Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 569 of 770
Found at i:177393739 original size:78 final size:78
Alignment explanation
Indices: 177393594--177393746 Score: 175
Period size: 78 Copynumber: 2.0 Consensus size: 78
177393584 AAGTATATCC
** * * * * *
177393594 GGACTTAAGGTCCGTAGGCTATGTGCTGGAATTATATCTGGACTTAAGGTCCGCAAGCTATGTGC
1 GGACTTAAGGTCCACAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAAGCTATGAGC
177393659 TGGAATTATAACT
66 TGGAATTATAACT
* * *
177393672 GGACTTAAGGTCCACAGGCTACGTGCTGGAAATATGTCCGGGC-TAAAGTCCCGTAAGCT-TCGA
1 GGACTTAAGGTCCACAGGCTACGTGCTGGAAATATATCCGGACTTAAAGT-CCGCAAGCTAT-GA
*
177393735 GCTGGTATTATA
64 GCTGGAATTATA
177393747 CCGGGTTTAA
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
77 6 0.10
78 56 0.90
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.28
Consensus pattern (78 bp):
GGACTTAAGGTCCACAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAAGCTATGAGC
TGGAATTATAACT
Found at i:177395886 original size:22 final size:22
Alignment explanation
Indices: 177395861--177395907 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
177395851 TTTAGCTTTG
177395861 CAAGCTTGCTCAACAAGTACCA
1 CAAGCTTGCTCAACAAGTACCA
177395883 CAAGCTTGCTCAACAAGTACCA
1 CAAGCTTGCTCAACAAGTACCA
177395905 CAA
1 CAA
177395908 ACTCTTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.38, C:0.32, G:0.13, T:0.17
Consensus pattern (22 bp):
CAAGCTTGCTCAACAAGTACCA
Found at i:177402252 original size:38 final size:38
Alignment explanation
Indices: 177402080--177402240 Score: 250
Period size: 38 Copynumber: 4.2 Consensus size: 38
177402070 GAATCTAGTC
* * * *
177402080 ACCAGCACAAAACCTGCGGGACTTTAAGCTCGAATATAAT
1 ACCAGCACTAAGCCTGCGGGA-TTTAA-CCCGGATATAAT
177402120 ACCAGCACTAAGCCTGCGGGATTTAACCCGGATATAAT
1 ACCAGCACTAAGCCTGCGGGATTTAACCCGGATATAAT
177402158 ACCAGCACTAAGCCTGCGGGATTTAACCCGGATATAAT
1 ACCAGCACTAAGCCTGCGGGATTTAACCCGGATATAAT
* *
177402196 ACCAGCACGAAGCCTGCGGGATTTAACCCGCATATAAT
1 ACCAGCACTAAGCCTGCGGGATTTAACCCGGATATAAT
177402234 ACCAGCA
1 ACCAGCA
177402241 TGAAGCTTGC
Statistics
Matches: 115, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
38 91 0.79
39 5 0.04
40 19 0.17
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.19
Consensus pattern (38 bp):
ACCAGCACTAAGCCTGCGGGATTTAACCCGGATATAAT
Found at i:177402252 original size:76 final size:78
Alignment explanation
Indices: 177402080--177402269 Score: 271
Period size: 76 Copynumber: 2.5 Consensus size: 78
177402070 GAATCTAGTC
* * * * *
177402080 ACCAGCACAAAACCTGCGGGACTTTAAGCTCGAATATAATACCAGCACTAAGCCTGCGGGATTTA
1 ACCAGCACTAAGCCTGCGGGACTTTAAGCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTA
*
177402145 ACCCGGATATAAT
66 ACCCGCATATAAT
177402158 ACCAGCACTAAGCCTGCGGGA-TTTAA-CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTA
1 ACCAGCACTAAGCCTGCGGGACTTTAAGCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTA
177402221 ACCCGCATATAAT
66 ACCCGCATATAAT
*
177402234 ACCAGCA-TGAAGCTTGC-GGATCTTTAAGCCCGGATA
1 ACCAGCACT-AAGCCTGCGGGA-CTTTAAGCCCGGATA
177402270 CACATCAAAT
Statistics
Matches: 101, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
75 4 0.04
76 60 0.59
77 10 0.10
78 27 0.27
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (78 bp):
ACCAGCACTAAGCCTGCGGGACTTTAAGCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTA
ACCCGCATATAAT
Found at i:177410229 original size:38 final size:38
Alignment explanation
Indices: 177410152--177410270 Score: 132
Period size: 38 Copynumber: 3.1 Consensus size: 38
177410142 GAATCCAGTC
* * *
177410152 ACCAGCACAAAACCTGTGGGACTTTAAGCTCG-ATTATAAT
1 ACCAGCACAAAGCCTGCGGGA-TTTAA-CCCGCA-TATAAT
* * * *
177410192 AGCAGCACTAAGCTTGCGGGATTTAACCCGGATATAAT
1 ACCAGCACAAAGCCTGCGGGATTTAACCCGCATATAAT
*
177410230 ACCAGCACAAAGCCTGCGGGATTTAACCTGCATATAAT
1 ACCAGCACAAAGCCTGCGGGATTTAACCCGCATATAAT
177410268 ACC
1 ACC
177410271 GGCATGAAGC
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
38 45 0.67
39 6 0.09
40 16 0.24
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (38 bp):
ACCAGCACAAAGCCTGCGGGATTTAACCCGCATATAAT
Found at i:177412175 original size:24 final size:24
Alignment explanation
Indices: 177412146--177412214 Score: 113
Period size: 24 Copynumber: 2.9 Consensus size: 24
177412136 ATTCCGTAAA
*
177412146 TTTTTCCT-GAATTTTTCGTTGAT
1 TTTTTTCTAGAATTTTTCGTTGAT
*
177412169 TTTTTTCTATAATTTTTCGTTGAT
1 TTTTTTCTAGAATTTTTCGTTGAT
177412193 TTTTTTCTAGAATTTTTCGTTG
1 TTTTTTCTAGAATTTTTCGTTG
177412215 GGCCAATTGG
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
23 7 0.17
24 35 0.83
ACGTcount: A:0.14, C:0.10, G:0.12, T:0.64
Consensus pattern (24 bp):
TTTTTTCTAGAATTTTTCGTTGAT
Found at i:177413503 original size:38 final size:38
Alignment explanation
Indices: 177413411--177413560 Score: 221
Period size: 38 Copynumber: 3.9 Consensus size: 38
177413401 TATGGTAACC
** * *
177413411 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAA-T
*
177413451 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAA-T
177413490 CGC-CAATTGCCTTCGGGCTTAGCCCGGATATCATAAT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAAT
177413527 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
177413561 CTCGAACATT
Statistics
Matches: 102, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
37 4 0.04
38 63 0.62
39 20 0.20
40 15 0.15
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (38 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAAT
Found at i:177423205 original size:27 final size:27
Alignment explanation
Indices: 177423175--177423236 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
177423165 TTTAAAACCC
177423175 TAGGGGTATATCGGTAATTTTGCTCTT
1 TAGGGGTATATCGGTAATTTTGCTCTT
*
177423202 TA-GGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGT-ATATCGGTAATTTTGCTCTT
177423229 TAGGGGTA
1 TAGGGGTA
177423237 ATTTCGTGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 4 0.12
27 24 0.75
28 4 0.12
ACGTcount: A:0.19, C:0.10, G:0.27, T:0.44
Consensus pattern (27 bp):
TAGGGGTATATCGGTAATTTTGCTCTT
Found at i:177425103 original size:28 final size:28
Alignment explanation
Indices: 177425038--177425138 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
177425028 ATAGTGAATC
*
177425038 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
177425067 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
177425095 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
177425125 CGCACACTTAGTGC
1 CGCACACTTAGTGC
177425139 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:177433063 original size:28 final size:28
Alignment explanation
Indices: 177432998--177433098 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
177432988 ATAGTGAATC
*
177432998 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
177433027 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
177433055 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
177433085 CGCACACTTAGTGC
1 CGCACACTTAGTGC
177433099 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:177435455 original size:12 final size:12
Alignment explanation
Indices: 177435438--177435462 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
177435428 AGTTTCGGCT
177435438 AGAGAGGAAAAA
1 AGAGAGGAAAAA
177435450 AGAGAGGAAAAA
1 AGAGAGGAAAAA
177435462 A
1 A
177435463 CCCTAAGGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (12 bp):
AGAGAGGAAAAA
Found at i:177436002 original size:20 final size:20
Alignment explanation
Indices: 177435979--177436016 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
177435969 CACATCCAAA
*
177435979 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
177435999 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
177436017 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:177442339 original size:28 final size:28
Alignment explanation
Indices: 177442293--177442361 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
177442283 TTTAAAACCC
*
177442293 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
177442320 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
177442348 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
177442362 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:177443992 original size:20 final size:20
Alignment explanation
Indices: 177443969--177444006 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
177443959 CACATCCAAA
*
177443969 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
177443989 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
177444007 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:177451540 original size:46 final size:48
Alignment explanation
Indices: 177451489--177451619 Score: 175
Period size: 46 Copynumber: 2.8 Consensus size: 48
177451479 ATGGTTGAGC
177451489 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T-G
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAACTAG
* *
177451536 -TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATGTAACTAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACTA-G
177451581 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
177451620 GCGGGTTACA
Statistics
Matches: 73, Mismatches: 3, Indels: 13
0.82 0.03 0.15
Matches are distributed among these distances:
42 2 0.03
43 5 0.07
45 3 0.04
46 30 0.41
47 30 0.41
48 2 0.03
50 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (48 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACTAG
Found at i:177454558 original size:15 final size:15
Alignment explanation
Indices: 177454538--177454606 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
177454528 GTATCTTGGG
177454538 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
177454553 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
177454568 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
177454583 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
177454598 TTTCTTTAT
1 TTTCTTTAT
177454607 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:177454607 original size:30 final size:30
Alignment explanation
Indices: 177454529--177454616 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
177454519 CATAGTATCG
* * * *
177454529 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
177454559 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
177454589 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
177454617 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:177457118 original size:97 final size:93
Alignment explanation
Indices: 177456998--177457172 Score: 287
Period size: 97 Copynumber: 1.8 Consensus size: 93
177456988 GGATGGTTGA
*
177456998 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGATGTCCGAACCGAACTCGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA---ACG-ACCGAACTCGTT
177457063 GAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
62 GAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
* *
177457095 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGACCGAACTCGTTGAGT
177457160 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
177457173 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
93 27 0.36
94 2 0.03
97 46 0.61
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGACCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:177457171 original size:46 final size:46
Alignment explanation
Indices: 177457002--177457180 Score: 195
Period size: 46 Copynumber: 3.8 Consensus size: 46
177456992 GGTTGAGCAT
* *
177457002 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGATGTCCGAA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA---ACG-C
* * *
177457052 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
177457097 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
177457145 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
177457181 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 22
0.78 0.06 0.15
Matches are distributed among these distances:
43 1 0.01
46 37 0.33
47 32 0.29
48 4 0.04
49 2 0.02
50 32 0.29
51 3 0.03
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:177458617 original size:28 final size:28
Alignment explanation
Indices: 177458571--177458642 Score: 128
Period size: 28 Copynumber: 2.6 Consensus size: 28
177458561 TTTAAAACCC
*
177458571 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
177458598 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
177458626 TAGGGGTAATTTCGGTA
1 TAGGGGTAATTTCGGTA
177458643 TCTACGCTAC
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
27 7 0.16
28 36 0.84
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:177475386 original size:94 final size:93
Alignment explanation
Indices: 177475234--177475593 Score: 348
Period size: 94 Copynumber: 3.8 Consensus size: 93
177475224 GTTATGTGAG
* * ** * * *
177475234 AGCCAGTATAAGACCATGTCTAGGACATGGCATCGGCATTGAGACGAGGGCTATTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGC-TAGAGGTGAGTGCCAGTGTAAGACATG
* *
177475299 TCTAGGACATGCATCAGCCGCATCATGAT
65 TCTGGGACATGCATTAGCCGCATCATGAT
* * *
177475328 AGCCCGTGTAAGACCATGTATGGGACATGGCATCGGCGTAGAGGTGAGTGCCAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGC-TAGAGGTGAGTGCCAGTGTAAGACATG
* * * *
177475393 TCTGGGACATGCATTGGCCTCGATGATGTT
65 TCTGGGACATGCATTAGCCGC-ATCATGAT
* * ** *
177475423 AGCCAGTGTAAGA-CGTGTCTAGGACAT-GCATCGGCTA-AGTTTCGTGCTAGTGTAAGACATTG
1 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCTAGAGGTGAGTGCCAGTGTAAGACA-TG
* * *
177475485 TCTGGGACATGCATTAGCACGTATACACGAG
65 TCTGGGACATGCATTAGC-CGCAT-CATGAT
* * * * **
177475516 AGCTAGTGTAAGACCATGTCTAGGACATGGCATTGGCCTCGATGGAGAAAGCCAGTGTAAGACCA
1 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGG-CTAGA-GGTGAGTGCCAGTGTAAGA-CA
177475581 TGTCTGGGACATG
63 TGTCTGGGACATG
177475594 GCAGCAACAA
Statistics
Matches: 213, Mismatches: 43, Indels: 16
0.78 0.16 0.06
Matches are distributed among these distances:
91 18 0.08
92 23 0.11
93 23 0.11
94 95 0.45
95 24 0.11
96 2 0.01
97 1 0.00
98 25 0.12
99 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.24
Consensus pattern (93 bp):
AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCTAGAGGTGAGTGCCAGTGTAAGACATGT
CTGGGACATGCATTAGCCGCATCATGAT
Found at i:177475536 original size:49 final size:48
Alignment explanation
Indices: 177475468--177475593 Score: 139
Period size: 49 Copynumber: 2.6 Consensus size: 48
177475458 TAAGTTTCGT
*
177475468 GCTAGTGTAAGA-CATTGTCTGGGACATGCATTAG-CACGTATACACGAGA
1 GCTAGTGTAAGACCA-TGTCTGGGACATGCATTAGCCACG-ATACA-GAAA
* * * **
177475517 GCTAGTGTAAGACCATGTCTAGGACATGGCATTGGCCTCGATGGAGAAA
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATTAGCCACGATACAGAAA
*
177475566 GCCAGTGTAAGACCATGTCTGGGACATG
1 GCTAGTGTAAGACCATGTCTGGGACATG
177475594 GCAGCAACAA
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
48 1 0.02
49 51 0.77
50 11 0.17
51 3 0.05
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGCATTAGCCACGATACAGAAA
Found at i:177475596 original size:49 final size:47
Alignment explanation
Indices: 177475231--177475593 Score: 179
Period size: 47 Copynumber: 7.7 Consensus size: 47
177475221 GGGGTTATGT
* * * * *
177475231 GAGAGCCAGTATAAGACCATGTCTAGGACATGGCATCGGCATTGA--GA
1 GAGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATTGGCCTCGATGGA
* * * * ** * *
177475278 CGAGGGCTATTGTAAGACATGTCTAGGACATGCATCAGCCGC-AT-CA
1 -GAGAGCCAGTGTAAGACATGTCTGGGACATGCATTGGCCTCGATGGA
* * * * * * *
177475324 TGATAGCCCGTGTAAGACCATGTATGGGACATGGCATCGGCGTAGA-GGT
1 -GAGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATTGGCCTCGATGGA
*
177475373 GAGTGCCAGTGTAAGACATGTCTGGGACATGCATTGGCCTCGAT-GA
1 GAGAGCCAGTGTAAGACATGTCTGGGACATGCATTGGCCTCGATGGA
** * * * * **
177475419 TGTTAGCCAGTGTAAGACGTGTCTAGGACATGCATCGG-CT--AAGTT
1 -GAGAGCCAGTGTAAGACATGTCTGGGACATGCATTGGCCTCGATGGA
** * * * * **
177475464 TCGTGCTAGTGTAAGACATTGTCTGGGACATGCATTAG-CACGTATACA
1 GAGAGCCAGTGTAAGACA-TGTCTGGGACATGCATTGGCCTCG-ATGGA
* *
177475512 CGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATTGGCCTCGATGGA
1 -GAGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATTGGCCTCGATGGA
*
177475562 GAAAGCCAGTGTAAGACCATGTCTGGGACATG
1 GAGAGCCAGTGTAAGA-CATGTCTGGGACATG
177475594 GCAGCAACAA
Statistics
Matches: 234, Mismatches: 65, Indels: 32
0.71 0.20 0.10
Matches are distributed among these distances:
44 13 0.06
45 18 0.08
46 32 0.14
47 70 0.30
48 34 0.15
49 53 0.23
50 11 0.05
51 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (47 bp):
GAGAGCCAGTGTAAGACATGTCTGGGACATGCATTGGCCTCGATGGA
Found at i:177476457 original size:54 final size:55
Alignment explanation
Indices: 177476347--177476471 Score: 130
Period size: 54 Copynumber: 2.3 Consensus size: 55
177476337 AACTTTTAAA
* * * * * *
177476347 TCAGTATTGTCCACGGTTAGGCCATATGGGCGTGTGCTATAGCCGTGTCTATAAG
1 TCAGTATTGCCCACGGTTAGGCCACACGGGCATGTGCTATAGCCGTGCCTAGAAG
*
177476402 TCAGTATTGCCCACGG-TAGGCCACACGGGCATGTG-TCATGGCCGTGCCCT-GAAG
1 TCAGTATTGCCCACGGTTAGGCCACACGGGCATGTGCT-ATAGCCGTG-CCTAGAAG
* *
177476456 TCAGTGTTGCACACGG
1 TCAGTATTGCCCACGG
177476472 GCTGAGGACG
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
53 1 0.02
54 41 0.69
55 17 0.29
ACGTcount: A:0.19, C:0.25, G:0.30, T:0.26
Consensus pattern (55 bp):
TCAGTATTGCCCACGGTTAGGCCACACGGGCATGTGCTATAGCCGTGCCTAGAAG
Found at i:177477292 original size:34 final size:34
Alignment explanation
Indices: 177477253--177477325 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 34
177477243 AGTGATAGTC
*
177477253 CAGTATCAGT-TAGGGCCATAGCCCATTATAGTAA
1 CAGTATCAGTGT-GGGCCATAGCCCATTACAGTAA
* * *
177477287 TAGTATCAGTGTGGGCCTTAGCGCATTACAGTAA
1 CAGTATCAGTGTGGGCCATAGCCCATTACAGTAA
177477321 CAGTA
1 CAGTA
177477326 ACAGAAATGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
34 32 0.97
35 1 0.03
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.27
Consensus pattern (34 bp):
CAGTATCAGTGTGGGCCATAGCCCATTACAGTAA
Found at i:177480843 original size:15 final size:16
Alignment explanation
Indices: 177480825--177480857 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
177480815 TAAAATTAAA
177480825 AATT-AAAAAATATTT
1 AATTCAAAAAATATTT
*
177480840 AATTCTAAAAATATTT
1 AATTCAAAAAATATTT
177480856 AA
1 AA
177480858 AATTGCAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (16 bp):
AATTCAAAAAATATTT
Found at i:177481070 original size:30 final size:29
Alignment explanation
Indices: 177480978--177481072 Score: 84
Period size: 30 Copynumber: 3.1 Consensus size: 29
177480968 ATAAAAGAAA
* * * *
177480978 TATTTAAACTTTTATTTTTAAATTTAAAT
1 TATTTAAAATTTTATTCTAAAATTAAAAT
177481007 GTA-TTAAATATATATTATTTCTAAAATTTAAAAT
1 -TATTTAAA-AT-T-TTA-TTCTAAAA-TTAAAAT
177481041 TATTTAAAATTTTATTCCTAAAATTAAAAT
1 TATTTAAAATTTTATT-CTAAAATTAAAAT
177481071 TA
1 TA
177481073 AAACTTAAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 14
0.75 0.06 0.19
Matches are distributed among these distances:
29 5 0.09
30 14 0.26
31 10 0.19
32 4 0.07
33 10 0.19
34 11 0.20
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.51
Consensus pattern (29 bp):
TATTTAAAATTTTATTCTAAAATTAAAAT
Found at i:177481119 original size:19 final size:19
Alignment explanation
Indices: 177481059--177481122 Score: 85
Period size: 19 Copynumber: 3.4 Consensus size: 19
177481049 ATTTTATTCC
* *
177481059 TAAAATTAAAATTAAAACT
1 TAAAATTAAAAATAAAAAT
*
177481078 TAAAATT-AAAATTAAAAT
1 TAAAATTAAAAATAAAAAT
177481096 TAAAATTAAAAATAAAAAT
1 TAAAATTAAAAATAAAAAT
*
177481115 AAAAATTA
1 TAAAATTA
177481123 TTTCTAAACT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
18 15 0.38
19 24 0.62
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.30
Consensus pattern (19 bp):
TAAAATTAAAAATAAAAAT
Found at i:177481120 original size:6 final size:6
Alignment explanation
Indices: 177481059--177481118 Score: 93
Period size: 6 Copynumber: 9.8 Consensus size: 6
177481049 ATTTTATTCC
*
177481059 TAAAAT TAAAAT TAAAACT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAA
1 TAAAAT TAAAAT TAAAA-T TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT
*
177481108 TAAAAA TAAAA
1 TAAAAT TAAAA
177481119 ATTATTTCTA
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
6 46 0.88
7 6 0.12
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (6 bp):
TAAAAT
Found at i:177485988 original size:36 final size:37
Alignment explanation
Indices: 177485925--177485999 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 37
177485915 ACAGTTTAAA
177485925 ACTTTAACTTTTCTATTTTTTTTAAACAATAATAACC
1 ACTTTAACTTTTCTATTTTTTTTAAACAATAATAACC
177485962 ACTTTAACTTTTCTA-TTTTTTTAAACAATAATAACC
1 ACTTTAACTTTTCTATTTTTTTTAAACAATAATAACC
177485998 AC
1 AC
177486000 CTTGTTCAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 23 0.61
37 15 0.39
ACGTcount: A:0.36, C:0.17, G:0.00, T:0.47
Consensus pattern (37 bp):
ACTTTAACTTTTCTATTTTTTTTAAACAATAATAACC
Found at i:177505448 original size:42 final size:42
Alignment explanation
Indices: 177505340--177505450 Score: 125
Period size: 44 Copynumber: 2.6 Consensus size: 42
177505330 GCGTTTTGTG
* *
177505340 ATTTCGTGTAAGACCATGTCTGGGACATTGGCATCAACTTCTG
1 ATTTCGTGTAAGACCATGTCTGGGACATCGGCATCAAC-TCTA
* * *
177505383 TTTTGAGTGTAAGACCATGTCTGGGACATCGGCATCGTA-TCTA
1 ATTT-CGTGTAAGACCATGTCTGGGACATCGGCATC-AACTCTA
* *
177505426 ATTTCGTGTAAAACCCTGTCTGGGA
1 ATTTCGTGTAAGACCATGTCTGGGA
177505451 TAGTGGCATC
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
42 18 0.32
43 9 0.16
44 29 0.51
45 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.32
Consensus pattern (42 bp):
ATTTCGTGTAAGACCATGTCTGGGACATCGGCATCAACTCTA
Found at i:177507262 original size:42 final size:43
Alignment explanation
Indices: 177507192--177507328 Score: 111
Period size: 43 Copynumber: 3.2 Consensus size: 43
177507182 TCCTTGACGT
* * **
177507192 GGTCTTGCATGTAATTCAATATCGATGCCTCTCTCCCAGACAG
1 GGTCTTACATGTAAATCAATATCGATGCCGATCTCCCAGACAG
* *
177507235 GGTCTTACATG-AAATCAGATAT-GATGCCGATGTCCCAGACAT
1 GGTCTTACATGTAAATCA-ATATCGATGCCGATCTCCCAGACAG
* * * * * *
177507277 GGTCTTATACGTAAAT--ATCAGTCGAGGCCTATGTCCCAGACAC
1 GGTCTTACATGTAAATCAAT-A-TCGATGCCGATCTCCCAGACAG
177507320 GGTCTTACA
1 GGTCTTACA
177507329 CGATATCTCA
Statistics
Matches: 77, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
40 2 0.03
41 1 0.01
42 31 0.40
43 43 0.56
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (43 bp):
GGTCTTACATGTAAATCAATATCGATGCCGATCTCCCAGACAG
Found at i:177507707 original size:11 final size:11
Alignment explanation
Indices: 177507691--177507728 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
177507681 AGCTCACTTG
177507691 AGCTCGAATTT
1 AGCTCGAATTT
177507702 AGCTCG--TTT
1 AGCTCGAATTT
177507711 AAGCTCGAATTT
1 -AGCTCGAATTT
177507723 AGCTCG
1 AGCTCG
177507729 TTTCAACTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
9 3 0.12
10 6 0.25
11 12 0.50
12 3 0.12
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (11 bp):
AGCTCGAATTT
Found at i:177507715 original size:21 final size:21
Alignment explanation
Indices: 177507691--177507731 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
177507681 AGCTCACTTG
177507691 AGCTCGAATTTAGCTCGTTTA
1 AGCTCGAATTTAGCTCGTTTA
177507712 AGCTCGAATTTAGCTCGTTT
1 AGCTCGAATTTAGCTCGTTT
177507732 CAACTCATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.39
Consensus pattern (21 bp):
AGCTCGAATTTAGCTCGTTTA
Found at i:177507980 original size:13 final size:13
Alignment explanation
Indices: 177507962--177507990 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
177507952 AATAGTTGTG
177507962 TGTTATTTAATTA
1 TGTTATTTAATTA
177507975 TGTTATTTAATTA
1 TGTTATTTAATTA
177507988 TGT
1 TGT
177507991 AGGTTAGCCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (13 bp):
TGTTATTTAATTA
Found at i:177508584 original size:328 final size:328
Alignment explanation
Indices: 177507987--177508638 Score: 1277
Period size: 328 Copynumber: 2.0 Consensus size: 328
177507977 TTATTTAATT
177507987 ATGTAGGTTAGCCGAATTTGGAAGATACATTCATGGCATTTAATGCAAGGTGCATGAACGGGAGG
1 ATGTAGGTTAGCCGAATTTGGAAGATACATTCATGGCATTTAATGCAAGGTGCATGAACGGGAGG
*
177508052 ATACATGCATGGACTGGTTCAATGTTTGGAGGACATACATTCATGTACATGGAAGGTTAATGCAT
66 ATACATGCATGGACCGGTTCAATGTTTGGAGGACATACATTCATGTACATGGAAGGTTAATGCAT
177508117 ATTGAAAGGTGCATCTCCCTTGGACGGCACACATGCATGAATGGGGGTAATCAATGCAAGTGCAT
131 ATTGAAAGGTGCATCTCCCTTGGACGGCACACATGCATGAATGGGGGTAATCAATGCAAGTGCAT
177508182 GTACGGCTAGGTTTAAGGCCCCTTCCAAGTTCCATGTACAACCGATGCATGTGGAAGGACCCTTG
196 GTACGGCTAGGTTTAAGGCCCCTTCCAAGTTCCATGTACAACCGATGCATGTGGAAGGACCCTTG
*
177508247 GAGTTTCCTAAGCACCTATTCAGCCAAGAGACACCCTTTGGGAGTTTCATGCATCCCATGGCCGT
261 GAGTTTCCTAAGCACCTATTCAGCCAAGAGACACCCTTTGGGAGTTTCATACATCCCATGGCCGT
177508312 TTC
326 TTC
177508315 ATGTAGGTTAGCCGAATTTGGAAGATACATTCATGGCATTTAATGCAAGGTGCATGAACGGGAGG
1 ATGTAGGTTAGCCGAATTTGGAAGATACATTCATGGCATTTAATGCAAGGTGCATGAACGGGAGG
177508380 ATACATGCATGGACCGGTTCAATGTTTGGAGGACATACATTCATGTACATGGAAGGTTAATGCAT
66 ATACATGCATGGACCGGTTCAATGTTTGGAGGACATACATTCATGTACATGGAAGGTTAATGCAT
177508445 ATTGAAAGGTGCATCTCCCTTGGACGGCACACATGCATGAATGGGGGTAATCAATGCAAGTGCAT
131 ATTGAAAGGTGCATCTCCCTTGGACGGCACACATGCATGAATGGGGGTAATCAATGCAAGTGCAT
177508510 GTACGGCTAGGTTTAAGGCCCCTTCCAAGTTCCATGTACAACCGATGCATGTGGAAGGACCCTTG
196 GTACGGCTAGGTTTAAGGCCCCTTCCAAGTTCCATGTACAACCGATGCATGTGGAAGGACCCTTG
*
177508575 GAGTTTCCTAAGCACCTATTCGGCCAAGAGACACCCTTTGGGAGTTTCATACATCCCATGGCCG
261 GAGTTTCCTAAGCACCTATTCAGCCAAGAGACACCCTTTGGGAGTTTCATACATCCCATGGCCG
177508639 AACCTAGACA
Statistics
Matches: 321, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
328 321 1.00
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (328 bp):
ATGTAGGTTAGCCGAATTTGGAAGATACATTCATGGCATTTAATGCAAGGTGCATGAACGGGAGG
ATACATGCATGGACCGGTTCAATGTTTGGAGGACATACATTCATGTACATGGAAGGTTAATGCAT
ATTGAAAGGTGCATCTCCCTTGGACGGCACACATGCATGAATGGGGGTAATCAATGCAAGTGCAT
GTACGGCTAGGTTTAAGGCCCCTTCCAAGTTCCATGTACAACCGATGCATGTGGAAGGACCCTTG
GAGTTTCCTAAGCACCTATTCAGCCAAGAGACACCCTTTGGGAGTTTCATACATCCCATGGCCGT
TTC
Found at i:177512292 original size:35 final size:35
Alignment explanation
Indices: 177512180--177512309 Score: 152
Period size: 35 Copynumber: 3.7 Consensus size: 35
177512170 ACCTATAAGA
*
177512180 CCGAATATACAAGGTTCAATATATCATCACATATGG
1 CCGAATATACAA-ATTCAATATATCATCACATATGG
* * * * **
177512216 CTGATTATACAAAATTCAATATATCCTCACGTATAA
1 CCGAATATAC-AAATTCAATATATCATCACATATGG
* * *
177512252 TCGAATATACAAATTCAATATTTCATCACTTATGG
1 CCGAATATACAAATTCAATATATCATCACATATGG
177512287 CCGAATATACAAATTCAATATAT
1 CCGAATATACAAATTCAATATAT
177512310 GACATATGAC
Statistics
Matches: 76, Mismatches: 17, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
35 41 0.54
36 33 0.43
37 2 0.03
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.32
Consensus pattern (35 bp):
CCGAATATACAAATTCAATATATCATCACATATGG
Found at i:177514238 original size:24 final size:25
Alignment explanation
Indices: 177514211--177514261 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
177514201 GCCTAGCCTC
*
177514211 TTTTAATAA-CTGGGGCAAAGCCCT
1 TTTTAATAATCGGGGGCAAAGCCCT
**
177514235 TTTTGGTAATCGGGGGCAAAGCCCT
1 TTTTAATAATCGGGGGCAAAGCCCT
177514260 TT
1 TT
177514262 CCGCACTTCC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (25 bp):
TTTTAATAATCGGGGGCAAAGCCCT
Found at i:177514606 original size:81 final size:81
Alignment explanation
Indices: 177514521--177514866 Score: 460
Period size: 81 Copynumber: 4.3 Consensus size: 81
177514511 GGGTATTTCA
* *
177514521 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCAAGGGTAAAATGGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATA
177514586 AATCGAGGGTAAAATG
66 AATCGAGGGTAAAATG
* * * *** * *
177514602 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGAGTACTTTGGTAATTTTGTA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATA
* * ** *
177514667 AACCAAGGGT-ATTTCA
66 AATCGAGGGTAAAAT-G
* * *
177514683 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTCTAAATCGAGGGTAAAAGGGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATA
* *
177514748 AATTGACGGTAAAATG
66 AATCGAGGGTAAAATG
* *
177514764 GTAATTCTATGAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATA
* *
177514829 AATCGAGGGTGAAACG
66 AATCGAGGGTAAAATG
177514845 GTAATTCTGTAAATCGAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
177514867 CTTTGGTAAT
Statistics
Matches: 220, Mismatches: 43, Indels: 4
0.82 0.16 0.01
Matches are distributed among these distances:
80 2 0.01
81 216 0.98
82 2 0.01
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.30
Consensus pattern (81 bp):
GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATA
AATCGAGGGTAAAATG
Found at i:177514877 original size:27 final size:27
Alignment explanation
Indices: 177514521--177514866 Score: 397
Period size: 27 Copynumber: 12.8 Consensus size: 27
177514511 GGGTATTTCA
* * *
177514521 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
177514548 GTAATTCTATAAATCAAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
177514575 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* **
177514602 GTAATTCTGTAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAATG
* * ***
177514629 GTAATTCTGTAAATCGAGAGTACTTTG
1 GTAATTCTATAAATCGAGGGTAAAATG
* * * * ** *
177514656 GTAATTTTGTAAACCAAGGGT-ATTTCA
1 GTAATTCTATAAATCGAGGGTAAAAT-G
* * *
177514683 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
177514710 GTAATTCTCTAAATCGAGGGTAAAAGG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
177514737 GTAATTCTATAAATTGACGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
177514764 GTAATTCTATGAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
177514791 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
177514818 GTAATTCTATAAATCGAGGGTGAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
177514845 GTAATTCTGTAAATCGAGGGTA
1 GTAATTCTATAAATCGAGGGTA
177514867 CTTTGGTAAT
Statistics
Matches: 274, Mismatches: 43, Indels: 4
0.85 0.13 0.01
Matches are distributed among these distances:
26 3 0.01
27 270 0.99
28 1 0.00
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.30
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAATG
Found at i:177516494 original size:27 final size:27
Alignment explanation
Indices: 177516464--177516564 Score: 130
Period size: 27 Copynumber: 3.7 Consensus size: 27
177516454 TACTAAAATG
* *
177516464 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
*
177516491 CCCTCGATTTATAGAATTACCGTTTCA
1 CCCTCGATTTATAGAATTACCGTTTTA
* * *
177516518 CCCACGATTTACAAAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
* *
177516545 CCCTCGATTTACAAAATTAC
1 CCCTCGATTTATAGAATTAC
177516565 TGAAATACCC
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 66 1.00
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.36
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCGTTTTA
Found at i:177516573 original size:27 final size:27
Alignment explanation
Indices: 177516517--177516574 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
177516507 TTACCGTTTC
***
177516517 ACCCACGATTTACAAAATTACCGTTTT
1 ACCCACGATTTACAAAATTACCGAAAT
* *
177516544 ACCCTCGATTTACAAAATTACTGAAAT
1 ACCCACGATTTACAAAATTACCGAAAT
177516571 ACCC
1 ACCC
177516575 CTGTAGGGTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.36, C:0.28, G:0.07, T:0.29
Consensus pattern (27 bp):
ACCCACGATTTACAAAATTACCGAAAT
Found at i:177516589 original size:27 final size:27
Alignment explanation
Indices: 177516559--177517743 Score: 1602
Period size: 27 Copynumber: 44.3 Consensus size: 27
177516549 CGATTTACAA
*
177516559 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
177516586 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
177516613 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
177516640 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
177516667 AATTACTGTAATA-CCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
177516693 AATTACCGGAATA-CTC-GTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
177516718 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * * *
177516745 AATTACCGGAATACTCTTGTATGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
177516772 AATTACCGAAATACCCATGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
177516799 AATTACCGGAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
177516826 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
177516853 AATTATCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
177516880 AATTACC-AGAATACCCCTGTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
* *
177516907 AATTA-CGGAATACCCCAGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
177516933 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
177516960 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* **
177516987 AATTACCGGAATACCCCCATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
177517014 AATTACCGAAATAACCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
177517041 AATTACCGGTATACCCC-GTATGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
177517067 AATTACCGAAATACCTCTGCAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
177517094 AATTACCGAAATACCCCTGCAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
177517121 AATTATTGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
177517148 AATTACCGAAATACCCTTGCAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
177517175 AATTATCGGAATACCCTTGCAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
177517202 AATTACCGAAATACCCCTGCAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
177517229 AATTATCGGAATACCCCTGCAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
177517256 AATTACCGAAATACCCCTGCAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
177517283 AATTATCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
177517310 AATTACCGAAATA-CCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
177517336 AATTATCGAAATA-CCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* **
177517362 AATTACCGAAATACCCTTACAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
177517389 AATTATCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
177517416 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
177517443 AATTATCGCAATACCCC-GTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
177517469 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
177517496 AATTATCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
177517523 AATTACCGAAA-ACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
177517549 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
177517576 AATTACCGGAATACTCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
177517603 AATTATCGCAAA-ACCCCTGTAGGGTAG
1 AATTACCG-AAATACCCCTGTAGGGTAG
*
177517630 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
177517657 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
177517684 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
177517711 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
177517737 AATTACC
1 AATTACC
177517744 ATTTTGCCCC
Statistics
Matches: 1031, Mismatches: 116, Indels: 23
0.88 0.10 0.02
Matches are distributed among these distances:
25 22 0.02
26 189 0.18
27 818 0.79
28 2 0.00
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:177518222 original size:22 final size:22
Alignment explanation
Indices: 177518170--177518234 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
177518160 TTAAATTCTT
*
177518170 CTGATTATGGCTT-TGTGTCAAC
1 CTGATTATGG-TTGTGTGCCAAC
*
177518192 CT-ACATATGGTTGTGTGCCAAC
1 CTGA-TTATGGTTGTGTGCCAAC
*
177518214 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGTTGTGTGCCAA
177518235 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 3 0.08
22 32 0.89
23 1 0.03
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (22 bp):
CTGATTATGGTTGTGTGCCAAC
Found at i:177518423 original size:27 final size:27
Alignment explanation
Indices: 177518408--177518494 Score: 97
Period size: 27 Copynumber: 3.2 Consensus size: 27
177518398 TTTGCCGTAT
177518408 TATCTGTTTCTGGTGGCTATGCCACAAA
1 TATCTG-TTCTGGTGGCTATGCCACAAA
* *
177518436 TATCTGTTCTGGTGGCTCTACCAC-AA
1 TATCTGTTCTGGTGGCTATGCCACAAA
* * *
177518462 TATCTGTATCTGGTGACTCTGTCAC-AA
1 TATCTGT-TCTGGTGGCTATGCCACAAA
177518489 TATCTG
1 TATCTG
177518495 ATAACTGAGC
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
26 9 0.17
27 38 0.72
28 6 0.11
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.37
Consensus pattern (27 bp):
TATCTGTTCTGGTGGCTATGCCACAAA
Found at i:177518663 original size:31 final size:31
Alignment explanation
Indices: 177518628--177518694 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
177518618 GGATTACATT
* * *
177518628 TTCTGTTACCTTATACTGGTTCTAATTTTGA
1 TTCTGTTACCTGATACTGATTCTAATTCTGA
*
177518659 TTCTGTTACCTGATACTGATTCTGATTCTGA
1 TTCTGTTACCTGATACTGATTCTAATTCTGA
177518690 TTCTG
1 TTCTG
177518695 ATTCTGATTC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.49
Consensus pattern (31 bp):
TTCTGTTACCTGATACTGATTCTAATTCTGA
Found at i:177518683 original size:6 final size:6
Alignment explanation
Indices: 177518668--177518745 Score: 88
Period size: 6 Copynumber: 12.8 Consensus size: 6
177518658 ATTCTGTTAC
* * *
177518668 CTGATA CTGATT CTGATT CTGATT CTGATT CTGATT CTG-TCAC CTAATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT CTGATT CTGAT--T CTGATT
177518717 CTGATT CTGATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGATT CTGATT CTGA-TT CTGAT
177518746 AATGTTTCTT
Statistics
Matches: 62, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
5 2 0.03
6 56 0.90
7 3 0.05
8 1 0.02
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.46
Consensus pattern (6 bp):
CTGATT
Found at i:177518721 original size:43 final size:42
Alignment explanation
Indices: 177518647--177518745 Score: 135
Period size: 43 Copynumber: 2.3 Consensus size: 42
177518637 CTTATACTGG
* * *
177518647 TTCTAATTTTGATTCTGTTACCTGATACTGATTCTGATTCTGA
1 TTCT-ATTCTGATTCTGTCACCTAATACTGATTCTGATTCTGA
*
177518690 TTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGA
1 TTCT-ATTCTGATTCTGTCACCTAATACTGATTCTGATTCTGA
177518733 TTCTAGTTCTGAT
1 TTCTA-TTCTGAT
177518746 AATGTTTCTT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
42 1 0.02
43 49 0.98
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.48
Consensus pattern (42 bp):
TTCTATTCTGATTCTGTCACCTAATACTGATTCTGATTCTGA
Found at i:177520753 original size:28 final size:27
Alignment explanation
Indices: 177520706--177520807 Score: 105
Period size: 27 Copynumber: 3.7 Consensus size: 27
177520696 TACTGAAATG
* *
177520706 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
* *
177520733 CCCTCGATTATATAGAATTACTGTTTCA
1 CCCTCGATT-TATAGAATTACCGTTTTA
* * *
177520761 CCCTCGATTTACAAAATTACCGTTCTA
1 CCCTCGATTTATAGAATTACCGTTTTA
* * *
177520788 ACCTCGATTTAAAAAATTAC
1 CCCTCGATTTATAGAATTAC
177520808 TGAAATACCC
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
27 40 0.63
28 23 0.37
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.36
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCGTTTTA
Found at i:177520779 original size:55 final size:54
Alignment explanation
Indices: 177520706--177520809 Score: 127
Period size: 55 Copynumber: 1.9 Consensus size: 54
177520696 TACTGAAATG
** * * * * *
177520706 CCCTCGATTTGTAGAATTACCATTTTACCCTCGATTATATAGAATTACTGTTTCA
1 CCCTCGATTTACAAAATTACCATTCTAACCTCGATT-TAAAAAATTACTGTTTCA
*
177520761 CCCTCGATTTACAAAATTACCGTTCTAACCTCGATTTAAAAAATTACTG
1 CCCTCGATTTACAAAATTACCATTCTAACCTCGATTTAAAAAATTACTG
177520810 AAATACCCTT
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
54 11 0.27
55 30 0.73
ACGTcount: A:0.31, C:0.23, G:0.10, T:0.37
Consensus pattern (54 bp):
CCCTCGATTTACAAAATTACCATTCTAACCTCGATTTAAAAAATTACTGTTTCA
Found at i:177520832 original size:27 final size:27
Alignment explanation
Indices: 177520802--177522646 Score: 2422
Period size: 27 Copynumber: 67.3 Consensus size: 27
177520792 CGATTTAAAA
* *
177520802 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
177520829 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
177520856 AATTACCGAAATACCTTTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
177520883 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
177520910 AATTACCGAAATACCCCTGCAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
177520937 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
177520964 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
177520991 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
177521018 AATTACCGGAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
177521045 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
177521072 AATTACC-AGAATACCCCTGTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
177521099 AATTACC-AGAATACCCCTGTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
177521126 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
177521153 AATTAAC-AGAATACCTCTGTAGGGTA-
1 AATTACCGA-AATACCCCTGTAGGGTAG
** *
177521179 ATACCCCTGTAGGGTAGAATTACCGGAATACCCCTGTAGTGTAG
1 A-A----T-TACCG-A-AA-TA-C-------CCCTGTAGGGTAG
* *
177521223 AACTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
177521250 AATTACCG-AATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
177521276 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
177521303 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
177521330 AATTACCGGAATACCCC-GTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
177521356 AATTACCGAAATACCCCTGCAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
177521383 AATTACCGGAATACCCCCGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
177521410 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
177521437 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
177521464 AATTACCGGAATACCCCTGCAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
177521491 AATTACCGATATACCCCTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
177521518 AATTATCGCAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
177521545 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
177521572 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
177521599 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
177521626 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
177521653 AATTACCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
177521680 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
177521707 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
177521734 AATTACCGGAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
177521761 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
177521788 AATTACC-AGAATACCCCTGTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
177521815 AATTACC-AGAATACCCCTGTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
177521842 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
177521869 AATTAAC-AGAATACCTCTGTAGGGTA-
1 AATTACCGA-AATACCCCTGTAGGGTAG
** *
177521895 ATACCCCTGTAGGGTTGAATTACCGGAATACCCCTGTAGGGTAG
1 A-A----T-TA---CCGAAATA-C-------CCCTGTAGGGTAG
* *
177521939 AACTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
177521966 AATTACCG-AATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
177521992 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
177522019 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
177522046 AATTACCGGAATACCCCCGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
177522073 AATTACCGAAATACCCCTGCAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
177522100 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
177522127 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
177522154 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
177522181 AATTACCGGAATACCCCTGCAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
177522208 AATTACCGATATACCCCTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
177522235 AATTATCGCAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
177522262 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
177522289 AATTATCGAAATACCCCATGTAGGGTAG
1 AATTACCGAAATACCCC-TGTAGGGTAG
*
177522317 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
177522344 AATTATTGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
177522371 AATTACCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
177522398 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
177522425 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
177522452 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
177522479 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
177522506 AATTACCGGAATACTCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
177522533 AATTATCGCAAA-ACCCCTGTAGGGTAG
1 AATTACCG-AAATACCCCTGTAGGGTAG
177522560 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
177522587 AATTACTAAAATA-CCCTAGTAGGGTGG
1 AATTACCGAAATACCCCT-GTAGGGTAG
* * * *
177522614 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
177522640 AATTACC
1 AATTACC
177522647 ATTTTGCCCC
Statistics
Matches: 1630, Mismatches: 138, Indels: 101
0.87 0.07 0.05
Matches are distributed among these distances:
26 101 0.06
27 1442 0.88
28 29 0.02
31 2 0.00
32 4 0.00
34 6 0.00
35 11 0.01
36 5 0.00
38 5 0.00
43 23 0.01
44 2 0.00
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:177521183 original size:16 final size:16
Alignment explanation
Indices: 177521162--177521194 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
177521152 GAATTAACAG
*
177521162 AATACCTCTGTAGGGT
1 AATACCCCTGTAGGGT
177521178 AATACCCCTGTAGGGT
1 AATACCCCTGTAGGGT
177521194 A
1 A
177521195 GAATTACCGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.27
Consensus pattern (16 bp):
AATACCCCTGTAGGGT
Found at i:177521183 original size:43 final size:43
Alignment explanation
Indices: 177521135--177521217 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
177521125 GAATTACCGA
*
177521135 AATACCCCTGTAGGGTAGAATTAACAGAATACCTCTGTAGGGT
1 AATACCCCTGTAGGGTAGAATTAACAGAATACCCCTGTAGGGT
* *
177521178 AATACCCCTGTAGGGTAGAATTACCGGAATACCCCTGTAG
1 AATACCCCTGTAGGGTAGAATTAACAGAATACCCCTGTAG
177521218 TGTAGAACTA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (43 bp):
AATACCCCTGTAGGGTAGAATTAACAGAATACCCCTGTAGGGT
Found at i:177521899 original size:16 final size:16
Alignment explanation
Indices: 177521878--177521909 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
177521868 GAATTAACAG
*
177521878 AATACCTCTGTAGGGT
1 AATACCCCTGTAGGGT
177521894 AATACCCCTGTAGGGT
1 AATACCCCTGTAGGGT
177521910 TGAATTACCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (16 bp):
AATACCCCTGTAGGGT
Found at i:177521899 original size:43 final size:43
Alignment explanation
Indices: 177521851--177521937 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 43
177521841 GAATTACCGA
*
177521851 AATACCCCTGTAGGGTAGAATTAACAGAATACCTCTGTAGGGT
1 AATACCCCTGTAGGGTAGAATTAACAGAATACCCCTGTAGGGT
* * *
177521894 AATACCCCTGTAGGGTTGAATTACCGGAATACCCCTGTAGGGT
1 AATACCCCTGTAGGGTAGAATTAACAGAATACCCCTGTAGGGT
177521937 A
1 A
177521938 GAACTACCGG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (43 bp):
AATACCCCTGTAGGGTAGAATTAACAGAATACCCCTGTAGGGT
Found at i:177523125 original size:22 final size:22
Alignment explanation
Indices: 177523073--177523137 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
177523063 TTAAAGCCTT
* *
177523073 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTGTGTGCCAAC
*
177523095 CT-ACATATGGCTGTGTGCCAAC
1 CTGA-TTATGGCTGTGTGCCAAC
177523117 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTGTGTGCCAA
177523138 ACATATTTGC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 1 0.03
22 35 0.95
23 1 0.03
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTGTGTGCCAAC
Found at i:177523326 original size:27 final size:27
Alignment explanation
Indices: 177523296--177523397 Score: 134
Period size: 27 Copynumber: 3.8 Consensus size: 27
177523286 ATTCTGTTAA
* *
177523296 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
*
177523323 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTCTGCCAC-AATATCTGTTTCTG
*
177523350 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
177523377 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
177523398 ATAACTAAGC
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 8 0.12
27 52 0.78
28 7 0.10
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTTTCTG
Found at i:177523580 original size:31 final size:31
Alignment explanation
Indices: 177523534--177523649 Score: 142
Period size: 31 Copynumber: 3.7 Consensus size: 31
177523524 TTGCATTCAC
177523534 ATTCTGATTTTTGATTCTGTTACCTGATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
*
177523566 GTTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* * * **
177523597 ATTCTGATTCTGATTCTGTCACCTAATTTTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
**
177523628 ATTCTGATCCTGATTCTAGTTA
1 ATTCTGATTTTGATTCT-GTTA
177523650 TGATAATGTT
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
31 65 0.88
32 9 0.12
ACGTcount: A:0.19, C:0.17, G:0.16, T:0.48
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:177523597 original size:6 final size:6
Alignment explanation
Indices: 177523534--177523614 Score: 58
Period size: 6 Copynumber: 13.0 Consensus size: 6
177523524 TTGCATTCAC
* * * *
177523534 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG GTTCTG ATTTTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
177523584 -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
177523615 TCACCTAATT
Statistics
Matches: 58, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
5 4 0.07
6 41 0.71
7 11 0.19
8 2 0.03
ACGTcount: A:0.17, C:0.16, G:0.17, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:177525655 original size:27 final size:27
Alignment explanation
Indices: 177525625--177525725 Score: 139
Period size: 27 Copynumber: 3.7 Consensus size: 27
177525615 TACTGAAATG
* *
177525625 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
*
177525652 CCCTCGATTTATAGAATTACCGTTTCA
1 CCCTCGATTTATAGAATTACCGTTTTA
* *
177525679 CCCTCGATTTACAAAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
* *
177525706 CCCTCGATTTACAAAATTAC
1 CCCTCGATTTATAGAATTAC
177525726 TGAAATACCC
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 68 1.00
ACGTcount: A:0.29, C:0.26, G:0.09, T:0.37
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCGTTTTA
Found at i:177525734 original size:27 final size:27
Alignment explanation
Indices: 177525605--177525735 Score: 86
Period size: 27 Copynumber: 4.9 Consensus size: 27
177525595 AATACTTTAG
* * *
177525605 TTTACCAAATTACTGAAATGCCCTCGA
1 TTTACAAAATTACCGAAATACCCTCGA
** * **
177525632 TTTGTAGAATTACC-ATTTTACCCTCGA
1 TTTACAAAATTACCGA-AATACCCTCGA
* * **
177525659 TTTATAGAATTACCG-TTTCACCCTCGA
1 TTTACAAAATTACCGAAAT-ACCCTCGA
***
177525686 TTTACAAAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACCGAAATACCCTCGA
*
177525713 TTTACAAAATTACTGAAATACCC
1 TTTACAAAATTACCGAAATACCC
177525736 CTGTAGGGTA
Statistics
Matches: 85, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
26 4 0.05
27 78 0.92
28 3 0.04
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.35
Consensus pattern (27 bp):
TTTACAAAATTACCGAAATACCCTCGA
Found at i:177525750 original size:27 final size:27
Alignment explanation
Indices: 177525720--177526236 Score: 757
Period size: 27 Copynumber: 19.2 Consensus size: 27
177525710 CGATTTACAA
* *
177525720 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGGAATACCCCTGTAGGGTAG
* *
177525747 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGGAATACCCCTGTAGGGTAG
* *
177525774 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGGAATACCCCTGTAGGGTAG
177525801 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGGAATACCCCTGTAGGGTAG
* * * *
177525828 AATTACTGGAATACCCTTATAAGGTAG
1 AATTACCGGAATACCCCTGTAGGGTAG
177525855 AATTACCGGAATA-CCCTGTAGGGTAG
1 AATTACCGGAATACCCCTGTAGGGTAG
*
177525881 AATTACCGGAATAGCCCTGTAGGGTAG
1 AATTACCGGAATACCCCTGTAGGGTAG
*
177525908 AATTACCAGAATACCCCTGTAGGGTAG
1 AATTACCGGAATACCCCTGTAGGGTAG
*
177525935 AATTACCGGAATAGCCCTGTAGGGTAG
1 AATTACCGGAATACCCCTGTAGGGTAG
177525962 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGGAATACCCCTGTAGGGTAG
177525989 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGGAATACCCCTGTAGGGTAG
177526016 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGGAATACCCCTGTAGGGTAG
* *
177526043 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGGAATACCCCTGTAGGGTAG
* *
177526070 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGGAATACCCCTGTAGGGTAG
*
177526097 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGGAATACCCCTGTAGGGTAG
*
177526124 AATTACCGGAATACCCCTGTAAGGTAG
1 AATTACCGGAATACCCCTGTAGGGTAG
* *
177526151 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGGAATACCCCTGTAGGGTAG
* * * *
177526178 AATTACCGAAATGCCTCTATAGGGTAG
1 AATTACCGGAATACCCCTGTAGGGTAG
*** * *
177526205 AATTACTAAAATACCCCTGTATGGTGG
1 AATTACCGGAATACCCCTGTAGGGTAG
177526232 AATTA
1 AATTA
177526237 TCGAGATACC
Statistics
Matches: 451, Mismatches: 38, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 0.05
27 428 0.95
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (27 bp):
AATTACCGGAATACCCCTGTAGGGTAG
Found at i:177526743 original size:22 final size:22
Alignment explanation
Indices: 177526691--177526746 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
177526681 TTAAATCCTT
* *
177526691 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
177526713 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
177526735 TTGATTATGGCT
1 CTGATTATGGCT
177526747 GTATGCAAAC
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
21 1 0.04
22 25 0.93
23 1 0.04
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:177526993 original size:27 final size:26
Alignment explanation
Indices: 177526913--177527014 Score: 96
Period size: 27 Copynumber: 3.8 Consensus size: 26
177526903 ATTCTGTTAA
* * *
177526913 GTGGCTTTGCCACATTATTTGTTTCTG
1 GTGGCTCTGCCACAATATCTG-TTCTG
* **
177526940 GTGGCTATGCCACAAATATCAATTCTG
1 GTGGCTCTGCCAC-AATATCTGTTCTG
177526967 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGT-TCTG
* **
177526994 GTGACTCTGTTACAATATCTG
1 GTGGCTCTGCCACAATATCTG
177527015 ATAACTGAGC
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
26 7 0.11
27 51 0.82
28 4 0.06
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.37
Consensus pattern (26 bp):
GTGGCTCTGCCACAATATCTGTTCTG
Found at i:177527197 original size:31 final size:31
Alignment explanation
Indices: 177527151--177527261 Score: 150
Period size: 31 Copynumber: 3.5 Consensus size: 31
177527141 TTGCATTCAC
*
177527151 ATTCTGATTTTTGATTCTGTTACCTGATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTAATACTG
*
177527183 GTTCTGATTTTGATTCTGTTACCTAATACTG
1 ATTCTGATTTTGATTCTGTTACCTAATACTG
* * * *
177527214 ATTCTGATTTTGATTCTATCACCTAATTCTA
1 ATTCTGATTTTGATTCTGTTACCTAATACTG
*
177527245 ATTCTGATTCTGATTCT
1 ATTCTGATTTTGATTCT
177527262 AGTTCTGATA
Statistics
Matches: 71, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
31 65 0.92
32 6 0.08
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.50
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTAATACTG
Found at i:177527222 original size:6 final size:6
Alignment explanation
Indices: 177527151--177527270 Score: 50
Period size: 6 Copynumber: 19.3 Consensus size: 6
177527141 TTGCATTCAC
* * * *
177527151 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG GTTCTG ATTTTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * * *
177527201 -TTACCTA ATACTG ATTCTG ATTTTG ATTCT- ATCACCTA ATTCTA ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
177527251 ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG A-TTCTG AT
177527271 AATGTTTCTT
Statistics
Matches: 85, Mismatches: 17, Indels: 24
0.67 0.13 0.19
Matches are distributed among these distances:
5 7 0.08
6 61 0.72
7 13 0.15
8 4 0.05
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:177533515 original size:38 final size:38
Alignment explanation
Indices: 177533472--177533615 Score: 209
Period size: 38 Copynumber: 3.7 Consensus size: 38
177533462 TGTATATCCA
177533472 GGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCTG
1 GGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCTG
*
177533510 GGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCG
1 GGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCTG
*
177533548 GGTTAAATCCCGCAGGCTTAGTGCTGGTATTATAT-TCG
1 GGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCT-G
* * *
177533586 AGCTTAAAGTCCCGCAGGTTTTGTGCTGGT
1 -GGTTAAA-TCCCGCAGGCTTCGTGCTGGT
177533616 GACTGAATTC
Statistics
Matches: 97, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
38 72 0.74
39 6 0.06
40 19 0.20
ACGTcount: A:0.19, C:0.21, G:0.27, T:0.33
Consensus pattern (38 bp):
GGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCTG
Found at i:177537350 original size:18 final size:18
Alignment explanation
Indices: 177537327--177537409 Score: 62
Period size: 18 Copynumber: 4.5 Consensus size: 18
177537317 AAGAGAAGAA
177537327 AAAAAGAAATTGAAAAAG
1 AAAAAGAAATTGAAAAAG
**
177537345 AAAAAGAAACCGAAAAAG
1 AAAAAGAAATTGAAAAAG
*
177537363 GAAAAGAGAA-TGAACAAAAG
1 AAAAAGA-AATTG-A-AAAAG
* * *
177537383 CAAAAAGAGATTGAGATA-
1 -AAAAAGAAATTGAAAAAG
177537401 AAAAAGAAA
1 AAAAAGAAA
177537410 GTATGCAAGA
Statistics
Matches: 51, Mismatches: 9, Indels: 11
0.72 0.13 0.15
Matches are distributed among these distances:
17 8 0.16
18 23 0.45
19 5 0.10
20 7 0.14
21 8 0.16
ACGTcount: A:0.69, C:0.05, G:0.19, T:0.07
Consensus pattern (18 bp):
AAAAAGAAATTGAAAAAG
Found at i:177537454 original size:21 final size:21
Alignment explanation
Indices: 177537416--177537455 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
177537406 GAAAGTATGC
* * *
177537416 AAGAAATGAGTGTTGTTGAAA
1 AAGAAACGAGAGTCGTTGAAA
177537437 AAGAAACGAGAGTCGTTGA
1 AAGAAACGAGAGTCGTTGA
177537456 GTTTTCAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.05, G:0.30, T:0.23
Consensus pattern (21 bp):
AAGAAACGAGAGTCGTTGAAA
Found at i:177552830 original size:13 final size:13
Alignment explanation
Indices: 177552812--177552844 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
177552802 GGTTGTTTAT
177552812 TAAACTAATTAAC
1 TAAACTAATTAAC
177552825 TAAACTAATTAAC
1 TAAACTAATTAAC
177552838 T-AACTAA
1 TAAACTAA
177552845 ACTAAAGCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.30
13 14 0.70
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:177557628 original size:79 final size:81
Alignment explanation
Indices: 177557495--177557713 Score: 247
Period size: 79 Copynumber: 2.8 Consensus size: 81
177557485 GAATCACATA
* * * *
177557495 CCTTCGGAAT-TTAA-CCGGATATAGCT-ACTCA-CTCAAATGCCTTCGGGACATAGCCCGG-TT
1 CCTTCGG-ATCTTAACCCGGATATAG-TAACTTAGCACAAATGCCTTCGGGACTTAGCCCGGAAT
177557555 ATAGTAACTCGCACAAATG
64 -TAGTAACTCGCACAAATG
* * *
177557574 CCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCACCAATGCCTTCGGG-CTTAGCCCGGAATT
1 CCTTC-GGATCTTAACCCGGATATAGTAACTTAGCACAAATGCCTTCGGGACTTAGCCCGGAATT
177557636 AGTAACTCGCACAAATG
65 AGTAACTCGCACAAATG
** * *
177557653 CCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGATCTTAACCCGGATATAGTAACTTAGCACAAATGCCTTCGGGACTTAGCCCGGA
177557714 TATCATTCGA
Statistics
Matches: 117, Mismatches: 14, Indels: 16
0.80 0.10 0.11
Matches are distributed among these distances:
78 3 0.03
79 59 0.50
80 44 0.38
81 11 0.09
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (81 bp):
CCTTCGGATCTTAACCCGGATATAGTAACTTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTA
GTAACTCGCACAAATG
Found at i:177557642 original size:39 final size:41
Alignment explanation
Indices: 177557528--177557713 Score: 231
Period size: 40 Copynumber: 4.6 Consensus size: 41
177557518 GCTACTCACT
* *
177557528 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
* *
177557568 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
*
177557608 CCAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
* * *
177557647 CAAATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAATATAGTAAC-TCGCA
*
177557688 CAAAAGCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
177557714 TATCATTCGA
Statistics
Matches: 127, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
38 2 0.02
39 33 0.26
40 66 0.52
41 23 0.18
42 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
Found at i:177559704 original size:28 final size:28
Alignment explanation
Indices: 177559639--177559739 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
177559629 ATAGTGAATC
*
177559639 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
177559668 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
177559696 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
177559726 CGCACACTTAGTGC
1 CGCACACTTAGTGC
177559740 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:177563716 original size:22 final size:22
Alignment explanation
Indices: 177563675--177563716 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
177563665 GTTTTATGCA
177563675 TAAACATTTTAAAACATCTATT
1 TAAACATTTTAAAACATCTATT
177563697 TAAACAGTTTTAAAAC-TCTA
1 TAAACA-TTTTAAAACATCTA
177563717 ATGTCATACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.45, C:0.14, G:0.02, T:0.38
Consensus pattern (22 bp):
TAAACATTTTAAAACATCTATT
Found at i:177564146 original size:19 final size:20
Alignment explanation
Indices: 177564122--177564180 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
177564112 TCCAATAACA
177564122 CACCAGT-TTGTAGACAAGC
1 CACCAGTATTGTAGACAAGC
* * *
177564141 CACCAGTAATGTAGATAAAC
1 CACCAGTATTGTAGACAAGC
* *
177564161 TATCAGTATTGTAGACAAGC
1 CACCAGTATTGTAGACAAGC
177564181 TGCTGGTATA
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
19 7 0.23
20 24 0.77
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (20 bp):
CACCAGTATTGTAGACAAGC
Found at i:177564968 original size:2 final size:2
Alignment explanation
Indices: 177564961--177564986 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
177564951 TCGAACAGTA
177564961 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
177564987 TAGATCCAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:177567978 original size:29 final size:29
Alignment explanation
Indices: 177567945--177568018 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
177567935 GTGACGAGAT
177567945 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
177567974 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
177568003 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
177568019 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:177568034 original size:29 final size:29
Alignment explanation
Indices: 177568002--177568077 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
177567992 CTGGAAATAT
* *
177568002 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
177568031 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
177568060 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
177568078 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:177568045 original size:58 final size:58
Alignment explanation
Indices: 177567945--177568077 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
177567935 GTGACGAGAT
* * * * * *
177567945 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
177568003 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
177568061 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
177568078 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:177575851 original size:29 final size:29
Alignment explanation
Indices: 177575818--177575891 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
177575808 GTGACGAGAT
177575818 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
177575847 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
177575876 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
177575892 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:177575907 original size:29 final size:29
Alignment explanation
Indices: 177575875--177575950 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
177575865 CTGGAAATAT
* *
177575875 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
177575904 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
177575933 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
177575951 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:177575918 original size:58 final size:58
Alignment explanation
Indices: 177575818--177575950 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
177575808 GTGACGAGAT
* * * * * *
177575818 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
177575876 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
177575934 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
177575951 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:177587206 original size:17 final size:18
Alignment explanation
Indices: 177587164--177587212 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
177587154 AGTTGAAAAG
177587164 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
177587183 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
177587200 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
177587213 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:177588093 original size:40 final size:40
Alignment explanation
Indices: 177588027--177588177 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
177588017 AAATTGAATG
* * *
177588027 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
177588066 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
177588106 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
177588146 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
177588178 ACTTGATTAT
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:177588191 original size:40 final size:40
Alignment explanation
Indices: 177588063--177588193 Score: 149
Period size: 40 Copynumber: 3.3 Consensus size: 40
177588053 TATGCTGGAA
* * * *
177588063 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTG
** * *
177588103 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTT-
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-TTG
*
177588143 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACTTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-TTG
177588183 ATTATATCCGG
1 ATTATATCCGG
177588194 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
39 3 0.04
40 70 0.95
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTG
Found at i:177589668 original size:47 final size:44
Alignment explanation
Indices: 177589554--177589677 Score: 124
Period size: 44 Copynumber: 2.8 Consensus size: 44
177589544 GGTGTTACAT
*
177589554 GATGCATGTCCTAGACATGTCTTACACTAGCACAACCCTTAGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCACAACCCTTAGCC
* * * * * *
177589598 GATGCGTGTTCCAGACACGTCTTACACTAGC-TATCTCTTTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCACAAC-CCTT--A-GCC
* *
177589645 GTTGCATGTCCCAGACATGTCTTACACTGGCAC
1 GATGCATGTCCCAGACATGTCTTACACTAGCAC
177589678 TCATCTTTGT
Statistics
Matches: 62, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
43 2 0.03
44 30 0.48
46 1 0.02
47 29 0.47
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (44 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCACAACCCTTAGCC
Found at i:177589700 original size:47 final size:46
Alignment explanation
Indices: 177589554--177589862 Score: 193
Period size: 47 Copynumber: 6.7 Consensus size: 46
177589544 GGTGTTACAT
* * * * * *
177589554 GATGCATGTCCTAGACATGTCTTACACTAGCAC-AACCCTT-AGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTTTGTGCC
* * * * *
177589598 GATGCGTGTTCCAGACACGTCTTACACTAGCTA-TC-TCTTTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGC-ACTCATCTTT-G-TGCC
*
177589645 GTTGCATGTCCCAGACATGTCTTACACTGGCACTCATCTTTGTGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTTTGTGCC
* * * * *
177589691 GATGCCATGTCGCAGACATGGTTTTACACTGGCTA-TCATAGTATG-GCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGC-ACTCAT-CTTTGTGCC
* * * * * *
177589739 AATGCATGTCCCGGACATGTCTTACACTAGCCCTCGTC-TGGATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTTTG-TGCC
* * **
177589785 GATGCCATGTCCCAGACATAGTCTTACAGTGGCTCTCAT-AATGTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATCTTTGT-GCC
* * *
177589833 AAAGCATGTCTCAGACATGTCTTACACTGG
1 GATGCATGTCCCAGACATGTCTTACACTGG
177589863 TGTACAAATC
Statistics
Matches: 204, Mismatches: 43, Indels: 34
0.73 0.15 0.12
Matches are distributed among these distances:
44 31 0.15
45 1 0.00
46 37 0.18
47 84 0.41
48 47 0.23
49 4 0.02
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTTTGTGCC
Found at i:177589750 original size:94 final size:94
Alignment explanation
Indices: 177589647--177589862 Score: 281
Period size: 94 Copynumber: 2.3 Consensus size: 94
177589637 TCGAGGCCGT
* * *
177589647 TGCATGTCCCAGACATGTCTTACACTGGCACTCATCTTTG-TGCCGATGCCATGTCGCAGACATG
1 TGCATGTCCCAGACATGTCTTACACTGGCACTCATC-TGGATGCCGATGCCATGTCCCAGACATA
* * *
177589711 GTTTTACACTGGCTATCATAGTATGGCTAA
65 GTCTTACACTGGCTATCATAATATGGCCAA
* * * *
177589741 TGCATGTCCCGGACATGTCTTACACTAGCCCTCGTCTGGATGCCGATGCCATGTCCCAGACATAG
1 TGCATGTCCCAGACATGTCTTACACTGGCACTCATCTGGATGCCGATGCCATGTCCCAGACATAG
* * *
177589806 TCTTACAGTGGCTCTCATAATGTGGCCAA
66 TCTTACACTGGCTATCATAATATGGCCAA
* *
177589835 AGCATGTCTCAGACATGTCTTACACTGG
1 TGCATGTCCCAGACATGTCTTACACTGG
177589863 TGTACAAATC
Statistics
Matches: 104, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
93 2 0.02
94 102 0.98
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (94 bp):
TGCATGTCCCAGACATGTCTTACACTGGCACTCATCTGGATGCCGATGCCATGTCCCAGACATAG
TCTTACACTGGCTATCATAATATGGCCAA
Found at i:177591614 original size:6 final size:6
Alignment explanation
Indices: 177591603--177591637 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
177591593 AAATTATAAT
177591603 ATATTA ATATTA ATATTA ATATTA ATATTA ATATT
1 ATATTA ATATTA ATATTA ATATTA ATATTA ATATT
177591638 CAAACCATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (6 bp):
ATATTA
Found at i:177605285 original size:40 final size:39
Alignment explanation
Indices: 177605240--177605446 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 39
177605230 CGGAATACAA
*
177605240 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
177605280 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
177605320 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
177605360 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
177605400 CCGG-TATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
177605439 CCGGATAT
1 CCGGATAT
177605447 CATTCAATTG
Statistics
Matches: 139, Mismatches: 24, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 31 0.22
40 108 0.78
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:177605380 original size:80 final size:80
Alignment explanation
Indices: 177605240--177605445 Score: 229
Period size: 80 Copynumber: 2.6 Consensus size: 80
177605230 CGGAATACAA
* * *
177605240 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
177605304 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
177605320 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
177605384 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
177605400 CCGG-TATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
177605446 TCATTCAATT
Statistics
Matches: 106, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
79 36 0.34
80 68 0.64
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:177613318 original size:40 final size:39
Alignment explanation
Indices: 177613273--177613479 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 39
177613263 CGGAATACAA
*
177613273 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
177613313 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
177613353 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
177613393 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
177613433 CCGG-TATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
177613472 CCGGATAT
1 CCGGATAT
177613480 CATTCAATTG
Statistics
Matches: 139, Mismatches: 24, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 31 0.22
40 108 0.78
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:177613413 original size:80 final size:80
Alignment explanation
Indices: 177613273--177613478 Score: 229
Period size: 80 Copynumber: 2.6 Consensus size: 80
177613263 CGGAATACAA
* * *
177613273 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
177613337 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
177613353 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
177613417 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
177613433 CCGG-TATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
177613479 TCATTCAATT
Statistics
Matches: 106, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
79 36 0.34
80 68 0.64
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:177618637 original size:48 final size:47
Alignment explanation
Indices: 177618553--177618813 Score: 337
Period size: 48 Copynumber: 5.4 Consensus size: 47
177618543 CATATCGATT
* **
177618553 CCATGTCCTAGACATGGTCTTACACGAAATCACATATCGATGCCAATG
1 CCATGTCC-AGACATGGTCTTACATGGGATCACATATCGATGCCAATG
* *
177618601 CCATATACCAGATATGGTCTTACATGGGATCACATATCGATGCCAATG
1 CCATGT-CCAGACATGGTCTTACATGGGATCACATATCGATGCCAATG
177618649 CCATGTCCCAGACATGGTCTTAC--GGGTATCACATATCGATGCCAATG
1 CCATGT-CCAGACATGGTCTTACATGGG-ATCACATATCGATGCCAATG
**
177618696 CCATGTCCTAGACATGGTCTTACATCAGATCACATATCGATGCCAATG
1 CCATGTCC-AGACATGGTCTTACATGGGATCACATATCGATGCCAATG
* ** *
177618744 CCATGTCCCAGACATGGTCTTACATTGGATCTTATATCGATGTCAATG
1 CCATGT-CCAGACATGGTCTTACATGGGATCACATATCGATGCCAATG
*
177618792 CCATGTCCTAGATATGGTCTTA
1 CCATGTCC-AGACATGGTCTTA
177618814 GATGTCATTA
Statistics
Matches: 190, Mismatches: 16, Indels: 14
0.86 0.07 0.06
Matches are distributed among these distances:
46 5 0.03
47 42 0.22
48 138 0.73
49 5 0.03
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (47 bp):
CCATGTCCAGACATGGTCTTACATGGGATCACATATCGATGCCAATG
Found at i:177618697 original size:95 final size:95
Alignment explanation
Indices: 177618553--177618813 Score: 373
Period size: 95 Copynumber: 2.7 Consensus size: 95
177618543 CATATCGATT
* * *
177618553 CCATGTCCTAGACATGGTCTTACACGAAATCACATATCGATGCCAATGCCATATACC-AGATATG
1 CCATGTCCCAGACATGGTCTTACACG-GATCACATATCGATGCCAATGCCATGT-CCTAGATATG
**
177618617 GTCTTACATGGGATCACATATCGATGCCAATG
64 GTCTTACATCAGATCACATATCGATGCCAATG
* *
177618649 CCATGTCCCAGACATGGTCTTAC-GGGTATCACATATCGATGCCAATGCCATGTCCTAGACATGG
1 CCATGTCCCAGACATGGTCTTACACGG-ATCACATATCGATGCCAATGCCATGTCCTAGATATGG
177618713 TCTTACATCAGATCACATATCGATGCCAATG
65 TCTTACATCAGATCACATATCGATGCCAATG
* ** *
177618744 CCATGTCCCAGACATGGTCTTACATTGGATCTTATATCGATGTCAATGCCATGTCCTAGATATGG
1 CCATGTCCCAGACATGGTCTTACA-CGGATCACATATCGATGCCAATGCCATGTCCTAGATATGG
177618809 TCTTA
65 TCTTA
177618814 GATGTCATTA
Statistics
Matches: 149, Mismatches: 12, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
94 2 0.01
95 85 0.57
96 60 0.40
97 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (95 bp):
CCATGTCCCAGACATGGTCTTACACGGATCACATATCGATGCCAATGCCATGTCCTAGATATGGT
CTTACATCAGATCACATATCGATGCCAATG
Found at i:177618811 original size:143 final size:143
Alignment explanation
Indices: 177618553--177618813 Score: 416
Period size: 143 Copynumber: 1.8 Consensus size: 143
177618543 CATATCGATT
*
177618553 CCATGTCCTAGACATGGTCTTACACGAAATCACATATCGATGCCAATGCCATATACCAGATATGG
1 CCATGTCCTAGACATGGTCTTACACGAAATCACATATCGATGCCAATGCCATATACCAGACATGG
177618618 TCTTACATGGGATCACATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACGGGTATCACAT
66 TCTTACATGGGATCACATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACGGGTATCACAT
177618683 ATCGATGCCAATG
131 ATCGATGCCAATG
* * *
177618696 CCATGTCCTAGACATGGTCTTACATC-AGATCACATATCGATGCCAATGCCATGTCCCAGACATG
1 CCATGTCCTAGACATGGTCTTACA-CGAAATCACATATCGATGCCAATGCCATATACCAGACATG
* ** * * *
177618760 GTCTTACATTGGATCTTATATCGATGTCAATGCCATGTCCTAGATATGGTCTTA
65 GTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCCAGACATGGTCTTA
177618814 GATGTCATTA
Statistics
Matches: 107, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
143 106 0.99
144 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (143 bp):
CCATGTCCTAGACATGGTCTTACACGAAATCACATATCGATGCCAATGCCATATACCAGACATGG
TCTTACATGGGATCACATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACGGGTATCACAT
ATCGATGCCAATG
Found at i:177627145 original size:17 final size:18
Alignment explanation
Indices: 177627103--177627151 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
177627093 AGTTGAAAAG
177627103 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
177627122 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
177627139 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
177627152 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:177628038 original size:40 final size:40
Alignment explanation
Indices: 177627972--177628138 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
177627962 AAATTGAATG
* * *
177627972 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
177628011 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
177628051 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
177628091 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
177628131 ATATCCGG
1 ATATCCGG
177628139 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:177648248 original size:39 final size:39
Alignment explanation
Indices: 177648194--177648356 Score: 245
Period size: 39 Copynumber: 4.2 Consensus size: 39
177648184 TGTGTATGAA
* *
177648194 TGTGCGAATTGTGATATCCGGGCTAAGTCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
177648233 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
177648272 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
177648311 TGTGCTAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
177648351 TGTGCG
1 TGTGCG
177648357 GGTTACCATA
Statistics
Matches: 111, Mismatches: 12, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 95 0.86
40 16 0.14
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.25
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:177648372 original size:40 final size:40
Alignment explanation
Indices: 177648194--177648387 Score: 241
Period size: 39 Copynumber: 4.9 Consensus size: 40
177648184 TGTGTATGAA
* *
177648194 TGTGCGAATTGTGATATCCGGGCTAAGT-CCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGTCCCGAAGGCAAT
*
177648233 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGTCCCGAAGGCAAT
* *
177648272 GGTGCGAGCTATGATATCCGGGCTAAG-CCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGTCCCGAAGGCAAT
* * * *
177648311 TGTGCTAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAGTCCCGAAGGCAAT
* ** * *
177648351 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAGTCCCGAAGGC
177648388 GTTTGAACGA
Statistics
Matches: 135, Mismatches: 18, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
39 95 0.70
40 40 0.30
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (40 bp):
TGTGCGAGTTATGATATCCGGGCTAAGTCCCGAAGGCAAT
Found at i:177655080 original size:40 final size:40
Alignment explanation
Indices: 177655014--177655164 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
177655004 AAATTGAATG
* * *
177655014 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
177655053 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
177655093 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
177655133 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
177655165 ACGTGATTAA
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:177663140 original size:20 final size:20
Alignment explanation
Indices: 177663117--177663157 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
177663107 GCCAAAGCAT
*
177663117 ATAGCACTACGGCAAAATAG
1 ATAGCACTACAGCAAAATAG
177663137 ATAGCACTACAGCAAAATAG
1 ATAGCACTACAGCAAAATAG
177663157 A
1 A
177663158 CTTTTAGCGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.49, C:0.20, G:0.17, T:0.15
Consensus pattern (20 bp):
ATAGCACTACAGCAAAATAG
Found at i:177664128 original size:14 final size:14
Alignment explanation
Indices: 177664073--177664156 Score: 62
Period size: 15 Copynumber: 5.9 Consensus size: 14
177664063 ACTATTTAAA
* *
177664073 GGTTTATGGATTAT
1 GGTTTAGGGGTTAT
**
177664087 GGGTTTAGGAATTAT
1 -GGTTTAGGGGTTAT
* *
177664102 -GTTTATGGCTTAT
1 GGTTTAGGGGTTAT
*
177664115 GGTTTAAGGGTTAT
1 GGTTTAGGGGTTAT
* *
177664129 GGGTTAGGGGTTAGG
1 GGTTTAGGGGTTA-T
177664144 GGTTTAGGGGTTA
1 GGTTTAGGGGTTA
177664157 GGGGTTAATG
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
13 10 0.18
14 22 0.39
15 24 0.43
ACGTcount: A:0.19, C:0.01, G:0.38, T:0.42
Consensus pattern (14 bp):
GGTTTAGGGGTTAT
Found at i:177664132 original size:7 final size:7
Alignment explanation
Indices: 177664122--177664192 Score: 70
Period size: 7 Copynumber: 9.9 Consensus size: 7
177664112 TATGGTTTAA
*
177664122 GGGTTAT
1 GGGTTAG
177664129 GGGTTAG
1 GGGTTAG
177664136 GGGTTAG
1 GGGTTAG
177664143 GGGTTTAG
1 GGG-TTAG
177664151 GGGTTAG
1 GGGTTAG
*
177664158 GGGTTAAT
1 GGGTT-AG
*
177664166 GGTTTAG
1 GGGTTAG
* *
177664173 CGGTTAA
1 GGGTTAG
*
177664180 GGCTTAG
1 GGGTTAG
177664187 GGGTTA
1 GGGTTA
177664193 TTATTTATGG
Statistics
Matches: 51, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
7 39 0.76
8 12 0.24
ACGTcount: A:0.17, C:0.03, G:0.46, T:0.34
Consensus pattern (7 bp):
GGGTTAG
Found at i:177664150 original size:15 final size:15
Alignment explanation
Indices: 177664115--177664162 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
177664105 TATGGCTTAT
* *
177664115 GGTTTAAGGGTTATG
1 GGTTTAGGGGTTAGG
177664130 GG-TTAGGGGTTAGG
1 GGTTTAGGGGTTAGG
177664144 GGTTTAGGGGTTAGG
1 GGTTTAGGGGTTAGG
177664159 GGTT
1 GGTT
177664163 AATGGTTTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 12 0.40
15 18 0.60
ACGTcount: A:0.15, C:0.00, G:0.50, T:0.35
Consensus pattern (15 bp):
GGTTTAGGGGTTAGG
Found at i:177664154 original size:22 final size:22
Alignment explanation
Indices: 177664129--177664191 Score: 81
Period size: 22 Copynumber: 2.9 Consensus size: 22
177664119 TAAGGGTTAT
177664129 GGGTTAGGGGTTAGGGGTTTAG
1 GGGTTAGGGGTTAGGGGTTTAG
**
177664151 GGGTTAGGGGTTAATGGTTTAG
1 GGGTTAGGGGTTAGGGGTTTAG
* * *
177664173 CGGTTAAGGCTTAGGGGTT
1 GGGTTAGGGGTTAGGGGTT
177664192 ATTATTTATG
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:0.16, C:0.03, G:0.48, T:0.33
Consensus pattern (22 bp):
GGGTTAGGGGTTAGGGGTTTAG
Found at i:177664169 original size:29 final size:30
Alignment explanation
Indices: 177664115--177664192 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 30
177664105 TATGGCTTAT
* * *
177664115 GGTTTAAGGGTTATGGGTT-AGGGGTTAGG
1 GGTTTAAGGGTTAGGGGTTAAGGGTTTAGC
* *
177664144 GGTTTAGGGGTTAGGGGTTAATGGTTTAGC
1 GGTTTAAGGGTTAGGGGTTAAGGGTTTAGC
*
177664174 GG-TTAAGGCTTAGGGGTTA
1 GGTTTAAGGGTTAGGGGTTA
177664193 TTATTTATGG
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
29 32 0.78
30 9 0.22
ACGTcount: A:0.18, C:0.03, G:0.45, T:0.35
Consensus pattern (30 bp):
GGTTTAAGGGTTAGGGGTTAAGGGTTTAGC
Found at i:177664172 original size:15 final size:14
Alignment explanation
Indices: 177664108--177664192 Score: 62
Period size: 14 Copynumber: 5.9 Consensus size: 14
177664098 TTATGTTTAT
* *
177664108 GGCTTATGGTTTAA
1 GGCTTAGGGGTTAA
* * *
177664122 GGGTTATGGGTTAG
1 GGCTTAGGGGTTAA
* *
177664136 GGGTTAGGGGTTTAG
1 GGCTTAGGGG-TTAA
*
177664151 GGGTTAGGGGTTAA
1 GGCTTAGGGGTTAA
* *
177664165 TGGTTTAGCGGTTAA
1 -GGCTTAGGGGTTAA
177664180 GGCTTAGGGGTTA
1 GGCTTAGGGGTTA
177664193 TTATTTATGG
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
14 34 0.57
15 26 0.43
ACGTcount: A:0.18, C:0.04, G:0.44, T:0.35
Consensus pattern (14 bp):
GGCTTAGGGGTTAA
Found at i:177664407 original size:21 final size:21
Alignment explanation
Indices: 177664383--177664438 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
177664373 ATTGTTTGTG
* * *
177664383 GTTTATGGTTTAGGGGATATA
1 GTTTAGGGTTTAAGAGATATA
177664404 GTTTAGGGTTTAAGAGATATA
1 GTTTAGGGTTTAAGAGATATA
*
177664425 GTTTAGAGTTTAAG
1 GTTTAGGGTTTAAG
177664439 GTTATGGTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.29, C:0.00, G:0.30, T:0.41
Consensus pattern (21 bp):
GTTTAGGGTTTAAGAGATATA
Found at i:177664407 original size:28 final size:28
Alignment explanation
Indices: 177664350--177664417 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 28
177664340 ATTCATACAT
* *
177664350 TTTGTGG-TTAAGGCTTAGGGGTTATTG
1 TTTGTGGTTTAAGGCTTAGGGGATATAG
* *
177664377 TTTGTGGTTTATGGTTTAGGGGATATAG
1 TTTGTGGTTTAAGGCTTAGGGGATATAG
177664405 TTTAG-GGTTTAAG
1 TTT-GTGGTTTAAG
177664418 AGATATAGTT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
27 7 0.21
28 26 0.76
29 1 0.03
ACGTcount: A:0.18, C:0.01, G:0.35, T:0.46
Consensus pattern (28 bp):
TTTGTGGTTTAAGGCTTAGGGGATATAG
Found at i:177666752 original size:14 final size:14
Alignment explanation
Indices: 177666733--177666777 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
177666723 TAATGTATAT
177666733 ATATATCAATATGC
1 ATATATCAATATGC
177666747 ATATAT--ATA--C
1 ATATATCAATATGC
177666757 ATATATCAATATGC
1 ATATATCAATATGC
177666771 ATATATC
1 ATATATC
177666778 TTGGGTTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
10 7 0.26
12 6 0.22
14 14 0.52
ACGTcount: A:0.44, C:0.13, G:0.04, T:0.38
Consensus pattern (14 bp):
ATATATCAATATGC
Found at i:177666760 original size:24 final size:24
Alignment explanation
Indices: 177666728--177666776 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
177666718 GATTGTAATG
*
177666728 TATATATATATCAATATGCATATA
1 TATACATATATCAATATGCATATA
177666752 TATACATATATCAATATGCATATA
1 TATACATATATCAATATGCATATA
177666776 T
1 T
177666777 CTTGGGTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.45, C:0.10, G:0.04, T:0.41
Consensus pattern (24 bp):
TATACATATATCAATATGCATATA
Found at i:177666930 original size:25 final size:25
Alignment explanation
Indices: 177666887--177666934 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
177666877 CTCCGCATCG
*
177666887 TCATTGGCAGCCTTATGCTACATTT
1 TCATTGGCAGCCCTATGCTACATTT
* *
177666912 TCATTGGCATCCCTCTGCTACAT
1 TCATTGGCAGCCCTATGCTACAT
177666935 CTCCGTCAGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.19, C:0.29, G:0.15, T:0.38
Consensus pattern (25 bp):
TCATTGGCAGCCCTATGCTACATTT
Found at i:177667461 original size:2 final size:2
Alignment explanation
Indices: 177667456--177667486 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
177667446 ATATATATAT
177667456 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
177667487 ACAAACATGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:177669430 original size:40 final size:39
Alignment explanation
Indices: 177669265--177669448 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
177669255 AAATTGAATG
* * *
177669265 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
177669305 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
177669345 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
177669385 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
177669424 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
177669449 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:177669473 original size:80 final size:81
Alignment explanation
Indices: 177669305--177669493 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
177669295 GCTGGAAATT
* * * *
177669305 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
177669370 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
177669386 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
177669449 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
177669465 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
177669494 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:177677406 original size:40 final size:39
Alignment explanation
Indices: 177677241--177677424 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
177677231 GAAATTGATG
* * *
177677241 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
177677281 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
177677321 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
177677361 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
177677400 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
177677425 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:177677449 original size:80 final size:81
Alignment explanation
Indices: 177677281--177677469 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
177677271 GCTGGAAATT
* * * *
177677281 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
177677346 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
177677362 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
177677425 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
177677441 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
177677470 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:177680085 original size:13 final size:14
Alignment explanation
Indices: 177680069--177680097 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
177680059 TTATAAATAT
177680069 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
177680082 TTATAATGGTTTAA
1 TTATAATGGTTTAA
177680096 TT
1 TT
177680098 CGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:177682684 original size:48 final size:48
Alignment explanation
Indices: 177682615--177683286 Score: 1085
Period size: 48 Copynumber: 14.0 Consensus size: 48
177682605 CAAGATAAAT
* *
177682615 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
177682663 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
177682711 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
177682759 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAG
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * *
177682807 ATATATGTGTGATATGTAGATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
177682855 ATATATATGAGATATGTAGATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * **
177682903 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGAAAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
177682951 ATATATATGAGATATGTATATGTGGTAAAGTCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
177682999 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
177683047 ATATATATGAGATATGTATATGTGGTAAAGCCGAAAGGCTAATGTGAG
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * *
177683095 ATATATGTGTGATATGTAGATGTGGTAAAGCCGAATGG-TCAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTGAA
*
177683143 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
177683191 ATATATATGAGATATGTATATGTCGTAAAGCCGAATGGCGAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * *
177683239 ATATGTATGAGATATGAATATGTCGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
177683287 TGTTGTAACA
Statistics
Matches: 577, Mismatches: 45, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
47 1 0.00
48 575 1.00
49 1 0.00
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
Done.