATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG
66 GATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG
*
44365410 TGACAAGTGACAAGTGATAA
1 TGATAAGTGACAAGTGATAA
44365430 ATGTGATCCG
Statistics
Matches: 197, Mismatches: 11, Indels: 14
0.89 0.05 0.06
Matches are distributed among these distances:
94 87 0.44
95 1 0.01
97 2 0.01
98 2 0.01
100 1 0.01
101 104 0.53
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.31
Consensus pattern (101 bp):
TGATAAGTGACAAGTGATAAGTGGTAGTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGT
GATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG
Found at i:44365926 original size:13 final size:14
Alignment explanation
Indices: 44365891--44365928 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
44365881 AAGTCCTATT
*
44365891 TATTATGAATATAA
1 TATTATGAAGATAA
*
44365905 TATTTTGAAGAT-A
1 TATTATGAAGATAA
44365918 TATTATGAAGA
1 TATTATGAAGA
44365929 ATTTTAAAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.42
Consensus pattern (14 bp):
TATTATGAAGATAA
Found at i:44366143 original size:44 final size:44
Alignment explanation
Indices: 44366078--44366836 Score: 416
Period size: 44 Copynumber: 17.0 Consensus size: 44
44366068 AGGAATAGAC
* * * *
44366078 TGAAGATAGCAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAGTT
1 TGAAGATA-CTAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
44366123 TGAAGATACTAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
1 TGAAGATACTAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * * *
44366167 TGAAGCA-ATTAATCCTATCTCCCTGAAGTTGTAGTGGACCAGAT
1 TGAAG-ATACTAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * ** * * *
44366211 TAAAACGATA--AATCCTATAC-CTTTGAAATTGCAGTAGG-TCGGAT
1 T-GAA-GATACTAATCTTAT-CTCCCTGAAGTTGCAGT-GGAGCAGAT
* * *
44366255 TAAATCTACCATAATAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
1 T-GA---A-GATACTAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
** * *
44366305 TGAAGCCATTAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGAT
1 TGAAGATACTAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* ** * * *** * * * *
44366349 TAAAGCCACAAACCTTATCTATATGAAGTTGTAGTAGAGTAGGT
1 TGAAGATACTAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * * * * * *
44366393 TAAAG-TAACAAACCTTACCCCCCTAAAGTTGCAGTGGGGCAGAT
1 TGAAGAT-ACTAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * * * *
44366437 TGAAGATGCGAGTTTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
1 TGAAGATACTAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * * *
44366481 TAAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGAT
1 TGAAGATA-CTAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * * *
44366526 TGAAGCTATAAATTACAGATCTTATCTCTCTGAAGTTGTAGTAGAGCAGA-
1 TGAAG--AT--ACT--A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * * * * *
44366576 T-CATAT-CAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAGGT
1 TGAAGATACTAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * **
44366618 T--A-A-ACCAATCTTATCTTCCTGAAGTTGCAGCAGAGCAGAT
1 TGAAGATACTAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * * *
44366658 TGAAGCTACTAATCCTATCTCTCTGAAGTTACAGTGGAGCAGAT
1 TGAAGATACTAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * * * * * *
44366702 T-AAAACAATGAATCCTATAC-CTCTAAAGTTGCAGTAGG-TCAGAT
1 TGAAGATACT-AATCTTAT-CTCCCTGAAGTTGCAGT-GGAGCAGAT
* * * * *
44366746 TAAACCATAACCAATCTTATCTCTCTGAAGTTGCAGCGGAGCAGAT
1 TGAA-GAT-ACTAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * * *
44366792 TGAAGCTACTAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGAT
1 TGAAGATACTAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
44366836 T
1 T
44366837 AAAACGATGA
Statistics
Matches: 553, Mismatches: 123, Indels: 77
0.73 0.16 0.10
Matches are distributed among these distances:
40 31 0.06
41 29 0.05
42 3 0.01
43 4 0.01
44 321 0.58
45 64 0.12
46 32 0.06
47 10 0.02
49 8 0.01
50 24 0.04
51 27 0.05
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (44 bp):
TGAAGATACTAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
Found at i:44366427 original size:182 final size:182
Alignment explanation
Indices: 44366092--44366531 Score: 414
Period size: 182 Copynumber: 2.4 Consensus size: 182
44366082 GATAGCAAAC
* * *
44366092 CTTATCTCCCTGAAGTTGTAGTGGAGCAGTTTGAAGATACTAATCTTATCTCCCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACACTAATCTTATCTCCCTGAAGTTGCAG
* * * * * * * *
44366157 TGGAGCAGATTGAAGCAATTAATCCTATCTCCCTGAAGTTGTAGTGGACCAGATTAAAACGATAA
66 TGGAGCAGATTAAAGCAATCAAACCTATCTACATGAAGTTGTAGTAGACCAGATTAAAACAACAA
**
44366222 ATCCTATACCTTTGAAATTGCAGTAGGTCGGATTAAATCTACCATAATAAGT
131 ATCCTATACCCCTGAAATTGCAGTAGGTCGGATTAAATCTACCATAATAAGT
* *
44366274 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATTAATCTTATCTCCCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACACTAATCTTATCTCCCTGAAGTTGCAG
* * * ** * **
44366339 TGGAGTAGATTAAAGCCA-CAAACCTTATCTATATGAAGTTGTAGTAGAGTAGGTTAAAGTAACA
66 TGGAGCAGATTAAAGCAATCAAACC-TATCTACATGAAGTTGTAGTAGACCAGATTAAAACAACA
* * * * * ***
44366403 AA-CCT-TACCCCCCT-AAAGTTGCAGTGGGGCAGATT-GA---A-GAT-GCGAGT
130 AATCCTATA--CCCCTGAAA-TTGCAGTAGGTCGGATTAAATCTACCATAATAAGT
* * * * * *
44366450 TTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCGAATCTTATTTCCCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACA-CTAATCTTATCTCCCTGAAGTTGCA
* *
44366515 GTGGAACAGATTGAAGC
65 GTGGAGCAGATTAAAGC
44366532 TATAAATTAC
Statistics
Matches: 211, Mismatches: 42, Indels: 15
0.79 0.16 0.06
Matches are distributed among these distances:
176 37 0.18
177 38 0.18
178 1 0.00
180 2 0.01
181 11 0.05
182 122 0.58
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (182 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACACTAATCTTATCTCCCTGAAGTTGCAG
TGGAGCAGATTAAAGCAATCAAACCTATCTACATGAAGTTGTAGTAGACCAGATTAAAACAACAA
ATCCTATACCCCTGAAATTGCAGTAGGTCGGATTAAATCTACCATAATAAGT
Found at i:44366603 original size:41 final size:40
Alignment explanation
Indices: 44366546--44366657 Score: 125
Period size: 40 Copynumber: 2.8 Consensus size: 40
44366536 AATTACAGAT
* *
44366546 CTTATCTCTCTGAAGTTGTAGTAGAGCAGATCATATCAAAC
1 CTTATCTCCCTGAAGTTGTAGTAGAGCAGATCA-AACAAAC
* * * * *
44366587 CTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTAAACCAAT
1 CTTATCTCCCTGAAGTTGTAGTAGAGCAGATCAAACAAAC
* * *
44366627 CTTATCTTCCTGAAGTTGCAGCAGAGCAGAT
1 CTTATCTCCCTGAAGTTGTAGTAGAGCAGAT
44366658 TGAAGCTACT
Statistics
Matches: 59, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
40 30 0.51
41 29 0.49
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.30
Consensus pattern (40 bp):
CTTATCTCCCTGAAGTTGTAGTAGAGCAGATCAAACAAAC
Found at i:44366779 original size:134 final size:134
Alignment explanation
Indices: 44366620--44366903 Score: 446
Period size: 134 Copynumber: 2.1 Consensus size: 134
44366610 GAGCAGGTTA
* *
44366620 AACCAATCTTATCTTCCTGAAGTTGCAGCAGAGCAGATTGAAGCTACTAATCCTATCTCTCTGAA
1 AACCAATCTTATCTTCCTGAAGTTGCAGCAGAGCAGATTGAAGCTACTAATCCTATCTCCCTAAA
*
44366685 GTTACAGTGGAGCAGATTAAAACAATGAATCCTATACCTCTAAAGTTGCAGTAGGTCAGATTAAA
66 GTTACAGTGGAGCAGATTAAAACAATGAATCCTATACATCTAAAGTTGCAGTAGGTCAGATTAAA
44366750 CCAT
131 CCAT
*
44366754 AACCAATCTTATC-TCTCTGAAGTTGCAGCGGAGCAGATTGAAGCTACTAATCCTATCTCCCTAA
1 AACCAATCTTATCTTC-CTGAAGTTGCAGCAGAGCAGATTGAAGCTACTAATCCTATCTCCCTAA
* * * * *
44366818 AGTTGCAGTGGAGCGGATTAAAACGATGAATCCTATACATTTGAAGTTGCAGTAGGTCAGATTAA
65 AGTTACAGTGGAGCAGATTAAAACAATGAATCCTATACATCTAAAGTTGCAGTAGGTCAGATTAA
44366883 ACCAT
130 ACCAT
**
44366888 AAGAAATCTTAT-TTCC
1 AACCAATCTTATCTTCC
44366904 CTAGCGTTAA
Statistics
Matches: 137, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
133 3 0.02
134 134 0.98
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.28
Consensus pattern (134 bp):
AACCAATCTTATCTTCCTGAAGTTGCAGCAGAGCAGATTGAAGCTACTAATCCTATCTCCCTAAA
GTTACAGTGGAGCAGATTAAAACAATGAATCCTATACATCTAAAGTTGCAGTAGGTCAGATTAAA
CCAT
Found at i:44366837 original size:90 final size:90
Alignment explanation
Indices: 44366668--44366839 Score: 215
Period size: 90 Copynumber: 1.9 Consensus size: 90
44366658 TGAAGCTACT
* *
44366668 AATCCTATCTCTCTGAAGTTACAGTGGAGCAGATTAAAACAATGAATCCTATACCTCTAAAGTTG
1 AATCCTATCTCTCTGAAGTTACAGCGGAGCAGATTAAAACAATGAATCCTATACCCCTAAAGTTG
*
44366733 CAGTAGGTCAGATTAAACCATAACC
66 CAGTAGGGCAGATTAAACCATAACC
* * * * *
44366758 AATCTTATCTCTCTGAAGTTGCAGCGGAGCAGATTGAAGCTACT-AATCCTAT-CTCCCTAAAGT
1 AATCCTATCTCTCTGAAGTTACAGCGGAGCAGATTAAAAC-AATGAATCCTATAC-CCCTAAAGT
*
44366821 TGCAGT-GGAGCGGATTAAA
64 TGCAGTAGG-GCAGATTAAA
44366840 ACGATGAATC
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
89 3 0.04
90 65 0.93
91 2 0.03
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (90 bp):
AATCCTATCTCTCTGAAGTTACAGCGGAGCAGATTAAAACAATGAATCCTATACCCCTAAAGTTG
CAGTAGGGCAGATTAAACCATAACC
Found at i:44367331 original size:44 final size:44
Alignment explanation
Indices: 44367152--44367367 Score: 150
Period size: 44 Copynumber: 4.8 Consensus size: 44
44367142 AAAGCAGATC
* * * *
44367152 ATAT-CAAACCTTATCTCCCTGAAGTTACAGTGGAGTAGGTTAAAA
1 ATATACAAACCTTATCTCCCTGAAGTTGCAGTGGGGCAGGTT--GA
* * * * *
44367197 ATAAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA
1 ATATACAAACCTTATCTCCCTGAAGTTGCAGTGGGGCAGGTTG-A
* ** * * * * *
44367242 GACAGGCTACAAGTCTTATCTCTCTGAAGTTGCATTAGAGTAGGTTGA
1 -ATA---TACAAACCTTATCTCCCTGAAGTTGCAGTGGGGCAGGTTGA
44367290 AGTA-ACAAACCTTATC-CCCTTGAAGTTGCAGTGGGGCAGGTTGA
1 A-TATACAAACCTTATCTCCC-TGAAGTTGCAGTGGGGCAGGTTGA
* **
44367334 ATATGCAAGTCTTATCTCCCTGAAGTTGCAGTGG
1 ATATACAAACCTTATCTCCCTGAAGTTGCAGTGG
44367368 AGTAGACTGA
Statistics
Matches: 134, Mismatches: 27, Indels: 21
0.74 0.15 0.12
Matches are distributed among these distances:
43 4 0.03
44 54 0.40
45 7 0.05
46 34 0.25
47 1 0.01
48 2 0.01
49 32 0.24
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (44 bp):
ATATACAAACCTTATCTCCCTGAAGTTGCAGTGGGGCAGGTTGA
Found at i:44367334 original size:93 final size:95
Alignment explanation
Indices: 44367161--44367372 Score: 233
Period size: 88 Copynumber: 2.3 Consensus size: 95
44367151 CATATCAAAC
* * *
44367161 CTTATCTCCCTGAAGTTACAGTGGAGTAGGTTAAAAATAAACCAATCTTATCTCCCTGAAGTTGC
1 CTTATCTCCCTGAAGTTACAGTAGAGTAGGTTAAAAATAAACAAACCTTATCTCCCTGAAGTTGC
44367226 AGTGGAGCAGATTGAAGACAGGCTACAAGT
66 AGTGGAGCAGATTGAAGACAGGCTACAAGT
* * * * *
44367256 CTTATCTCTCTGAAGTTGCATTAGAGTAGGTT-GAAGT-AACAAACCTTATC-CCCTTGAAGTTG
1 CTTATCTCCCTGAAGTTACAGTAGAGTAGGTTAAAAATAAACAAACCTTATCTCCC-TGAAGTTG
* * * *
44367318 CAGTGGGGCAGGTTG-A-ATA---TGCAAGT
65 CAGTGGAGCAGATTGAAGACAGGCTACAAGT
* *
44367344 CTTATCTCCCTGAAGTTGCAGTGGAGTAG
1 CTTATCTCCCTGAAGTTACAGTAGAGTAG
44367373 ACTGAAGCTG
Statistics
Matches: 101, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
88 32 0.32
91 2 0.02
92 4 0.04
93 32 0.32
94 3 0.03
95 28 0.28
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (95 bp):
CTTATCTCCCTGAAGTTACAGTAGAGTAGGTTAAAAATAAACAAACCTTATCTCCCTGAAGTTGC
AGTGGAGCAGATTGAAGACAGGCTACAAGT
Found at i:44368524 original size:36 final size:36
Alignment explanation
Indices: 44368477--44368559 Score: 166
Period size: 36 Copynumber: 2.3 Consensus size: 36
44368467 TTTTATAGGC
44368477 CCCAAAACGACCTCATTTTGGGACTGGCGTCAATTG
1 CCCAAAACGACCTCATTTTGGGACTGGCGTCAATTG
44368513 CCCAAAACGACCTCATTTTGGGACTGGCGTCAATTG
1 CCCAAAACGACCTCATTTTGGGACTGGCGTCAATTG
44368549 CCCAAAACGAC
1 CCCAAAACGAC
44368560 GTCGTTTAGC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 47 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (36 bp):
CCCAAAACGACCTCATTTTGGGACTGGCGTCAATTG
Found at i:44368931 original size:12 final size:12
Alignment explanation
Indices: 44368916--44368946 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
44368906 TAATTAATAT
44368916 TATTATTATTAC
1 TATTATTATTAC
*
44368928 TATTATTATTGC
1 TATTATTATTAC
44368940 TATTATT
1 TATTATT
44368947 TATATATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.61
Consensus pattern (12 bp):
TATTATTATTAC
Found at i:44369100 original size:17 final size:17
Alignment explanation
Indices: 44369080--44369112 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
44369070 AATAATAATA
44369080 TTATTATTATTATTTAC
1 TTATTATTATTATTTAC
*
44369097 TTATTATTATTTTTTA
1 TTATTATTATTATTTA
44369113 TTTTAATTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (17 bp):
TTATTATTATTATTTAC
Found at i:44371539 original size:65 final size:63
Alignment explanation
Indices: 44371428--44371549 Score: 156
Period size: 65 Copynumber: 1.9 Consensus size: 63
44371418 GAGAATCATT
* ** * *
44371428 AGAAAAGTTGGTGTTATTTTAGCATTTTATGTTGTTTTTAAGTATGTTTCGTTTTCTTGCATAA
1 AGAAAAGTTGGTGTTATTTTAGAATTTTATGTTCATTTTAAATATGTTT-ATTTTCTTGCATAA
*
44371492 AGAATAAGTTGGTTTTATTTTAGAATTTTTATG-TCATTTTAAATATGTTTATTTTCTT
1 AGAA-AAGTTGGTGTTATTTTAGAA-TTTTATGTTCATTTTAAATATGTTTATTTTCTT
44371550 TATTCAAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
64 11 0.22
65 32 0.64
66 7 0.14
ACGTcount: A:0.25, C:0.05, G:0.16, T:0.54
Consensus pattern (63 bp):
AGAAAAGTTGGTGTTATTTTAGAATTTTATGTTCATTTTAAATATGTTTATTTTCTTGCATAA
Found at i:44372907 original size:11 final size:11
Alignment explanation
Indices: 44372881--44372915 Score: 52
Period size: 12 Copynumber: 3.0 Consensus size: 11
44372871 TGAAACAGGG
44372881 GAAAAGAAAGAA
1 GAAAAGAAA-AA
44372893 GAAAAGAAAAA
1 GAAAAGAAAAA
44372904 GAAAAGGAAAAA
1 GAAAA-GAAAAA
44372916 TTAGGGTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 7 0.32
12 15 0.68
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (11 bp):
GAAAAGAAAAA
Found at i:44373332 original size:11 final size:11
Alignment explanation
Indices: 44373316--44373340 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
44373306 GAATTTACGG
44373316 TAGAAATTGAA
1 TAGAAATTGAA
44373327 TAGAAATTGAA
1 TAGAAATTGAA
44373338 TAG
1 TAG
44373341 GAAAATTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.20, T:0.28
Consensus pattern (11 bp):
TAGAAATTGAA
Found at i:44374117 original size:23 final size:23
Alignment explanation
Indices: 44374090--44374236 Score: 105
Period size: 21 Copynumber: 6.4 Consensus size: 23
44374080 TGCCGATCAA
44374090 GCACTTTATGTGTCGTATTTCAG
1 GCACTTTATGTGTCGTATTTCAG
*
44374113 GCACTTCATGTGTCG--TTTCAG
1 GCACTTTATGTGTCGTATTTCAG
44374134 GCAC-TTATGTGTCGTATACTAATCAG
1 GCACTTTATGTGTCGTAT--T--TCAG
**
44374160 ATACTATGTAT-TGT--TATTTCAG
1 GCACT-T-TATGTGTCGTATTTCAG
* *
44374182 GCACTTTATGTGTCATACTTCAG
1 GCACTTTATGTGTCGTATTTCAG
*
44374205 GCAC-TT-CGTG-CGTCATTTCAG
1 GCACTTTATGTGTCGT-ATTTCAG
44374226 GCACTTATATG
1 GCACTT-TATG
44374237 CCATTTACTG
Statistics
Matches: 97, Mismatches: 11, Indels: 31
0.70 0.08 0.22
Matches are distributed among these distances:
20 14 0.14
21 27 0.28
22 11 0.11
23 26 0.27
24 3 0.03
26 9 0.09
28 4 0.04
29 3 0.03
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (23 bp):
GCACTTTATGTGTCGTATTTCAG
Found at i:44374226 original size:21 final size:21
Alignment explanation
Indices: 44374175--44374231 Score: 69
Period size: 23 Copynumber: 2.6 Consensus size: 21
44374165 ATGTATTGTT
* *
44374175 ATTTCAGGCACTTTATGTGTC
1 ATTTCAGGCACTTCATGCGTC
*
44374196 ATACTTCAGGCACTTCGTGCGTC
1 AT--TTCAGGCACTTCATGCGTC
44374219 ATTTCAGGCACTT
1 ATTTCAGGCACTT
44374232 ATATGCCATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 13 0.42
23 18 0.58
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (21 bp):
ATTTCAGGCACTTCATGCGTC
Found at i:44374257 original size:92 final size:92
Alignment explanation
Indices: 44374090--44374261 Score: 236
Period size: 92 Copynumber: 1.9 Consensus size: 92
44374080 TGCCGATCAA
* * * * * * *
44374090 GCACTTTATGTGTCGTATTTCAGGCACTTCATGTGTCGTTTCAGGCACTTATGTGTCGTATACTA
1 GCACTTTATGTGTCATACTTCAGGCACTTCATGCGTCATTTCAGGCACTTATATGCCATATACTA
44374155 ATCAGATACTATGTATTGTTATTTCAG
66 ATCAGATACTATGTATTGTTATTTCAG
* * *
44374182 GCACTTTATGTGTCATACTTCAGGCACTTCGTGCGTCATTTCAGGCACTTATATGCCATTTACTG
1 GCACTTTATGTGTCATACTTCAGGCACTTCATGCGTCATTTCAGGCACTTATATGCCATATACTA
* *
44374247 ATTAGGTACTATGTA
66 ATCAGATACTATGTA
44374262 CCATTTTAGG
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
92 68 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.40
Consensus pattern (92 bp):
GCACTTTATGTGTCATACTTCAGGCACTTCATGCGTCATTTCAGGCACTTATATGCCATATACTA
ATCAGATACTATGTATTGTTATTTCAG
Found at i:44379635 original size:74 final size:74
Alignment explanation
Indices: 44379514--44379665 Score: 304
Period size: 74 Copynumber: 2.1 Consensus size: 74
44379504 AGCAAAAAAG
44379514 GAAGCCCAATTAAAGCAAAGAAGAAAGTATTGATGTGAGAGGATCCTTGGATACAACAAAATAGA
1 GAAGCCCAATTAAAGCAAAGAAGAAAGTATTGATGTGAGAGGATCCTTGGATACAACAAAATAGA
44379579 AAATGTAGA
66 AAATGTAGA
44379588 GAAGCCCAATTAAAGCAAAGAAGAAAGTATTGATGTGAGAGGATCCTTGGATACAACAAAATAGA
1 GAAGCCCAATTAAAGCAAAGAAGAAAGTATTGATGTGAGAGGATCCTTGGATACAACAAAATAGA
44379653 AAATGTAGA
66 AAATGTAGA
44379662 GAAG
1 GAAG
44379666 ATCGAATATA
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 78 1.00
ACGTcount: A:0.47, C:0.11, G:0.24, T:0.18
Consensus pattern (74 bp):
GAAGCCCAATTAAAGCAAAGAAGAAAGTATTGATGTGAGAGGATCCTTGGATACAACAAAATAGA
AAATGTAGA
Found at i:44387897 original size:58 final size:58
Alignment explanation
Indices: 44387835--44387958 Score: 169
Period size: 58 Copynumber: 2.1 Consensus size: 58
44387825 AATTCATATT
* * * * *
44387835 ATAATAATTACATTAAGAATGTTATTAAATTATATATTA-TTTTATTAAATTGTATTTA
1 ATAATAATTACA-TAAAAATATGATTAAATTATATATTATTTTTATTAAAATATATTTA
* *
44387893 ATAATAATTATATAAAAATATGATTAAATTATTTATTATTTTTATTAAAATATATTTA
1 ATAATAATTACATAAAAATATGATTAAATTATATATTATTTTTATTAAAATATATTTA
44387951 ATAATAAT
1 ATAATAAT
44387959 CTTATTAAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
57 22 0.38
58 36 0.62
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (58 bp):
ATAATAATTACATAAAAATATGATTAAATTATATATTATTTTTATTAAAATATATTTA
Found at i:44388159 original size:16 final size:16
Alignment explanation
Indices: 44388138--44388193 Score: 67
Period size: 16 Copynumber: 3.5 Consensus size: 16
44388128 TGAATTACTG
44388138 ATTATAGCTCTATTCC
1 ATTATAGCTCTATTCC
* *
44388154 ATTATAGTTCTATTTC
1 ATTATAGCTCTATTCC
* * *
44388170 ATTACAACTCTATTCA
1 ATTATAGCTCTATTCC
44388186 ATTATAGC
1 ATTATAGC
44388194 CATATTCTAT
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.30, C:0.20, G:0.05, T:0.45
Consensus pattern (16 bp):
ATTATAGCTCTATTCC
Found at i:44392338 original size:23 final size:23
Alignment explanation
Indices: 44392311--44392386 Score: 109
Period size: 23 Copynumber: 3.3 Consensus size: 23
44392301 AGTGTTATTA
44392311 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
44392334 TTCAGTGGTAG-TTACGACTACAT
1 ATCAGTGGTAGCTT-CGGCTACAT
*
44392357 ATCAGTGATAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
44392380 ATCAGTG
1 ATCAGTG
44392387 TGGCACTTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
22 2 0.04
23 42 0.91
24 2 0.04
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:44394750 original size:99 final size:99
Alignment explanation
Indices: 44394630--44394836 Score: 387
Period size: 99 Copynumber: 2.1 Consensus size: 99
44394620 AAACAAACCT
44394630 TTAAGCATGAAACCTGTTACTCTGTTAGACTGGGAATAACTGAAATAATGTTTATATGAGATTTA
1 TTAAGCATGAAACCTGTTACTCTGTTAGACTGGGAATAACTGAAATAATGTTTATATGAGATTTA
* *
44394695 TGAGACATGGTATGTATGATCTGTTCTGTCACGC
66 TGAGACATAGTATGTATGATCTGTTCTATCACGC
*
44394729 TTAAGCATGAAACCTGTTACTCTGTTAGACTGGGAATAACTGAAATAGTGTTTATATGAGATTTA
1 TTAAGCATGAAACCTGTTACTCTGTTAGACTGGGAATAACTGAAATAATGTTTATATGAGATTTA
44394794 TGAGACATAGTATGTATGATCTGTTCTATCACGC
66 TGAGACATAGTATGTATGATCTGTTCTATCACGC
44394828 TTAAGCATG
1 TTAAGCATG
44394837 TGTGATCTGT
Statistics
Matches: 105, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
99 105 1.00
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.35
Consensus pattern (99 bp):
TTAAGCATGAAACCTGTTACTCTGTTAGACTGGGAATAACTGAAATAATGTTTATATGAGATTTA
TGAGACATAGTATGTATGATCTGTTCTATCACGC
Found at i:44402664 original size:40 final size:40
Alignment explanation
Indices: 44402609--44402736 Score: 115
Period size: 40 Copynumber: 3.3 Consensus size: 40
44402599 GGGGTTTTGC
* *
44402609 GCCCAGCGCTAGTCGGGTTAGCCGACGATATTGAACGTGA
1 GCCCAGCGCTAGTCGGGATAGCCGACGATATTGAATGTGA
* * * * *
44402649 GCCCAGCTCTAGTCGGAAAAACC-A-GCA-A-TG--TTTGA
1 GCCCAGCGCTAGTCGGGATAGCCGACG-ATATTGAATGTGA
*
44402684 GCCCAGCGCTAGTCGGGCTAGCCGACGATATTGAATGTGA
1 GCCCAGCGCTAGTCGGGATAGCCGACGATATTGAATGTGA
* *
44402724 ACCCAGCTCTAGT
1 GCCCAGCGCTAGT
44402737 TAGATAAACC
Statistics
Matches: 66, Mismatches: 15, Indels: 14
0.69 0.16 0.15
Matches are distributed among these distances:
35 21 0.32
36 2 0.03
37 4 0.06
38 4 0.06
39 2 0.03
40 33 0.50
ACGTcount: A:0.25, C:0.27, G:0.28, T:0.20
Consensus pattern (40 bp):
GCCCAGCGCTAGTCGGGATAGCCGACGATATTGAATGTGA
Found at i:44402746 original size:75 final size:75
Alignment explanation
Indices: 44402604--44402771 Score: 237
Period size: 75 Copynumber: 2.2 Consensus size: 75
44402594 GCAGAGGGGT
* * *
44402604 TTTGCGCCCAGCGCTAGTCGGGTTAGCCGACGATATTGAACGTGAGCCCAGCTCTAGTCGGAAAA
1 TTTGCGCCCAGCGCTAGTCGGGCTAGCCGACGATATTGAACGTGAACCCAGCTCTAGTCAGAAAA
*
44402669 ACCAGCAATG
66 ACCAACAATG
* * * *
44402679 TTTGAGCCCAGCGCTAGTCGGGCTAGCCGACGATATTGAATGTGAACCCAGCTCTAGTTAGATAA
1 TTTGCGCCCAGCGCTAGTCGGGCTAGCCGACGATATTGAACGTGAACCCAGCTCTAGTCAGAAAA
**
44402744 ACCAACGGTG
66 ACCAACAATG
*
44402754 TTTGCGCCCAGTGCTAGT
1 TTTGCGCCCAGCGCTAGT
44402772 TGGGTATTCC
Statistics
Matches: 81, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
75 81 1.00
ACGTcount: A:0.24, C:0.26, G:0.27, T:0.23
Consensus pattern (75 bp):
TTTGCGCCCAGCGCTAGTCGGGCTAGCCGACGATATTGAACGTGAACCCAGCTCTAGTCAGAAAA
ACCAACAATG
Found at i:44407275 original size:21 final size:21
Alignment explanation
Indices: 44407237--44407276 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
44407227 AAGCCCGAAG
*
44407237 GCTAAACAGAAGCACATAAGT
1 GCTAAACAGAAACACATAAGT
* *
44407258 GCTAAACTGAAACCCATAA
1 GCTAAACAGAAACACATAA
44407277 AGGTTAAACG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.23, G:0.15, T:0.15
Consensus pattern (21 bp):
GCTAAACAGAAACACATAAGT
Found at i:44407296 original size:21 final size:21
Alignment explanation
Indices: 44407272--44407340 Score: 52
Period size: 21 Copynumber: 3.3 Consensus size: 21
44407262 AACTGAAACC
44407272 CATAAAGGTTAAACGGAAGCT
1 CATAAAGGTTAAACGGAAGCT
* * * * *
44407293 CAT-AAGAGCTGAACGAAAACC
1 CATAAAG-GTTAAACGGAAGCT
* *
44407314 CATAATGGTTAAACAGAAGCT
1 CATAAAGGTTAAACGGAAGCT
44407335 CA-AAAG
1 CATAAAG
44407341 AGCTGAACGG
Statistics
Matches: 33, Mismatches: 13, Indels: 5
0.65 0.25 0.10
Matches are distributed among these distances:
20 6 0.18
21 25 0.76
22 2 0.06
ACGTcount: A:0.46, C:0.17, G:0.20, T:0.16
Consensus pattern (21 bp):
CATAAAGGTTAAACGGAAGCT
Found at i:44407298 original size:42 final size:41
Alignment explanation
Indices: 44407234--44407354 Score: 152
Period size: 42 Copynumber: 2.9 Consensus size: 41
44407224 CAGAAGCCCG
* * * *
44407234 AAGGCTAAACAGAAGCACATAAGTGCTAAACTGAAACCCATA
1 AAGGTTAAACAGAAGCTCATAAGAGCTGAAC-GAAACCCATA
*
44407276 AAGGTTAAACGGAAGCTCATAAGAGCTGAACGAAAACCCATA
1 AAGGTTAAACAGAAGCTCATAAGAGCTGAACG-AAACCCATA
* *
44407318 ATGGTTAAACAGAAGCTCAAAAGAGCTGAACGGAAAC
1 AAGGTTAAACAGAAGCTCATAAGAGCTGAAC-GAAAC
44407355 ATATTAGGGT
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
41 1 0.01
42 67 0.97
43 1 0.01
ACGTcount: A:0.46, C:0.19, G:0.21, T:0.14
Consensus pattern (41 bp):
AAGGTTAAACAGAAGCTCATAAGAGCTGAACGAAACCCATA
Found at i:44409102 original size:30 final size:30
Alignment explanation
Indices: 44409068--44409124 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
44409058 TTTAGAACTT
*
44409068 GGGAATCCCGGGATTA-TTTTCAGACATCTC
1 GGGAATCCCGGGATAAGTTTT-AGACATCTC
*
44409098 GGGAATCCTGGGATAAGTTTTAGACAT
1 GGGAATCCCGGGATAAGTTTTAGACAT
44409125 ACTATCTCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (30 bp):
GGGAATCCCGGGATAAGTTTTAGACATCTC
Found at i:44415857 original size:19 final size:20
Alignment explanation
Indices: 44415833--44415874 Score: 77
Period size: 19 Copynumber: 2.1 Consensus size: 20
44415823 GAGGCAAGAA
44415833 TTTTTCTTCTTTTTTTC-AT
1 TTTTTCTTCTTTTTTTCAAT
44415852 TTTTTCTTCTTTTTTTCAAT
1 TTTTTCTTCTTTTTTTCAAT
44415872 TTT
1 TTT
44415875 ACCTTTTGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTTCTTCTTTTTTTCAAT
Found at i:44425189 original size:88 final size:86
Alignment explanation
Indices: 44425029--44425207 Score: 259
Period size: 88 Copynumber: 2.0 Consensus size: 86
44425019 ATTTTGTATG
44425029 ATATATATGAATGAACTAGATTTGATCATTTAATAGTATAAATTGAATGTAGTTGATAGTTGCTT
1 ATATATATGAATGAACTAGATTTGATCATTTAATAGTATAAATTGAATGTAGTTGATAGTTGCTT
44425094 CAACAACAAATGTGACACTATAA
66 --ACAACAAATGTGACACTATAA
* * *
44425117 ATATGTATGAATGAACTGGATTTGATCATTTAATAGTATAAATTGAATGTAGTTTATTGTAGTTG
1 ATATATATGAATGAACTAGATTTGATCATTTAATAGTATAAATTGAATGTAGTTGA---TAGTTG
*
44425182 CTTCAACAACAAATGTGGCACTATAA
63 CTT--ACAACAAATGTGACACTATAA
44425208 TAACTTGTCT
Statistics
Matches: 84, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
88 53 0.63
91 31 0.37
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (86 bp):
ATATATATGAATGAACTAGATTTGATCATTTAATAGTATAAATTGAATGTAGTTGATAGTTGCTT
ACAACAAATGTGACACTATAA
Found at i:44425598 original size:5 final size:5
Alignment explanation
Indices: 44425590--44425615 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
44425580 ATAAAATAAA
44425590 AAAAC AAAAC AAAAC AAAAC AAAAC A
1 AAAAC AAAAC AAAAC AAAAC AAAAC A
44425616 TTTCTTCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:44425952 original size:20 final size:21
Alignment explanation
Indices: 44425920--44425958 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
44425910 AGGGACTAAA
44425920 GTGTATAAATTCTA-AAATTG
1 GTGTATAAATTCTATAAATTG
44425940 GTGTA-AAATTTCTATAAAT
1 GTGTATAAA-TTCTATAAAT
44425959 ATGAATAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 3 0.18
20 10 0.59
21 4 0.24
ACGTcount: A:0.41, C:0.05, G:0.13, T:0.41
Consensus pattern (21 bp):
GTGTATAAATTCTATAAATTG
Done.