Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 179 of 290
Found at i:61284813 original size:19 final size:19
Alignment explanation
Indices: 61284789--61284847 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
61284779 GTTGAAAGAT
61284789 ACCATGGCAACCTGATAAG
1 ACCATGGCAACCTGATAAG
*
61284808 ACCATGG----TTGA-AAG
1 ACCATGGCAACCTGATAAG
61284822 ATACCATGGCAACCTGATAAG
1 --ACCATGGCAACCTGATAAG
61284843 ACCAT
1 ACCAT
61284848 TGTTGAAAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 3 0.10
15 3 0.10
16 7 0.23
19 12 0.39
20 3 0.10
21 3 0.10
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.19
Consensus pattern (19 bp):
ACCATGGCAACCTGATAAG
Found at i:61284906 original size:46 final size:46
Alignment explanation
Indices: 61284838--61285097 Score: 342
Period size: 46 Copynumber: 5.7 Consensus size: 46
61284828 TGGCAACCTG
* * * *
61284838 ATAAGACCATTGTTGAAAGATACCATGGCAACCTGATATGAAATGT
1 ATAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGA
* * *
61284884 GTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGA
1 ATAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGA
**
61284930 ATAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGA
1 ATAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGA
*** *
61284976 ATAAGACCATGGTTGAAAGATACCATGGCAGGGTGACATAAAATGA
1 ATAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGA
*
61285022 ATAAGACCATCGTTGAAAGATACCATGGCAACATGACA-GAAAATGA
1 ATAAGACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATGA
* * * *
61285068 GTAAGACCATAGTTGAAAGACACTATGGCA
1 ATAAGACCATGGTTGAAAGATACCATGGCA
61285098 TTATGTCAAA
Statistics
Matches: 189, Mismatches: 24, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
46 189 1.00
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.20
Consensus pattern (46 bp):
ATAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGA
Found at i:61285404 original size:16 final size:17
Alignment explanation
Indices: 61285383--61285415 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
61285373 ATGATGGAGC
61285383 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
61285399 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
61285416 TACTTATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:61288713 original size:43 final size:43
Alignment explanation
Indices: 61288638--61288735 Score: 103
Period size: 43 Copynumber: 2.3 Consensus size: 43
61288628 ATATGTGTTC
* *
61288638 TTGAGTAAGACCACGTCTAGGACATTGGCATCG--ATATGTGAT
1 TTGAGTAAGACCACGTCTAGGACATCGACATCGTAAT-TGTGAT
* *
61288680 TTCGAGTAAGACCATGTCT-GAGATATCGACATCGTAATTGTGAT
1 TT-GAGTAAGACCACGTCTAG-GACATCGACATCGTAATTGTGAT
*
61288724 TTGTGTAAGACC
1 TTGAGTAAGACC
61288736 CTGTTTGGGA
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
42 3 0.06
43 34 0.72
44 8 0.17
45 2 0.04
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (43 bp):
TTGAGTAAGACCACGTCTAGGACATCGACATCGTAATTGTGAT
Found at i:61295628 original size:43 final size:43
Alignment explanation
Indices: 61295580--61295749 Score: 177
Period size: 43 Copynumber: 4.0 Consensus size: 43
61295570 AGGATTTCTA
*
61295580 ATATGTG-TTCTCGTGTAAGATCATGTCTGGGACGTTGGCATCG
1 ATATGTGATT-TCGTGTAAGACCATGTCTGGGACGTTGGCATCG
* * * *
61295623 ATATGTGATTTCGAGTGAGACCATGTCTGGGACATCGGCATCG
1 ATATGTGATTTCGTGTAAGACCATGTCTGGGACGTTGGCATCG
*
61295666 -TAATTGTGA-TTCGTGTAAGACCCTGTCTGGGACAG-TGGCATCG
1 AT-A-TGTGATTTCGTGTAAGACCATGTCTGGGAC-GTTGGCATCG
* * * * *
61295709 ACATGTGATTACATGTAAGACCACGTCTGCGACGTTGGCAT
1 ATATGTGATTTCGTGTAAGACCATGTCTGGGACGTTGGCAT
61295750 TGTACGATAT
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
42 7 0.07
43 90 0.87
44 7 0.07
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (43 bp):
ATATGTGATTTCGTGTAAGACCATGTCTGGGACGTTGGCATCG
Found at i:61297355 original size:32 final size:33
Alignment explanation
Indices: 61297216--61297358 Score: 85
Period size: 32 Copynumber: 4.5 Consensus size: 33
61297206 ACCCAACCAG
* *
61297216 AGCCCAAATCAGT-TCA-AGCTTTACTGGGCC-T
1 AGCCCATATCAGTATCAGAG-TATACTGGGCCAT
* *
61297247 AAGCCC-TATTCAGAAATCAGAGT-TAACTGGGCCTT
1 -AGCCCATA-TCAG-TATCAGAGTAT-ACTGGGCCAT
* *
61297282 AGCCCATATCAATAT--TA--AT-CTGGGCCAT
1 AGCCCATATCAGTATCAGAGTATACTGGGCCAT
*
61297310 AGCCCCT-TACAGTATCAGAGTATACTGGGCC-T
1 AGCCCATAT-CAGTATCAGAGTATACTGGGCCAT
61297342 AGCCCATATCAGTATCA
1 AGCCCATATCAGTATCA
61297359 ATCTGGGCCG
Statistics
Matches: 86, Mismatches: 10, Indels: 30
0.68 0.08 0.24
Matches are distributed among these distances:
27 1 0.01
28 19 0.22
30 2 0.02
31 2 0.02
32 26 0.30
33 11 0.13
34 20 0.23
35 5 0.06
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (33 bp):
AGCCCATATCAGTATCAGAGTATACTGGGCCAT
Found at i:61297381 original size:61 final size:59
Alignment explanation
Indices: 61297239--61297410 Score: 174
Period size: 60 Copynumber: 2.8 Consensus size: 59
61297229 TCAAGCTTTA
*
61297239 CTGGGCCTAAGCCCTATT-CAGAAATCAGAGT-TAACTGGGCCTTAGCCCATATCAATATTAAT
1 CTGGGCCT-AGCCCTATTACAG--ATCAGAGTAT-ACTGGGCC-TAGCCCATATCAATATCAAT
* *
61297301 CTGGGCCATAGCCC-CTTACAGTATCAGAGTATACTGGGCCTAGCCCATATCAGTATCAAT
1 CTGGGCC-TAGCCCTATTACAG-ATCAGAGTATACTGGGCCTAGCCCATATCAATATCAAT
* *
61297361 CTGGGCCGTAGCCCTATTACA-AGTC-GAGATATATTGGGCCTTGCCCATAT
1 CTGGGCC-TAGCCCTATTACAGA-TCAGAG-TATACTGGGCCTAGCCCATAT
61297411 TAACACAGTT
Statistics
Matches: 96, Mismatches: 8, Indels: 14
0.81 0.07 0.12
Matches are distributed among these distances:
59 4 0.04
60 52 0.54
61 23 0.24
62 16 0.17
63 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (59 bp):
CTGGGCCTAGCCCTATTACAGATCAGAGTATACTGGGCCTAGCCCATATCAATATCAAT
Found at i:61297428 original size:20 final size:20
Alignment explanation
Indices: 61297403--61297448 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
61297393 ATTGGGCCTT
61297403 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
61297423 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
61297442 GCCCATA
1 GCCCATA
61297449 ACAAAACAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:61297457 original size:19 final size:20
Alignment explanation
Indices: 61297415--61297458 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
61297405 CCATATTAAC
** *
61297415 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
61297435 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
61297454 ACAGT
1 ACAGT
61297459 CTCATATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:61298952 original size:25 final size:24
Alignment explanation
Indices: 61298897--61298952 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 24
61298887 TTTCGGCTAG
61298897 GGAAGAAAAGAAAGGAGAAAAGAA
1 GGAAGAAAAGAAAGGAGAAAAGAA
* * *
61298921 -AATAGAAGAAGAGAGGAGAAGAGAA
1 GGA-AGAA-AAGAAAGGAGAAAAGAA
61298946 GGAAGAA
1 GGAAGAA
61298953 TTCGACACTT
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
23 1 0.04
24 4 0.16
25 19 0.76
26 1 0.04
ACGTcount: A:0.62, C:0.00, G:0.36, T:0.02
Consensus pattern (24 bp):
GGAAGAAAAGAAAGGAGAAAAGAA
Found at i:61306162 original size:47 final size:46
Alignment explanation
Indices: 61306089--61306261 Score: 156
Period size: 47 Copynumber: 3.7 Consensus size: 46
61306079 NNNNAAACTT
61306089 AGCCGATGCATGTCCCAGACACGTCTTACACTGGCTAACATCATCG
1 AGCCGATGCATGTCCCAGACACGTCTTACACTGGCTAACATCATCG
* * *
61306135 AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCACTTACCTC-TAC-
1 A-GCCGATGCATGTCCCAGACACGTCTTACACTGG--CTAACATCAT-CG
** * * *
61306183 A-CCGATGCCATGTCCCAGACGTGGTCTTACACGGGCTATCATGATGCG
1 AGCCGATG-CATGTCCCAGAC-ACGTCTTACACTGGCTAACATCAT-CG
* * *
61306231 A-CTGATGCATGTCCTAGACACATCTTACACT
1 AGCCGATGCATGTCCCAGACACGTCTTACACT
61306262 AGCCCTCATC
Statistics
Matches: 102, Mismatches: 17, Indels: 16
0.76 0.13 0.12
Matches are distributed among these distances:
46 19 0.19
47 57 0.56
48 19 0.19
49 7 0.07
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.24
Consensus pattern (46 bp):
AGCCGATGCATGTCCCAGACACGTCTTACACTGGCTAACATCATCG
Found at i:61306258 original size:94 final size:92
Alignment explanation
Indices: 61306091--61306261 Score: 218
Period size: 94 Copynumber: 1.8 Consensus size: 92
61306081 NNAAACTTAG
*
61306091 CCGATGCATGTCCCAGACACGTCTTACACTGGCTAACATCATCGAGGCCGATGCATGTCCCAGAC
1 CCGATGCATGTCCCAGACACGTCTTACACGGGCTAACATCATCGA-GCCGATGCATGTCCCAGAC
**
61306156 ATGTCTTACACTGGCACTTACCTCTACA
65 ACATCTTACACTGGCACTTACCTCTACA
** * * * *
61306184 CCGATGCCATGTCCCAGACGTGGTCTTACACGGGCTATCATGATGCGA-CTGATGCATGTCCTAG
1 CCGATG-CATGTCCCAGAC-ACGTCTTACACGGGCTAACATCAT-CGAGCCGATGCATGTCCCAG
61306248 ACACATCTTACACT
63 ACACATCTTACACT
61306262 AGCCCTCATC
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
93 6 0.09
94 38 0.58
95 19 0.29
96 3 0.05
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.25
Consensus pattern (92 bp):
CCGATGCATGTCCCAGACACGTCTTACACGGGCTAACATCATCGAGCCGATGCATGTCCCAGACA
CATCTTACACTGGCACTTACCTCTACA
Found at i:61307075 original size:28 final size:27
Alignment explanation
Indices: 61307032--61307137 Score: 81
Period size: 28 Copynumber: 3.7 Consensus size: 27
61307022 GAAATCAGAG
61307032 TTAA-CTGGGCCTTAGCCCATATCAATA
1 TTAATCTGGGCC-TAGCCCATATCAATA
*
61307059 TTAATCTGGGCCATAGCCCCT-TACAATA
1 TTAATCTGGGCC-TAGCCCATAT-CAATA
* * *
61307087 TCAGAGTATACTGGGACTAGCCCATATCAGTA
1 T--TA--AT-CTGGGCCTAGCCCATATCAATA
61307119 TTAATCTGGGCCGTAGCCC
1 TTAATCTGGGCC-TAGCCC
61307138 TATTACAAGT
Statistics
Matches: 62, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
27 11 0.18
28 28 0.45
30 2 0.03
32 14 0.23
33 7 0.11
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.27
Consensus pattern (27 bp):
TTAATCTGGGCCTAGCCCATATCAATA
Found at i:61307145 original size:61 final size:62
Alignment explanation
Indices: 61307011--61307145 Score: 179
Period size: 60 Copynumber: 2.2 Consensus size: 62
61307001 ACTGGGCTTA
*
61307011 AGCCCTATT-CAGAAATCAGAGTTAACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCAT
1 AGCCCTATTACA-AAATCAGAGTTAACTGGGACTTAGCCCATATCAATATTAATCTGGGCCAT
* * * *
61307073 AGCCC-CTTACAATATCAGAG-TATACTGGGAC-TAGCCCATATCAGTATTAATCTGGGCCGT
1 AGCCCTATTACAAAATCAGAGTTA-ACTGGGACTTAGCCCATATCAATATTAATCTGGGCCAT
61307133 AGCCCTATTACAA
1 AGCCCTATTACAA
61307146 GTCAAGATGT
Statistics
Matches: 64, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
60 34 0.53
61 23 0.36
62 7 0.11
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (62 bp):
AGCCCTATTACAAAATCAGAGTTAACTGGGACTTAGCCCATATCAATATTAATCTGGGCCAT
Found at i:61307170 original size:60 final size:59
Alignment explanation
Indices: 61307037--61307173 Score: 152
Period size: 60 Copynumber: 2.3 Consensus size: 59
61307027 CAGAGTTAAC
*
61307037 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAATATCAGAGTATA
1 TGGGCCTT-GCCCATATCAATATTAATCTGGGCCATAGCCCATTACAATATCAGAGTATA
* * * * * *
61307097 CTGGGACTAGCCCATATCAGTATTAATCTGGGCCGTAGCCCTATTACAA-GTCAAGATGTGT-
1 -TGGGCCTTGCCCATATCAATATTAATCTGGGCCATAGCCC-ATTACAATATC-AGA-GTATA
61307158 TGGGCCTTGCCCATAT
1 TGGGCCTTGCCCATAT
61307174 TAACACAGTT
Statistics
Matches: 64, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
60 46 0.72
61 15 0.23
62 3 0.05
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.28
Consensus pattern (59 bp):
TGGGCCTTGCCCATATCAATATTAATCTGGGCCATAGCCCATTACAATATCAGAGTATA
Found at i:61311447 original size:60 final size:60
Alignment explanation
Indices: 61311318--61311456 Score: 156
Period size: 60 Copynumber: 2.3 Consensus size: 60
61311308 ATCAGAGTTA
* * **
61311318 ACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTATTAGAGTAT
1 ACTGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGTACGAGAGTAT
* * *
61311379 ACTAGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACTAGT-CGAGA-TAT
1 ACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTAC-AGTACGAGAGTAT
* *
61311439 ATTGGGCCTTGCCCATAT
1 ACTGGGCCTAGCCCATAT
61311457 TAACACAGTT
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
60 49 0.74
61 14 0.21
62 3 0.05
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (60 bp):
ACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGTACGAGAGTAT
Found at i:61318590 original size:26 final size:26
Alignment explanation
Indices: 61318561--61318668 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
61318551 TGGTACAAAT
61318561 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
61318587 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
61318613 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
61318639 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
61318665 TGAT
1 TGAT
61318669 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:61335892 original size:42 final size:41
Alignment explanation
Indices: 61335796--61335892 Score: 99
Period size: 42 Copynumber: 2.3 Consensus size: 41
61335786 ATGATTTATG
* *
61335796 TGTAAGACCATGTCTGAGACATCGGCATCATATTTGATTTCG
1 TGTAAGACC-TGTCTGAGACATCGGCATCATATTTGATTACA
* *
61335838 TGTAGGACCCTGTCTTG-GACAGT-GGCATTGATATTTGATTACA
1 TGTAAGA-CCTGTC-TGAGACA-TCGGCA-TCATATTTGATTACA
61335881 TGTAAGACCTGT
1 TGTAAGACCTGT
61335893 AAGACCACGT
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
42 23 0.50
43 23 0.50
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.34
Consensus pattern (41 bp):
TGTAAGACCTGTCTGAGACATCGGCATCATATTTGATTACA
Found at i:61337023 original size:100 final size:100
Alignment explanation
Indices: 61336850--61337051 Score: 404
Period size: 100 Copynumber: 2.0 Consensus size: 100
61336840 AGGCACACAC
61336850 TCGTGTGGGAGGGGCAACACGCCCGTGTGACAATTCAACATGGTCGTGCTATTGGCCCGTGTGGC
1 TCGTGTGGGAGGGGCAACACGCCCGTGTGACAATTCAACATGGTCGTGCTATTGGCCCGTGTGGC
61336915 TCACACGGCCTGAGCAATACAGGGACACGCCCGAG
66 TCACACGGCCTGAGCAATACAGGGACACGCCCGAG
61336950 TCGTGTGGGAGGGGCAACACGCCCGTGTGACAATTCAACATGGTCGTGCTATTGGCCCGTGTGGC
1 TCGTGTGGGAGGGGCAACACGCCCGTGTGACAATTCAACATGGTCGTGCTATTGGCCCGTGTGGC
61337015 TCACACGGCCTGAGCAATACAGGGACACGCCCGAG
66 TCACACGGCCTGAGCAATACAGGGACACGCCCGAG
61337050 TC
1 TC
61337052 CTATACCCGT
Statistics
Matches: 102, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 102 1.00
ACGTcount: A:0.21, C:0.28, G:0.33, T:0.18
Consensus pattern (100 bp):
TCGTGTGGGAGGGGCAACACGCCCGTGTGACAATTCAACATGGTCGTGCTATTGGCCCGTGTGGC
TCACACGGCCTGAGCAATACAGGGACACGCCCGAG
Found at i:61338760 original size:28 final size:28
Alignment explanation
Indices: 61338697--61338847 Score: 205
Period size: 28 Copynumber: 5.4 Consensus size: 28
61338687 ATATTAAGTC
* *
61338697 CGCAAACTGAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
61338724 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
61338752 CGCACACTTTGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
61338780 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
61338808 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
61338837 CGCACACTTAG
1 CGCACACTTAG
61338848 CGCCAATCTC
Statistics
Matches: 112, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
27 21 0.19
28 75 0.67
29 16 0.14
ACGTcount: A:0.34, C:0.27, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:61343589 original size:4 final size:4
Alignment explanation
Indices: 61343580--61343606 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
61343570 AAACTAAGTA
61343580 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
61343607 AATAAAACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:61345015 original size:23 final size:22
Alignment explanation
Indices: 61344963--61345015 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
61344953 TCTACGTCTT
*
61344963 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
61344985 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
61345008 TTTCTTTT
1 TTTCTTTT
61345016 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:61360143 original size:13 final size:13
Alignment explanation
Indices: 61360127--61360153 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
61360117 TAAAAATTTA
61360127 AGTTAAAATAAGT
1 AGTTAAAATAAGT
61360140 AGTTAAAATAAGT
1 AGTTAAAATAAGT
61360153 A
1 A
61360154 AAATAAAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.15, T:0.30
Consensus pattern (13 bp):
AGTTAAAATAAGT
Found at i:61371575 original size:23 final size:19
Alignment explanation
Indices: 61371528--61371567 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
61371518 CTTGGGGTGC
61371528 ATTGACTATCGTCAACTGA
1 ATTGACTATCGTCAACTGA
61371547 ATTGACTATCGTCAACTGA
1 ATTGACTATCGTCAACTGA
61371566 AT
1 AT
61371568 GAAGTGACGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.33
Consensus pattern (19 bp):
ATTGACTATCGTCAACTGA
Found at i:61375890 original size:40 final size:40
Alignment explanation
Indices: 61375839--61376223 Score: 646
Period size: 40 Copynumber: 9.6 Consensus size: 40
61375829 CATTTGAATG
61375839 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
61375879 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
61375919 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
61375959 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
61375999 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
61376039 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
61376079 ATATCCGGGCTAAGACCCGACGGCGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
61376119 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAA-TTGAT
* * * *
61376159 ATATCCGGGTTAAGACCCGAAGGCATTCGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
61376199 ATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
61376224 ATTGAGCTTG
Statistics
Matches: 328, Mismatches: 15, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
39 2 0.01
40 325 0.99
41 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
Found at i:61380845 original size:27 final size:26
Alignment explanation
Indices: 61380797--61380856 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
61380787 GCGAAGCTGC
*
61380797 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
61380824 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
61380850 CAGATAT
1 CAGATAT
61380857 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:61388342 original size:71 final size:67
Alignment explanation
Indices: 61388267--61388408 Score: 176
Period size: 67 Copynumber: 2.1 Consensus size: 67
61388257 TCACCAGATA
* * *
61388267 CAGATATTATGGCTAGGCCACCAGAACAGATATATATATATGGCGAAGCCACCAGATTGCAGCGA
1 CAGATATTATGACGAAGCCACCAGAACAG----ATATATATGGCGAAGCCACCAGATTGCAGCGA
61388332 GGCTGC
62 GGCTGC
* * * * *
61388338 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACCAGATTGCAGGGAGGCT
1 CAGATATTATGACGAAGCCACCAGAACAGATATATATGGCGAAGCCACCAGATTGCAGCGAGGCT
61388403 GC
66 GC
61388405 CAGA
1 CAGA
61388409 GCGCTTCCTC
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
67 39 0.62
71 24 0.38
ACGTcount: A:0.32, C:0.22, G:0.28, T:0.18
Consensus pattern (67 bp):
CAGATATTATGACGAAGCCACCAGAACAGATATATATGGCGAAGCCACCAGATTGCAGCGAGGCT
GC
Found at i:61388386 original size:27 final size:26
Alignment explanation
Indices: 61388338--61388389 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
61388328 GCGAGGCTGC
*
61388338 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
61388364 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
61388390 TTGCAGGGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:61395917 original size:45 final size:46
Alignment explanation
Indices: 61395853--61396026 Score: 223
Period size: 45 Copynumber: 3.8 Consensus size: 46
61395843 TGTAACCCGC
61395853 CCATAAGTGAACTCGGACTCAACTCAACGAGTT-GGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
*
61395898 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C-A-TTCGCAT
* * * *
61395948 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
61395991 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
61396027 ATGCTCAACC
Statistics
Matches: 110, Mismatches: 9, Indels: 19
0.80 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 35 0.32
46 29 0.26
47 27 0.25
48 3 0.03
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
Found at i:61396019 original size:93 final size:92
Alignment explanation
Indices: 61395861--61396030 Score: 313
Period size: 93 Copynumber: 1.8 Consensus size: 92
61395851 GCCCATAAGT
* *
61395861 GAACTCGGACTCAACTCAACGAGTTGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGTTAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
61395926 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
61395953 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTT-AGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
61396018 CGAGTTCGGATGC
65 CGAGTTCGGATGC
61396031 TCAACCATCC
Statistics
Matches: 75, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
92 25 0.33
93 50 0.67
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGTTAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:61397316 original size:30 final size:29
Alignment explanation
Indices: 61397268--61397329 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 29
61397258 TCCTTTTCTC
* *
61397268 AAACTTTTGAAAAATTACATTTTTGCCCCT
1 AAACTTTTGAAAAATTACACTTTT-ACCCT
* * *
61397298 AAACTTTTGCATATTTACACTTTTACCCT
1 AAACTTTTGAAAAATTACACTTTTACCCT
61397327 AAA
1 AAA
61397330 TCTCGTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 7 0.26
30 20 0.74
ACGTcount: A:0.34, C:0.21, G:0.05, T:0.40
Consensus pattern (29 bp):
AAACTTTTGAAAAATTACACTTTTACCCT
Found at i:61401141 original size:46 final size:47
Alignment explanation
Indices: 61401035--61401156 Score: 147
Period size: 46 Copynumber: 2.6 Consensus size: 47
61401025 TGTCTTCGAC
** * *
61401035 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
* *
61401085 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
*
61401131 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
61401157 CTGTCCTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 34 0.53
50 30 0.47
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:61411521 original size:20 final size:20
Alignment explanation
Indices: 61411498--61411692 Score: 273
Period size: 20 Copynumber: 9.8 Consensus size: 20
61411488 GTGGACCTAC
*
61411498 TGATGGCTTTGTGCAGCTAT
1 TGATGGCTTTGTGCCGCTAT
61411518 TGATGGCTTTGTGCCGCTAT
1 TGATGGCTTTGTGCCGCTAT
*
61411538 TGATGGCTTTATGCCGCTAT
1 TGATGGCTTTGTGCCGCTAT
* *
61411558 TGATGGCTTTGTGCTGCTAC
1 TGATGGCTTTGTGCCGCTAT
61411578 TGATGGCTTTGTGCCGCTAT
1 TGATGGCTTTGTGCCGCTAT
61411598 TGATGGCTTTGTGCCGCTAT
1 TGATGGCTTTGTGCCGCTAT
* * *
61411618 TGACGGCTTCGTGCCACTAT
1 TGATGGCTTTGTGCCGCTAT
*
61411638 TGATGGCTTTGTACCGCTAT
1 TGATGGCTTTGTGCCGCTAT
* * *
61411658 TGATGGCTTCGTGCCTCTAC
1 TGATGGCTTTGTGCCGCTAT
* *
61411678 TCATGGGTTTGTGCC
1 TGATGGCTTTGTGCC
61411693 ATATACTGAT
Statistics
Matches: 154, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 154 1.00
ACGTcount: A:0.12, C:0.22, G:0.28, T:0.38
Consensus pattern (20 bp):
TGATGGCTTTGTGCCGCTAT
Found at i:61411731 original size:26 final size:26
Alignment explanation
Indices: 61411695--61411776 Score: 110
Period size: 26 Copynumber: 3.2 Consensus size: 26
61411685 TTTGTGCCAT
* *
61411695 ATACTGATACTGGCAACTTTGCTGCG
1 ATACTGTTACTGGCAGCTTTGCTGCG
*
61411721 TTACTGTTACTGGCAGCTTTGCTGCG
1 ATACTGTTACTGGCAGCTTTGCTGCG
* * *
61411747 ATATTATTACTGGCAGCTATGCTGCG
1 ATACTGTTACTGGCAGCTTTGCTGCG
61411773 ATAC
1 ATAC
61411777 CGGTGTGTTG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.21, C:0.22, G:0.23, T:0.34
Consensus pattern (26 bp):
ATACTGTTACTGGCAGCTTTGCTGCG
Found at i:61414286 original size:24 final size:24
Alignment explanation
Indices: 61414254--61414301 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
61414244 ATTGTCATAC
*
61414254 GATAAGAATTCTTTCTGAAACTAA
1 GATAAGAATTCTTTCTAAAACTAA
61414278 GATAAGAATTCTTTCTAAAACTAA
1 GATAAGAATTCTTTCTAAAACTAA
61414302 ATGGTCACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.33
Consensus pattern (24 bp):
GATAAGAATTCTTTCTAAAACTAA
Found at i:61417204 original size:43 final size:43
Alignment explanation
Indices: 61417138--61417283 Score: 136
Period size: 43 Copynumber: 3.4 Consensus size: 43
61417128 AGCTCGTACA
* * *
61417138 ATGCCAACATCGCAGAC-GTGGTCTTACATGTAATCAAATATTG
1 ATGCCAATATCCCAGACAG-GGTCTTACACGTAATCAAATATTG
* * * *
61417181 ATGCCACTATCCCAGACAGGGTCTTACACGAAATCATATA-CG
1 ATGCCAATATCCCAGACAGGGTCTTACACGTAATCAAATATTG
* **
61417223 ATGCCAATGTCCCAGACTTGGTCTTACACGTCAATCACAA-ATTG
1 ATGCCAATATCCCAGACAGGGTCTTACACGT-AATCA-AATATTG
**
61417267 ATGCCAACGTCCCAGAC
1 ATGCCAATATCCCAGAC
61417284 TATAATAATA
Statistics
Matches: 84, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
42 27 0.32
43 38 0.45
44 19 0.23
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (43 bp):
ATGCCAATATCCCAGACAGGGTCTTACACGTAATCAAATATTG
Found at i:61421494 original size:40 final size:40
Alignment explanation
Indices: 61421427--61421580 Score: 247
Period size: 40 Copynumber: 3.9 Consensus size: 40
61421417 ATTCAGATTG
*
61421427 ATAACCGGGCTAAG-CCCAAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
61421466 ATATCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
61421506 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
61421546 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
61421581 GAGCTATATC
Statistics
Matches: 104, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 13 0.12
40 91 0.88
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.22
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:61427083 original size:49 final size:49
Alignment explanation
Indices: 61426997--61427242 Score: 312
Period size: 49 Copynumber: 5.0 Consensus size: 49
61426987 GTAGCCGAAG
* * *
61426997 CTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAA
* * * *
61427046 TTATCCGGTATACGTAGTAGCCTGCACTTAGTACTACACACATGACCTAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AA
* * *
61427096 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA
* * * * * *
61427146 GTTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 -CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAA
*
61427196 CAATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
61427243 TCACAATAGC
Statistics
Matches: 164, Mismatches: 30, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 80 0.49
50 46 0.28
51 38 0.23
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAA
Found at i:61427924 original size:30 final size:30
Alignment explanation
Indices: 61427890--61427949 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
61427880 CTTTAATACG
61427890 AACTTTGGAAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGAAAAATTACAC-TTTTGCCCCTA
* * *
61427920 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
61427950 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:61435643 original size:34 final size:34
Alignment explanation
Indices: 61435600--61435672 Score: 103
Period size: 34 Copynumber: 2.1 Consensus size: 34
61435590 ATAATATGGA
*
61435600 CAGTCTGGGCCTAAGCCCA-TATTAGTAGCAATAT
1 CAGTGTGGGCCTAAGCCCATTATT-GTAGCAATAT
* *
61435634 CAGTGTGGGCCTTAGCCCATTATTGTAGCAGTAT
1 CAGTGTGGGCCTAAGCCCATTATTGTAGCAATAT
61435668 CAGTG
1 CAGTG
61435673 ATGCATACAG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
34 31 0.89
35 4 0.11
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.29
Consensus pattern (34 bp):
CAGTGTGGGCCTAAGCCCATTATTGTAGCAATAT
Found at i:61437678 original size:27 final size:27
Alignment explanation
Indices: 61437629--61437734 Score: 104
Period size: 27 Copynumber: 3.9 Consensus size: 27
61437619 CAAATTACTG
* * * *
61437629 AAGTACCCTCAAATTGTAAAATTACCA
1 AAGTACCCTCGATTTATAGAATTACCA
*
61437656 AAGTACCCTCGATTTATAGAATTACCG
1 AAGTACCCTCGATTTATAGAATTACCA
*** *
61437683 TTTTACCCTCGATTTACAGAATTACCA
1 AAGTACCCTCGATTTATAGAATTACCA
***
61437710 TTTTACCCTCGATTTATAGAATTAC
1 AAGTACCCTCGATTTATAGAATTAC
61437735 TGTTTTACCC
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 68 1.00
ACGTcount: A:0.34, C:0.23, G:0.09, T:0.34
Consensus pattern (27 bp):
AAGTACCCTCGATTTATAGAATTACCA
Found at i:61437690 original size:54 final size:54
Alignment explanation
Indices: 61437632--61437761 Score: 165
Period size: 54 Copynumber: 2.4 Consensus size: 54
61437622 ATTACTGAAG
61437632 TACCCTCAAATTGTA-A-AATTACCAAAGTACCCTCGATTTATAGAATTACCGTTT
1 TACCCTC-AATT-TACAGAATTACCAAAGTACCCTCGATTTATAGAATTACCGTTT
* *** *
61437686 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCAATTTACAGAATTACCAAAGTACCCTCGATTTATAGAATTACCGTTT
**
61437740 TACCCTTGATTTACAGAATTAC
1 TACCCTCAATTTACAGAATTAC
61437762 TGTTTTACCC
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
52 2 0.03
53 4 0.06
54 62 0.91
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.37
Consensus pattern (54 bp):
TACCCTCAATTTACAGAATTACCAAAGTACCCTCGATTTATAGAATTACCGTTT
Found at i:61437789 original size:27 final size:27
Alignment explanation
Indices: 61437659--61437789 Score: 190
Period size: 27 Copynumber: 4.9 Consensus size: 27
61437649 ATTACCAAAG
* *
61437659 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
**
61437686 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
61437713 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
61437740 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
61437767 TACCCTCGATTTCCAAAATTACT
1 TACCCTCGATTTACAGAATTACT
61437790 AAAATACCCT
Statistics
Matches: 94, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 94 1.00
ACGTcount: A:0.27, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:61437797 original size:27 final size:27
Alignment explanation
Indices: 61437767--61438013 Score: 241
Period size: 27 Copynumber: 9.2 Consensus size: 27
61437757 ATTACTGTTT
** *
61437767 TACCCTCGATTTCCAAAATTACTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
** **
61437794 TACCCTCGGCTTACAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* **
61437821 TACCCTTGATCAGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* * * *
61437848 TACCCTAG-TCTGTAAAATTGCTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* *
61437874 TACCCTTGGTTTGTAAAATTA-CAGAAA
1 TACCCTCGATTTGTAAAATTACCA-AAA
*
61437901 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
*
61437928 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTGTAAAATTACCAAAA
* * *
61437955 TACCACTAG-TTTGTGAAATTACCGAAA
1 TACC-CTCGATTTGTAAAATTACCAAAA
*
61437982 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
61438009 TACCC
1 TACCC
61438014 CTGATTTAAA
Statistics
Matches: 182, Mismatches: 31, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
26 27 0.15
27 152 0.84
28 3 0.02
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.29
Consensus pattern (27 bp):
TACCCTCGATTTGTAAAATTACCAAAA
Found at i:61437798 original size:54 final size:54
Alignment explanation
Indices: 61437686--61437817 Score: 147
Period size: 54 Copynumber: 2.4 Consensus size: 54
61437676 ATTACCGTTT
* * ****
61437686 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTAAAA
* ** *
61437740 TACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTCCAAAATTACTAAAA
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTAAAA
** *
61437794 TACCCTCGGCTTACAAAATTACCA
1 TACCCTCGATTTACAGAATTACCA
61437818 AAATACCCTT
Statistics
Matches: 62, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
54 62 1.00
ACGTcount: A:0.31, C:0.24, G:0.08, T:0.36
Consensus pattern (54 bp):
TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTAAAA
Found at i:61437825 original size:81 final size:81
Alignment explanation
Indices: 61437646--61437830 Score: 199
Period size: 81 Copynumber: 2.3 Consensus size: 81
61437636 CTCAAATTGT
* * * * *
61437646 AAAATTACCAAAGTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCAT
1 AAAATTACCAAAATACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAA
** * *
61437711 TTTACCCTCGATTTAT
66 AATACCCTCGACTTAC
* ***** * * *
61437727 AGAATTACTGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTCCAAAATTACTAA
1 AAAATTACCAAAATACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAA
*
61437792 AATACCCTCGGCTTAC
66 AATACCCTCGACTTAC
61437808 AAAATTACCAAAATACCCTTGAT
1 AAAATTACCAAAATACCCTTGAT
61437831 CAGTAAAATT
Statistics
Matches: 80, Mismatches: 24, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.33, C:0.23, G:0.09, T:0.35
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAA
AATACCCTCGACTTAC
Found at i:61438014 original size:81 final size:81
Alignment explanation
Indices: 61437781--61438015 Score: 294
Period size: 81 Copynumber: 2.9 Consensus size: 81
61437771 CTCGATTTCC
* ** * ** * ** **
61437781 AAAATTACTAAAATACCCTCGGCTTACAAAATTACCAAAATACCCTTGATCAGTAAAATTACCAA
1 AAAATTACCAAAATACCCTTAGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
61437846 AATA-CCCTAGTCTGT
66 AATACCCCTAGTCTGT
* * * *
61437861 AAAATTGCTAAAATACCCTTGGTTTGTAAAATTACAGAAATACCCTCAATTTGTAAAATTACCAA
1 AAAATTACCAAAATACCCTTAGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
*
61437926 AATACCCCTAGTTTGT
66 AATACCCCTAGTCTGT
*
61437942 AAAATTACCAAAATACCAC-TAGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCA
1 AAAATTACCAAAATACC-CTTAGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCA
61438006 AAATACCCCT
65 AAATACCCCT
61438016 GATTTAAAAA
Statistics
Matches: 136, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
80 58 0.43
81 77 0.57
82 1 0.01
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.29
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTTAGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
AATACCCCTAGTCTGT
Found at i:61438020 original size:27 final size:27
Alignment explanation
Indices: 61437808--61438054 Score: 206
Period size: 27 Copynumber: 9.1 Consensus size: 27
61437798 CTCGGCTTAC
* **
61437808 AAAATTACCAAAATACCCTTGATCAGT
1 AAAATTACCAAAATACCCCTGATTTGT
*
61437835 AAAATTACCAAAATA-CCCT-AGTCTGT
1 AAAATTACCAAAATACCCCTGA-TTTGT
* * * *
61437861 AAAATTGCTAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
*
61437888 AAAATTA-CAGAAATA-CCCTCAATTTGT
1 AAAATTACCA-AAATACCCCT-GATTTGT
61437915 AAAATTACCAAAATACCCCT-AGTTTGT
1 AAAATTACCAAAATACCCCTGA-TTTGT
*
61437942 AAAATTACCAAAATACCACT-AGTTTGT
1 AAAATTACCAAAATACCCCTGA-TTTGT
* * *
61437969 GAAATTACCGAAATA-CCCTCAATTTGT
1 AAAATTACCAAAATACCCCT-GATTTGT
*
61437996 AAAATTACCAAAATACCCCTGATTT-A
1 AAAATTACCAAAATACCCCTGATTTGT
* *
61438022 AAAAGTTA-CAGAAATACCCTTGACTTTCT
1 AAAA-TTACCA-AAATACCCCTGA-TTTGT
61438051 AAAA
1 AAAA
61438055 ATTATGGAAA
Statistics
Matches: 183, Mismatches: 22, Indels: 28
0.79 0.09 0.12
Matches are distributed among these distances:
25 1 0.01
26 34 0.19
27 130 0.71
28 14 0.08
29 4 0.02
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.29
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGATTTGT
Found at i:61438037 original size:81 final size:81
Alignment explanation
Indices: 61437833--61438039 Score: 271
Period size: 81 Copynumber: 2.6 Consensus size: 81
61437823 CCCTTGATCA
* * * * *
61437833 GTAAAATTACCAAAATA-CCCTAGTCTGTAAAATTGCTAAAATACC-CTTGGTTTGTAAAATTAC
1 GTAAAATTACCAAAATACCCCTAGTTTGAAAAATTACCAAAATACCAC-TAGTTTGTAAAATTAC
61437896 AGAAATACCCTCAATTT
65 AGAAATACCCTCAATTT
* * *
61437913 GTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCACTAGTTTGTGAAATTACC
1 GTAAAATTACCAAAATACCCCTAGTTTGAAAAATTACCAAAATACCACTAGTTTGTAAAATTACA
61437978 GAAATACCCTCAATTT
66 GAAATACCCTCAATTT
61437994 GTAAAATTACCAAAATACCCCT-GATTT-AAAAAGTTA-CAGAAATACC
1 GTAAAATTACCAAAATACCCCTAG-TTTGAAAAA-TTACCA-AAATACC
61438040 CTTGACTTTC
Statistics
Matches: 115, Mismatches: 7, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
80 24 0.21
81 90 0.78
82 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.29
Consensus pattern (81 bp):
GTAAAATTACCAAAATACCCCTAGTTTGAAAAATTACCAAAATACCACTAGTTTGTAAAATTACA
GAAATACCCTCAATTT
Found at i:61438091 original size:27 final size:27
Alignment explanation
Indices: 61438052--61438103 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
61438042 TGACTTTCTA
61438052 AAAATTATGGAAATACCATTGGTTTAC
1 AAAATTATGGAAATACCATTGGTTTAC
*
61438079 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TGGAAATACCATTGGTTT
61438104 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.35
Consensus pattern (27 bp):
AAAATTATGGAAATACCATTGGTTTAC
Found at i:61438248 original size:27 final size:26
Alignment explanation
Indices: 61438155--61438248 Score: 102
Period size: 27 Copynumber: 3.5 Consensus size: 26
61438145 ATACCCCTAT
* *
61438155 TAGGTAAAAAGATCGTAAAGCCCCTG
1 TAGGTAAAATGACCGTAAAGCCCCTG
61438181 TAAGGTAAAGA-GACCGTAAAGCCCCTG
1 T-AGGTAAA-ATGACCGTAAAGCCCCTG
*
61438208 TAGGGTAAAGTGACCGTAATA-CCCCTG
1 TA-GGTAAAATGACCGTAA-AGCCCCTG
61438235 TACGGTAAAATGAC
1 TA-GGTAAAATGAC
61438249 GAATATGCCC
Statistics
Matches: 59, Mismatches: 4, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
26 2 0.03
27 55 0.93
28 2 0.03
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.19
Consensus pattern (26 bp):
TAGGTAAAATGACCGTAAAGCCCCTG
Found at i:61439162 original size:51 final size:51
Alignment explanation
Indices: 61439049--61439898 Score: 1627
Period size: 51 Copynumber: 16.7 Consensus size: 51
61439039 GAGGAAGTGC
*
61439049 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
61439101 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
61439152 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
61439203 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
61439254 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
61439305 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
61439356 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
61439407 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
61439458 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
61439509 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
61439560 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
61439611 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
61439662 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
61439713 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
61439764 AAAAGGGCTTATGCCCTAGTTTATTG-AAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
61439815 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
*
61439866 AAAAGGGCTT-TGCCCCAG-TTATT-AAAAGAGGCT
1 AAAAGGGCTTATGCCCTAGTTTATTGAAAAG-GGCT
61439899 AGGCCTCTAG
Statistics
Matches: 793, Mismatches: 2, Indels: 9
0.99 0.00 0.01
Matches are distributed among these distances:
48 5 0.01
49 9 0.01
50 16 0.02
51 719 0.91
52 44 0.06
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.29
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:61440090 original size:42 final size:42
Alignment explanation
Indices: 61440031--61440122 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
61440021 TAGTCTCCCC
* * *
61440031 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGGCATTACATGTGATATTG
61440073 AAATGGGCTTGCATACATCCATTGGCATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGGCATTACATGTGATATTG
61440115 AAATGGGC
1 AAATGGGC
61440123 CTAAGGGCTA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGGCATTACATGTGATATTG
Found at i:61440184 original size:31 final size:31
Alignment explanation
Indices: 61440146--61440217 Score: 128
Period size: 31 Copynumber: 2.3 Consensus size: 31
61440136 CGTTTACAGT
61440146 AAAGGCTTCGGCCCCA-TGATATGATTTATGA
1 AAAGGCTTCGG-CCCAGTGATATGATTTATGA
61440177 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
61440208 AAAGGCTTCG
1 AAAGGCTTCG
61440218 ACCTAGTAAC
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
30 4 0.10
31 36 0.90
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:61446120 original size:11 final size:11
Alignment explanation
Indices: 61446104--61446128 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
61446094 CTTAATGCCT
61446104 TTTATTGATAA
1 TTTATTGATAA
61446115 TTTATTGATAA
1 TTTATTGATAA
61446126 TTT
1 TTT
61446129 TTACATTTTT
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:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (11 bp):
TTTATTGATAA
Found at i:61448654 original size:16 final size:17
Alignment explanation
Indices: 61448628--61448659 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
61448618 AAATAAGAAA
61448628 TAATAATTATAATAATT
1 TAATAATTATAATAATT
61448645 TAATAA-TATAATAAT
1 TAATAATTATAATAAT
61448660 ATATATGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATAATTATAATAATT
Found at i:61450505 original size:20 final size:20
Alignment explanation
Indices: 61450476--61450518 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
61450466 GGCCTGGCCC
61450476 CACAGCCATGTCCCAAGCCA
1 CACAGCCATGTCCCAAGCCA
* * *
61450496 CACAGGCATGTCCTAGGCCA
1 CACAGCCATGTCCCAAGCCA
61450516 CAC
1 CAC
61450519 GGGCGTGTGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.28, C:0.42, G:0.19, T:0.12
Consensus pattern (20 bp):
CACAGCCATGTCCCAAGCCA
Found at i:61452815 original size:108 final size:110
Alignment explanation
Indices: 61452671--61452868 Score: 303
Period size: 108 Copynumber: 1.8 Consensus size: 110
61452661 ATCCTTTTGA
* * *
61452671 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGGCTTACATGATAGCCTTGCCTTA-GAAACCTCACCAA
61452734 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* ** *
61452779 AACTTATCAATGCCATGTCTTGACATGGGCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGGCTTACATGATAGCCTTGCCTTAGAAACCTCACCAAT
61452844 TGCCATGCCTTGGCATGGTCTTACA
66 TGCCATGCCTTGGCATGGTCTTACA
61452869 CGGTATCCTT
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
107 1 0.01
108 47 0.59
109 7 0.09
110 25 0.31
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGGCTTACATGATAGCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:61452878 original size:55 final size:54
Alignment explanation
Indices: 61452624--61452878 Score: 260
Period size: 55 Copynumber: 4.8 Consensus size: 54
61452614 ACACGGGTAC
* *
61452624 CTTACC-ATTGCCATGACTTGTCATGGTCTTACATGGTATCCTT---TT-GAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* *
61452673 CTTACC-ATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATG-AA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAA
* * * *
61452726 CTCACCAA-TGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCC-T-TAGAAA
* * * * *
61452781 CTTATCAA-TGCCATGTCTTGACATGGGCTTACATGATTTCCTTGCCTTAGAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* *
61452834 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACACGGTATCCTT
1 -CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTT
61452879 AAACCCTAAT
Statistics
Matches: 170, Mismatches: 23, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
49 40 0.24
52 4 0.02
53 44 0.26
54 12 0.07
55 68 0.40
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (54 bp):
CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
Found at i:61458652 original size:16 final size:17
Alignment explanation
Indices: 61458626--61458657 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
61458616 AAATAAGAAA
61458626 TAATAATTATAATAATT
1 TAATAATTATAATAATT
61458643 TAATAA-TATAATAAT
1 TAATAATTATAATAAT
61458658 ATATATGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATAATTATAATAATT
Found at i:61460288 original size:20 final size:20
Alignment explanation
Indices: 61460263--61460307 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
61460253 GCCCCACGGC
*
61460263 CATGTCCCAAGCGACATGGG
1 CATGTCCCAAGCCACATGGG
*
61460283 CATGTCCCAGGCCACATGGG
1 CATGTCCCAAGCCACATGGG
61460303 CATGT
1 CATGT
61460308 GCCCCTATCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.22, C:0.31, G:0.29, T:0.18
Consensus pattern (20 bp):
CATGTCCCAAGCCACATGGG
Found at i:61462688 original size:45 final size:45
Alignment explanation
Indices: 61462621--61462840 Score: 286
Period size: 45 Copynumber: 5.0 Consensus size: 45
61462611 TATCGTACAG
* *
61462621 TACTATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCTTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
61462666 TAGTATTCGGGCTTTTGGGCCTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCTTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * *
61462711 TACTATTCGGGCTTTTGGGCCTAGGAGGCTATAATGTCGGTGAGA
1 TACTATTCGGGCTTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * * *
61462756 TACTATTCGAGCTTTCGAGCCTAGCTGGCTATAATGCCGGTGAAA
1 TACTATTCGGGCTTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
61462801 TGA-TA-TCGGGC-TTCGAGCCTAGCAGGCGA-AATGCCGGTGA
1 T-ACTATTCGGGCTTTTGAGCCTAGCAGGCTATAATGCCGGTGA
61462841 ATGAATTCGA
Statistics
Matches: 157, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
42 11 0.07
43 16 0.10
44 5 0.03
45 124 0.79
46 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.28
Consensus pattern (45 bp):
TACTATTCGGGCTTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:61466077 original size:27 final size:27
Alignment explanation
Indices: 61466047--61466197 Score: 151
Period size: 27 Copynumber: 5.6 Consensus size: 27
61466037 AAATTGTACA
* *
61466047 GCACTAAGGGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGATTTGACTATGTG
** *
61466074 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGATTTGACTATG-TG
* * **
61466101 GCACTAAGTGTGCGAATTGACCATACG
1 GCACTAAGTGTGCGATTTGACTATGTG
* * *
61466128 GCACTAAGAGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGA-TTTGACTATGTG
* *
61466156 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGATTTGACTATGTG
61466183 GCACTAAGTGTGCGA
1 GCACTAAGTGTGCGA
61466198 GATGATTATA
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
27 79 0.79
28 21 0.21
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (27 bp):
GCACTAAGTGTGCGATTTGACTATGTG
Found at i:61466160 original size:82 final size:81
Alignment explanation
Indices: 61466047--61466197 Score: 214
Period size: 82 Copynumber: 1.9 Consensus size: 81
61466037 AAATTGTACA
* * * *
61466047 GCACTAAGGGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGAGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
61466111 TGCGAATTGACCATACG
65 TGCGAATTGACCATACG
** *
61466128 GCACTAAGAGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGAGTGCGA-TCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
61466193 TGCGA
65 TGCGA
61466198 GATGATTATA
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
81 15 0.25
82 46 0.75
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (81 bp):
GCACTAAGAGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATACG
Found at i:61466203 original size:27 final size:27
Alignment explanation
Indices: 61466046--61466223 Score: 121
Period size: 27 Copynumber: 6.6 Consensus size: 27
61466036 TAAATTGTAC
* ** *
61466046 AGCACTAAGGGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAGATGAATATGT
* *
61466073 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAGATGAATATGT
*
61466099 ATGCACTAAGTGTGCGA-ATTGACCATACG-
1 A-GCACTAAGTGTGCGAGA-TGA--ATATGT
* * *
61466128 -GCACTAAGAGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGAG-ATGAATATGT
** * *
61466155 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAGATGAATATGT
* * *
61466182 GGCACTAAGTGTGCGAGATGATTATAT
1 AGCACTAAGTGTGCGAGATGAATATGT
*
61466209 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
61466224 GGCTCAATAT
Statistics
Matches: 120, Mismatches: 23, Indels: 16
0.75 0.14 0.10
Matches are distributed among these distances:
26 4 0.03
27 95 0.79
28 17 0.14
29 4 0.03
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.28
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGATGAATATGT
Found at i:61474136 original size:27 final size:27
Alignment explanation
Indices: 61474105--61474281 Score: 194
Period size: 27 Copynumber: 6.5 Consensus size: 27
61474095 TAAATTGTAC
61474105 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
61474132 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
** * *
61474158 ATGCACTAAGTGTGCGAACTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
61474186 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
61474214 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
61474241 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
61474268 AGCACTGAGTGTGC
1 AGCACTAAGTGTGC
61474282 AGACTCAATA
Statistics
Matches: 127, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.83
28 22 0.17
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:61474219 original size:82 final size:81
Alignment explanation
Indices: 61474106--61474256 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 81
61474096 AAATTGTACA
* *
61474106 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
61474170 TGCGAACTGACCATGCG
65 TGCGAACTGACCATGCG
** *
61474187 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
61474252 TGCGA
65 TGCGA
61474257 GTTGATTATA
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.24
82 47 0.75
83 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAACTGACCATGCG
Found at i:61475987 original size:399 final size:398
Alignment explanation
Indices: 61475247--61476032 Score: 1156
Period size: 399 Copynumber: 2.0 Consensus size: 398
61475237 TTATGGGTCG
61475247 TACCATATATGTACAGATTCCTCTCTGAGTCTAGTTTTCATAGAAACAAACGGCATCAGTATTGA
1 TACCATATATGTACAGATTCCTCTCTGAGTCTAGTTTTCATAGAAACAAACGGCATCAGTATTGA
* * * * * *
61475312 AGCCCCGTGCAGGGAGATATTCAAGTCGTAATGGGCAAAGGTCAGTGTAGTCGACCCCTGCAACT
66 AGCCCCGTACAGGGAGATATCCAAGTCGTAATGCGCAAAGGTCAGCGTAGTCGACCCCAGCAACA
* *
61475377 TGGGAGATTTTGACTAATAAACTGTACTAATTGGCCCAACCAAAAATTCTAGAAAAAAATACATA
131 TGGGAGACTTTGACTAATAAACTGTACTAATTGACCCAACCAAAAATTCTAGAAAAAAATACATA
*
61475442 GATGGGAACATGAGTCTAGTTTCTGGGAAAAATTACGAAACTGATTTTCGAGTTACGAAACTCAA
196 GATGGGAACATGAGTCTAGTTTCAGGGAAAAATTACGAAACTGATTTTCGAGTTACGAAACTCAA
*
61475507 GATATGATTTTTAAAACGACTAGTACACAGATTGGGCAGTGTCTGGAAAATAAATTTTATAAGGG
261 GATATGATTTTTAAAACGACTAGTACACAGATTGGACAGTGTCTGG-AAATAAATTTTATAAGGG
* *
61475572 GTTAAAGTCAGTTAACACCTCGTATTCGACTCCGGTGTCGGT-TTCGGGTTCGGGGTGTTACAAA
325 GTTAAAGTCAGTTAACACCTCGTATTCGACTCCGGCGACGGTCTT-GGGTTCGGGGTGTTACAAA
61475636 TTAGGAGTCA
389 TTAGGAGTCA
*
61475646 TACCATATATGTATAGATTCCTCTCTGAGTCTAG-TTTCTATAGAAACAAACGGCATCAGTATTG
1 TACCATATATGTACAGATTCCTCTCTGAGTCTAGTTTTC-ATAGAAACAAACGGCATCAGTATTG
* * * *
61475710 AAGCTCTGTACAGGGAGATATCCAGGTCGTAATGCGCAAAGGTCAGCGTAGTCGACCCCAGTAAC
65 AAGCCCCGTACAGGGAGATATCCAAGTCGTAATGCGCAAAGGTCAGCGTAGTCGACCCCAGCAAC
* **
61475775 ATGGGAGACTTTGACTAATAAACTGTACTAATTGACCCGACCAAAAATTCTAGAAAAAAATATGT
130 ATGGGAGACTTTGACTAATAAACTGTACTAATTGACCCAACCAAAAATTCTAGAAAAAAATACAT
* * * *
61475840 AGATGGGAATATGAGTCTAGTTTCAGGG-AAAATTCACGGAACTGGA-TTTCGAGTT-CCAGAGC
195 AGATGGGAACATGAGTCTAGTTTCAGGGAAAAATT-ACGAAACT-GATTTTCGAGTTACGA-AAC
* *
61475902 TCAAGATATGATTTTTAAAGCGACTAGTACGCAGATT-GACAGCTTGTCTGG-AA-AAATTTTAA
257 TCAAGATATGATTTTTAAAACGACTAGTACACAGATTGGACAG--TGTCTGGAAATAAATTTT-A
* * * *
61475964 TAAGTGGTTTGAAGTCTGTTAACACCTCGTGTTCGACTCCGGCGACGGTCTTGGGTTCGGGGTGT
319 TAAG-GGGTTAAAGTCAGTTAACACCTCGTATTCGACTCCGGCGACGGTCTTGGGTTCGGGGTGT
61476029 TACA
383 TACA
61476033 GGAAAAATGG
Statistics
Matches: 348, Mismatches: 30, Indels: 18
0.88 0.08 0.05
Matches are distributed among these distances:
397 7 0.02
398 23 0.07
399 307 0.88
400 11 0.03
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (398 bp):
TACCATATATGTACAGATTCCTCTCTGAGTCTAGTTTTCATAGAAACAAACGGCATCAGTATTGA
AGCCCCGTACAGGGAGATATCCAAGTCGTAATGCGCAAAGGTCAGCGTAGTCGACCCCAGCAACA
TGGGAGACTTTGACTAATAAACTGTACTAATTGACCCAACCAAAAATTCTAGAAAAAAATACATA
GATGGGAACATGAGTCTAGTTTCAGGGAAAAATTACGAAACTGATTTTCGAGTTACGAAACTCAA
GATATGATTTTTAAAACGACTAGTACACAGATTGGACAGTGTCTGGAAATAAATTTTATAAGGGG
TTAAAGTCAGTTAACACCTCGTATTCGACTCCGGCGACGGTCTTGGGTTCGGGGTGTTACAAATT
AGGAGTCA
Found at i:61476551 original size:46 final size:44
Alignment explanation
Indices: 61476474--61476578 Score: 124
Period size: 44 Copynumber: 2.3 Consensus size: 44
61476464 GAGACGAGAG
* * *
61476474 CATGTCTGGGACATGCGTCGGCCTCATGATGTAAGCCAGTGTAAGA
1 CATGTCTGGGACATGCATCAGCCTCATGATGT--GCCAGTATAAGA
*
61476520 CATGTCTGGGACATGCATCAG-CTACGA-GATGTGTCAGTATAAGA
1 CATGTCTGGGACATGCATCAGCCT-C-ATGATGTGCCAGTATAAGA
61476564 CATGTCTGGGACATG
1 CATGTCTGGGACATG
61476579 GCCTCAACTT
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
44 25 0.47
45 2 0.04
46 25 0.47
47 1 0.02
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.25
Consensus pattern (44 bp):
CATGTCTGGGACATGCATCAGCCTCATGATGTGCCAGTATAAGA
Found at i:61479788 original size:27 final size:27
Alignment explanation
Indices: 61479758--61479935 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
61479748 ATATTGAGTC
* * * *
61479758 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
61479785 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
61479812 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
61479840 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
61479867 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
61479894 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
61479921 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
61479936 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:61479897 original size:82 final size:81
Alignment explanation
Indices: 61479779--61479934 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
61479769 TGCTATATAA
* *
61479779 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
61479844 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
61479861 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
61479925 CACTTAGTGC
65 CACTTAGTGC
61479935 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:61487476 original size:27 final size:27
Alignment explanation
Indices: 61487446--61487623 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
61487436 ATATTGAGTC
* * * *
61487446 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
61487473 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
61487500 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
61487528 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
61487555 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
61487582 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
61487609 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
61487624 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:61487585 original size:82 final size:81
Alignment explanation
Indices: 61487467--61487622 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
61487457 TGCTATATAA
* *
61487467 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
61487532 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
61487549 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
61487613 CACTTAGTGC
65 CACTTAGTGC
61487623 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:61492320 original size:30 final size:31
Alignment explanation
Indices: 61492279--61492336 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
61492269 TTTTCGAGCC
61492279 TAGGGGAAAAATCATAATTCTG-CAAAGGTT
1 TAGGGGAAAAATCATAATTCTGCCAAAGGTT
* * *
61492309 TAGGGGCAAAATTATAATTTTGCCAAAG
1 TAGGGGAAAAATCATAATTCTGCCAAAG
61492337 TTTGAGTTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 19 0.79
31 5 0.21
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.28
Consensus pattern (31 bp):
TAGGGGAAAAATCATAATTCTGCCAAAGGTT
Found at i:61495028 original size:15 final size:15
Alignment explanation
Indices: 61495005--61495062 Score: 80
Period size: 15 Copynumber: 3.9 Consensus size: 15
61494995 GTATCGTATC
*
61495005 TTGGGTTTCTTTATT
1 TTGGATTTCTTTATT
61495020 TTGGATTTCTTTATT
1 TTGGATTTCTTTATT
* * *
61495035 TTGGGTTTCTCTATC
1 TTGGATTTCTTTATT
61495050 TTGGATTTCTTTA
1 TTGGATTTCTTTA
61495063 CTCGGTTATC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 37 1.00
ACGTcount: A:0.10, C:0.10, G:0.17, T:0.62
Consensus pattern (15 bp):
TTGGATTTCTTTATT
Found at i:61495039 original size:30 final size:30
Alignment explanation
Indices: 61495005--61495062 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
61494995 GTATCGTATC
* *
61495005 TTGGGTTTCTTTATTTTGGATTTCTTTATT
1 TTGGGTTTCTCTATCTTGGATTTCTTTATT
61495035 TTGGGTTTCTCTATCTTGGATTTCTTTA
1 TTGGGTTTCTCTATCTTGGATTTCTTTA
61495063 CTCGGTTATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.10, C:0.10, G:0.17, T:0.62
Consensus pattern (30 bp):
TTGGGTTTCTCTATCTTGGATTTCTTTATT
Found at i:61501886 original size:40 final size:40
Alignment explanation
Indices: 61501829--61501997 Score: 245
Period size: 40 Copynumber: 4.3 Consensus size: 40
61501819 GTACTTTAGG
*
61501829 CCCGGATATA-GTT-CCAGCACT-AAGCCTACGGGATTTAA
1 CCCGGATATACTTTACCAGCA-TGAAGCCTACGGGATTTAA
61501867 CCCGGATATACTTTACCAGCATGAAGCCTACGGGATTTAA
1 CCCGGATATACTTTACCAGCATGAAGCCTACGGGATTTAA
*
61501907 CCCGGATATACTTTACCAGCATGAAGCCTGCGGGATTTAA
1 CCCGGATATACTTTACCAGCATGAAGCCTACGGGATTTAA
* * * * *
61501947 CCCAGATATACATTACCAGCACGATGCCTGCGGGATTTAA
1 CCCGGATATACTTTACCAGCATGAAGCCTACGGGATTTAA
61501987 CCCGGATATAC
1 CCCGGATATAC
61501998 AATATATCAA
Statistics
Matches: 121, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
38 10 0.08
39 3 0.02
40 108 0.89
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CCCGGATATACTTTACCAGCATGAAGCCTACGGGATTTAA
Found at i:61503021 original size:131 final size:131
Alignment explanation
Indices: 61502846--61503109 Score: 510
Period size: 131 Copynumber: 2.0 Consensus size: 131
61502836 ATCAACATTT
* *
61502846 ACCACAATACCAATTTCTATTTATCTTCAATGCTGTACATACAAATACTTACACTCTCATATGCA
1 ACCACAATACCAATTTCCATTTATCTTCAATGCTGTACACACAAATACTTACACTCTCATATGCA
61502911 TACAATCCATTTAAGATCATTATATGACCCATTTAGCCCTAACCATTCAAGCTTAAACTTTCATA
66 TACAATCCATTTAAGATCATTATATGACCCATTTAGCCCTAACCATTCAAGCTTAAACTTTCATA
61502976 C
131 C
61502977 ACCACAATACCAATTTCCATTTATCTTCAATGCTGTACACACAAATACTTACACTCTCATATGCA
1 ACCACAATACCAATTTCCATTTATCTTCAATGCTGTACACACAAATACTTACACTCTCATATGCA
61503042 TACAATCCATTTAAGATCATTATATGACCCATTTAGCCCTAACCATTCAAGCTTAAACTTTCATA
66 TACAATCCATTTAAGATCATTATATGACCCATTTAGCCCTAACCATTCAAGCTTAAACTTTCATA
61503107 C
131 C
61503108 AC
1 AC
61503110 TCTTATCCAA
Statistics
Matches: 131, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
131 131 1.00
ACGTcount: A:0.35, C:0.27, G:0.05, T:0.33
Consensus pattern (131 bp):
ACCACAATACCAATTTCCATTTATCTTCAATGCTGTACACACAAATACTTACACTCTCATATGCA
TACAATCCATTTAAGATCATTATATGACCCATTTAGCCCTAACCATTCAAGCTTAAACTTTCATA
C
Found at i:61507425 original size:40 final size:39
Alignment explanation
Indices: 61507327--61507589 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
61507317 TCCTCGTTCA
* * * *
61507327 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
61507366 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
61507405 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
61507445 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
61507485 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
61507525 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
61507566 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
61507590 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:61507549 original size:120 final size:119
Alignment explanation
Indices: 61507327--61507589 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
61507317 TCCTCGTTCA
* * *
61507327 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
61507392 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
61507445 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
61507510 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
61507566 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
61507590 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:61507598 original size:41 final size:41
Alignment explanation
Indices: 61507521--61507598 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
61507511 TTTGTATCTC
* * *
61507521 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
61507562 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
61507599 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:61515376 original size:40 final size:40
Alignment explanation
Indices: 61515278--61515580 Score: 344
Period size: 40 Copynumber: 7.6 Consensus size: 40
61515268 TCCTCGTTCA
* * * * *
61515278 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
61515317 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
61515357 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
61515397 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
61515437 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * *
61515477 AAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGG-ATTTAATAACTCGCACG
** * * * *
61515517 AATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
61515557 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
61515581 CAGCATTCAA
Statistics
Matches: 235, Mismatches: 23, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
39 39 0.17
40 184 0.78
41 12 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:61515589 original size:41 final size:41
Alignment explanation
Indices: 61515512--61515589 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
61515502 TTTGTATCTC
* * *
61515512 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
61515553 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
61515590 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:61517674 original size:54 final size:54
Alignment explanation
Indices: 61517591--61518157 Score: 776
Period size: 54 Copynumber: 10.5 Consensus size: 54
61517581 TAGTATTATT
* * *
61517591 GAAATACCCCTTTAGGGTAGAATTACTAAAATACCCTTGTAAGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAAGGTAAAATTACC
* * * * *
61517645 AAAATACCACTTTAGGGTAGAATTACTAAAATACCCCTGTAAGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAAGGTAAAATTACC
* * *
61517699 AAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAAGGCAAAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAAGGTAAAATTACC
* * * *
61517753 GACATACCCCTATAAGGTAGAATTACTGAAATACCCCTGTAAGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAAGGTAAAATTACC
* * *
61517807 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGCAAAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAAGGTAAAATTACC
* * * *
61517861 GACATACCCCTATAAGGTAGAATTACTGAAATACCCCTGTAAGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAAGGTAAAATTACC
* * *
61517915 AAAATACCCCTATAGGGTAGAATTACTGAAATACCCCTGTAAGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAAGGTAAAATTACC
*
61517969 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAAGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAAGGTAAAATTACC
* * * * *
61518023 GAAATACCCATGTAGGATAGAATTACTAAAATACCCCTATAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAAGGTAAAATTACC
* * * *
61518077 GAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAAGGTA-AAATTACC
* *
61518132 GAGATA-CCCTCGTAGGGTAAAATTAC
1 GAAATACCCCT-GTAGGGTAGAATTAC
61518158 CATTTTGCCT
Statistics
Matches: 459, Mismatches: 52, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
54 434 0.95
55 25 0.05
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.25
Consensus pattern (54 bp):
GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAAGGTAAAATTACC
Found at i:61518158 original size:27 final size:27
Alignment explanation
Indices: 61517573--61518157 Score: 670
Period size: 27 Copynumber: 21.6 Consensus size: 27
61517563 AATCTCATAT
* * *
61517573 CTGTAGGCTAGTATTATTGAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* *
61517600 CTTTAGGGTAGAATTACTAAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* * ** *
61517627 TTGTAAGGTAGAATTACCAAAATACCA
1 CTGTAGGGTAGAATTACTGAAATACCC
* *
61517654 CTTTAGGGTAGAATTACTAAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* *
61517681 CTGTAAGGTAGAATTA-TCAAAATACCC
1 CTGTAGGGTAGAATTACT-GAAATACCC
*
61517708 CTGTAGGGTAGAATTACTAAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* * * *
61517735 CTGTAAGGCAAAATTACTGACATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* *
61517762 CTATAAGGTAGAATTACTGAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* * *
61517789 CTGTAAGGTAAAATTACCGAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
*
61517816 CTGTAGGGTAGAATTACTAAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* * *
61517843 CTGTAGGGCAAAATTACTGACATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* *
61517870 CTATAAGGTAGAATTACTGAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* * **
61517897 CTGTAAGGTAAAATTACCAAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
*
61517924 CTATAGGGTAGAATTACTGAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* * *
61517951 CTGTAAGGTAAAATTACCGAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
*
61517978 CTGTAGGGTAGAATTACTAAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* *
61518005 CTGTAAGGTAGAATTACCGAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* * *
61518032 ATGTAGGATAGAATTACTAAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* *
61518059 CTATAGGGTAGAATTACCGAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* *
61518086 TTGTAGGGTAGAAATACTGAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* *
61518113 CTGTAGGGTAGAAATTACCGAGATA-CC
1 CTGTAGGGTAG-AATTACTGAAATACCC
*
61518140 CTCGTAGGGTAAAATTAC
1 CT-GTAGGGTAGAATTAC
61518158 CATTTTGCCT
Statistics
Matches: 472, Mismatches: 82, Indels: 8
0.84 0.15 0.01
Matches are distributed among these distances:
26 1 0.00
27 452 0.96
28 19 0.04
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.25
Consensus pattern (27 bp):
CTGTAGGGTAGAATTACTGAAATACCC
Found at i:61518519 original size:22 final size:22
Alignment explanation
Indices: 61518491--61518541 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
61518481 TCGATGGCTC
61518491 TGTGCCAACCTAAATATGACTT
1 TGTGCCAACCTAAATATGACTT
*
61518513 TGTGCCAACCTAAATATGGCTT
1 TGTGCCAACCTAAATATGACTT
61518535 TGTGCCA
1 TGTGCCA
61518542 TCTTGACTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (22 bp):
TGTGCCAACCTAAATATGACTT
Found at i:61518752 original size:27 final size:26
Alignment explanation
Indices: 61518726--61518829 Score: 127
Period size: 27 Copynumber: 3.9 Consensus size: 26
61518716 TGTTAAGTGG
* *
61518726 CTTTGCCACATTATCTGTTTCTGGTGG
1 CTTTGCCACAATATCTG-TTCTGGTGA
*
61518753 CTATGCCACAAATATCTGTTCTGGTGA
1 CTTTGCCAC-AATATCTGTTCTGGTGA
* *
61518780 CTCTGTCACAATATCTGTATCTGGTGA
1 CTTTGCCACAATATCTGT-TCTGGTGA
*
61518807 CTTTGTCACAATATCTGTTCTGG
1 CTTTGCCACAATATCTGTTCTGG
61518830 CAGCCATGCT
Statistics
Matches: 69, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 14 0.20
27 48 0.70
28 7 0.10
ACGTcount: A:0.19, C:0.22, G:0.19, T:0.39
Consensus pattern (26 bp):
CTTTGCCACAATATCTGTTCTGGTGA
Found at i:61518956 original size:6 final size:6
Alignment explanation
Indices: 61518947--61519088 Score: 78
Period size: 6 Copynumber: 23.0 Consensus size: 6
61518937 TTGCATTTAC
* *
61518947 ATTCTG ATTCTG ATTCT- ATTACCTG GTAT-TG ATTCTG ATTCTG -TCACCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG AT-TCTG ATTCTG ATTCTG AT--TCTG
* * * * *
61518997 ATTCTG ATTCTG ATTTTG ATTCTG GTTCTG -TTACCTA ATACTG ATTCTT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
* * *
61519046 ATTTTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
61519089 TCACCTAATT
Statistics
Matches: 103, Mismatches: 19, Indels: 28
0.69 0.13 0.19
Matches are distributed among these distances:
5 8 0.08
6 82 0.80
7 8 0.08
8 4 0.04
9 1 0.01
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:61518979 original size:25 final size:25
Alignment explanation
Indices: 61518947--61519011 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
61518937 TTGCATTTAC
*
61518947 ATTCTGATTCTGATTCTATTACCTG
1 ATTCTGATTCTGATTCTATCACCTG
* *
61518972 GTAT-TGATTCTGATTCTGTCACCTG
1 AT-TCTGATTCTGATTCTATCACCTG
61518997 ATTCTGATTCTGATT
1 ATTCTGATTCTGATT
61519012 TTGATTCTGG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
24 1 0.03
25 32 0.94
26 1 0.03
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.48
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTATCACCTG
Found at i:61519016 original size:37 final size:37
Alignment explanation
Indices: 61518975--61519051 Score: 109
Period size: 37 Copynumber: 2.1 Consensus size: 37
61518965 TTACCTGGTA
* *
61518975 TTGATTCTGATTCTGTCACCTGATTCTGATTCTGATT
1 TTGATTCTGATTCTGTCACCTAATACTGATTCTGATT
* * *
61519012 TTGATTCTGGTTCTGTTACCTAATACTGATTCTTATT
1 TTGATTCTGATTCTGTCACCTAATACTGATTCTGATT
61519049 TTG
1 TTG
61519052 TCACCTAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.17, C:0.17, G:0.16, T:0.51
Consensus pattern (37 bp):
TTGATTCTGATTCTGTCACCTAATACTGATTCTGATT
Found at i:61519042 original size:25 final size:25
Alignment explanation
Indices: 61519013--61519076 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 25
61519003 ATTCTGATTT
* *
61519013 TGATTCTGGTTCTGTTACCTAATAC
1 TGATTCTGATTCTGTCACCTAATAC
* * *
61519038 TGATTCTTATTTTGTCACCTAATTC
1 TGATTCTGATTCTGTCACCTAATAC
61519063 TGATTCTGATTCTG
1 TGATTCTGATTCTG
61519077 ATTCTGATTC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (25 bp):
TGATTCTGATTCTGTCACCTAATAC
Found at i:61519054 original size:62 final size:62
Alignment explanation
Indices: 61518947--61519112 Score: 215
Period size: 62 Copynumber: 2.7 Consensus size: 62
61518937 TTGCATTTAC
* ** * *
61518947 ATTCTGATTCTGATTCTATTACCTGGTATTGATTCTGATTCTGTCACCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTGTTACCTAATACTGATTCTGATTCTGTCACCTAATTCTGATTCTG
* * * *
61519009 ATTTTGATTCTGGTTCTGTTACCTAATACTGATTCTTATTTTGTCACCTAATTCTGATTCTG
1 ATTCTGATTCTGATTCTGTTACCTAATACTGATTCTGATTCTGTCACCTAATTCTGATTCTG
* ** *
61519071 ATTCTGATTCTGATTCTGTCACCTAATTTTGATTTTGATTCT
1 ATTCTGATTCTGATTCTGTTACCTAATACTGATTCTGATTCT
61519113 CATTTTGATT
Statistics
Matches: 87, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
62 87 1.00
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.49
Consensus pattern (62 bp):
ATTCTGATTCTGATTCTGTTACCTAATACTGATTCTGATTCTGTCACCTAATTCTGATTCTG
Found at i:61519078 original size:37 final size:37
Alignment explanation
Indices: 61519037--61519124 Score: 122
Period size: 37 Copynumber: 2.4 Consensus size: 37
61519027 TTACCTAATA
* *
61519037 CTGATTCTTATTTTGTCACCTAATTCTGATTCTGATT
1 CTGATTCTGATTCTGTCACCTAATTCTGATTCTGATT
* *
61519074 CTGATTCTGATTCTGTCACCTAATTTTGATTTTGATT
1 CTGATTCTGATTCTGTCACCTAATTCTGATTCTGATT
* *
61519111 CTCATTTTGATTCT
1 CTGATTCTGATTCT
61519125 AGTTCTGATA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.18, C:0.18, G:0.11, T:0.52
Consensus pattern (37 bp):
CTGATTCTGATTCTGTCACCTAATTCTGATTCTGATT
Found at i:61530449 original size:47 final size:47
Alignment explanation
Indices: 61530357--61530609 Score: 182
Period size: 47 Copynumber: 5.3 Consensus size: 47
61530347 AGAGCCAATA
* ** *
61530357 TAAGACCATGTCTGGGACATGGCATCGGTGTAGA-GATGAGT-GCCAGTG
1 TAAGA-CATGTCTGGGACAT-GCATCAGCCTCGACGATGA-TAGCCAGTG
* * *
61530405 TAAGACATGTCTGGGACATGTATCGGCCTCGACGATTATAGCCAGTG
1 TAAGACATGTCTGGGACATGCATCAGCCTCGACGATGATAGCCAGTG
* * * * *
61530452 TAAGACATGTCTAGGACATGCATC-GACT--AAGTTTCG-T-GCTAGTG
1 TAAGACATGTCTGGGACATGCATCAGCCTCGACG-AT-GATAGCCAGTG
** * * *
61530496 TAAGACATGTCTGGGACATGCATCAGCACGTATAC-ACGAGAGCTAGTG
1 TAAGACATGTCTGGGACATGCATCAGC-C-TCGACGATGATAGCCAGTG
*
61530544 TAAGACCATGTCTGGGACATGGCATCAGCCTCGATGGA-GATAGCCAGTG
1 TAAGA-CATGTCTGGGACAT-GCATCAGCCTCGA-CGATGATAGCCAGTG
61530593 TAAGACCATGTCTGGGA
1 TAAGA-CATGTCTGGGA
61530610 TATGGTAGCA
Statistics
Matches: 167, Mismatches: 23, Indels: 29
0.76 0.11 0.13
Matches are distributed among these distances:
44 31 0.19
45 3 0.02
46 15 0.09
47 48 0.29
48 19 0.11
49 42 0.25
50 9 0.05
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (47 bp):
TAAGACATGTCTGGGACATGCATCAGCCTCGACGATGATAGCCAGTG
Found at i:61530562 original size:49 final size:49
Alignment explanation
Indices: 61530489--61530614 Score: 159
Period size: 49 Copynumber: 2.6 Consensus size: 49
61530479 TAAGTTTCGT
61530489 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAG-CACGTATACACGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACG-ATACA-GAGA
* ** *
61530537 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATGGAGATA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACGATACAGAGA
* *
61530586 GCCAGTGTAAGACCATGTCTGGGATATGG
1 GCTAGTGTAAGACCATGTCTGGGACATGG
61530615 TAGCAGAAAC
Statistics
Matches: 69, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
48 12 0.17
49 44 0.64
50 10 0.14
51 3 0.04
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (49 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACGATACAGAGA
Found at i:61551339 original size:43 final size:41
Alignment explanation
Indices: 61551237--61551349 Score: 111
Period size: 43 Copynumber: 2.7 Consensus size: 41
61551227 TGTGTTATCG
* * *
61551237 TGTAAGACCACGTCTGGGACGTTGGCATCATACTTGATTTCG
1 TGTAAGACCACGTCTGGGAAG-TGGCATCATACTTGATTACA
* * *
61551279 TGTAAAACC-CTGCCTGGGATAGTGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGA-AGTGGCATC-ATACTTGATTACA
*
61551322 TGTAAGACCACGTCTGGGACATTGGCAT
1 TGTAAGACCACGTCTGGGA-AGTGGCAT
61551350 TGTACAAACT
Statistics
Matches: 57, Mismatches: 10, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
41 1 0.02
42 22 0.39
43 33 0.58
44 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (41 bp):
TGTAAGACCACGTCTGGGAAGTGGCATCATACTTGATTACA
Found at i:61552211 original size:20 final size:21
Alignment explanation
Indices: 61552176--61552214 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
61552166 GATTTGGTTG
61552176 TAAAATGGTTGAGAATTTGGA
1 TAAAATGGTTGAGAATTTGGA
*
61552197 TAAAAT-GTTGTGAATTTG
1 TAAAATGGTTGAGAATTTG
61552215 ATGCTTGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.36, C:0.00, G:0.26, T:0.38
Consensus pattern (21 bp):
TAAAATGGTTGAGAATTTGGA
Found at i:61572758 original size:21 final size:22
Alignment explanation
Indices: 61572725--61572768 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
61572715 ATAAGATAAT
*
61572725 AAACATATTTAA-TAATACATGA
1 AAACATATGTAATTAATA-ATGA
61572747 AAACATA-GTAATTAATAATGA
1 AAACATATGTAATTAATAATGA
61572768 A
1 A
61572769 TTTTGAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (22 bp):
AAACATATGTAATTAATAATGA
Found at i:61572797 original size:20 final size:20
Alignment explanation
Indices: 61572761--61572798 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
61572751 ATAGTAATTA
*
61572761 ATAATGAATTTTGAAATAGT
1 ATAATGAATTTTAAAATAGT
61572781 ATAAT-AATTTATAAAATA
1 ATAATGAATTT-TAAAATA
61572799 CTAATTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (20 bp):
ATAATGAATTTTAAAATAGT
Found at i:61572940 original size:16 final size:15
Alignment explanation
Indices: 61572904--61572958 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
61572894 AATAATGTGA
61572904 ATAATAATATACATG
1 ATAATAATATACATG
*
61572919 AAAATATATATA-ATAG
1 ATAATA-ATATACAT-G
*
61572935 ATAATAATA-ATATG
1 ATAATAATATACATG
61572949 A-AATAATATA
1 ATAATAATATA
61572959 TTGTTAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
13 7 0.21
14 4 0.12
15 12 0.35
16 11 0.32
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (15 bp):
ATAATAATATACATG
Found at i:61573114 original size:77 final size:77
Alignment explanation
Indices: 61573016--61573355 Score: 655
Period size: 77 Copynumber: 4.4 Consensus size: 77
61573006 ATGTGATAAA
61573016 AATATAATATAATAAATAATAAGTAATAATATACGTTAAAATATATATATTAATATGATAATAGA
1 AATATAATATAATAAATAATAAGTAATAATATACGTTAAAATATATATATTAATATGATAATAGA
61573081 AAAATATGAAGT
66 AAAATATGAAGT
61573093 AATATAATATAATAAATAATAAGTAATAATATACGTTAAAATATATATATTAATATGATAATAGA
1 AATATAATATAATAAATAATAAGTAATAATATACGTTAAAATATATATATTAATATGATAATAGA
61573158 AAAATATGAAGT
66 AAAATATGAAGT
61573170 AATATAATATAATAAATAATAAGTAATAATATACGTTAAAATATATATATTAATATGATAATAGA
1 AATATAATATAATAAATAATAAGTAATAATATACGTTAAAATATATATATTAATATGATAATAGA
61573235 AAAATATGAAGT
66 AAAATATGAAGT
61573247 AATATAATATAATAAATAATAAGTAATAATATACGTTAAAATATATATATTAATATGATAATAGA
1 AATATAATATAATAAATAATAAGTAATAATATACGTTAAAATATATATATTAATATGATAATAGA
61573312 AAAATATGAAGT
66 AAAATATGAAGT
61573324 AATATAATATAATAAA-ATATAAGTAAATAATA
1 AATATAATATAATAAATA-ATAAGT-AATAATA
61573356 ATATAAAATA
Statistics
Matches: 261, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
76 1 0.00
77 253 0.97
78 7 0.03
ACGTcount: A:0.58, C:0.01, G:0.07, T:0.34
Consensus pattern (77 bp):
AATATAATATAATAAATAATAAGTAATAATATACGTTAAAATATATATATTAATATGATAATAGA
AAAATATGAAGT
Found at i:61573333 original size:5 final size:5
Alignment explanation
Indices: 61573323--61573394 Score: 60
Period size: 5 Copynumber: 14.4 Consensus size: 5
61573313 AAATATGAAG
* *
61573323 TAATA TAATA TAATA AAATA TAAGTA -AATAA TAATA TAAAA T-ATA TAATA
1 TAATA TAATA TAATA TAATA TAA-TA TAAT-A TAATA TAATA TAATA TAATA
* *
61573373 CATATA TAAAA TAATA T-ATA TA
1 TA-ATA TAATA TAATA TAATA TA
61573395 CAATTTAGAA
Statistics
Matches: 53, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
4 8 0.15
5 36 0.68
6 9 0.17
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (5 bp):
TAATA
Found at i:61573340 original size:53 final size:51
Alignment explanation
Indices: 61573016--61573344 Score: 187
Period size: 53 Copynumber: 6.4 Consensus size: 51
61573006 ATGTGATAAA
*
61573016 AATATAATATA-AT-AAATA-ATAAGTAATA--ATATACGTTAAAATATATATATT
1 AATATAATATAGATAAAATATATAAGTAATATGATATA-G--AAAA-ATATA-AGT
* * * *
61573067 AATATGATAATAGA-AAAATAT-GAAGTAATATAATATA-ATAAATAATAAGT
1 AATATAAT-ATAGATAAAATATATAAGTAATATGATATAGAAAAAT-ATAAGT
* *
61573117 -A-ATAATATACGTTAAAATATATATATTAATATGATAATAGAAAAATATGAAGT
1 AATATAATATA-GATAAAATATATA-AGTAATATGAT-ATAGAAAAATAT-AAGT
*
61573170 AATATAATATA-AT-AAATA-ATAAGTAATA--ATATACGTTAAAATATATATATT
1 AATATAATATAGATAAAATATATAAGTAATATGATATA-G--AAAA-ATATA-AGT
* * * *
61573221 AATATGATAATAGA-AAAATAT-GAAGTAATATAATATA-ATAAATAATAAGT
1 AATATAAT-ATAGATAAAATATATAAGTAATATGATATAGAAAAAT-ATAAGT
* *
61573271 -A-ATAATATACGTTAAAATATATATATTAATATGATAATAGAAAAATATGAAGT
1 AATATAATATA-GATAAAATATATA-AGTAATATGAT-ATAGAAAAATAT-AAGT
61573324 AATATAATATA-ATAAAATATA
1 AATATAATATAGATAAAATATA
61573345 AGTAAATAAT
Statistics
Matches: 217, Mismatches: 24, Indels: 72
0.69 0.08 0.23
Matches are distributed among these distances:
47 9 0.04
48 13 0.06
49 16 0.07
50 21 0.10
51 53 0.24
52 21 0.10
53 56 0.26
54 2 0.01
55 26 0.12
ACGTcount: A:0.58, C:0.01, G:0.07, T:0.34
Consensus pattern (51 bp):
AATATAATATAGATAAAATATATAAGTAATATGATATAGAAAAATATAAGT
Found at i:61573352 original size:20 final size:21
Alignment explanation
Indices: 61573323--61573390 Score: 59
Period size: 23 Copynumber: 3.1 Consensus size: 21
61573313 AAATATGAAG
61573323 TAATATAATATAATAAAATATA
1 TAATA-AATATAATAAAATATA
*
61573345 -AGTAAATAATAATATAAAATATA
1 TAATAAAT-AT-A-ATAAAATATA
*
61573368 TAATACATAT-ATAAAATAATA
1 TAATAAATATAATAAAAT-ATA
61573389 TA
1 TA
61573391 TATACAATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
20 10 0.26
21 10 0.26
22 1 0.03
23 12 0.32
24 5 0.13
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (21 bp):
TAATAAATATAATAAAATATA
Found at i:61573368 original size:25 final size:25
Alignment explanation
Indices: 61573206--61573394 Score: 85
Period size: 25 Copynumber: 7.4 Consensus size: 25
61573196 TAATATACGT
*
61573206 TAAAATATATATATTAATATGATAATA
1 TAAAATATATA-ATAAATAT-ATAATA
*
61573233 GAAAA-ATATGAAGTAATATAATATAATA
1 TAAAATATAT-AA-TAA-AT-ATATAATA
**
61573261 -AATAATA-AGTAAT-AATATA-CGT-
1 TAA-AATATA-TAATAAATATATAATA
*
61573283 TAAAATATATATATTAATATGATAATA
1 TAAAATATATA-ATAAATAT-ATAATA
*
61573310 GAAAA-ATATGAAGT-AATATA-ATATAA
1 TAAAATATAT-AA-TAAATATATA-AT-A
*
61573336 TAAAATATA-AGTAAATA-ATAATA
1 TAAAATATATAATAAATATATAATA
* *
61573359 TAAAATATATAATACATATATAAAA
1 TAAAATATATAATAAATATATAATA
*
61573384 TAATATATATA
1 TAAAATATATA
61573395 CAATTTAGAA
Statistics
Matches: 126, Mismatches: 13, Indels: 48
0.67 0.07 0.26
Matches are distributed among these distances:
22 6 0.05
23 16 0.13
24 19 0.15
25 27 0.21
26 22 0.17
27 19 0.15
28 13 0.10
29 4 0.03
ACGTcount: A:0.59, C:0.01, G:0.06, T:0.34
Consensus pattern (25 bp):
TAAAATATATAATAAATATATAATA
Found at i:61575368 original size:206 final size:206
Alignment explanation
Indices: 61575011--61575772 Score: 1123
Period size: 206 Copynumber: 3.7 Consensus size: 206
61575001 AAATCTGCTT
* * *
61575011 CTTCGATTTGTTCTCTGACAATACAAAGATGCCAAATCATCTTGGATTTGCTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCAC
* * * * * *
61575076 GCGAAAACCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCAATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
* * *
61575141 GGATCTGCTTCAGTCTAATCATCTGAAGGTTAGATTTGCTATGTGTCTGCCCTCCGTCGAATATG
131 GGATCTGCTTCAGTATAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTTGAATATG
61575206 GAGATGCCAAA
196 GAGATGCCAAA
61575217 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCAC
* * *
61575282 GTGAAAGCTAAATCAGCTATGAT-TTCAATTTGTTACTTGTAAACACAAGGATGCCAAATCATCT
66 GTGAAAGCCAAATCAGCTATG-TCTTCAATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCT
* * *
61575346 TGGATCTGCTTCAGTATAATCATCTGAAGGTTAGATCTGCCATGTGTCTGTCCTCCTTTGAATAT
130 TGGATCTGCTTCAGTATAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTTGAATAT
*
61575411 GGAGACGCCAAA
195 GGAGATGCCAAA
*
61575423 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTTCTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCAC
* * *
61575488 GTGAAAGCTAAATCAGCTATGAT-TTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCT
66 GTGAAAGCCAAATCAGCTATG-TCTTCAATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCT
* ** * ** * ** * *
61575552 TGGATCTACTTCAGTATAAAAACCTGAAGGCCAAATCTATTATGTATCTGCTCTCCGTTGAATAT
130 TGGATCTGCTTCAGTATAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTTGAATAT
61575617 GGAGATGCCAAA
195 GGAGATGCCAAA
* * * * *
61575629 CTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCTTAAGCAT
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCAC
*
61575694 GTGAAAGCCAAATCAGCTATGTCTTCAATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCAATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
61575759 GGATCTTGCTTCAG
131 GGATC-TGCTTCAG
61575773 CCAGATCTAC
Statistics
Matches: 505, Mismatches: 48, Indels: 5
0.91 0.09 0.01
Matches are distributed among these distances:
205 1 0.00
206 496 0.98
207 8 0.02
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (206 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCAATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
GGATCTGCTTCAGTATAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTTGAATATG
GAGATGCCAAA
Found at i:61576665 original size:1 final size:1
Alignment explanation
Indices: 61576661--61576726 Score: 60
Period size: 1 Copynumber: 66.0 Consensus size: 1
61576651 CTCTTCTCTC
* * * * * * * *
61576661 TTTTTATTTTTTTCTTTTTTTTTGTTTTTGTTTTTTGTTTTTTTTGTTTGTTTTTTTTCTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
61576726 T
1 T
61576727 GATTTTCGAA
Statistics
Matches: 49, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 49 1.00
ACGTcount: A:0.02, C:0.03, G:0.08, T:0.88
Consensus pattern (1 bp):
T
Found at i:61576701 original size:22 final size:22
Alignment explanation
Indices: 61576667--61576726 Score: 86
Period size: 22 Copynumber: 2.7 Consensus size: 22
61576657 TCTCTTTTTA
61576667 TTTTTTTCTTTTTTTTTGTTT-T
1 TTTTTTTC-TTTTTTTTGTTTGT
*
61576689 TGTTTTTTGTTTTTTTTGTTTGT
1 T-TTTTTTCTTTTTTTTGTTTGT
61576712 TTTTTTTCTTTTTTT
1 TTTTTTTCTTTTTTT
61576727 GATTTTCGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 26 0.76
23 8 0.24
ACGTcount: A:0.00, C:0.03, G:0.08, T:0.88
Consensus pattern (22 bp):
TTTTTTTCTTTTTTTTGTTTGT
Found at i:61576704 original size:26 final size:25
Alignment explanation
Indices: 61576667--61576725 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 25
61576657 TCTCTTTTTA
*
61576667 TTTTTTTCTTTTTTTTTGTTTTTGT
1 TTTTTTTCTTTTTGTTTGTTTTTGT
* *
61576692 TTTTTGTTTTTTTTGTTTGTTTTTTT
1 TTTTT-TTCTTTTTGTTTGTTTTTGT
61576718 TCTTTTTT
1 T-TTTTTT
61576726 TGATTTTCGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 5 0.17
26 20 0.69
27 4 0.14
ACGTcount: A:0.00, C:0.03, G:0.08, T:0.88
Consensus pattern (25 bp):
TTTTTTTCTTTTTGTTTGTTTTTGT
Found at i:61585537 original size:79 final size:80
Alignment explanation
Indices: 61585393--61585608 Score: 260
Period size: 79 Copynumber: 2.7 Consensus size: 80
61585383 AAATCACGTA
* * ** * * **
61585393 CCTTCGGAATTTAA-CCGGATATAGCAACTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAG
1 CCTTCGGAACTTAACCCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGAATATAG
61585457 TAACTCGCACAAATG
66 TAACTCGCACAAATG
* *
61585472 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCAGAAT-TA
1 CCTTCGGAACTTAACCCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCC-GAATATA
61585535 GTAACTCGCACAAATG
65 GTAACTCGCACAAATG
* * * *
61585551 CCTTCGGAACTTAACCCGGATATGGTCACTTAGCA-CAAAGCCTTCGGGACTTAGCCCG
1 CCTTCGGAACTTAACCCGGATATAGTAAC-TCGCACCAATGCCTTCGGGACTTAGCCCG
61585609 GACATCATTC
Statistics
Matches: 117, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
79 75 0.64
80 42 0.36
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
CCTTCGGAACTTAACCCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGAATATAG
TAACTCGCACAAATG
Found at i:61585610 original size:40 final size:40
Alignment explanation
Indices: 61585407--61585610 Score: 243
Period size: 40 Copynumber: 5.1 Consensus size: 40
61585397 CGGAATTTAA
* ** *
61585407 CCGGATATAGCAACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
61585447 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
61585487 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
61585526 CCAGA-ATTAGTAACTCGCACAAATGCCTTCGGAACTTAAC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
61585566 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
61585606 CCGGA
1 CCGGA
61585611 CATCATTCNN
Statistics
Matches: 139, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
39 33 0.24
40 97 0.70
41 9 0.06
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:61592873 original size:39 final size:40
Alignment explanation
Indices: 61592828--61592991 Score: 109
Period size: 40 Copynumber: 4.1 Consensus size: 40
61592818 CGGGGTTTAG
* * *
61592828 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
61592867 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
61592907 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
*** * *
61592947 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
61592987 CCGGA
1 CCGGA
61592992 CATCATTCAA
Statistics
Matches: 106, Mismatches: 15, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 76 0.72
41 12 0.11
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:61592898 original size:40 final size:40
Alignment explanation
Indices: 61592851--61592991 Score: 196
Period size: 40 Copynumber: 3.5 Consensus size: 40
61592841 CTCGCACAAG
* * *
61592851 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATGGTCACTAGCACAAAT
* *
61592891 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATGGTCACTAGCACAAAT
*
61592931 GCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-
1 GCCTTCGGGA-CTTAGCCCGGATATGGTCAC-TAGCACAAAT
61592971 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAGCCCGGA
61592992 CATCATTCAA
Statistics
Matches: 89, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
39 3 0.03
40 74 0.83
41 12 0.13
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATGGTCACTAGCACAAAT
Found at i:61600563 original size:21 final size:22
Alignment explanation
Indices: 61600530--61600573 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
61600520 ATAAGATAAT
*
61600530 AAACATATTTAA-TAATACATGA
1 AAACATATGTAATTAATA-ATGA
61600552 AAACATA-GTAATTAATAATGA
1 AAACATATGTAATTAATAATGA
61600573 A
1 A
61600574 TTTTGAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (22 bp):
AAACATATGTAATTAATAATGA
Found at i:61600744 original size:16 final size:15
Alignment explanation
Indices: 61600708--61600762 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
61600698 AATAATGTGA
61600708 ATAATAATATACATG
1 ATAATAATATACATG
*
61600723 AAAATATATATA-ATAG
1 ATAATA-ATATACAT-G
*
61600739 ATAATAATA-ATATG
1 ATAATAATATACATG
61600753 A-AATAATATA
1 ATAATAATATA
61600763 TTGTTAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
13 7 0.21
14 4 0.12
15 12 0.35
16 11 0.32
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (15 bp):
ATAATAATATACATG
Found at i:61600901 original size:5 final size:5
Alignment explanation
Indices: 61600891--61600962 Score: 51
Period size: 5 Copynumber: 14.4 Consensus size: 5
61600881 AAATATGAAG
* * *
61600891 TAATA TAATA TAATA AAATA TAAGTA -AATAA TAATA TAAAA T-ATA CAATA
1 TAATA TAATA TAATA TAATA TAA-TA TAAT-A TAATA TAATA TAATA TAATA
* *
61600941 CATATA TAAAA TAATA T-ATA TA
1 TA-ATA TAATA TAATA TAATA TA
61600963 CAATTTAAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
4 7 0.13
5 37 0.70
6 9 0.17
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.33
Consensus pattern (5 bp):
TAATA
Found at i:61600920 original size:20 final size:21
Alignment explanation
Indices: 61600892--61600953 Score: 56
Period size: 23 Copynumber: 2.9 Consensus size: 21
61600882 AATATGAAGT
61600892 AATATAATATAATAAAATATA-
1 AATA-AATATAATAAAATATAC
*
61600913 AGTAAATAATAATATAAAATATAC
1 AATAAAT-AT-A-ATAAAATATAC
*
61600937 AATACATAT-ATAAAATA
1 AATAAATATAATAAAATA
61600954 ATATATATAC
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
20 11 0.32
21 5 0.15
22 1 0.03
23 12 0.35
24 5 0.15
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.31
Consensus pattern (21 bp):
AATAAATATAATAAAATATAC
Found at i:61600921 original size:23 final size:24
Alignment explanation
Indices: 61600853--61600935 Score: 80
Period size: 26 Copynumber: 3.4 Consensus size: 24
61600843 TGGTATATGT
* * *
61600853 TAAAATATATATTAATTTGATAATA
1 TAAAATATA-AGTAATATAATAATA
*
61600878 GAAAAATATGAAGTAATATAAT-ATAA
1 -TAAAATAT-AAGTAATATAATAAT-A
61600904 TAAAATATAAGTAA-ATAATAATA
1 TAAAATATAAGTAATATAATAATA
61600927 TAAAATATA
1 TAAAATATA
61600936 CAATACATAT
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
23 15 0.31
24 8 0.16
25 9 0.18
26 16 0.33
27 1 0.02
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (24 bp):
TAAAATATAAGTAATATAATAATA
Found at i:61600985 original size:25 final size:26
Alignment explanation
Indices: 61600949--61600999 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
61600939 TACATATATA
*
61600949 AAATAATATATATACAA-TTTAAAAT
1 AAATAATATATAAACAATTTTAAAAT
*
61600974 AAATAAGT-TATAAATAATTTTAAAAT
1 AAATAA-TATATAAACAATTTTAAAAT
61601000 GGATAAAGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (26 bp):
AAATAATATATAAACAATTTTAAAAT
Found at i:61608551 original size:40 final size:40
Alignment explanation
Indices: 61608482--61608727 Score: 395
Period size: 40 Copynumber: 6.2 Consensus size: 40
61608472 AACCCAAGTA
* * *
61608482 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
61608521 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
61608561 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* * *
61608601 CCTTCGGGACTTAGCCCAGATATGGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
61608641 CCTTCGGGCCTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
61608681 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
61608721 CCTTCGG
1 CCTTCGG
61608728 ATCTTATTCC
Statistics
Matches: 194, Mismatches: 12, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
39 13 0.07
40 181 0.93
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Done.