Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 173 of 320
Found at i:57195939 original size:82 final size:81
Alignment explanation
Indices: 57195821--57195976 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
57195811 TGCTATATAA
* *
57195821 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
57195886 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
57195903 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
57195967 CACTTAGTGC
65 CACTTAGTGC
57195977 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:57211275 original size:27 final size:27
Alignment explanation
Indices: 57211245--57211422 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
57211235 ATATTGAGCC
* * *
57211245 CGCACACTCAGTGCTATATAATCATCT
1 CGCACACTTAGTGCTACATAATCAACT
* *
57211272 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
57211299 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
57211327 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
57211354 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
57211381 CGCACACTTAGTGCAACATAGTCAAAC-
1 CGCACACTTAGTGCTACATAATC-AACT
57211408 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
57211423 GTACAATTTA
Statistics
Matches: 127, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
27 102 0.80
28 25 0.20
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:57211384 original size:82 final size:81
Alignment explanation
Indices: 57211271--57211421 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 81
57211261 TATAATCATC
* *
57211271 TCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAAC-CGCACACTT
57211336 AGTGCCGCATGGTCAAT
65 AGTGCCGCATGGTCAAT
* **
57211353 TCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAACCGCACACTT
1 TCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAACCGCACACTT
57211417 AGTGC
65 AGTGC
57211422 TGTACAATTT
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.26
Consensus pattern (81 bp):
TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAACCGCACACTTA
GTGCCGCATGGTCAAT
Found at i:57211912 original size:2 final size:2
Alignment explanation
Indices: 57211905--57211938 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
57211895 CATACTTGTG
* *
57211905 TA TA TA TA CA TA TA TA TG TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
57211939 CTTCGGAATG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:57214723 original size:46 final size:46
Alignment explanation
Indices: 57214623--57214834 Score: 177
Period size: 46 Copynumber: 4.6 Consensus size: 46
57214613 GTGCCGACGC
* * * * *
57214623 CATGTCCCAGACATGGTCTTACACT-G-ACACATTTCGTA-GTCGGTG
1 CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTCG-AGGCCGATG
*
57214668 CAT-TCCCCAGACATGTCTTACACTAGCT-TACATCTCGAGGCCCATG
1 CATGT-CCCAGACATGTCTTACACTAGCTCT-CATCTCGAGGCCGATG
* * *
57214714 CATGTCCCAGACATGTCTTACACT-GACTCTCGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAG-CTCTCATCTCGAGGCCGATG
* * * *
57214760 CCATTTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCTCTCAT-CTCGAGGCCGATG
*
57214808 CATGTCCCAGAGATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
57214835 ACACAAATAA
Statistics
Matches: 136, Mismatches: 19, Indels: 23
0.76 0.11 0.13
Matches are distributed among these distances:
44 11 0.08
45 15 0.11
46 58 0.43
47 27 0.20
48 23 0.17
49 2 0.01
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCGAGGCCGATG
Found at i:57217372 original size:36 final size:36
Alignment explanation
Indices: 57217325--57217394 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
57217315 TTGATTGTGA
57217325 ATACTTCTTTACAATAAATTTGCACGAAATACCTGG
1 ATACTTCTTTACAATAAATTTGCACGAAATACCTGG
* *
57217361 ATACTTCTTTACAATAAATTTGTATGAAATACCT
1 ATACTTCTTTACAATAAATTTGCACGAAATACCT
57217395 CTTTCCTACA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (36 bp):
ATACTTCTTTACAATAAATTTGCACGAAATACCTGG
Found at i:57226109 original size:140 final size:140
Alignment explanation
Indices: 57225857--57226119 Score: 499
Period size: 140 Copynumber: 1.9 Consensus size: 140
57225847 AGGTGCTCTA
*
57225857 TCTGACTTGTACACACGGCCATGCCATATGCCTGTGTGCTGGGTCGTGTGGTTAATTAATTCAAT
1 TCTGACTTGTACACACAGCCATGCCATATGCCTGTGTGCTGGGTCGTGTGGTTAATTAATTCAAT
*
57225922 TCGAAATTAGGTGTAGGTTTCATACGGCCAAGACACTTCCTTGTGTTGGAGGTCGTGTTCGGCCC
66 TCGAAATTAGGTGTAGGTTTCATACGGCCAAGACACTTCCTTGTGTTGGAGGCCGTGTTCGGCCC
57225987 TGTGTAACTC
131 TGTGTAACTC
57225997 TCTGACTTGTACACACAGCCATGCCATATGCCTGTGTGCTGGGTCGTGTGGTTAATTAATTCAAT
1 TCTGACTTGTACACACAGCCATGCCATATGCCTGTGTGCTGGGTCGTGTGGTTAATTAATTCAAT
*
57226062 TCGAAATTAGGTGTAGGTTTCATACGGCCAAGACACTTGCTTGTGTTGGAGGCCGTGT
66 TCGAAATTAGGTGTAGGTTTCATACGGCCAAGACACTTCCTTGTGTTGGAGGCCGTGT
57226120 GGCACGCATG
Statistics
Matches: 120, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
140 120 1.00
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.33
Consensus pattern (140 bp):
TCTGACTTGTACACACAGCCATGCCATATGCCTGTGTGCTGGGTCGTGTGGTTAATTAATTCAAT
TCGAAATTAGGTGTAGGTTTCATACGGCCAAGACACTTCCTTGTGTTGGAGGCCGTGTTCGGCCC
TGTGTAACTC
Found at i:57227853 original size:20 final size:20
Alignment explanation
Indices: 57227805--57227856 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
57227795 ACTTTCCAGC
*
57227805 ACATCTATTCATAAAATTTT
1 ACATCTTTTCATAAAATTTT
* *
57227825 AGAAT-TTTTCATCAAATTTT
1 A-CATCTTTTCATAAAATTTT
57227845 ACATCTTTTCAT
1 ACATCTTTTCAT
57227857 TTTTGTCCCT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 2 0.08
20 22 0.85
21 2 0.08
ACGTcount: A:0.35, C:0.15, G:0.02, T:0.48
Consensus pattern (20 bp):
ACATCTTTTCATAAAATTTT
Found at i:57231193 original size:15 final size:15
Alignment explanation
Indices: 57231173--57231202 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
57231163 TCCTTCTTCT
57231173 TTACAAATAGAAGCA
1 TTACAAATAGAAGCA
57231188 TTACAAATAGAAGCA
1 TTACAAATAGAAGCA
57231203 GCGCAGCCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.13, G:0.13, T:0.20
Consensus pattern (15 bp):
TTACAAATAGAAGCA
Found at i:57235821 original size:55 final size:55
Alignment explanation
Indices: 57235734--57235990 Score: 261
Period size: 55 Copynumber: 4.8 Consensus size: 55
57235724 ATTAGGGTTT
*
57235734 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGTTTCTAAGGC
* * * * * * *
57235789 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGATACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGT-TTCTAAGGC
* *
57235844 AAAGG-T-CTCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGC
1 -AAGGATAC-CATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGTTTC-TAAGGC
*
57235897 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAA-GTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGTTTCTAAGGC
* * *
57235946 AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAGGT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGT
57235991 AGCTGTGTAT
Statistics
Matches: 170, Mismatches: 23, Indels: 23
0.79 0.11 0.11
Matches are distributed among these distances:
49 39 0.23
50 2 0.01
52 7 0.04
53 37 0.22
54 14 0.08
55 67 0.39
56 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.21
Consensus pattern (55 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGTTTCTAAGGC
Found at i:57238786 original size:21 final size:21
Alignment explanation
Indices: 57238760--57238802 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
57238750 GTGTGGCTAG
*
57238760 CCCGTGTGCCCTCAAAATGGT
1 CCCGTGTGCCCTAAAAATGGT
57238781 CCCGTGTGCCCTAAAAATGGT
1 CCCGTGTGCCCTAAAAATGGT
57238802 C
1 C
57238803 ATACATACCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.21, C:0.33, G:0.23, T:0.23
Consensus pattern (21 bp):
CCCGTGTGCCCTAAAAATGGT
Found at i:57244982 original size:40 final size:40
Alignment explanation
Indices: 57244888--57245032 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
57244878 TACTCGAATG
* * *
57244888 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTCCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTGACT
* *
57244929 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGTGACT
* *
57244969 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
57245009 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
57245033 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.68
41 27 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:57249969 original size:45 final size:45
Alignment explanation
Indices: 57249918--57250007 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 45
57249908 TTGATATTAT
*
57249918 GTGATATATGTG-AGAAATCCGAACTTGTTGAGTTGGCCCAAGTTC
1 GTGATATATGTGAAG-AATCCGAACTCGTTGAGTTGGCCCAAGTTC
* * * *
57249963 GTGATATATGTGAAGCATCCGAGCTCGTTGAGTTGGTCCGAGTTC
1 GTGATATATGTGAAGAATCCGAACTCGTTGAGTTGGCCCAAGTTC
57250008 ATTATGGATG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
45 37 0.95
46 2 0.05
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (45 bp):
GTGATATATGTGAAGAATCCGAACTCGTTGAGTTGGCCCAAGTTC
Found at i:57252923 original size:40 final size:40
Alignment explanation
Indices: 57252818--57253082 Score: 277
Period size: 40 Copynumber: 6.7 Consensus size: 40
57252808 GCTCCTCGTT
* * * *
57252818 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * **
57252858 C-AATGCCTTCGGGACATAACTCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
57252897 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
57252937 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
57252977 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
57253017 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
57253058 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
57253083 CAGCATTCAA
Statistics
Matches: 195, Mismatches: 24, Indels: 12
0.84 0.10 0.05
Matches are distributed among these distances:
39 38 0.19
40 142 0.73
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:57253042 original size:80 final size:80
Alignment explanation
Indices: 57252785--57253082 Score: 254
Period size: 80 Copynumber: 3.7 Consensus size: 80
57252775 AAATCACGTA
* ** * * *
57252785 CCTTCGGGATTTAA-CCGGATATAGCTC-CTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTTT
1 CCTTCGGGACTTAACCCGGATATAG-TCACTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
57252847 AGTAACTCACAC-AATG
64 AATAACTCGCACAAATG
* * * * *
57252863 CCTTCGGGACATAACTCGGATTTA-ACAACTCGCACGAATGCCTTCGGGACTTAACCCGG-ATTT
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTT
*
57252926 AATAACTCGCACGAATG
64 AATAACTCGCACAAATG
* *
57252943 CCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT
1 CCTTCGGGACTTAACCCGGATATAGTCA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
57253007 -GTATCTCGCACAAATG
64 AATAACTCGCACAAATG
** * * *
57253023 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTCAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
57253083 CAGCATTCAA
Statistics
Matches: 180, Mismatches: 28, Indels: 22
0.78 0.12 0.10
Matches are distributed among these distances:
77 1 0.01
78 12 0.07
79 49 0.27
80 105 0.58
81 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAA
TAACTCGCACAAATG
Found at i:57253091 original size:41 final size:41
Alignment explanation
Indices: 57253014--57253091 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
57253004 TTTGTATCTC
* * *
57253014 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
57253055 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
57253092 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:57263325 original size:40 final size:40
Alignment explanation
Indices: 57263233--57263375 Score: 153
Period size: 40 Copynumber: 3.5 Consensus size: 40
57263223 CTCGAATGAT
* * *
57263233 ATCCGGGCTAAGTCCCAAAGGCTTTTGTGCTAAGCGACTAC
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACTAA
* *
57263274 ATCCAGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACTAA
1 ATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACTAA
* * * * *
57263314 ATCCGGGCTAAGTCCCGATGGCATTTATGCTAGTGACCAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACTAA
* *
57263354 ATCCGGGTTAAGACCCGAAGGC
1 ATCCGGGCTAAGTCCCGAAGGC
57263376 CTTGTGCGAG
Statistics
Matches: 85, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
39 1 0.01
40 58 0.68
41 25 0.29
42 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACTAA
Found at i:57284936 original size:47 final size:47
Alignment explanation
Indices: 57284849--57285055 Score: 155
Period size: 47 Copynumber: 4.5 Consensus size: 47
57284839 GTCGATGTCG
* *
57284849 TGTCCCAGACA-GGTTTTACACTGA---CACATGTCAAGCCGATGCCA
1 TGTCCCAGACATGGTCTTACACT-ATCTCACATATCAAGCCGATGCCA
* *
57284893 TGTCCTAGACATGGTCTTACACTATCTCACATATCAAGTCGATGCCA
1 TGTCCCAGACATGGTCTTACACTATCTCACATATCAAGCCGATGCCA
* *
57284940 TGTCCCAGACATGGTCTTACACTGA-CT-ATCATCATCGAGGCCGATG-CG
1 TGTCCCAGACATGGTCTTACACT-ATCTCA-CAT-ATC-AAGCCGATGCCA
* * * * * ** *
57284988 TGTCCTAGACA-CGTCTTACACTAGCACTCATCCCAATACCGATG-CA
1 TGTCCCAGACATGGTCTTACACTATCTCACATATCAA-GCCGATGCCA
*
57285034 TGTCCCAAACAT-GTCTTACACT
1 TGTCCCAGACATGGTCTTACACT
57285056 GGCTTTCACT
Statistics
Matches: 132, Mismatches: 19, Indels: 22
0.76 0.11 0.13
Matches are distributed among these distances:
44 11 0.08
45 11 0.08
46 29 0.22
47 59 0.45
48 15 0.11
49 7 0.05
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.26
Consensus pattern (47 bp):
TGTCCCAGACATGGTCTTACACTATCTCACATATCAAGCCGATGCCA
Found at i:57288475 original size:40 final size:40
Alignment explanation
Indices: 57288409--57288589 Score: 240
Period size: 40 Copynumber: 4.5 Consensus size: 40
57288399 TATTCGGATG
* * *
57288409 ATATCCGGGCTAAGTCCTGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * * *
57288449 ATACCCGGGCTAAGTCCCAAAAGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
57288489 ATATCCGGGCTAAATCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
57288529 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
57288569 ATATCC-GGCTAAGTCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
57288590 ATACTTGGGT
Statistics
Matches: 122, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
39 14 0.11
40 106 0.87
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:57288856 original size:22 final size:22
Alignment explanation
Indices: 57288816--57288857 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
57288806 GAATGTGCAT
*
57288816 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
57288838 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
57288858 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:57293402 original size:40 final size:40
Alignment explanation
Indices: 57293303--57293533 Score: 331
Period size: 40 Copynumber: 5.8 Consensus size: 40
57293293 TGGATGAAAA
* * * * **
57293303 CCGGGCTAAGTCCCGAAGGCATCTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
57293343 TCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
57293382 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
57293422 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
57293462 CCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* *
57293502 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
57293534 AGCTATATCC
Statistics
Matches: 174, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 32 0.18
40 140 0.80
41 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:57300041 original size:40 final size:40
Alignment explanation
Indices: 57299982--57300162 Score: 267
Period size: 40 Copynumber: 4.5 Consensus size: 40
57299972 TATTCGGATG
* *
57299982 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
57300022 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
57300062 ATATCCGGGCTAAATCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
57300102 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
57300142 ATATCC-GGCTAAGTCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
57300163 ATACTTTGGG
Statistics
Matches: 127, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 14 0.11
40 111 0.87
41 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:57300430 original size:22 final size:22
Alignment explanation
Indices: 57300390--57300431 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
57300380 GAATGTGCAT
*
57300390 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
57300412 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
57300432 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:57307751 original size:16 final size:16
Alignment explanation
Indices: 57307713--57307742 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
57307703 CATGTTGGTC
57307713 AAAG-AAAAAATAATA
1 AAAGAAAAAAATAATA
57307728 AAAGAAAAAAATAAT
1 AAAGAAAAAAATAAT
57307743 TATAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (16 bp):
AAAGAAAAAAATAATA
Found at i:57317108 original size:17 final size:17
Alignment explanation
Indices: 57317077--57317110 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
57317067 CCATTTGGCA
**
57317077 AACTCTAGGTTTTGGTG
1 AACTCTAGGGCTTGGTG
57317094 AACTCTAGGGCTTGGTG
1 AACTCTAGGGCTTGGTG
57317111 GAGTATTCTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.15, G:0.32, T:0.35
Consensus pattern (17 bp):
AACTCTAGGGCTTGGTG
Found at i:57324851 original size:14 final size:17
Alignment explanation
Indices: 57324824--57324862 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 17
57324814 TGAATTTAAG
57324824 AAGAA-ATATGTTGG-T
1 AAGAAGATATGTTGGAT
57324839 -AGAAGATAT-TTGGAT
1 AAGAAGATATGTTGGAT
57324854 AAGAAGATA
1 AAGAAGATA
57324863 AGAGAATTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 8 0.38
15 5 0.24
16 8 0.38
ACGTcount: A:0.46, C:0.00, G:0.26, T:0.28
Consensus pattern (17 bp):
AAGAAGATATGTTGGAT
Found at i:57328943 original size:14 final size:15
Alignment explanation
Indices: 57328914--57328946 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
57328904 ATCCGTATTT
*
57328914 ATTTTCAGGTACGAA
1 ATTTTAAGGTACGAA
57328929 ATTTTAAGG-ACGAA
1 ATTTTAAGGTACGAA
57328943 ATTT
1 ATTT
57328947 CCTAAGGGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.36
Consensus pattern (15 bp):
ATTTTAAGGTACGAA
Found at i:57331999 original size:15 final size:16
Alignment explanation
Indices: 57331979--57332011 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
57331969 TATTAGGGGT
*
57331979 AAAAGTAT-AATTTTG
1 AAAAGTATGAAATTTG
57331994 AAAAGTATGAAATTTG
1 AAAAGTATGAAATTTG
57332010 AA
1 AA
57332012 TTAAATTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.52, C:0.00, G:0.15, T:0.33
Consensus pattern (16 bp):
AAAAGTATGAAATTTG
Found at i:57333409 original size:28 final size:28
Alignment explanation
Indices: 57333355--57333409 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
57333345 TTGGTGAAAA
*
57333355 TGTAAATTAGGGGCTAAATTGTGAAATG
1 TGTAAATTAGGGGCTAAATTGTAAAATG
**
57333383 TGTAAATTTAGGGTTTAAA-TGTAAAAT
1 TGTAAA-TTAGGGGCTAAATTGTAAAAT
57333410 AAACAAAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 13 0.57
29 10 0.43
ACGTcount: A:0.38, C:0.02, G:0.24, T:0.36
Consensus pattern (28 bp):
TGTAAATTAGGGGCTAAATTGTAAAATG
Found at i:57338441 original size:17 final size:17
Alignment explanation
Indices: 57338404--57338441 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
57338394 CTTGTCATGG
57338404 CGTG-GTTTTGGTTTAT
1 CGTGTGTTTTGGTTTAT
57338420 CGTGTGTTTTCGGTTTAT
1 CGTGTGTTTT-GGTTTAT
57338438 -GTGT
1 CGTGT
57338442 CTACCATTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 4 0.20
17 9 0.45
18 7 0.35
ACGTcount: A:0.05, C:0.08, G:0.32, T:0.55
Consensus pattern (17 bp):
CGTGTGTTTTGGTTTAT
Found at i:57343780 original size:119 final size:120
Alignment explanation
Indices: 57343598--57343820 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 120
57343588 TCCTCGTTCA
*
57343598 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
57343663 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
57343718 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
57343780 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
57343821 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.04
119 66 0.73
120 20 0.22
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:57343820 original size:40 final size:40
Alignment explanation
Indices: 57343596--57343820 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
57343586 GCTCCTCGTT
* *
57343596 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
57343636 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
57343676 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
57343716 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
57343755 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
57343796 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
57343821 CATCATTCAA
Statistics
Matches: 164, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
38 2 0.01
39 31 0.19
40 119 0.73
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:57351570 original size:40 final size:40
Alignment explanation
Indices: 57351533--57351757 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
57351523 GCTACTCGTT
* *
57351533 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
57351573 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
57351613 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
57351653 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
57351692 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
57351733 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
57351758 CATCATTCAA
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.19
40 118 0.72
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:57351717 original size:119 final size:120
Alignment explanation
Indices: 57351535--57351757 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 120
57351525 TACTCGTTCA
*
57351535 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
57351600 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
57351655 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
57351717 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
57351758 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.04
119 66 0.73
120 20 0.22
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:57364956 original size:48 final size:48
Alignment explanation
Indices: 57364904--57365077 Score: 224
Period size: 48 Copynumber: 3.6 Consensus size: 48
57364894 TATGTGTGCT
*
57364904 AGTGTAAGACCATGTCTAGG-ACATGGCATCGGCCACGATATGAGAGCC
1 AGTGTAAGACCATGT-TTGGAACATGGCATCGGCCACGATATGAGAGCC
* * * * * *
57364952 AGTGTAAGACCATGTTTGGAACATGGTATCGGCGATGTTGTGAGAGCT
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCCACGATATGAGAGCC
* * * *
57365000 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCGACATGTGAGCC
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCCACGATATGAGAGCC
*
57365048 AGTATAAGACCATGTTTGGAACATGGCATC
1 AGTGTAAGACCATGTTTGGAACATGGCATC
57365078 AGCAATTCAT
Statistics
Matches: 106, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
47 3 0.03
48 103 0.97
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTTTGGAACATGGCATCGGCCACGATATGAGAGCC
Found at i:57369501 original size:50 final size:51
Alignment explanation
Indices: 57369426--57369549 Score: 196
Period size: 50 Copynumber: 2.5 Consensus size: 51
57369416 TGGCAACCAG
* *
57369426 TGATAAGTGATAGCTTCGGCTACACTTATCTGAACAAGGACAAGTGA-AAC
1 TGATAAGTGATAGCTTCGGCTACACTTATCTGAACAAGGACAAATGACAAA
*
57369476 TGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGACAAA
1 TGATAAGTGATAGCTTCGGCTACACTTATCTGAACAAGGACAAATGACAAA
* *
57369527 TGAAAAGTGGTAGCTTCGGCTAC
1 TGATAAGTGATAGCTTCGGCTAC
57369550 CTGATTAGTG
Statistics
Matches: 68, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
50 45 0.66
51 23 0.34
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.25
Consensus pattern (51 bp):
TGATAAGTGATAGCTTCGGCTACACTTATCTGAACAAGGACAAATGACAAA
Found at i:57369565 original size:31 final size:31
Alignment explanation
Indices: 57369527--57369642 Score: 142
Period size: 31 Copynumber: 3.7 Consensus size: 31
57369517 AAATGACAAA
*
57369527 TGAAAAGTGGTAGCTTCGGCTACCTGATTAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
* * *
57369558 TGAAAAGTGGTTGCTTTGGCTACCTGACCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
* * * *
57369589 TGAAAAATGGTAGCTCCGACTACCTGATCAA
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
* *
57369620 TGAATAGTGGTAGCTTTGGCTAC
1 TGAAAAGTGGTAGCTTCGGCTAC
57369643 AAGTGACAAG
Statistics
Matches: 69, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 69 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
Found at i:57369773 original size:48 final size:47
Alignment explanation
Indices: 57369711--57369883 Score: 259
Period size: 48 Copynumber: 3.7 Consensus size: 47
57369701 TGCTTCTGTA
57369711 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATCAGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATC-GTG
*
57369759 TAAGACCATAGCTGGGCTATGGCATTGATATGTGATATGTGATCCGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGAT-CGTG
*
57369807 TAAGACCATAGCTAGGCTATGGCATCGATATGTGA-A--T-AT-GTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATCGTG
57369849 TAAGACCATAGCTGGGCTATGGCATC-ATTATGTGA
1 TAAGACCATAGCTGGGCTATGGCATCGA-TATGTGA
57369884 AGATGTATAA
Statistics
Matches: 119, Mismatches: 4, Indels: 10
0.89 0.03 0.08
Matches are distributed among these distances:
41 1 0.01
42 35 0.29
44 2 0.02
45 1 0.01
47 1 0.01
48 78 0.66
49 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (47 bp):
TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATCGTG
Found at i:57369854 original size:42 final size:42
Alignment explanation
Indices: 57369756--57369901 Score: 161
Period size: 42 Copynumber: 3.3 Consensus size: 42
57369746 TATGTGATCA
* *
57369756 GTGTAAGACCATAGCTGGGCTATGGCATTGA-TATGTGATATGTGAT
1 GTGTAAGACCATAGCTAGGCTATGGCA-TCATTATGTGA-A---GAT
*
57369802 CCGTGTAAGACCATAGCTAGGCTATGGCATCGA-TATGTGAATAT
1 --GTGTAAGACCATAGCTAGGCTATGGCATC-ATTATGTGAAGAT
*
57369846 GTGTAAGACCATAGCTGGGCTATGGCATCATTATGTGAAGAT
1 GTGTAAGACCATAGCTAGGCTATGGCATCATTATGTGAAGAT
*
57369888 GTATAAGACCATAG
1 GTGTAAGACCATAG
57369902 TTGAACTATG
Statistics
Matches: 90, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
41 1 0.01
42 51 0.57
44 2 0.02
47 2 0.02
48 34 0.38
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCATAGCTAGGCTATGGCATCATTATGTGAAGAT
Found at i:57369911 original size:42 final size:41
Alignment explanation
Indices: 57369807--57369917 Score: 134
Period size: 42 Copynumber: 2.7 Consensus size: 41
57369797 GTGATCCGTG
* * *
57369807 TAAGACCATAGCT-AGGCTATGGCATCGATATGTGAATATGTG
1 TAAGACCATAGCTGA-ACTATGGCATC-ATATGTGAAGATGTA
**
57369849 TAAGACCATAGCTGGGCTATGGCATCATTATGTGAAGATGTA
1 TAAGACCATAGCTGAACTATGGCATCA-TATGTGAAGATGTA
*
57369891 TAAGACCATAGTTGAACTATGGCATCA
1 TAAGACCATAGCTGAACTATGGCATCA
57369918 AGAAAATGAA
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
41 1 0.02
42 60 0.98
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.28
Consensus pattern (41 bp):
TAAGACCATAGCTGAACTATGGCATCATATGTGAAGATGTA
Found at i:57370860 original size:75 final size:75
Alignment explanation
Indices: 57370735--57370897 Score: 236
Period size: 75 Copynumber: 2.2 Consensus size: 75
57370725 ACGACTTGGA
* * * *
57370735 GACACGGGCGTGTGGCCCGGCCGTGTGGTTAGATTTTCATACTAATGTCATAAAGAAAAAGTTAC
1 GACACGGGCGTGTGGCCCGACCGTATGGTTAGATTTGCATACTAACGTCATAAAGAAAAAGTTAC
57370800 ACGTCCTGAG
66 ACGTCCTGAG
* * * * *
57370810 GACACGGGCGTGTGGCCCGATCGTATGGTTCGATTTGCATGCTAACGTCATAAATAGAAAGTTAC
1 GACACGGGCGTGTGGCCCGACCGTATGGTTAGATTTGCATACTAACGTCATAAAGAAAAAGTTAC
*
57370875 ACTTCCTGAG
66 ACGTCCTGAG
57370885 GACACGGGCGTGT
1 GACACGGGCGTGT
57370898 CAAAGACACA
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
75 78 1.00
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (75 bp):
GACACGGGCGTGTGGCCCGACCGTATGGTTAGATTTGCATACTAACGTCATAAAGAAAAAGTTAC
ACGTCCTGAG
Found at i:57373767 original size:40 final size:40
Alignment explanation
Indices: 57373667--57373877 Score: 266
Period size: 40 Copynumber: 5.3 Consensus size: 40
57373657 GCTCCTCGTT
* * * * *
57373667 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
* ** *
57373707 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
*
57373746 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
* *
57373786 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTATCTCGCA
*
57373826 CAAATGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTATCTCGCA
57373866 CAAATGCCTTCG
1 CAAATGCCTTCG
57373878 CATCTTAGTC
Statistics
Matches: 156, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 34 0.22
40 118 0.76
41 4 0.03
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
Found at i:57373891 original size:80 final size:80
Alignment explanation
Indices: 57373667--57373931 Score: 229
Period size: 80 Copynumber: 3.3 Consensus size: 80
57373657 GCTCCTCGTT
* * * * * * * *
57373667 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCG-GGACATAACCCG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGCAG-CTTAACCCG
** *
57373730 G-ATTTAACAACTCGCA
65 GAATTT-GTATCTCGCA
* **
57373746 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGCAGCTTAACCCGG
57373811 AATTTGTATCTCGCA
66 AATTTGTATCTCGCA
* * * **
57373826 CAAATGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCACAAATGCCTTCGCATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTATCTCGCACAAAGGCCTTCGCAGCTTAACCCG
* *
57373890 GATATATT-CA-CTTAGCA
65 GA-AT-TTGTATC-TCGCA
*
57373907 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
57373932 CAGCATTCAA
Statistics
Matches: 156, Mismatches: 23, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
79 36 0.23
80 97 0.62
81 21 0.13
82 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGCAGCTTAACCCGG
AATTTGTATCTCGCA
Found at i:57373891 original size:120 final size:121
Alignment explanation
Indices: 57373703--57373931 Score: 261
Period size: 120 Copynumber: 1.9 Consensus size: 121
57373693 TTTAGTAACT
* *
57373703 CACACAATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACC
1 CACACAATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACAAATGCCTTCGGCACTTAACC
* * *
57373768 CGGATTTAGT-A-TCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTTGTATCTCG
66 CGGATATAGTCACT-TAGCACAAA-GCCTTCGGGACTTAACCCGGAATTTGTATCTCG
* * ** * *
57373824 CACA-AATGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCACAAATGCCTTC-GCATCTTAG
1 CACACAATGCCTTCGGGACATAACCCGG-ATTTAACAACTCGCACAAATGCCTTCGGCA-CTTAA
* * *
57373886 TCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 CCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
57373932 CAGCATTCAA
Statistics
Matches: 90, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
119 2 0.02
120 70 0.78
121 17 0.19
122 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (121 bp):
CACACAATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACAAATGCCTTCGGCACTTAACC
CGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGGAATTTGTATCTCG
Found at i:57376379 original size:58 final size:56
Alignment explanation
Indices: 57376230--57376380 Score: 155
Period size: 57 Copynumber: 2.6 Consensus size: 56
57376220 ACCGTATAAC
* * * *
57376230 AGGACTACTAGTCCAGGCTAAATCCTTTATATAACGTATGCTCAGAGGAGCTTGATT
1 AGGATTACCAGTCCAGGCTAAATCCTTTCTATAACATATGCTCAGAGGA-CTTGATT
** *
57376287 AGGATTACCAGTCCAGGCTAAATCCTAACCATAACATATGCTCGAGAGGTA-TT-ATAT
1 AGGATTACCAGTCCAGGCTAAATCCTTTCTATAACATATGCTC-AGAGG-ACTTGAT-T
*
57376344 CAGGATTACCCA-TCCGGGCTAAATCCTTTCTATAACA
1 -AGGATTA-CCAGTCCAGGCTAAATCCTTTCTATAACA
57376381 AGGTCAATGT
Statistics
Matches: 78, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
56 2 0.03
57 39 0.50
58 33 0.42
59 4 0.05
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.28
Consensus pattern (56 bp):
AGGATTACCAGTCCAGGCTAAATCCTTTCTATAACATATGCTCAGAGGACTTGATT
Found at i:57376950 original size:20 final size:20
Alignment explanation
Indices: 57376921--57376965 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
57376911 AACACATATA
* *
57376921 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
57376941 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
57376961 TTCAT
1 TTCAT
57376966 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:57387299 original size:20 final size:20
Alignment explanation
Indices: 57387271--57387316 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
57387261 TCGAGATCAA
*
57387271 CTCTGCTTCCATCTCTCCCT
1 CTCTTCTTCCATCTCTCCCT
57387291 CTCTTCTTCCATCTCTCCCT
1 CTCTTCTTCCATCTCTCCCT
57387311 CTCTTC
1 CTCTTC
57387317 CTAGGTAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.04, C:0.50, G:0.02, T:0.43
Consensus pattern (20 bp):
CTCTTCTTCCATCTCTCCCT
Found at i:57392812 original size:16 final size:17
Alignment explanation
Indices: 57392791--57392824 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
57392781 AATAATAAGG
*
57392791 GCAAAAGTGT-AATTTT
1 GCAAAAGTATGAATTTT
57392807 GCAAAAGTATGAATTTT
1 GCAAAAGTATGAATTTT
57392824 G
1 G
57392825 GGCTGAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.38, C:0.06, G:0.21, T:0.35
Consensus pattern (17 bp):
GCAAAAGTATGAATTTT
Found at i:57402541 original size:39 final size:40
Alignment explanation
Indices: 57402487--57402742 Score: 335
Period size: 40 Copynumber: 6.5 Consensus size: 40
57402477 AAACCAAGTA
* * * *
57402487 CCTTCGGAATTTAG-CCGGATATAGCT-ACTTGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
57402526 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAGTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
57402566 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
57402606 CCTTTGGGACTTAGCCCGGTTACAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
57402646 CCTTC-GGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
57402685 CCTTCGGG-CTTAGCCCGGA-ATTAGTCAC-CAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTC-GCACAAATG
*
57402724 ACTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
57402743 TTATCATCCG
Statistics
Matches: 197, Mismatches: 14, Indels: 11
0.89 0.06 0.05
Matches are distributed among these distances:
38 2 0.01
39 83 0.42
40 112 0.57
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:57402568 original size:40 final size:40
Alignment explanation
Indices: 57402520--57402746 Score: 345
Period size: 40 Copynumber: 5.7 Consensus size: 40
57402510 GCTACTTGCT
57402520 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
57402560 CAAGTGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
57402600 CAAATGCCTTTGGGACTTAGCCCGGTTACAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
57402640 CAAATGCCTTC-GGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
57402679 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCAC-CAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTC-GCA
*
57402718 CAAATGACTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
57402747 CATCCGAATA
Statistics
Matches: 171, Mismatches: 11, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
38 2 0.01
39 69 0.40
40 99 0.58
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:57410700 original size:40 final size:40
Alignment explanation
Indices: 57410649--57410876 Score: 343
Period size: 40 Copynumber: 5.7 Consensus size: 40
57410639 GCTACTTGCT
*
57410649 CAAATGCCTTCGGGACTTAGCCCGGTTCTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
57410689 CAAGTGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
57410729 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
57410769 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * **
57410809 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTATCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* *
57410848 CAAATGACTTCGGGACTTTGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
57410877 CATCCGAATA
Statistics
Matches: 172, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
38 1 0.01
39 32 0.19
40 138 0.80
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:57410742 original size:80 final size:79
Alignment explanation
Indices: 57410616--57410872 Score: 340
Period size: 80 Copynumber: 3.2 Consensus size: 79
57410606 AAACCAAGTA
* * * *
57410616 CCTTCGGAATTTAG-CCGGATATAGCT-ACTTGCTCAAATGCCTTCGGGACTTAGCCCGGTTCTA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTT-TA
* *
57410679 GTAACTCGCACAAGTG
64 GTAACTAGCACAAATG
*
57410695 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTT-TAG
*
57410760 TAACTTGCACAAATG
65 TAACTAGCACAAATG
*
57410775 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTTAG
* *
57410839 TCACTATCACAAATG
65 TAACTAGCACAAATG
* *
57410854 ACTTCGGGACTTTGCCCGG
1 CCTTCGGGACTTAGCCCGG
57410873 TTATCATCCG
Statistics
Matches: 160, Mismatches: 15, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
79 55 0.34
80 105 0.66
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTTAGT
AACTAGCACAAATG
Found at i:57419528 original size:25 final size:25
Alignment explanation
Indices: 57419500--57419575 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
57419490 ATATATATGC
57419500 ATGATAAGGCCGAATGGCCAATGTG
1 ATGATAAGGCCGAATGGCCAATGTG
* * **
57419525 ATGA-ATGTG--AACAT-GCGTATGTG
1 ATGATAAG-GCCGA-ATGGCCAATGTG
57419548 -TGATAAGGCCGAATGGCCAATGTG
1 ATGATAAGGCCGAATGGCCAATGTG
57419572 ATGA
1 ATGA
57419576 ATGTGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 4 0.11
23 12 0.33
24 12 0.33
25 8 0.22
ACGTcount: A:0.32, C:0.13, G:0.32, T:0.24
Consensus pattern (25 bp):
ATGATAAGGCCGAATGGCCAATGTG
Found at i:57419546 original size:23 final size:23
Alignment explanation
Indices: 57419520--57419594 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
57419510 CGAATGGCCA
57419520 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* * **
57419543 ATGTG-TGATAAG-G-CCGAATGGCCA
1 ATGTGATGA-ATGTGAAC--AT-GCGT
57419567 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
57419590 ATGTG
1 ATGTG
57419595 TGATAAGGCC
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
21 1 0.03
22 4 0.11
23 16 0.43
24 11 0.30
25 4 0.11
26 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCGT
Found at i:57419620 original size:22 final size:22
Alignment explanation
Indices: 57419593--57419667 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
57419583 CATGCGTATG
57419593 TGTGATAAGGCCGAATAGCCAA
1 TGTGATAAGGCCGAATAGCCAA
* * * *
57419615 TGTGATGAATG-TGAACATGCATATA
1 TGTGAT-AAGGCCGAATA-GC-CA-A
*
57419640 TGAGATAAGGCCGAATAGCCAA
1 TGTGATAAGGCCGAATAGCCAA
57419662 TGTGAT
1 TGTGAT
57419668 GAATGTGAAC
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 16 0.42
23 6 0.16
24 6 0.16
25 10 0.26
ACGTcount: A:0.36, C:0.13, G:0.27, T:0.24
Consensus pattern (22 bp):
TGTGATAAGGCCGAATAGCCAA
Found at i:57419702 original size:47 final size:47
Alignment explanation
Indices: 57419422--57419710 Score: 371
Period size: 47 Copynumber: 6.1 Consensus size: 47
57419412 TTTAGGATTT
** * * *
57419422 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
57419469 ATGTGATGAATGTGAACCTGTATATATATGCATGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATG--CATATATG--TGATAAGGCCGAATGGCCA
* *
57419520 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
57419567 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATAGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
57419614 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATAGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * ** *
57419661 ATGTGATGAATGTGAACATGTATATATGTGGTAAGAACGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
57419708 ATG
1 ATG
57419711 CGAAATGTGT
Statistics
Matches: 219, Mismatches: 19, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
47 170 0.78
49 13 0.06
51 36 0.16
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:57419740 original size:46 final size:46
Alignment explanation
Indices: 57419684--57419819 Score: 184
Period size: 46 Copynumber: 3.0 Consensus size: 46
57419674 GAACATGTAT
*
57419684 ATATGTGGT-AAGAACGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAG-CCGAATGGCTAATGCGAAATGTGTATGAGATAG
* * *
57419730 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
* * * *
57419776 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGAT
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGAT
57419820 GTGTATATAT
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
46 76 0.96
47 3 0.04
ACGTcount: A:0.36, C:0.08, G:0.30, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
Found at i:57426445 original size:37 final size:37
Alignment explanation
Indices: 57426395--57426473 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
57426385 TTATTACGAA
* *
57426395 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
57426432 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
57426469 GTCTT
1 GTCTT
57426474 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:57426670 original size:47 final size:47
Alignment explanation
Indices: 57426592--57426867 Score: 347
Period size: 47 Copynumber: 5.6 Consensus size: 47
57426582 CCCTTCGGGA
* * * *
57426592 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTT-GGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCA-TTAGGC
* *
57426639 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
57426686 CTTATCACATATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 C---T----TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
57426740 CTTATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
57426787 CTTATCACATATATACACTCTCACATTCATCACGTCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57426834 CTTATCACATATATATATACACTTTCACATTCAT
1 CTTATCAC----ATATATACACTTTCACATTCAT
57426868 TCAAATATAC
Statistics
Matches: 204, Mismatches: 13, Indels: 20
0.86 0.05 0.08
Matches are distributed among these distances:
46 2 0.01
47 136 0.67
51 22 0.11
54 44 0.22
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:57426726 original size:25 final size:25
Alignment explanation
Indices: 57426643--57426727 Score: 68
Period size: 25 Copynumber: 3.2 Consensus size: 25
57426633 CTTGGCCCTG
*
57426643 TCACATATATACACTTTCACATTCA
1 TCACATATATACGCTTTCACATTCA
*
57426668 TCACATCGGCCAT-TAGGCCTTATCACA-T-A
1 TCACAT-----ATATACG-CTT-TCACATTCA
57426697 TCACATATATACGCTTTCACATTCA
1 TCACATATATACGCTTTCACATTCA
57426722 TCACAT
1 TCACAT
57426728 CGGCCATTAG
Statistics
Matches: 47, Mismatches: 3, Indels: 20
0.67 0.04 0.29
Matches are distributed among these distances:
23 5 0.11
24 6 0.13
25 16 0.34
29 9 0.19
30 6 0.13
31 5 0.11
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.33
Consensus pattern (25 bp):
TCACATATATACGCTTTCACATTCA
Found at i:57430325 original size:40 final size:40
Alignment explanation
Indices: 57430280--57430474 Score: 189
Period size: 40 Copynumber: 4.9 Consensus size: 40
57430270 CGAATACACG
* * * *
57430280 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
* *** *
57430320 ACACCAGCACGAATGCTCTT-GGGGTTTAGCACGGATATA
1 TCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
* * *
57430359 TCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
1 TCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
* * *
57430399 TCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATATGG
1 TCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATAT-A
* * *
57430440 TCACTTAGCAC-AAAGC-CTTCGGGACTTAGCCCGGA
1 TCAC-CAGCACGAATGCTCTTCGGAACTTAGCCCGGA
57430475 CATCATTCAA
Statistics
Matches: 132, Mismatches: 20, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
39 33 0.25
40 85 0.64
41 8 0.06
42 6 0.05
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
TCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
Found at i:57430818 original size:29 final size:29
Alignment explanation
Indices: 57430779--57430857 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
57430769 CTTAATAATC
*
57430779 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
57430809 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
57430838 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
57430858 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:57430900 original size:43 final size:43
Alignment explanation
Indices: 57430839--57430941 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
57430829 TGCATTTCAA
57430839 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
57430882 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
57430925 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
57430942 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:57432854 original size:37 final size:37
Alignment explanation
Indices: 57432804--57432882 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
57432794 TTATTACGAA
* *
57432804 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
57432841 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
57432878 GTCTT
1 GTCTT
57432883 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:57433079 original size:47 final size:47
Alignment explanation
Indices: 57433001--57433276 Score: 345
Period size: 47 Copynumber: 5.6 Consensus size: 47
57432991 CCCTTCGGGA
* * * * * *
57433001 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
57433048 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
57433095 CTTATCACATATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 C---T----TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
57433149 CTTATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
57433196 CTTATCACATATATACACTCTCACATTCATCACGTCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57433243 CTTATCACATATATATATACACTTTCACATTCAT
1 CTTATCAC----ATATATACACTTTCACATTCAT
57433277 TCAAATATAC
Statistics
Matches: 203, Mismatches: 15, Indels: 18
0.86 0.06 0.08
Matches are distributed among these distances:
47 137 0.67
51 22 0.11
54 44 0.22
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:57433135 original size:25 final size:25
Alignment explanation
Indices: 57433052--57433136 Score: 68
Period size: 25 Copynumber: 3.2 Consensus size: 25
57433042 CTCGGCCCTG
*
57433052 TCACATATATACACTTTCACATTCA
1 TCACATATATACGCTTTCACATTCA
*
57433077 TCACATCGGCCAT-TAGGCCTTATCACA-T-A
1 TCACAT-----ATATACG-CTT-TCACATTCA
57433106 TCACATATATACGCTTTCACATTCA
1 TCACATATATACGCTTTCACATTCA
57433131 TCACAT
1 TCACAT
57433137 CGGCCATTAG
Statistics
Matches: 47, Mismatches: 3, Indels: 20
0.67 0.04 0.29
Matches are distributed among these distances:
23 5 0.11
24 6 0.13
25 16 0.34
29 9 0.19
30 6 0.13
31 5 0.11
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.33
Consensus pattern (25 bp):
TCACATATATACGCTTTCACATTCA
Found at i:57438168 original size:34 final size:34
Alignment explanation
Indices: 57438130--57438198 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
57438120 AAAAGTATGT
57438130 AGATATTTTGGTATGACTCATCCATGGAAAAATA
1 AGATATTTTGGTATGACTCATCCATGGAAAAATA
57438164 AGATATTTTGGTATGACTCATCCATGGAAAAATA
1 AGATATTTTGGTATGACTCATCCATGGAAAAATA
57438198 A
1 A
57438199 AAAAAGGCTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (34 bp):
AGATATTTTGGTATGACTCATCCATGGAAAAATA
Found at i:57440597 original size:11 final size:11
Alignment explanation
Indices: 57440581--57440606 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
57440571 ACACGGGCAT
57440581 GTGTCTAGACC
1 GTGTCTAGACC
57440592 GTGTCTAGACC
1 GTGTCTAGACC
57440603 GTGT
1 GTGT
57440607 GTGACACACG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.23, G:0.31, T:0.31
Consensus pattern (11 bp):
GTGTCTAGACC
Found at i:57444638 original size:20 final size:20
Alignment explanation
Indices: 57444610--57444750 Score: 67
Period size: 20 Copynumber: 7.1 Consensus size: 20
57444600 ATTCATTTTT
* *
57444610 ATTCGTATAAACTGTAATCC
1 ATTCATATAAACTGTAATTC
*
57444630 ATTCATAT-AACTAGTAGTTC
1 ATTCATATAAACT-GTAATTC
* * * *
57444650 ATCCGTATAACCAGTAATTC
1 ATTCATATAAACTGTAATTC
*
57444670 ATTCATAT-AACTAGTAGTTC
1 ATTCATATAAACT-GTAATTC
* * *
57444690 -TTCCGTATAACCAGTAATTC
1 ATT-CATATAAACTGTAATTC
* * *
57444710 A-TCAGTAT-ATCAGTAATTT
1 ATTCA-TATAAACTGTAATTC
* *
57444729 ATTCATATCAACAGTAATTC
1 ATTCATATAAACTGTAATTC
57444749 AT
1 AT
57444751 ATAATCTATA
Statistics
Matches: 90, Mismatches: 22, Indels: 18
0.69 0.17 0.14
Matches are distributed among these distances:
19 22 0.24
20 64 0.71
21 4 0.04
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.37
Consensus pattern (20 bp):
ATTCATATAAACTGTAATTC
Found at i:57444673 original size:40 final size:40
Alignment explanation
Indices: 57444613--57444711 Score: 162
Period size: 40 Copynumber: 2.5 Consensus size: 40
57444603 CATTTTTATT
* * *
57444613 CGTATAAACTGTAATCCATTCATATAACTAGTAGTTCATC
1 CGTATAACCAGTAATTCATTCATATAACTAGTAGTTCATC
*
57444653 CGTATAACCAGTAATTCATTCATATAACTAGTAGTTCTTC
1 CGTATAACCAGTAATTCATTCATATAACTAGTAGTTCATC
57444693 CGTATAACCAGTAATTCAT
1 CGTATAACCAGTAATTCAT
57444712 CAGTATATCA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.35
Consensus pattern (40 bp):
CGTATAACCAGTAATTCATTCATATAACTAGTAGTTCATC
Found at i:57444941 original size:23 final size:23
Alignment explanation
Indices: 57444884--57445000 Score: 71
Period size: 23 Copynumber: 5.0 Consensus size: 23
57444874 GAGTCATGCT
**
57444884 CGGTAAGCTCCTCCTGAGCTGATAAA
1 CGGTAAGCT-CTAATGAGCTG--AAA
*
57444910 TGGTAAGCTCTAATGAGCTGAAA
1 CGGTAAGCTCTAATGAGCTGAAA
*
57444933 CGGTAAGCTCT-GTCGAGCTGAATA
1 CGGTAAGCTCTAAT-GAGCTGAA-A
* * *
57444957 --GTAAGCT-TATACGAGTTGAAT
1 CGGTAAGCTCTA-ATGAGCTGAAA
* *
57444978 TGGTAAGCACTAATGAGCTGAAA
1 CGGTAAGCTCTAATGAGCTGAAA
57445001 ACACTAAGCT
Statistics
Matches: 71, Mismatches: 13, Indels: 17
0.70 0.13 0.17
Matches are distributed among these distances:
21 1 0.01
22 15 0.21
23 35 0.49
24 3 0.04
25 9 0.13
26 8 0.11
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.26
Consensus pattern (23 bp):
CGGTAAGCTCTAATGAGCTGAAA
Found at i:57456738 original size:29 final size:29
Alignment explanation
Indices: 57456703--57456776 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
57456693 GTTGTGAGAT
* *
57456703 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
57456732 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
57456761 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
57456777 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:57466702 original size:27 final size:27
Alignment explanation
Indices: 57466630--57466722 Score: 87
Period size: 27 Copynumber: 3.4 Consensus size: 27
57466620 ATTATAATTA
*
57466630 GCACATAGCCATGGGTAAATATGATCG
1 GCACATAGCCATGGGTAAATATGATAG
** * * ***
57466657 ATACAGAGTCATCAATAAATATGATAG
1 GCACATAGCCATGGGTAAATATGATAG
* *
57466684 GCACATAGCCATGGGTAAATACGATTG
1 GCACATAGCCATGGGTAAATATGATAG
*
57466711 GCACAAAGCCAT
1 GCACATAGCCAT
57466723 AATCAAGATG
Statistics
Matches: 48, Mismatches: 18, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.39, C:0.18, G:0.22, T:0.22
Consensus pattern (27 bp):
GCACATAGCCATGGGTAAATATGATAG
Found at i:57466737 original size:22 final size:22
Alignment explanation
Indices: 57466709--57466771 Score: 81
Period size: 22 Copynumber: 2.9 Consensus size: 22
57466699 TAAATACGAT
57466709 TGGCACAAAGCCATAATCAAGA
1 TGGCACAAAGCCATAATCAAGA
* * * *
57466731 TGGCACAAAGCCATATTTAGGT
1 TGGCACAAAGCCATAATCAAGA
*
57466753 TGGCACAGAGCCATAATCA
1 TGGCACAAAGCCATAATCA
57466772 GATTAAGCGG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (22 bp):
TGGCACAAAGCCATAATCAAGA
Found at i:57467155 original size:27 final size:27
Alignment explanation
Indices: 57467125--57467456 Score: 173
Period size: 27 Copynumber: 12.3 Consensus size: 27
57467115 CAAAACAGTC
* *
57467125 ATTTTACCCTACAAGGGTATTTCGGTG
1 ATTTTACACTACAAGGGTATTTCGGTA
*
57467152 ATTTTATACTACAAGGGTATTTCGGTA
1 ATTTTACACTACAAGGGTATTTCGGTA
* **
57467179 ATTTTACA-AATTGAGGGTATTTCGGTA
1 ATTTTACACTA-CAAGGGTATTTCGGTA
* * ** *
57467206 ACTTTACA-AATCGGGGGTATTTCAGTA
1 ATTTTACACTA-CAAGGGTATTTCGGTA
* * *
57467233 ATTTTACAAT-CTGAGGGTATTTTGGTA
1 ATTTTACACTAC-AAGGGTATTTCGGTA
* * **
57467260 ATTTTACA-AATCGAGGGTATTTTAGTA
1 ATTTTACACTA-CAAGGGTATTTCGGTA
* *
57467287 ATTTTACAAT-CTGAGGGTATTGT-GGTA
1 ATTTTACACTAC-AAGGGTATT-TCGGTA
* ** *
57467314 ATTTTACA-AACTGGGGGTATTTCGATA
1 ATTTTACACTAC-AAGGGTATTTCGGTA
* * *
57467341 ATTTTACAAT-CTGAGGGTATTTCGATA
1 ATTTTACACTAC-AAGGGTATTTCGGTA
* ** *
57467368 ATTTTACA-AATCGGGGGTATTTCGATA
1 ATTTTACACTA-CAAGGGTATTTCGGTA
* *
57467395 ATTTTACA-AACTAGAGGTATTTCGGTA
1 ATTTTACACTACAAG-GGTATTTCGGTA
* *
57467422 ATTTTACAAT-CTAAGGGTATTTCGATA
1 ATTTTACACTAC-AAGGGTATTTCGGTA
57467449 ATTTTACA
1 ATTTTACA
57467457 AATCGAGGGC
Statistics
Matches: 256, Mismatches: 33, Indels: 32
0.80 0.10 0.10
Matches are distributed among these distances:
26 6 0.02
27 245 0.96
28 5 0.02
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCGGTA
Found at i:57467196 original size:54 final size:54
Alignment explanation
Indices: 57467138--57467465 Score: 386
Period size: 54 Copynumber: 6.1 Consensus size: 54
57467128 TTACCCTACA
* * * * *
57467138 AGGGTATTTCGGTGATTTTA-TACTACAAGGGTATTTCGGTAATTTTACAAAT-TG
1 AGGGTATTTCGGTAATTTTACAAAT-CGAGGGTATTTCGATAATTTTAC-AATCTG
* *
57467192 AGGGTATTTCGGTAACTTTACAAATCGGGGGTATTTC-AGTAATTTTACAATCTG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGA-TAATTTTACAATCTG
* *
57467246 AGGGTATTTTGGTAATTTTACAAATCGAGGGTATTT-TAGTAATTTTACAATCTG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGA-TAATTTTACAATCTG
*
57467300 AGGGTATTGT-GGTAATTTTACAAA-CTGGGGGTATTTCGATAATTTTACAATCTG
1 AGGGTATT-TCGGTAATTTTACAAATC-GAGGGTATTTCGATAATTTTACAATCTG
* * *
57467354 AGGGTATTTCGATAATTTTACAAATCGGGGGTATTTCGATAATTTTACAAACT-
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAATCTG
*
57467407 AGAGGTATTTCGGTAATTTTAC-AATCTAAGGGTATTTCGATAATTTTACAAATC-G
1 AG-GGTATTTCGGTAATTTTACAAATC-GAGGGTATTTCGATAATTTTAC-AATCTG
57467462 AGGG
1 AGGG
57467466 CCTTAACGAC
Statistics
Matches: 243, Mismatches: 18, Indels: 26
0.85 0.06 0.09
Matches are distributed among these distances:
53 11 0.05
54 222 0.91
55 10 0.04
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.39
Consensus pattern (54 bp):
AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAATCTG
Found at i:57467228 original size:81 final size:81
Alignment explanation
Indices: 57467139--57467461 Score: 399
Period size: 81 Copynumber: 4.0 Consensus size: 81
57467129 TACCCTACAA
* * * *
57467139 GGGTATTTCGGTGATTTTATACTAC-AAGGGTATTTCGGTAATTTTACAAAT-TGAGGGTATTTC
1 GGGTATTTCGGTAATTTTACA-AACTGAGGGTATTTCGGTAATTTTAC-AATCTGAGGGTATTTC
* *
57467202 GGTAACTTTACAAATCGG
64 GATAATTTTACAAATCGG
* * * *
57467220 GGGTATTTCAGTAATTTTACAATCTGAGGGTATTTTGGTAATTTTACAAATC-GAGGGTATTT-T
1 GGGTATTTCGGTAATTTTACAAACTGAGGGTATTTCGGTAATTTTAC-AATCTGAGGGTATTTCG
*
57467283 AGTAATTTTAC-AATCTGA
65 A-TAATTTTACAAATC-GG
* *
57467301 GGGTATTGT-GGTAATTTTACAAACTGGGGGTATTTCGATAATTTTACAATCTGAGGGTATTTCG
1 GGGTATT-TCGGTAATTTTACAAACTGAGGGTATTTCGGTAATTTTACAATCTGAGGGTATTTCG
57467365 ATAATTTTACAAATCGG
65 ATAATTTTACAAATCGG
* *
57467382 GGGTATTTCGATAATTTTACAAACT-AGAGGTATTTCGGTAATTTTACAATCTAAGGGTATTTCG
1 GGGTATTTCGGTAATTTTACAAACTGAG-GGTATTTCGGTAATTTTACAATCTGAGGGTATTTCG
57467446 ATAATTTTACAAATCG
65 ATAATTTTACAAATCG
57467462 AGGGCCTTAA
Statistics
Matches: 210, Mismatches: 22, Indels: 20
0.83 0.09 0.08
Matches are distributed among these distances:
80 11 0.05
81 193 0.92
82 6 0.03
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.39
Consensus pattern (81 bp):
GGGTATTTCGGTAATTTTACAAACTGAGGGTATTTCGGTAATTTTACAATCTGAGGGTATTTCGA
TAATTTTACAAATCGG
Found at i:57467457 original size:27 final size:27
Alignment explanation
Indices: 57467165--57467465 Score: 332
Period size: 27 Copynumber: 11.1 Consensus size: 27
57467155 TTATACTACA
*
57467165 AGGGTATTTCGGTAATTTTACAAAT-TG
1 AGGGTATTTCGATAATTTTAC-AATCTG
* *
57467192 AGGGTATTTCGGTAACTTTACAAATC-G
1 AGGGTATTTCGATAATTTTAC-AATCTG
*
57467219 GGGGTATTTC-AGTAATTTTACAATCTG
1 AGGGTATTTCGA-TAATTTTACAATCTG
* *
57467246 AGGGTATTTTGGTAATTTTACAAATC-G
1 AGGGTATTTCGATAATTTTAC-AATCTG
*
57467273 AGGGTATTT-TAGTAATTTTACAATCTG
1 AGGGTATTTCGA-TAATTTTACAATCTG
* *
57467300 AGGGTATTGT-GGTAATTTTACAAACTG
1 AGGGTATT-TCGATAATTTTACAATCTG
*
57467327 GGGGTATTTCGATAATTTTACAATCTG
1 AGGGTATTTCGATAATTTTACAATCTG
57467354 AGGGTATTTCGATAATTTTACAAATC-G
1 AGGGTATTTCGATAATTTTAC-AATCTG
* *
57467381 GGGGTATTTCGATAATTTTACAAACT-
1 AGGGTATTTCGATAATTTTACAATCTG
* *
57467407 AGAGGTATTTCGGTAATTTTACAATCTA
1 AG-GGTATTTCGATAATTTTACAATCTG
57467435 AGGGTATTTCGATAATTTTACAAATC-G
1 AGGGTATTTCGATAATTTTAC-AATCTG
57467462 AGGG
1 AGGG
57467466 CCTTAACGAC
Statistics
Matches: 237, Mismatches: 23, Indels: 28
0.82 0.08 0.10
Matches are distributed among these distances:
26 13 0.05
27 209 0.88
28 15 0.06
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAATCTG
Found at i:57469209 original size:46 final size:46
Alignment explanation
Indices: 57469142--57469313 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
57469132 TGTAACCCGC
* *
57469142 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
* *
57469188 CCATAGGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-G--GAC--GTTCACAT
* * * * *
57469238 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
*
57469281 CCATAAGTGAACTCAGACTCAACTCAACGAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
57469314 TGGATGCTCA
Statistics
Matches: 103, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 57 0.55
47 27 0.26
48 1 0.01
49 2 0.02
50 4 0.04
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
Found at i:57470953 original size:59 final size:59
Alignment explanation
Indices: 57470861--57470979 Score: 229
Period size: 59 Copynumber: 2.0 Consensus size: 59
57470851 CAAATAGTGT
57470861 TAGAAAAACCCTTAACAACCATCTAACCGAAAGATCGACTACCACTTACCTTGAGTAGA
1 TAGAAAAACCCTTAACAACCATCTAACCGAAAGATCGACTACCACTTACCTTGAGTAGA
*
57470920 TAGAAAAACCCTTAACAACCATCTAACCGAAAGATCGACTACCACTTGCCTTGAGTAGA
1 TAGAAAAACCCTTAACAACCATCTAACCGAAAGATCGACTACCACTTACCTTGAGTAGA
57470979 T
1 T
57470980 CGGTCGACTG
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.39, C:0.27, G:0.13, T:0.21
Consensus pattern (59 bp):
TAGAAAAACCCTTAACAACCATCTAACCGAAAGATCGACTACCACTTACCTTGAGTAGA
Found at i:57471498 original size:5 final size:6
Alignment explanation
Indices: 57471481--57471505 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
57471471 ATCGGTCACT
57471481 AGAAAA AGAAAA AGAAAA AGAAAA A
1 AGAAAA AGAAAA AGAAAA AGAAAA A
57471506 AATACATGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:57475551 original size:92 final size:92
Alignment explanation
Indices: 57475429--57475604 Score: 228
Period size: 92 Copynumber: 1.9 Consensus size: 92
57475419 TAGCATATCT
* * ** *
57475429 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAACACATCTC-ATAGTTGATGCATGTCCTA
1 ATGCCGATGCCATGTCCCAAACATGATCTTACACTAACAC-TCACAATAGCCGATGCATGTCCCA
57475493 GACATGTCTTACACTAGCACTCGTCTTA
65 GACATGTCTTACACTAGCACTCGTCTTA
* * ** *
57475521 ATGCCGATGCCATGTCCTAGACATGATCTTACACTGGCTCTCACAATATAGCCGATGCATGTCCC
1 ATGCCGATGCCATGTCCCAAACATGATCTTACACTAACACTCAC-A-ATAGCCGATGCATGTCCC
57475586 AGACATGTCTTACACTAGC
64 AGACATGTCTTACACTAGC
57475605 TCACAATAGC
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
91 3 0.04
92 34 0.48
94 34 0.48
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.28
Consensus pattern (92 bp):
ATGCCGATGCCATGTCCCAAACATGATCTTACACTAACACTCACAATAGCCGATGCATGTCCCAG
ACATGTCTTACACTAGCACTCGTCTTA
Found at i:57477764 original size:86 final size:86
Alignment explanation
Indices: 57477645--57477815 Score: 211
Period size: 86 Copynumber: 2.0 Consensus size: 86
57477635 CCCTCCTCTT
* * *
57477645 TTTTTTTCACTTAATTAAACACTTGAACTTTCAAAATGCATAAAAAAG-GCCTTCAAACTTCTTC
1 TTTTTTTCACTCAATTAAACACGTGAACTTTCAAAATGCATAAAAAAGACCCTT-AAACTTCTTC
57477709 AAAAACAA-AATTAAGCCCCTAC
65 AAAAA-AACAATTAAGCCCCTAC
** * * * ** *
57477731 TTTTTTTCACTCAATTGGATACGTGAACTTTCAAAATGTATCAAAAAGACCCTTAATTTTTTTCA
1 TTTTTTTCACTCAATTAAACACGTGAACTTTCAAAATGCATAAAAAAGACCCTTAAACTTCTTCA
57477796 AAAAAACAATTAAGCCCCTA
66 AAAAAACAATTAAGCCCCTA
57477816 GTCTAATTAA
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
85 2 0.03
86 66 0.92
87 4 0.06
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.33
Consensus pattern (86 bp):
TTTTTTTCACTCAATTAAACACGTGAACTTTCAAAATGCATAAAAAAGACCCTTAAACTTCTTCA
AAAAAACAATTAAGCCCCTAC
Found at i:57477873 original size:19 final size:19
Alignment explanation
Indices: 57477836--57477882 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
57477826 AAAATACAAA
* *
57477836 AAATTATTATAAAATTTATT
1 AAATT-TTAGAAAACTTATT
57477856 AAATTTTAGAAAACTTATT
1 AAATTTTAGAAAACTTATT
57477875 AAATTTTA
1 AAATTTTA
57477883 ATAAAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 20 0.80
20 5 0.20
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (19 bp):
AAATTTTAGAAAACTTATT
Found at i:57477904 original size:17 final size:18
Alignment explanation
Indices: 57477873--57477908 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
57477863 AGAAAACTTA
57477873 TTAAATTTTAATAAAAAT
1 TTAAATTTTAATAAAAAT
*
57477891 TTAAA-TTTATTAAAAAT
1 TTAAATTTTAATAAAAAT
57477908 T
1 T
57477909 AGATTTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAAATTTTAATAAAAAT
Found at i:57477952 original size:11 final size:10
Alignment explanation
Indices: 57477939--57477977 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
57477929 AAAAAATAAA
57477939 AAAAATTTAT
1 AAAAATTTAT
*
57477949 AAAATTTTAT
1 AAAAATTTAT
57477959 AAAAA-TTAT
1 AAAAATTTAT
57477968 AAAAAATTTA
1 -AAAAATTTA
57477978 ACAGCCCCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 4 0.16
10 18 0.72
11 3 0.12
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
AAAAATTTAT
Found at i:57478190 original size:10 final size:10
Alignment explanation
Indices: 57478177--57478262 Score: 60
Period size: 9 Copynumber: 9.2 Consensus size: 10
57478167 CTTTATAAAA
57478177 TTTTATAT-T
1 TTTTATATAT
57478186 TTTT-TATAT
1 TTTTATATAT
*
57478195 TTCTATATA-
1 TTTTATATAT
57478204 TTTTATATA-
1 TTTTATATAT
*
57478213 TTTTAT-GAT
1 TTTTATATAT
* *
57478222 TTTTATAAAA
1 TTTTATATAT
*
57478232 TTTTACA-AT
1 TTTTATATAT
*
57478241 TTTTAATAAAT
1 TTTT-ATATAT
57478252 TTTTA-ATAT
1 TTTTATATAT
57478261 TT
1 TT
57478263 GAATTTTTAT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
8 4 0.06
9 38 0.61
10 14 0.23
11 6 0.10
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (10 bp):
TTTTATATAT
Found at i:57478234 original size:19 final size:18
Alignment explanation
Indices: 57478168--57478262 Score: 77
Period size: 19 Copynumber: 5.1 Consensus size: 18
57478158 TTATTATGAC
57478168 TTTATAAAATTTTATATT
1 TTTATAAAATTTTATATT
* *
57478186 TTT-TTATATTTCTATATAT
1 TTTATAAAATTT-TATAT-T
*
57478205 TTTAT-ATATTTTATGATT
1 TTTATAAAATTTTAT-ATT
*
57478223 TTTATAAAATTTTACAATT
1 TTTATAAAATTTTA-TATT
*
57478242 TTTAATAAATTTTTAATATT
1 TTT-ATAAAATTTT-ATATT
57478262 T
1 T
57478263 GAATTTTTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
17 6 0.10
18 17 0.27
19 25 0.40
20 14 0.22
21 1 0.02
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (18 bp):
TTTATAAAATTTTATATT
Found at i:57478243 original size:27 final size:27
Alignment explanation
Indices: 57478168--57478236 Score: 86
Period size: 27 Copynumber: 2.5 Consensus size: 27
57478158 TTATTATGAC
*
57478168 TTTATAAAATTTTATATTTTTTTATATT
1 TTTATAAAATTTTATA-TATTTTATATT
* *
57478196 TCTAT-ATATTTTATATATTTTATGATT
1 TTTATAAAATTTTATATATTTTAT-ATT
57478223 TTTATAAAATTTTA
1 TTTATAAAATTTTA
57478237 CAATTTTTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
26 7 0.21
27 16 0.47
28 11 0.32
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (27 bp):
TTTATAAAATTTTATATATTTTATATT
Found at i:57478276 original size:26 final size:28
Alignment explanation
Indices: 57478238--57478290 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 28
57478228 AAAATTTTAC
*
57478238 AATTTTTAAT-AAATTT-TTAATATTTG
1 AATTTTTAATAAAATTTAATAATATTTG
*
57478264 AATTTTTATTAAAATTTAATAATATTT
1 AATTTTTAATAAAATTTAATAATATTT
57478291 ATAACTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 9 0.39
27 6 0.26
28 8 0.35
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (28 bp):
AATTTTTAATAAAATTTAATAATATTTG
Found at i:57478313 original size:45 final size:46
Alignment explanation
Indices: 57478220--57478320 Score: 109
Period size: 46 Copynumber: 2.2 Consensus size: 46
57478210 ATATTTTATG
* * *
57478220 ATTTTTA-TAAAATTTTACAATTTTTAATAAATTTTTAATATTTGA
1 ATTTTTATTAAAATTTAACAATATTTAATAAACTTTTAATATTTGA
* * *
57478265 ATTTTTATTAAAATTTAATAATATTT-AT-AACTTTTATTGATTTTA
1 ATTTTTATTAAAATTTAACAATATTTAATAAACTTTTAAT-ATTTGA
57478310 ATTTTTTATTA
1 A-TTTTTATTA
57478321 TTTTTTCTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
44 8 0.17
45 15 0.32
46 24 0.51
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (46 bp):
ATTTTTATTAAAATTTAACAATATTTAATAAACTTTTAATATTTGA
Found at i:57478495 original size:97 final size:95
Alignment explanation
Indices: 57478347--57478634 Score: 335
Period size: 90 Copynumber: 3.1 Consensus size: 95
57478337 ATAAAAGCAT
**
57478347 GGGCTTAA-TTGTG-TTTTTTTTTTTGGAAAA-GTTCAAGGGTCC-TTTTGATGCATTTTGAAAG
1 GGGCTTAAGTT-TGATTTTTTTTTTT-GAAAAGGTTTGAGGG-CCTTTTTGATGCATTTTGAAAG
* *
57478408 TTCAAGTACCCAATTGAGTGCAAAAAAAAAGTAG
63 TTCAAGTACCAAAATGAGTGCAAAAAAAAA-TAG
**
57478442 GGGCTTAAGTTTTTCTTTTTTTTTTTGAAAAGGTTTGAGGGCCTTTTTGATGCATTTTGAAAGTT
1 GGGCTTAAG-TTTGATTTTTTTTTTTGAAAAGGTTTGAGGGCCTTTTTGATGCATTTTGAAAGTT
*
57478507 CAAGTACCTAAATGAGTGCAAAAAAAAATCA-
65 CAAGTACCAAAATGAGTGCAAAAAAAAAT-AG
** * * *
57478538 -GG----AGTTTGATTGCTTTTTTTGAAAAGGTTTGAAGACCTTTTTGATACATTTTGAAAGTTC
1 GGGCTTAAGTTTGATTTTTTTTTTTGAAAAGGTTTGAGGGCCTTTTTGATGCATTTTGAAAGTTC
*
57478598 AAGTACCAAAATGAGTGCAAAAAAAATTAG
66 AAGTACCAAAATGAGTGCAAAAAAAAATAG
57478628 GGGCTTA
1 GGGCTTA
57478635 GTTGCTTTGT
Statistics
Matches: 167, Mismatches: 14, Indels: 24
0.81 0.07 0.12
Matches are distributed among these distances:
89 1 0.01
90 75 0.45
91 4 0.02
95 10 0.06
96 9 0.05
97 68 0.41
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.37
Consensus pattern (95 bp):
GGGCTTAAGTTTGATTTTTTTTTTTGAAAAGGTTTGAGGGCCTTTTTGATGCATTTTGAAAGTTC
AAGTACCAAAATGAGTGCAAAAAAAAATAG
Found at i:57478569 original size:90 final size:88
Alignment explanation
Indices: 57478461--57478668 Score: 301
Period size: 90 Copynumber: 2.3 Consensus size: 88
57478451 TTTTTCTTTT
*
57478461 TTTTTTTGAAAAGGTTTGAGGGCCTTTTTGATGCATTTTGAAAGTTCAAGTACCTAAATGAGTGC
1 TTTTTTTGAAAAGGTTTGAGGGCCTTTTTGATGCATTTTGAAAGTTCAAGTACCAAAATGAGTGC
57478526 AAAAAAAAATCAGGAGTTTGATTGC
66 AAAAAAAAAT-AGGAGTTT-ATTGC
* * *
57478551 TTTTTTTGAAAAGGTTTGAAGACCTTTTTGATACATTTTGAAAGTTCAAGTACCAAAATGAGTGC
1 TTTTTTTGAAAAGGTTTGAGGGCCTTTTTGATGCATTTTGAAAGTTCAAGTACCAAAATGAGTGC
* * *
57478616 AAAAAAAATTAGGGGCTTAGTTGC
66 AAAAAAAAATAGGAGTTTA-TTGC
* *
57478640 TTTGTTTGAAAAAGTTTGA-GGCCTTTTTG
1 TTTTTTTGAAAAGGTTTGAGGGCCTTTTTG
57478669 CACCTTTAAG
Statistics
Matches: 107, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
88 10 0.09
89 27 0.25
90 70 0.65
ACGTcount: A:0.32, C:0.10, G:0.22, T:0.37
Consensus pattern (88 bp):
TTTTTTTGAAAAGGTTTGAGGGCCTTTTTGATGCATTTTGAAAGTTCAAGTACCAAAATGAGTGC
AAAAAAAAATAGGAGTTTATTGC
Found at i:57489643 original size:76 final size:77
Alignment explanation
Indices: 57489520--57489666 Score: 242
Period size: 76 Copynumber: 1.9 Consensus size: 77
57489510 ATTCTACGAT
57489520 TGTTGTCCTAAAAACAGTTCTTAAATCTTACTAAGATTAGAGTTCCTTTACATGTTCTAATTTAA
1 TGTTGTCCTAAAAACAG-T-TTAAATCTTACTAAGATTAGAGTTCCTTTACATGTTCTAATTTAA
57489585 ATGGATTCTAGGGC
64 ATGGATTCTAGGGC
* * *
57489599 TGTTGTCCTAGAAACAG-TTAAATTTTACTAAGATTCGAGTTCCTTTACATGTTCTAATTTAAAT
1 TGTTGTCCTAAAAACAGTTTAAATCTTACTAAGATTAGAGTTCCTTTACATGTTCTAATTTAAAT
57489663 GGAT
66 GGAT
57489667 GTGGATTTTG
Statistics
Matches: 65, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
76 49 0.75
79 16 0.25
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Consensus pattern (77 bp):
TGTTGTCCTAAAAACAGTTTAAATCTTACTAAGATTAGAGTTCCTTTACATGTTCTAATTTAAAT
GGATTCTAGGGC
Found at i:57491503 original size:30 final size:31
Alignment explanation
Indices: 57491469--57491530 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
57491459 AAAGGAAAAG
* *
57491469 TTTAA-AATTTTAAAATAAAATTTTGATTTT
1 TTTAACAATTTCAAAATAAAATTTTAATTTT
*
57491499 TTTAACTATTTCAAAATAAAATTTTAATTTT
1 TTTAACAATTTCAAAATAAAATTTTAATTTT
57491530 T
1 T
57491531 AAGAAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 5 0.18
31 23 0.82
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (31 bp):
TTTAACAATTTCAAAATAAAATTTTAATTTT
Found at i:57491549 original size:148 final size:143
Alignment explanation
Indices: 57491111--57491541 Score: 504
Period size: 139 Copynumber: 3.0 Consensus size: 143
57491101 AAAGTTTTGA
* *
57491111 TTTTTTTT--AAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATATGTTTTTTACTCATTTTAGA
1 TTTTTTTTAAAAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATAT-ATTTTTAGTCATTTTA-A
* * *
57491174 A-GAAAAGTTTAAAATTTTAAAGCAAAGTTTTGACCTTTTTCAACTATTTCGAAATAAAAGTTTG
64 AGGAAAAGTTTAAAATTTTAAAACAAAATTTTGA--TTTTT-AACTATTTCGAAATAAAATTTTG
57491238 ATTTTTAAGAAAAATAGT
126 ATTTTTAAGAAAAATAGT
* * * * *
57491256 TATTTTTTAAAAAAAAGAGAAACTTTTGGTTTTTAAAAAATAAAAATATGTTTTTAGTCATTTTA
1 T-TTTTTT-TAAAAAAGAGAAAGTTTAGATTTTT-AAAAATAAAAATATATTTTTAGTCATTTTA
* * *
57491321 AAGGAAAATTTTAAATTTTTAAAACAAAATTTTG-------ACTATTTCGAAATAAATTTTTGAT
63 AAGGAAAAGTTTAAAATTTTAAAACAAAATTTTGATTTTTAACTATTTCGAAATAAAATTTTGAT
57491379 TTTTAAGAAAAATAGT
128 TTTTAAGAAAAATAGT
* * *
57491395 GATTTTTTTTAAAAAATGAGAAAGTTTAAATTTTTAAAAATTAAAATATATATTTAGTCATTTTA
1 --TTTTTTTTAAAAAA-GAGAAAGTTTAGATTTTTAAAAATAAAAATATATTTTTAGTCATTTTA
* * *
57491460 AAGGAAAAGTTTAAAATTTTAAAATAAAATTTTGATTTTTTTAACTATTTCAAAATAAAATTTTA
63 AAGGAAAAGTTTAAAATTTTAAAACAAAATTTTGA--TTTTTAACTATTTCGAAATAAAATTTTG
57491525 ATTTTTAAGAAAAATAG
126 ATTTTTAAGAAAAATAG
57491542 ACTTTTTTAA
Statistics
Matches: 242, Mismatches: 26, Indels: 33
0.80 0.09 0.11
Matches are distributed among these distances:
139 102 0.42
140 20 0.08
141 1 0.00
145 1 0.00
146 6 0.02
148 38 0.16
149 60 0.25
150 14 0.06
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.43
Consensus pattern (143 bp):
TTTTTTTTAAAAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATATATTTTTAGTCATTTTAAAG
GAAAAGTTTAAAATTTTAAAACAAAATTTTGATTTTTAACTATTTCGAAATAAAATTTTGATTTT
TAAGAAAAATAGT
Found at i:57492764 original size:53 final size:53
Alignment explanation
Indices: 57492706--57492811 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
57492696 TGTTGACATG
57492706 AAGTTAGTTAAGTAGGTGTTACATTTTAATGAAACCATAAGGTTTTTACATTC
1 AAGTTAGTTAAGTAGGTGTTACATTTTAATGAAACCATAAGGTTTTTACATTC
*
57492759 AAGTTAGTTAAGTAGGTGTTACATTTTAATGAAATCATAAGGTTTTTACATTC
1 AAGTTAGTTAAGTAGGTGTTACATTTTAATGAAACCATAAGGTTTTTACATTC
57492812 GAATTTAGGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.41
Consensus pattern (53 bp):
AAGTTAGTTAAGTAGGTGTTACATTTTAATGAAACCATAAGGTTTTTACATTC
Found at i:57492809 original size:27 final size:27
Alignment explanation
Indices: 57492724--57492810 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 27
57492714 TAAGTAGGTG
*
57492724 TTACATTTTAATGAAACCATAAGGTTT
1 TTACATTTTAATGAAATCATAAGGTTT
* * ** * *
57492751 TTACA-TTCAAGTTAGTTAAGT-AGG-TG
1 TTACATTTTAA-TGAAATCA-TAAGGTTT
57492777 TTACATTTTAATGAAATCATAAGGTTT
1 TTACATTTTAATGAAATCATAAGGTTT
57492804 TTACATT
1 TTACATT
57492811 CGAATTTAGG
Statistics
Matches: 42, Mismatches: 13, Indels: 10
0.65 0.20 0.15
Matches are distributed among these distances:
25 1 0.02
26 17 0.40
27 23 0.55
28 1 0.02
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (27 bp):
TTACATTTTAATGAAATCATAAGGTTT
Found at i:57493635 original size:14 final size:14
Alignment explanation
Indices: 57493613--57493651 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
57493603 TTATTGTCTA
*
57493613 GAATATGTGAATAT
1 GAATGTGTGAATAT
57493627 GAATGTGTGAATAT
1 GAATGTGTGAATAT
57493641 GAATGTGTGAA
1 GAATGTGTGAA
57493652 AGTTTTAAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.28, T:0.33
Consensus pattern (14 bp):
GAATGTGTGAATAT
Found at i:57495289 original size:39 final size:40
Alignment explanation
Indices: 57495152--57495289 Score: 226
Period size: 40 Copynumber: 3.5 Consensus size: 40
57495142 CGGATGATAA
57495152 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
57495192 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
57495232 CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
57495272 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
57495290 TACTTGGTTT
Statistics
Matches: 94, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
39 17 0.18
40 77 0.82
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:57504376 original size:39 final size:39
Alignment explanation
Indices: 57504333--57504499 Score: 244
Period size: 39 Copynumber: 4.3 Consensus size: 39
57504323 GGTCTTTAAC
** *
57504333 CCGGATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
* * *
57504372 CCGGATATATTTCTAGCATATAGCCTGCGGATCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
* * *
57504411 CCGGATATTTTTCTAGCATATAGCCTTCGGATCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
*
57504450 CCGGATATTTTTCCAGCATATAGCCTACGGACCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
57504489 CCGGATATTTT
1 CCGGATATTTT
57504500 CAATCTCATA
Statistics
Matches: 117, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 117 1.00
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.33
Consensus pattern (39 bp):
CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
Found at i:57514407 original size:40 final size:40
Alignment explanation
Indices: 57514370--57514555 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
57514360 GCTACTCGTT
* * *
57514370 CAAATGCCTTCGGGACATAGCCCAG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
57514410 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
57514450 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** * * * *
57514490 CCAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
57514531 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
57514556 CATCATTCGA
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.02
40 115 0.88
41 12 0.09
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:57515752 original size:56 final size:56
Alignment explanation
Indices: 57515685--57515804 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
57515675 TATTAGTTTA
57515685 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
57515741 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
57515797 TTGCCCAT
1 TTGCCCAT
57515805 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:57522314 original size:40 final size:40
Alignment explanation
Indices: 57522277--57522369 Score: 134
Period size: 40 Copynumber: 2.3 Consensus size: 40
57522267 GCTACTCGTT
*
57522277 CAAATGCCTTCGGGACATAGCCCAG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCAGATT-TAGTAACTCGCA
* *
57522317 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCAGATTTAGTAACTCGCA
*
57522357 CCAATGCCTTCGG
1 CAAATGCCTTCGG
57522370 ATCTTAGTCC
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
40 46 0.96
41 2 0.04
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCAGATTTAGTAACTCGCA
Found at i:57523615 original size:56 final size:56
Alignment explanation
Indices: 57523548--57523667 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
57523538 TATTAGATTA
57523548 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
57523604 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
57523660 TTGCCCAT
1 TTGCCCAT
57523668 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:57526208 original size:30 final size:30
Alignment explanation
Indices: 57526172--57526241 Score: 104
Period size: 30 Copynumber: 2.3 Consensus size: 30
57526162 CACGGGCACA
*
57526172 AGACACGGCCGTATCTCTCGGCCGTGTGAG
1 AGACACGGCCGTATATCTCGGCCGTGTGAG
* *
57526202 AGACACGGCTGTATATCTCGGTCGTGTGAG
1 AGACACGGCCGTATATCTCGGCCGTGTGAG
*
57526232 AGACAAGGCC
1 AGACACGGCC
57526242 ATAGGACATG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.21, C:0.26, G:0.33, T:0.20
Consensus pattern (30 bp):
AGACACGGCCGTATATCTCGGCCGTGTGAG
Found at i:57527339 original size:10 final size:10
Alignment explanation
Indices: 57527324--57527370 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
57527314 TAACATGTTG
57527324 AATTTTAATT
1 AATTTTAATT
57527334 AATTTTATAATT
1 AA-TTT-TAATT
*
57527346 AATTTTGATT
1 AATTTTAATT
*
57527356 AATTTTGATT
1 AATTTTAATT
57527366 -ATTTT
1 AATTTT
57527371 CAACAGATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
9 5 0.15
10 16 0.47
11 6 0.18
12 7 0.21
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (10 bp):
AATTTTAATT
Found at i:57529777 original size:28 final size:28
Alignment explanation
Indices: 57529751--57529803 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
57529741 ATGAATTTGA
*
57529751 GTAAATT-GGG-CTAAATTGTGAAATTT
1 GTAAATTAGGGACTAAAATGTGAAATTT
57529777 GTAAATTGAGGGACTAAAATGTGAAAT
1 GTAAATT-AGGGACTAAAATGTGAAAT
57529804 AAATGAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 7 0.30
28 3 0.13
29 13 0.57
ACGTcount: A:0.40, C:0.04, G:0.25, T:0.32
Consensus pattern (28 bp):
GTAAATTAGGGACTAAAATGTGAAATTT
Found at i:57530424 original size:44 final size:42
Alignment explanation
Indices: 57530355--57530509 Score: 134
Period size: 43 Copynumber: 3.6 Consensus size: 42
57530345 TGTGTTGTCA
* * **
57530355 TGTAAGACCACGTCTGGGACGTTGGCATC-TATTTGTGATTTACG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTA--TACGATTT-CG
*
57530399 TGTATGACCATGTCTGGGACATTGGCATCGTATACGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATACGATTTCG
* * * * * *
57530441 TGTAAGACCCTGTCTGGGACAGTGGCATTG-ATAATTGATTACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGTAT-A-CGATTTCG
* *
57530484 TGTAAGACCACGTCTGGGACGTTGGC
1 TGTAAGACCATGTCTGGGACATTGGC
57530510 CTTGTACGAG
Statistics
Matches: 92, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
41 2 0.02
42 29 0.32
43 33 0.36
44 26 0.28
45 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTATACGATTTCG
Found at i:57530502 original size:43 final size:43
Alignment explanation
Indices: 57530353--57530503 Score: 132
Period size: 42 Copynumber: 3.5 Consensus size: 43
57530343 TATGTGTTGT
* *
57530353 CATGTAAGACCACGTCTGGGAC-GTTGGCATCT-ATTTGTGATTTA
1 CATGTAAGACCACGTCTGGGACAG-TGGCAT-TGATATATGA-TTA
* * * * * * *
57530397 CGTGTATGACCATGTCTGGGACATTGGCATCG-TATACGATTT
1 CATGTAAGACCACGTCTGGGACAGTGGCATTGATATATGATTA
*
57530439 CGTGTAAGACC-CTGTCTGGGACAGTGGCATTGATA-ATTGATTA
1 CATGTAAGACCAC-GTCTGGGACAGTGGCATTGATATA-TGATTA
57530482 CATGTAAGACCACGTCTGGGAC
1 CATGTAAGACCACGTCTGGGAC
57530504 GTTGGCCTTG
Statistics
Matches: 85, Mismatches: 16, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
42 30 0.35
43 29 0.34
44 26 0.31
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.30
Consensus pattern (43 bp):
CATGTAAGACCACGTCTGGGACAGTGGCATTGATATATGATTA
Found at i:57531888 original size:55 final size:54
Alignment explanation
Indices: 57531773--57531890 Score: 130
Period size: 55 Copynumber: 2.1 Consensus size: 54
57531763 CTTACGATTT
* * * *
57531773 TAAGTCAGTCTCGAGCACGGCCAAGGCACATAGGTGTGTGGCTAGTCGTGTGAC
1 TAAGTCAGTATCGACCACGGCCAAGGCACATAGGTGTCTGGCTAGTCGTGTGAA
* * * *
57531827 TCAAGTCAGTATCGACCACGGCCAAGGCACGTGGGCATGTCTTG-TGGTCGTGTGAA
1 T-AAGTCAGTATCGACCACGGCCAAGGCACATAGG--TGTCTGGCTAGTCGTGTGAA
57531883 TAAGTCAG
1 TAAGTCAG
57531891 CATGTATGCC
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
54 1 0.02
55 36 0.68
56 11 0.21
57 5 0.09
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (54 bp):
TAAGTCAGTATCGACCACGGCCAAGGCACATAGGTGTCTGGCTAGTCGTGTGAA
Found at i:57531970 original size:42 final size:42
Alignment explanation
Indices: 57531921--57532017 Score: 176
Period size: 42 Copynumber: 2.3 Consensus size: 42
57531911 ATGGCCTAGA
*
57531921 CACACGGGTGTGTCTAATGCCGTGTGAGGCACACGGCCTGTT
1 CACACGGGCGTGTCTAATGCCGTGTGAGGCACACGGCCTGTT
*
57531963 CATACGGGCGTGTCTAATGCCGTGTGAGGCACACGGCCTGTT
1 CACACGGGCGTGTCTAATGCCGTGTGAGGCACACGGCCTGTT
57532005 CACACGGGCGTGT
1 CACACGGGCGTGT
57532018 GACCTTTGTA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.16, C:0.27, G:0.34, T:0.23
Consensus pattern (42 bp):
CACACGGGCGTGTCTAATGCCGTGTGAGGCACACGGCCTGTT
Found at i:57537271 original size:44 final size:42
Alignment explanation
Indices: 57537206--57537315 Score: 130
Period size: 44 Copynumber: 2.6 Consensus size: 42
57537196 ATATGTGTTA
* ** * **
57537206 TCGTGTAAGACCACGTCTGGGATGTTGGCATCGATTTGTGATT
1 TCGTGTAAGACCATGTCTGGGACATTGGCATCG-TATACGATT
*
57537249 TAGGTGTAAGACCATGTCTGGGACATTGGCATCGTATACGATT
1 T-CGTGTAAGACCATGTCTGGGACATTGGCATCGTATACGATT
*
57537292 TCGTGTAAGACCCTGTCTGGGACA
1 TCGTGTAAGACCATGTCTGGGACA
57537316 GCGGCATTGA
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
42 21 0.37
43 8 0.14
44 28 0.49
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (42 bp):
TCGTGTAAGACCATGTCTGGGACATTGGCATCGTATACGATT
Found at i:57541851 original size:12 final size:12
Alignment explanation
Indices: 57541830--57541860 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
57541820 ATTCAAATCC
57541830 AAAAAAAAAAAG
1 AAAAAAAAAAAG
*
57541842 AAAAAGAAAAAG
1 AAAAAAAAAAAG
57541854 AAAAAAA
1 AAAAAAA
57541861 GAAACCATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:57543046 original size:11 final size:11
Alignment explanation
Indices: 57543014--57543038 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
57543004 ATATTTAGGG
57543014 AGTGTTATTAA
1 AGTGTTATTAA
57543025 AGTGTTATTAA
1 AGTGTTATTAA
57543036 AGT
1 AGT
57543039 TTCATTAAGA
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:0.36, C:0.00, G:0.20, T:0.44
Consensus pattern (11 bp):
AGTGTTATTAA
Found at i:57544266 original size:45 final size:45
Alignment explanation
Indices: 57544153--57544266 Score: 183
Period size: 45 Copynumber: 2.5 Consensus size: 45
57544143 CCAAATATCC
* *
57544153 CTTCTCCTCCCTCTCAAATAGTTTCTCCTTGACCGATTACTTCTT
1 CTTCTCCTCCCTCTCAAATGGTTTCTCCTTGACCAATTACTTCTT
*
57544198 CTTCTCCTCCCTCTCAAATGGTTTCTCCTTGACCAATTGCTTCTT
1 CTTCTCCTCCCTCTCAAATGGTTTCTCCTTGACCAATTACTTCTT
* *
57544243 CTTCTCCTCTCTCTCAAACGGTTT
1 CTTCTCCTCCCTCTCAAATGGTTT
57544267 TCTTCTCAAC
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 64 1.00
ACGTcount: A:0.14, C:0.36, G:0.08, T:0.42
Consensus pattern (45 bp):
CTTCTCCTCCCTCTCAAATGGTTTCTCCTTGACCAATTACTTCTT
Found at i:57544293 original size:46 final size:45
Alignment explanation
Indices: 57544153--57544302 Score: 140
Period size: 45 Copynumber: 3.3 Consensus size: 45
57544143 CCAAATATCC
** ** * *
57544153 CTTCTCCTCCCTCTCAAATAGTTTCTCCTTGACCGATTACTTCTT
1 CTTCTCCTCCCTCTCAAACGGTTTCTCCTCAACCAATTGCTTCTT
* **
57544198 CTTCTCCTCCCTCTCAAATGGTTTCTCCTTGACCAATTGCTTCTT
1 CTTCTCCTCCCTCTCAAACGGTTTCTCCTCAACCAATTGCTTCTT
* * **
57544243 CTTCTCCTCTCTCTCAAACGGTTTTCTTCTCAACTGATTGCTT-TT
1 CTTCTCCTCCCTCTCAAACGG-TTTCTCCTCAACCAATTGCTTCTT
*
57544288 ACTTCTTCTGCCCTC
1 -CTTCTCCT-CCCTC
57544303 ACTGTAACAC
Statistics
Matches: 90, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
45 63 0.70
46 23 0.26
47 4 0.04
ACGTcount: A:0.13, C:0.35, G:0.08, T:0.43
Consensus pattern (45 bp):
CTTCTCCTCCCTCTCAAACGGTTTCTCCTCAACCAATTGCTTCTT
Found at i:57545176 original size:37 final size:37
Alignment explanation
Indices: 57545117--57545218 Score: 168
Period size: 37 Copynumber: 2.8 Consensus size: 37
57545107 AGCTCAGACG
* *
57545117 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
57545154 AAATCTCCATACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
57545191 TAATCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGTAGTCATCGGGTCTT
57545219 TAGAGCTCGG
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:57545509 original size:49 final size:47
Alignment explanation
Indices: 57545335--57545551 Score: 353
Period size: 47 Copynumber: 4.6 Consensus size: 47
57545325 CCCTTCGGGA
* * * *
57545335 CTTATCACATTTATACACTTTCACATCCATCACATCGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
57545382 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57545429 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
57545476 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57545525 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
57545552 TATTCAAATA
Statistics
Matches: 159, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
47 113 0.71
49 46 0.29
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:57545532 original size:96 final size:94
Alignment explanation
Indices: 57545335--57545551 Score: 353
Period size: 96 Copynumber: 2.3 Consensus size: 94
57545325 CCCTTCGGGA
* * * *
57545335 CTTATCACATTTATACACTTTCACATCCATCACATCGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATACAC
57545400 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
57545429 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCAC--ATATATAC
*
57545494 ACTTTCACATTCATCACATCGGCTATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
57545525 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
57545552 TATTCAAATA
Statistics
Matches: 114, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
94 49 0.43
96 65 0.57
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Done.