Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 186 of 349
Found at i:60279029 original size:25 final size:25
Alignment explanation
Indices: 60278995--60279044 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
60278985 ACTCTATTTG
60278995 TAAAACACTCATCTTCAGGGGGAGT
1 TAAAACACTCATCTTCAGGGGGAGT
60279020 TAAAACACTCATCTTCAGGGGGAGT
1 TAAAACACTCATCTTCAGGGGGAGT
60279045 GACTACTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (25 bp):
TAAAACACTCATCTTCAGGGGGAGT
Found at i:60283143 original size:26 final size:26
Alignment explanation
Indices: 60283114--60283221 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
60283104 TGGTACAAAT
*
60283114 TGATAATGGGTTAGGTTAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
60283140 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60283166 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
60283192 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60283218 TGAT
1 TGAT
60283222 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:60284920 original size:27 final size:27
Alignment explanation
Indices: 60284819--60284905 Score: 124
Period size: 27 Copynumber: 3.2 Consensus size: 27
60284809 AGGAAGCATC
*
60284819 CTGGTGGCTGTGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
60284846 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
*
60284873 CTGGTGGCTCTGCCATAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
60284900 CTGGTG
1 CTGGTG
60284906 ACTTCGTCAC
Statistics
Matches: 55, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
26 8 0.15
27 46 0.84
28 1 0.02
ACGTcount: A:0.16, C:0.23, G:0.25, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:60291277 original size:27 final size:27
Alignment explanation
Indices: 60291239--60291315 Score: 100
Period size: 27 Copynumber: 2.9 Consensus size: 27
60291229 AAATTATTGA
* * *
60291239 AATACCCTTGTAGTGTAAAATGACCGT
1 AATACCCCTGTAGGGTAAAATGACCAT
*
60291266 AATGCCCCTGTAGGGTAAAATGACCAT
1 AATACCCCTGTAGGGTAAAATGACCAT
* *
60291293 AATACCCCTGTATGGTAGAATGA
1 AATACCCCTGTAGGGTAAAATGA
60291316 GGATTATGCC
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAATGACCAT
Found at i:60291632 original size:22 final size:22
Alignment explanation
Indices: 60291561--60291636 Score: 116
Period size: 22 Copynumber: 3.5 Consensus size: 22
60291551 ACGGCCTTTT
60291561 GTCGTCCTGTCTACGACGTTGA
1 GTCGTCCTGTCTACGACGTTGA
* *
60291583 GTCATCCTGTCTACGGCGTTGA
1 GTCGTCCTGTCTACGACGTTGA
60291605 GTCGTCCTGTCTACGACGTTGA
1 GTCGTCCTGTCTACGACGTTGA
**
60291627 ACCGTCCTGT
1 GTCGTCCTGT
60291637 TAACTTGGTG
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.13, C:0.29, G:0.26, T:0.32
Consensus pattern (22 bp):
GTCGTCCTGTCTACGACGTTGA
Found at i:60294149 original size:23 final size:23
Alignment explanation
Indices: 60294119--60294168 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
60294109 TAGCTTATAA
*
60294119 GTGCTCCTGTTACTT-GCACTTTG
1 GTGCTCCTATT-CTTAGCACTTTG
60294142 GTGCTCCTATTCTTAGCACTTTG
1 GTGCTCCTATTCTTAGCACTTTG
60294165 GTGC
1 GTGC
60294169 GATCCTGATC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 3 0.12
23 22 0.88
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.42
Consensus pattern (23 bp):
GTGCTCCTATTCTTAGCACTTTG
Found at i:60298696 original size:14 final size:15
Alignment explanation
Indices: 60298677--60298706 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
60298667 TTTAACCGAT
60298677 TAAACAAAT-TTTAA
1 TAAACAAATGTTTAA
60298691 TAAACAAATGTTTAA
1 TAAACAAATGTTTAA
60298706 T
1 T
60298707 GCACATACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.37
Consensus pattern (15 bp):
TAAACAAATGTTTAA
Found at i:60309015 original size:40 final size:40
Alignment explanation
Indices: 60308916--60309098 Score: 210
Period size: 40 Copynumber: 4.5 Consensus size: 40
60308906 TTTGAATGAT
* *
60308916 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATA
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GTGACTA-A
* * * *
60308958 A-CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACTAA
* *
60308997 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTAA
* * *
60309037 ATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGA-TCAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT-AA
60309077 ATCCGGGCTAAGACCCGAAGGC
1 ATCCGGGCTAAGACCCGAAGGC
60309099 CTTGTGCAAG
Statistics
Matches: 121, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 4 0.03
40 90 0.74
41 26 0.21
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTAA
Found at i:60309084 original size:80 final size:81
Alignment explanation
Indices: 60308914--60309098 Score: 241
Period size: 80 Copynumber: 2.3 Consensus size: 81
60308904 TATTTGAATG
* * *
60308914 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
* *
60308979 ATTCGTGCGAGTTGCT
66 ATTCATGCGAGTTGAT
* * *
60308995 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGG
* *
60309058 CATTTATGCTAG-TGAT
65 CATTCATGCGAGTTGAT
60309074 CATATCCGGGCTAAGACCCGAAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
60309099 CTTGTGCAAG
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
79 4 0.04
80 56 0.62
81 31 0.34
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (81 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCATGCGAGTTGAT
Found at i:60310759 original size:23 final size:23
Alignment explanation
Indices: 60310733--60310784 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
60310723 CTCTCTTTTT
60310733 TTTTTCAATTTTTTGTCTT-TATC
1 TTTTTCAATTTTTTGTCTTGTA-C
* *
60310756 TTTTTCACTTTTTTTTCTTGTAC
1 TTTTTCAATTTTTTGTCTTGTAC
60310779 TTTTTC
1 TTTTTC
60310785 TTTCAACTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 24 0.92
24 2 0.08
ACGTcount: A:0.10, C:0.15, G:0.04, T:0.71
Consensus pattern (23 bp):
TTTTTCAATTTTTTGTCTTGTAC
Found at i:60321594 original size:21 final size:21
Alignment explanation
Indices: 60321570--60321609 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
60321560 TATGTTAAGC
* *
60321570 AGTTTAAATGATGGTTGAATA
1 AGTTGAAATCATGGTTGAATA
*
60321591 AGTTGAATTCATGGTTGAA
1 AGTTGAAATCATGGTTGAA
60321610 AGGTGTGAAT
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:0.35, C:0.03, G:0.25, T:0.38
Consensus pattern (21 bp):
AGTTGAAATCATGGTTGAATA
Found at i:60322929 original size:40 final size:40
Alignment explanation
Indices: 60322872--60323064 Score: 264
Period size: 40 Copynumber: 4.8 Consensus size: 40
60322862 GTATGATATT
* *
60322872 TGGAATTGCATCCGGGCTTAAAGACCCGCAGGCTATATGC
1 TGGAATTGTATCTGGGCTTAAAGACCCGCAGGCTATATGC
*
60322912 TGGAATTGTATCTGGGCTTAAAGACCCACAGGCTATATGC
1 TGGAATTGTATCTGGGCTTAAAGACCCGCAGGCTATATGC
* * *
60322952 TGGAAATGTATCCGGGCTTAAAGACCCACAGGCTATATGC
1 TGGAATTGTATCTGGGCTTAAAGACCCGCAGGCTATATGC
* *
60322992 TGGAATTGTATCTGGGCATAAAGACCCGCAGGCT-TCGTGC
1 TGGAATTGTATCTGGGCTTAAAGACCCGCAGGCTAT-ATGC
* * *
60323032 TGGAATGGTATTTGGG-TTAAAGACCCGTAGGCT
1 TGGAATTGTATCTGGGCTTAAAGACCCGCAGGCT
60323065 TGCGCTAGAA
Statistics
Matches: 138, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 16 0.12
40 122 0.88
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
TGGAATTGTATCTGGGCTTAAAGACCCGCAGGCTATATGC
Found at i:60328509 original size:15 final size:15
Alignment explanation
Indices: 60328485--60328514 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
60328475 AACAATCCCT
60328485 TAAATAAAACTTAAC
1 TAAATAAAACTTAAC
*
60328500 TAAATTAAACTTAAC
1 TAAATAAAACTTAAC
60328515 ACTTGCCGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (15 bp):
TAAATAAAACTTAAC
Found at i:60332175 original size:40 final size:40
Alignment explanation
Indices: 60331996--60332253 Score: 280
Period size: 40 Copynumber: 6.6 Consensus size: 40
60331986 TCCTCGTTCA
* * * * *
60331996 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
60332035 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
60332075 -ATGCCTTC-GGACTTAA-CCGGATTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
60332111 AATGCCTTC-GGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
60332150 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
60332190 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
60332230 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
60332254 CAGCATTCAA
Statistics
Matches: 192, Mismatches: 19, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
36 10 0.05
37 26 0.14
38 17 0.09
39 64 0.33
40 67 0.35
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:60339996 original size:40 final size:40
Alignment explanation
Indices: 60339898--60340159 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
60339888 TCCTCGTTCA
* * * * *
60339898 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
60339937 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
60339977 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
60340017 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
60340057 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
60340097 AAGGCCTTC--GATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
60340136 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
60340160 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
38 2 0.01
39 57 0.29
40 137 0.69
41 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:60345112 original size:28 final size:28
Alignment explanation
Indices: 60345080--60345193 Score: 131
Period size: 29 Copynumber: 4.0 Consensus size: 28
60345070 TACCTGTATC
* *
60345080 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
*
60345108 TGGCCCATTAGGCCCAAATCACCTAT-ATA
1 TGGCCCATTAGGCCC-AATCACAT-TCATA
* *
60345137 TGGCCCATTAGGCCTAAATCACATTTATA
1 TGGCCCATTAGGCC-CAATCACATTCATA
* *
60345166 TGGCCCGTTAGGCCCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
60345194 ATCATGCTCA
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
28 26 0.36
29 46 0.63
30 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:60345171 original size:58 final size:57
Alignment explanation
Indices: 60345071--60345181 Score: 150
Period size: 58 Copynumber: 1.9 Consensus size: 57
60345061 AATTTCACAT
* * * *
60345071 ACCTGTATCTGGCCCATTAAGCCCAATCATATTCATATGGCCCATTAGGCCCAAATC
1 ACCTATATATGGCCCATTAAGCCAAATCACATTCATATGGCCCATTAGGCCCAAATC
* * *
60345128 ACCTATATATGGCCCATTAGGCCTAAATCACATTTATATGGCCCGTTAGGCCCA
1 ACCTATATATGGCCCATTAAGCC-AAATCACATTCATATGGCCCATTAGGCCCA
60345182 GTCACATTCA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 20 0.43
58 26 0.57
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.27
Consensus pattern (57 bp):
ACCTATATATGGCCCATTAAGCCAAATCACATTCATATGGCCCATTAGGCCCAAATC
Found at i:60350290 original size:23 final size:22
Alignment explanation
Indices: 60350239--60350290 Score: 52
Period size: 23 Copynumber: 2.3 Consensus size: 22
60350229 ATCTCATATC
*
60350239 CAGTTAGATACAGAATCAAACT
1 CAGTTAGATACAGAAACAAACT
*
60350261 TATGTTAGATACAGATAACAGAA-T
1 CA-GTTAGATACAGA-AACA-AACT
60350285 CAGTTA
1 CAGTTA
60350291 AGCAGTACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
22 1 0.04
23 16 0.67
24 5 0.21
25 2 0.08
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.27
Consensus pattern (22 bp):
CAGTTAGATACAGAAACAAACT
Found at i:60350526 original size:14 final size:15
Alignment explanation
Indices: 60350507--60350535 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
60350497 CATTCCAGTC
60350507 ACAGATACAG-AATA
1 ACAGATACAGTAATA
60350521 ACAGATACAGTAATA
1 ACAGATACAGTAATA
60350536 TCATGCATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.55, C:0.14, G:0.14, T:0.17
Consensus pattern (15 bp):
ACAGATACAGTAATA
Found at i:60352578 original size:17 final size:18
Alignment explanation
Indices: 60352555--60352596 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
60352545 CAACAATCTA
* *
60352555 CCATTTCATATTTCATTT
1 CCATTTCACATCTCATTT
60352573 -CATTTCACATCTCATTT
1 CCATTTCACATCTCATTT
60352590 CCATTTC
1 CCATTTC
60352597 TCAACAAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.21, C:0.29, G:0.00, T:0.50
Consensus pattern (18 bp):
CCATTTCACATCTCATTT
Found at i:60356117 original size:12 final size:14
Alignment explanation
Indices: 60356100--60356132 Score: 52
Period size: 12 Copynumber: 2.5 Consensus size: 14
60356090 TTTTCTCCAG
60356100 AATGAAAAT-GA-A
1 AATGAAAATGGAGA
60356112 AATGAAAATGGAGA
1 AATGAAAATGGAGA
60356126 AATGAAA
1 AATGAAA
60356133 TCATTTGGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 9 0.47
13 2 0.11
14 8 0.42
ACGTcount: A:0.64, C:0.00, G:0.21, T:0.15
Consensus pattern (14 bp):
AATGAAAATGGAGA
Found at i:60356144 original size:63 final size:64
Alignment explanation
Indices: 60356053--60356185 Score: 182
Period size: 63 Copynumber: 2.1 Consensus size: 64
60356043 AGGATCGGTG
*
60356053 AAATGGAGAAGTAGGAAACATTTGGAAATG-ATAAAGGTTTTCTCCAGAATGAAAATG-AAAATG
1 AAATGGAGAAG-AGGAAACATTTGGAAATGAAT-AAGGTTTTCTCCAAAATGAAAATGAAAAATG
60356116 A
64 A
* **
60356117 AAATGGAGAA-ATGAAATCATTTGGAAATGAATGTGGTTTTCTCCAAAATGAAAATGAAAAATGA
1 AAATGGAGAAGAGGAAA-CATTTGGAAATGAATAAGGTTTTCTCCAAAATGAAAATGAAAAATGA
60356181 AAATG
1 AAATG
60356186 ACCTGAAAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
62 5 0.08
63 33 0.53
64 24 0.39
ACGTcount: A:0.47, C:0.06, G:0.22, T:0.25
Consensus pattern (64 bp):
AAATGGAGAAGAGGAAACATTTGGAAATGAATAAGGTTTTCTCCAAAATGAAAATGAAAAATGA
Found at i:60356179 original size:13 final size:13
Alignment explanation
Indices: 60356161--60356186 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
60356151 GGTTTTCTCC
60356161 AAAATGAAAATGA
1 AAAATGAAAATGA
60356174 AAAATGAAAATGA
1 AAAATGAAAATGA
60356187 CCTGAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
AAAATGAAAATGA
Found at i:60360172 original size:46 final size:46
Alignment explanation
Indices: 60360122--60360297 Score: 193
Period size: 46 Copynumber: 3.8 Consensus size: 46
60360112 TGGTTGAGCA
60360122 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
60360168 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
60360213 CATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
60360261 -CCTGAGA-TCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GA-ACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
60360298 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 10, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 59 0.54
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:60360278 original size:93 final size:93
Alignment explanation
Indices: 60360119--60360290 Score: 294
Period size: 93 Copynumber: 1.8 Consensus size: 93
60360109 GGATGGTTGA
*
60360119 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
60360184 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
60360212 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACG-CCTGAGA-TCGTTGA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GA-ACTCGTTGA
60360275 GTTGAGTCCGAGTTCG
64 GTTGAGTCCGAGTTCG
60360291 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
92 2 0.03
93 72 0.96
94 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:60361863 original size:41 final size:40
Alignment explanation
Indices: 60361818--60361895 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 40
60361808 AAATGATTAA
* *
60361818 GGTTTTCTCGAAAATTAAAATGAAAATTGAAAAATGAATGT
1 GGTTTTCTCCAAAATGAAAATGAAAA-TGAAAAATGAATGT
* *
60361859 GGTTTTTTCCAAAATGAAAATGAAAATGTAAAATGAA
1 GGTTTTCTCCAAAATGAAAATGAAAATGAAAAATGAA
60361896 AAATGAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
40 10 0.30
41 23 0.70
ACGTcount: A:0.47, C:0.05, G:0.17, T:0.31
Consensus pattern (40 bp):
GGTTTTCTCCAAAATGAAAATGAAAATGAAAAATGAATGT
Found at i:60361893 original size:13 final size:12
Alignment explanation
Indices: 60361869--60361905 Score: 56
Period size: 13 Copynumber: 2.9 Consensus size: 12
60361859 GGTTTTTTCC
60361869 AAAATGAAAATG
1 AAAATGAAAATG
60361881 AAAATGTAAAATG
1 AAAATG-AAAATG
60361894 AAAAATGAAAAT
1 -AAAATGAAAAT
60361906 AACTTGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 6 0.26
13 11 0.48
14 6 0.26
ACGTcount: A:0.68, C:0.00, G:0.14, T:0.19
Consensus pattern (12 bp):
AAAATGAAAATG
Found at i:60361920 original size:7 final size:6
Alignment explanation
Indices: 60361869--60361905 Score: 56
Period size: 6 Copynumber: 5.8 Consensus size: 6
60361859 GGTTTTTTCC
60361869 AAAATG AAAATG AAAATG TAAAATG AAAAATG AAAAT
1 AAAATG AAAATG AAAATG -AAAATG -AAAATG AAAAT
60361906 AACTTGAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
6 17 0.59
7 12 0.41
ACGTcount: A:0.68, C:0.00, G:0.14, T:0.19
Consensus pattern (6 bp):
AAAATG
Found at i:60365451 original size:46 final size:46
Alignment explanation
Indices: 60365384--60365559 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
60365374 TGTAACCCGC
* * *
60365384 CCATAAGCGAACTCCGACTCAACTCAACGAGCTCGGGCGTTCTCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCTCAT
* * * *
60365430 CCATAGGTGAACTCGGACTCAACTCAACGAGTTCGGATG-CCT-AGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCTCA--T
* * * * *
60365476 ACATTTCA-TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCTCAT
60365523 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
60365560 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
44 1 0.01
45 4 0.04
46 65 0.61
47 33 0.31
48 2 0.02
49 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCTCAT
Found at i:60365551 original size:93 final size:93
Alignment explanation
Indices: 60365392--60365562 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
60365382 GCCCATAAGC
* * * *
60365392 GAACTCCGACTCAACTCAACGAGCTCGGGCGTTCTCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCCGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
60365457 CGAGTTCGGATGCCTAGTTACATTTCAT
66 CGAGCTCGGATGCCTAGTTACATTTCAT
* *
60365485 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCCGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
60365550 CGAGCTCGGATGC
66 CGAGCTCGGATGC
60365563 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCCGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATTTCAT
Found at i:60365578 original size:46 final size:45
Alignment explanation
Indices: 60365392--60365578 Score: 134
Period size: 46 Copynumber: 4.0 Consensus size: 45
60365382 GCCCATAAGC
* * * *
60365392 GAACTCCGACTCAACTCAACGAGCTCGGGCGTTCTCATCCA--TAGGT
1 GAACTCGGACTCAACTCAACGAGCTC-GG-ATGCTCAACCATCTA-GT
* *
60365438 GAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATTTCA-T
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCTC-A---ACCATCT-AGT
* * * * *
60365485 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-AAGT
1 GAACTCGGACTCAACTCAACGAGCTCGG--ATGCTCAACCATCTAGT
60365531 GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCAT-CTAGT
60365577 GA
1 GA
60365579 CATGTCACTT
Statistics
Matches: 114, Mismatches: 13, Indels: 28
0.74 0.08 0.18
Matches are distributed among these distances:
43 1 0.01
44 12 0.11
45 3 0.03
46 59 0.52
47 32 0.28
48 1 0.01
49 5 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCTAGT
Found at i:60373759 original size:24 final size:25
Alignment explanation
Indices: 60373731--60373794 Score: 87
Period size: 24 Copynumber: 2.6 Consensus size: 25
60373721 TCAACCAAAT
* * *
60373731 TCGCACACATAGTGCTA-ATTAAGC
1 TCGCACACATAGTGCCATACTAAAC
60373755 TCGCACACATAGTGCCATACTAAAC
1 TCGCACACATAGTGCCATACTAAAC
60373780 -CGCACACATAGTGCC
1 TCGCACACATAGTGCC
60373795 TAAAATTTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 31 0.86
25 5 0.14
ACGTcount: A:0.33, C:0.31, G:0.16, T:0.20
Consensus pattern (25 bp):
TCGCACACATAGTGCCATACTAAAC
Found at i:60373845 original size:24 final size:24
Alignment explanation
Indices: 60373818--60373867 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
60373808 CATGCATCGA
60373818 CATTCAAATCT-GCACACATAGTGC
1 CATT-AAATCTCGCACACATAGTGC
* * *
60373842 CATTTAATTTCGCACACTTAGTGC
1 CATTAAATCTCGCACACATAGTGC
60373866 CA
1 CA
60373868 ATGTTAACTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.30
Consensus pattern (24 bp):
CATTAAATCTCGCACACATAGTGC
Found at i:60373940 original size:94 final size:94
Alignment explanation
Indices: 60373823--60374292 Score: 841
Period size: 94 Copynumber: 5.0 Consensus size: 94
60373813 ATCGACATTC
* * * *
60373823 AAATCTGCACACATAGTGCCATTTAATTTCGCACACTTAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
60373888 GGCAATTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
*
60373917 AAATCTGCACACTAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
*
60373982 GGCAATTTATTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
*
60374011 AAATCTGCACACAAAGTGACATTTAATTCCACACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
*
60374076 GGAAATTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
*
60374105 AAATCTGCACACAAAGTGACATTTAATTCCACACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
60374170 GGCAATTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
*
60374199 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAT
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
*
60374264 GGCAACTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
60374293 CGGTCACATT
Statistics
Matches: 362, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 362 1.00
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (94 bp):
AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
GGCAATTTACTTAATTCAAATAGCATATA
Found at i:60380774 original size:39 final size:39
Alignment explanation
Indices: 60380680--60380872 Score: 271
Period size: 39 Copynumber: 5.0 Consensus size: 39
60380670 CATGGTATTT
*
60380680 GAAATATATCCGGACATGAGGTCCGCAGGCTATAT-CTG
1 GAAATATATCCGGACATGAGGTCCGCAGGCTATGTGCTG
* * *
60380718 GGAATATATCCGGACATGAGGTCCACAGGCTATGTGTTG
1 GAAATATATCCGGACATGAGGTCCGCAGGCTATGTGCTG
*
60380757 GAAATATATCCGGACATGAGGTCTGCAGGCTATGTGCTG
1 GAAATATATCCGGACATGAGGTCCGCAGGCTATGTGCTG
* * * **
60380796 GAAATATATCCGGACTTAAAGTCTACAGGCTATGTGCTG
1 GAAATATATCCGGACATGAGGTCCGCAGGCTATGTGCTG
* *
60380835 GAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGCT
1 GAAATATATCCGGACATGAGGTCCGCAGGCTATGTGCT
60380873 AGAATGGTAC
Statistics
Matches: 139, Mismatches: 15, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
38 32 0.23
39 107 0.77
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.26
Consensus pattern (39 bp):
GAAATATATCCGGACATGAGGTCCGCAGGCTATGTGCTG
Found at i:60384104 original size:37 final size:37
Alignment explanation
Indices: 60384054--60384127 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
60384044 TAAGAACTTG
60384054 CCTGTTGAGTTTACTGAGTTTGTGATTAGAGTGTCAA
1 CCTGTTGAGTTTACTGAGTTTGTGATTAGAGTGTCAA
60384091 CCTGTTGAGTTTACTGAGTTTGTGATTAGAGTGTCAA
1 CCTGTTGAGTTTACTGAGTTTGTGATTAGAGTGTCAA
60384128 ACCCTTTAGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.22, C:0.11, G:0.27, T:0.41
Consensus pattern (37 bp):
CCTGTTGAGTTTACTGAGTTTGTGATTAGAGTGTCAA
Found at i:60388646 original size:42 final size:42
Alignment explanation
Indices: 60388559--60388713 Score: 152
Period size: 42 Copynumber: 3.7 Consensus size: 42
60388549 TGAGACCACA
* * *
60388559 TGTAAGACCATATCT-GAGATA-TGACATCAATATGAGACTAAG
1 TGTAAGACCATATCTAG-GATATTG-CATTAATATGAGATTACG
*
60388601 TGTAAGACCATATCTAGGATATTGCATTAATATGAGATTTCG
1 TGTAAGACCATATCTAGGATATTGCATTAATATGAGATTACG
* * * * * * * *
60388643 TGTAAGACTATAGCTGGGCTATCAGCATTGATACGAGATTACA
1 TGTAAGACCATATCTAGGATAT-TGCATTAATATGAGATTACG
*
60388686 TGTAAGACCATATCTAGGATATGGCATT
1 TGTAAGACCATATCTAGGATATTGCATT
60388714 GGTACGGTAC
Statistics
Matches: 92, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
42 56 0.61
43 36 0.39
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATATCTAGGATATTGCATTAATATGAGATTACG
Found at i:60392368 original size:23 final size:23
Alignment explanation
Indices: 60392342--60392388 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
60392332 AGCGATTAAG
*
60392342 ACTTTTGGATTTAAGCAAGACGT
1 ACTTTTGGATTTAAGCAAAACGT
*
60392365 ACTTTTGGATTTAATCAAAACGT
1 ACTTTTGGATTTAAGCAAAACGT
60392388 A
1 A
60392389 GATTGGTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (23 bp):
ACTTTTGGATTTAAGCAAAACGT
Found at i:60399404 original size:27 final size:27
Alignment explanation
Indices: 60399366--60399419 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
60399356 ATTTGAGTTC
60399366 AAAAGGGCATGAAAAAGTCTATATATT
1 AAAAGGGCATGAAAAAGTCTATATATT
* *
60399393 AAAAGGGCATGAAAAATTTTATATATT
1 AAAAGGGCATGAAAAAGTCTATATATT
60399420 TTCGTGTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.48, C:0.06, G:0.17, T:0.30
Consensus pattern (27 bp):
AAAAGGGCATGAAAAAGTCTATATATT
Found at i:60405857 original size:22 final size:22
Alignment explanation
Indices: 60405832--60405873 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
60405822 TGCAAAATTG
60405832 ATAAT-AAT-TAA-TATATATT
1 ATAATAAATATAATTATATATT
60405851 ATAATAAATATAATTATATATT
1 ATAATAAATATAATTATATATT
60405873 A
1 A
60405874 GTTATTATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.25
20 3 0.15
21 3 0.15
22 9 0.45
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAATAAATATAATTATATATT
Found at i:60405860 original size:16 final size:15
Alignment explanation
Indices: 60405835--60405868 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
60405825 AAAATTGATA
*
60405835 ATAATTAATATATATT
1 ATAATAAATATA-ATT
60405851 ATAATAAATATAATT
1 ATAATAAATATAATT
60405866 ATA
1 ATA
60405869 TATTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:60407782 original size:650 final size:650
Alignment explanation
Indices: 60406541--60407837 Score: 2486
Period size: 650 Copynumber: 2.0 Consensus size: 650
60406531 GTTCATAAAT
60406541 GTGACGCTATTCTAGACACAATCAGTAAAAATTTGGAATGTCTAAAGTACCAAAATTGAGCGTTG
1 GTGACGCTATTCTAGACACAATCAGTAAAAATTTGGAATGTCTAAAGTACCAAAATTGAGCGTTG
* *
60406606 GAATCGTAATTGGGGAGATAAGGTTATTAGCCTCGTCTTCGTGCAAATAATGCTCAATGTGTCTC
66 GAATCGTAATTGGAGAGATAAGGTTATCAGCCTCGTCTTCGTGCAAATAATGCTCAATGTGTCTC
60406671 TTGTGCAAATGATGAGACTTTTGTTAATAATGACTATGAGCAACATTTTTTAACTAAATCAAAGT
131 TTGTGCAAATGATGAGACTTTTGTTAATAATGACTATGAGCAACATTTTTTAACTAAATCAAAGT
*
60406736 TCTCAATTCTAGAATTTCATGGAAAGAATGATCAAGAGACTTATTGTGATGGAAAAAATGATCAC
196 TCTCAATTCTAGAATTTCATGGAAAGAATGATCAAGAGACTTATTATGATGGAAAAAATGATCAC
60406801 AAATTAGTTTGTCAATTCAATGGGAGATGGTCAAACGAAAGGAGGAATACGATTGAGCTATCACC
261 AAATTAGTTTGTCAATTCAATGGGAGATGGTCAAACGAAAGGAGGAATACGATTGAGCTATCACC
60406866 TTTTGTGCAATGTTATTGGTGTAGTTCAAAAGATCATAAAGGTTTCCAATGTCCAATTCAATATC
326 TTTTGTGCAATGTTATTGGTGTAGTTCAAAAGATCATAAAGGTTTCCAATGTCCAATTCAATATC
* *
60406931 CAACTAGAGAACAAAGTAAGTATGACTTTGTACCTTTTGTTGACTCATATTCTAGCGGAAAAGAG
391 CAACTAGAGAACAAAGTAAGTACGACTTTGTACCTTTTATTGACTCATATTCTAGCGGAAAAGAG
60406996 ATTTGTGATGGCAAACTTGGTGAACCAGAAAAAGATGATAGCAAGAATTTTTTCCTTGAATCTAT
456 ATTTGTGATGGCAAACTTGGTGAACCAGAAAAAGATGATAGCAAGAATTTTTTCCTTGAATCTAT
*
60407061 TAAGTTAGATGAGATAGAAACGTCATGTTCTCCTACTGAGATGTATTGTACTGAATTGTATATTC
521 TAAGTTAGATGAGATAGAAACGTCATGTTCTCCTACTGAGATATATTGTACTGAATTGTATATTC
*
60407126 ATAATACTTGTGAAGGGGATATGGGAAGTGAGGCAAAATCATGTGAAAAGACCTAGAGAAAAAAC
586 ATAATACTTGTGAAGAGGATATGGGAAGTGAGGCAAAATCATGTGAAAAGACCTAGAGAAAAAAC
60407191 GTGACGCTATTCTAGACACAATCAGTAAAAATTTGGAATGTCTAAAGTACCAAAATTGAGCGTTG
1 GTGACGCTATTCTAGACACAATCAGTAAAAATTTGGAATGTCTAAAGTACCAAAATTGAGCGTTG
60407256 GAATCGTAATTGGAGAGATAAGGTTATCAGCCTCGTCTTCGTGCAAATAATGCTCAATGTGTCTC
66 GAATCGTAATTGGAGAGATAAGGTTATCAGCCTCGTCTTCGTGCAAATAATGCTCAATGTGTCTC
60407321 TTGTGCAAATGATGAGACTTTTGTTAATAATGACTATGAGCAACATTTTTTAACTAAATCAAAGT
131 TTGTGCAAATGATGAGACTTTTGTTAATAATGACTATGAGCAACATTTTTTAACTAAATCAAAGT
60407386 TCTCAATTCTAGAATTTCATGGAAAGAATGATCAAGAGACTTATTATGATGGAAAAAATGATCAC
196 TCTCAATTCTAGAATTTCATGGAAAGAATGATCAAGAGACTTATTATGATGGAAAAAATGATCAC
*
60407451 AAATTAGTTTGTCAATTCAATGGGCGATGGTCAAACGAAAGGAGGAATACGATTGAGCTATCACC
261 AAATTAGTTTGTCAATTCAATGGGAGATGGTCAAACGAAAGGAGGAATACGATTGAGCTATCACC
60407516 TTTTGTGCAATGTTATTGGTGTAGTTCAAAAGATCATAAAGGTTTCCAATGTCCAATTCAATATC
326 TTTTGTGCAATGTTATTGGTGTAGTTCAAAAGATCATAAAGGTTTCCAATGTCCAATTCAATATC
60407581 CAACTAGAGAACAAAGTAAGTACGACTTTGTACCTTTTATTGACTCATATTCTAGCGGAAAAGAG
391 CAACTAGAGAACAAAGTAAGTACGACTTTGTACCTTTTATTGACTCATATTCTAGCGGAAAAGAG
* *
60407646 ATTTGTGATGGCAAACTTGGTGAACCAGAAAAAGATGATAGCGAGAATTTTTTCCTTGAATCTCT
456 ATTTGTGATGGCAAACTTGGTGAACCAGAAAAAGATGATAGCAAGAATTTTTTCCTTGAATCTAT
* *
60407711 TAAGTTAGATGATATAGAAACGTCATGTTCTCCTACTGAGATATATTGTATTGAATTGTATATTC
521 TAAGTTAGATGAGATAGAAACGTCATGTTCTCCTACTGAGATATATTGTACTGAATTGTATATTC
60407776 ATAATACTTGTGAAGAGGATATGGGAAGTGAGGCAAAATCATGTGAAAAGACCTAGAGAAAA
586 ATAATACTTGTGAAGAGGATATGGGAAGTGAGGCAAAATCATGTGAAAAGACCTAGAGAAAA
60407838 GAGACATTGA
Statistics
Matches: 635, Mismatches: 12, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
650 635 1.00
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.31
Consensus pattern (650 bp):
GTGACGCTATTCTAGACACAATCAGTAAAAATTTGGAATGTCTAAAGTACCAAAATTGAGCGTTG
GAATCGTAATTGGAGAGATAAGGTTATCAGCCTCGTCTTCGTGCAAATAATGCTCAATGTGTCTC
TTGTGCAAATGATGAGACTTTTGTTAATAATGACTATGAGCAACATTTTTTAACTAAATCAAAGT
TCTCAATTCTAGAATTTCATGGAAAGAATGATCAAGAGACTTATTATGATGGAAAAAATGATCAC
AAATTAGTTTGTCAATTCAATGGGAGATGGTCAAACGAAAGGAGGAATACGATTGAGCTATCACC
TTTTGTGCAATGTTATTGGTGTAGTTCAAAAGATCATAAAGGTTTCCAATGTCCAATTCAATATC
CAACTAGAGAACAAAGTAAGTACGACTTTGTACCTTTTATTGACTCATATTCTAGCGGAAAAGAG
ATTTGTGATGGCAAACTTGGTGAACCAGAAAAAGATGATAGCAAGAATTTTTTCCTTGAATCTAT
TAAGTTAGATGAGATAGAAACGTCATGTTCTCCTACTGAGATATATTGTACTGAATTGTATATTC
ATAATACTTGTGAAGAGGATATGGGAAGTGAGGCAAAATCATGTGAAAAGACCTAGAGAAAAAAC
Found at i:60412743 original size:124 final size:124
Alignment explanation
Indices: 60412523--60412764 Score: 448
Period size: 124 Copynumber: 2.0 Consensus size: 124
60412513 TGAACGATAA
* *
60412523 TGATTCGACGGCGATATGACATTCGAAAATCCCGGTTGAACCTTAGGAATAGTTTAGGATGCTAG
1 TGATTCGACGACGATATGACATTCGAAAATCCCGGTTGAACCCTAGGAATAGTTTAGGATGCTAG
60412588 TGACAAGTCATTAGGGGATACATTGAGTTGCTTCGGGCCATGATATAGCACTTCTAGTG
66 TGACAAGTCATTAGGGGATACATTGAGTTGCTTCGGGCCATGATATAGCACTTCTAGTG
* *
60412647 TGATTTGACGACGATATGACATTCGAAAATCCCGGTTGAACCCTAGGAATAGTTTAGTATGCTAG
1 TGATTCGACGACGATATGACATTCGAAAATCCCGGTTGAACCCTAGGAATAGTTTAGGATGCTAG
60412712 TGACAAGTCATTAGGGGATACATTGAGTTGCTTCGGGCCATGATATAGCACTT
66 TGACAAGTCATTAGGGGATACATTGAGTTGCTTCGGGCCATGATATAGCACTT
60412765 TTGGTGCGAG
Statistics
Matches: 114, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
124 114 1.00
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (124 bp):
TGATTCGACGACGATATGACATTCGAAAATCCCGGTTGAACCCTAGGAATAGTTTAGGATGCTAG
TGACAAGTCATTAGGGGATACATTGAGTTGCTTCGGGCCATGATATAGCACTTCTAGTG
Found at i:60423010 original size:9 final size:10
Alignment explanation
Indices: 60422973--60423008 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
60422963 TTTATATATA
60422973 TTTTTAGAAT
1 TTTTTAGAAT
60422983 TTTTTAGAATT
1 TTTTTAGAA-T
60422994 TTTTTA-AAT
1 TTTTTAGAAT
60423003 TTTTTA
1 TTTTTA
60423009 AAAATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 7 0.28
10 11 0.44
11 7 0.28
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (10 bp):
TTTTTAGAAT
Found at i:60423922 original size:20 final size:20
Alignment explanation
Indices: 60423899--60423942 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
60423889 GAAAAAAATC
60423899 AAATCCAA-ATTAAAATATTA
1 AAATCCAAGA-TAAAATATTA
* *
60423919 AAATTCAAGATAAAATCTTA
1 AAATCCAAGATAAAATATTA
60423939 AAAT
1 AAAT
60423943 TTGATAAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 20 0.95
21 1 0.05
ACGTcount: A:0.59, C:0.09, G:0.02, T:0.30
Consensus pattern (20 bp):
AAATCCAAGATAAAATATTA
Found at i:60426666 original size:28 final size:28
Alignment explanation
Indices: 60426633--60426691 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
60426623 TTTCTTTTGA
60426633 TTAGCAAAATCGAGAAATTTCCTAACTC
1 TTAGCAAAATCGAGAAATTTCCTAACTC
60426661 TTAGCAAAATCGAGAAATTTCCTAACTC
1 TTAGCAAAATCGAGAAATTTCCTAACTC
60426689 TTA
1 TTA
60426692 CTCTAATTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (28 bp):
TTAGCAAAATCGAGAAATTTCCTAACTC
Found at i:60430347 original size:34 final size:34
Alignment explanation
Indices: 60430308--60430376 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
60430298 GCTTTATAGC
60430308 TTAGTAAGACCGTATGAAAATAATAAACAATTTA
1 TTAGTAAGACCGTATGAAAATAATAAACAATTTA
*
60430342 TTAGTAAGACCGTATGACAATAATAAACAATTTA
1 TTAGTAAGACCGTATGAAAATAATAAACAATTTA
60430376 T
1 T
60430377 CAACTTGTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.48, C:0.10, G:0.12, T:0.30
Consensus pattern (34 bp):
TTAGTAAGACCGTATGAAAATAATAAACAATTTA
Found at i:60431959 original size:40 final size:40
Alignment explanation
Indices: 60431913--60432003 Score: 155
Period size: 40 Copynumber: 2.3 Consensus size: 40
60431903 TGGGGCTTCC
*
60431913 AATCATTCTTTGAAGAATCTATATTTGATATGGCTGATAA
1 AATCATTCTTTGAAGAATCCATATTTGATATGGCTGATAA
*
60431953 AATCATTCTTTGAATAATCCATATTTGATATGGCTGATAA
1 AATCATTCTTTGAAGAATCCATATTTGATATGGCTGATAA
*
60431993 AATCTTTCTTT
1 AATCATTCTTT
60432004 TTTAGCAATA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (40 bp):
AATCATTCTTTGAAGAATCCATATTTGATATGGCTGATAA
Found at i:60432481 original size:50 final size:50
Alignment explanation
Indices: 60432406--60432505 Score: 164
Period size: 50 Copynumber: 2.0 Consensus size: 50
60432396 AAGAACTTAC
* *
60432406 AATGGATATTATGATATCATTCTTTCCAAGAATCGTTACTCCGAGGGCCT
1 AATGGATATTATGATATCAGTCTTTCCAAGAATCATTACTCCGAGGGCCT
* *
60432456 AATGGATATTATGATATCAGTCTTTCCAAGAATCATTACTCTGGGGGCCT
1 AATGGATATTATGATATCAGTCTTTCCAAGAATCATTACTCCGAGGGCCT
60432506 CTGATACCAA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (50 bp):
AATGGATATTATGATATCAGTCTTTCCAAGAATCATTACTCCGAGGGCCT
Found at i:60436469 original size:14 final size:16
Alignment explanation
Indices: 60436435--60436471 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
60436425 TTAAACATAT
60436435 ATATATCACCTATTTC
1 ATATATCACCTATTTC
*
60436451 CTATATCA-CT-TTTC
1 ATATATCACCTATTTC
60436465 ATATATC
1 ATATATC
60436472 GTCATTTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
14 10 0.53
15 2 0.11
16 7 0.37
ACGTcount: A:0.30, C:0.24, G:0.00, T:0.46
Consensus pattern (16 bp):
ATATATCACCTATTTC
Found at i:60441086 original size:37 final size:39
Alignment explanation
Indices: 60440990--60441091 Score: 136
Period size: 37 Copynumber: 2.7 Consensus size: 39
60440980 GGTGGATGTA
*
60440990 TAGCTCTTCGGAGCATTTCGCGTGTTATATCAATTGGAT
1 TAGCTCTTCGGAGCATTTGGCGTGTTATATCAATTGGAT
** *
60441029 TAGCTCTTCTAAGCATTTGGCATGTTAT-T-AATTGGAT
1 TAGCTCTTCGGAGCATTTGGCGTGTTATATCAATTGGAT
* *
60441066 TAGCTTTTCGGAGCACTTGGCGTGTT
1 TAGCTCTTCGGAGCATTTGGCGTGTT
60441092 TTGGTTGGAT
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
37 29 0.54
38 1 0.02
39 24 0.44
ACGTcount: A:0.20, C:0.17, G:0.24, T:0.40
Consensus pattern (39 bp):
TAGCTCTTCGGAGCATTTGGCGTGTTATATCAATTGGAT
Found at i:60448307 original size:12 final size:12
Alignment explanation
Indices: 60448292--60448316 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
60448282 ACAGTAAATA
60448292 ATAAAAATTTTC
1 ATAAAAATTTTC
60448304 ATAAAAATTTTC
1 ATAAAAATTTTC
60448316 A
1 A
60448317 AACATACATG
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:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ATAAAAATTTTC
Found at i:60449950 original size:31 final size:31
Alignment explanation
Indices: 60449912--60449974 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
60449902 TACCGAGGTA
60449912 AGTTGTACGTAAGTAAGGTAACTTTATCGTT
1 AGTTGTACGTAAGTAAGGTAACTTTATCGTT
60449943 AGTTGTACGTAAGTAAGGTAACTTTATCGTT
1 AGTTGTACGTAAGTAAGGTAACTTTATCGTT
60449974 A
1 A
60449975 TTATGTGTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.38
Consensus pattern (31 bp):
AGTTGTACGTAAGTAAGGTAACTTTATCGTT
Found at i:60450177 original size:48 final size:48
Alignment explanation
Indices: 60450106--60450341 Score: 213
Period size: 48 Copynumber: 4.9 Consensus size: 48
60450096 CCATTTGGGT
* * *
60450106 GATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
1 GATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCAC
* ** *
60450154 GATATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGTGAT
1 GATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCAC
* * * * * *
60450202 GTTGTGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGG-CATT
1 GATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCA-C
* ** * * * * *
60450250 GAGACAAGAGCCAATGTAAGACCATGTTTGGGATACGGCATCAGCCTC
1 GATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCAC
* * * * * *
60450298 GACATGTGAGCCAATGTAAGACAATATTTGGAACATGGCATCGG
1 GATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGG
60450342 AAATTCACCA
Statistics
Matches: 148, Mismatches: 38, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
47 1 0.01
48 146 0.99
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (48 bp):
GATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCAC
Found at i:60450290 original size:96 final size:96
Alignment explanation
Indices: 60450118--60450291 Score: 251
Period size: 96 Copynumber: 1.8 Consensus size: 96
60450108 TATGTGTGCC
* * ** *
60450118 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAGTGTAAGACCATGTTT
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCACGAGACAAGAGCCAATGTAAGACCATGTTT
*
60450183 GGAACATGGCATCGGTGATGTTGTGAGAGCT
66 GGAACACGGCATCGGTGATGTTGTGAGAGCT
*
60450214 AGTGTAAGACCATGTCTAGGACATGGCATCGG-CATTGAGACAAGAGCCAATGTAAGACCATGTT
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCA-CGAGACAAGAGCCAATGTAAGACCATGTT
* *
60450278 TGGGATACGGCATC
65 TGGAACACGGCATC
60450292 AGCCTCGACA
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
95 2 0.03
96 66 0.97
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.23
Consensus pattern (96 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCGGCCACGAGACAAGAGCCAATGTAAGACCATGTTT
GGAACACGGCATCGGTGATGTTGTGAGAGCT
Found at i:60463874 original size:45 final size:45
Alignment explanation
Indices: 60463823--60463910 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
60463813 CTATATGATG
* *
60463823 TGAACTCATTGAGTTGTTGTCTGAGTTCATGATATATGTGACATC
1 TGAACTCATTGAGTTATGGTCTGAGTTCATGATATATGTGACATC
*
60463868 TGAACTCATTGAGTTATGGTCTGAGTTCATGATGTATGTGACA
1 TGAACTCATTGAGTTATGGTCTGAGTTCATGATATATGTGACA
60463911 CATGTTTTGG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.25, C:0.12, G:0.24, T:0.39
Consensus pattern (45 bp):
TGAACTCATTGAGTTATGGTCTGAGTTCATGATATATGTGACATC
Found at i:60465247 original size:13 final size:13
Alignment explanation
Indices: 60465231--60465255 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60465221 TAAGTACATG
60465231 GCCGTGTGACCTA
1 GCCGTGTGACCTA
60465244 GCCGTGTGACCT
1 GCCGTGTGACCT
60465256 TACTTGGTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.32, G:0.32, T:0.24
Consensus pattern (13 bp):
GCCGTGTGACCTA
Found at i:60475735 original size:92 final size:92
Alignment explanation
Indices: 60475491--60475754 Score: 283
Period size: 92 Copynumber: 2.9 Consensus size: 92
60475481 GCTGTTATGT
* * *
60475491 GAGCTAGTGTAAGACATGTCTAGGACATGGATCGGCCAC-AT-TATGAAATGCTAGTATAAGACA
1 GAGCTAGTGTAAGACATGTCTAGGACATGCATCGG-TACGATATATG-AA-GCTAGTGTAAGACA
* *
60475554 TGTCTGGGACATGCGTCGGCATTGAGACAA
63 TGTCTGGGACATGCATCGGCACTGAGACAA
* *
60475584 GAGCTAGTGTAAGACATGCCTAGGACATGCATCAGCCT-CGA-A-ATGTAAGCTAGTGTAAGACA
1 GAGCTAGTGTAAGACATGTCTAGGACATGCATC-G-GTACGATATATG-AAGCTAGTGTAAGACA
* *
60475646 TGTCTGGGACATGCATC-G-ACT-ACGAGAT
63 TGTCTGGGACATGCATCGGCACTGA-GACAA
* *
60475674 GTGCTAGTGTAAGACATGTCTAGGACATGCATCGGTACGGATATATGAGAGCCAGTGTAAGACAT
1 GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGTAC-GATATATGA-AGCTAGTGTAAGACAT
*
60475739 GTCTGGAACATGCATC
64 GTCTGGGACATGCATC
60475755 AGCATAGATA
Statistics
Matches: 146, Mismatches: 15, Indels: 21
0.80 0.08 0.12
Matches are distributed among these distances:
88 1 0.01
89 3 0.02
90 38 0.26
91 3 0.02
92 62 0.42
93 37 0.25
94 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (92 bp):
GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGTACGATATATGAAGCTAGTGTAAGACATGT
CTGGGACATGCATCGGCACTGAGACAA
Found at i:60475738 original size:48 final size:47
Alignment explanation
Indices: 60475486--60475784 Score: 244
Period size: 46 Copynumber: 6.4 Consensus size: 47
60475476 ACACTGCTGT
* *
60475486 TATGTGAGCTAGTGTAAGACATGTCTAGGACATGGATCGGCCAC-AT-
1 TATGAGAGCTAGTGTAAGACATGTCTAGGACATGCATCGG-CACGATA
* * * * * *
60475532 TATGAAATGCTAGTATAAGACATGTCTGGGACATGCGTCGGCATTGAGA
1 TATGAGA-GCTAGTGTAAGACATGTCTAGGACATGCATCGGCA-CGATA
* * * *
60475581 CA--AGAGCTAGTGTAAGACATGCCTAGGACATGCATCAGCCTCGA-A
1 TATGAGAGCTAGTGTAAGACATGTCTAGGACATGCATC-GGCACGATA
* *
60475626 -ATGTA-AGCTAGTGTAAGACATGTCTGGGACATGCATCGACTACG--A
1 TATG-AGAGCTAGTGTAAGACATGTCTAGGACATGCATCGGC-ACGATA
* * *
60475671 GAT--GTGCTAGTGTAAGACATGTCTAGGACATGCATCGGTACGGATA
1 TATGAGAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCAC-GATA
* * *
60475717 TATGAGAGCCAGTGTAAGACATGTCT-GGAACATGCATCAGCATAGATA
1 TATGAGAGCTAGTGTAAGACATGTCTAGG-ACATGCATCGGCA-CGATA
*
60475765 TATGAGAGCCAGTGTAAGAC
1 TATGAGAGCTAGTGTAAGAC
60475785 CATATCTGGG
Statistics
Matches: 204, Mismatches: 31, Indels: 34
0.76 0.12 0.13
Matches are distributed among these distances:
43 2 0.01
44 33 0.16
45 4 0.02
46 73 0.36
47 36 0.18
48 55 0.27
49 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.24
Consensus pattern (47 bp):
TATGAGAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCACGATA
Found at i:60475816 original size:48 final size:47
Alignment explanation
Indices: 60475583--60475809 Score: 139
Period size: 48 Copynumber: 4.8 Consensus size: 47
60475573 CATTGAGACA
* ** * *
60475583 AGAGCTAGTGTAAGACATGCCTAGG-ACATGCATCAGCCTCGAA-ATG
1 AGAGCCAGTGTAAGACATATCT-GGAACATGCATCAGCATAGAATATG
* * * *
60475629 TA-AGCTAGTGTAAGACATGTCTGGGACATGCATC-G-ACTACG-AGAT-
1 -AGAGCCAGTGTAAGACATATCTGGAACATGCATCAGCA-TA-GAATATG
* * * * * **
60475674 -GTGCTAGTGTAAGACATGTCTAGG-ACATGCATCGGTACGGATATATG
1 AGAGCCAGTGTAAGACATATCT-GGAACATGCATCAGCATAGA-ATATG
*
60475721 AGAGCCAGTGTAAGACATGTCTGGAACATGCATCAGCATAGATATATG
1 AGAGCCAGTGTAAGACATATCTGGAACATGCATCAGCATAGA-ATATG
* *
60475769 AGAGCCAGTGTAAGACCATATCTGGGATATGGCATCAGCAT
1 AGAGCCAGTGTAAGA-CATATCTGGAACAT-GCATCAGCAT
60475810 CGATATGTGT
Statistics
Matches: 149, Mismatches: 16, Indels: 27
0.78 0.08 0.14
Matches are distributed among these distances:
44 29 0.19
45 8 0.05
46 35 0.23
47 3 0.02
48 53 0.36
49 11 0.07
50 10 0.07
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.23
Consensus pattern (47 bp):
AGAGCCAGTGTAAGACATATCTGGAACATGCATCAGCATAGAATATG
Found at i:60480197 original size:11 final size:11
Alignment explanation
Indices: 60480181--60480217 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
60480171 GTGGGAGTCC
60480181 TATAAACATCT
1 TATAAACATCT
*
60480192 TATAAATA-C-
1 TATAAACATCT
60480201 TATAAACATCT
1 TATAAACATCT
60480212 TATAAA
1 TATAAA
60480218 TACAGCTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 7 0.32
10 2 0.09
11 13 0.59
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (11 bp):
TATAAACATCT
Found at i:60480205 original size:20 final size:20
Alignment explanation
Indices: 60480180--60480220 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
60480170 TGTGGGAGTC
60480180 CTATAAACATCTTATAAATA
1 CTATAAACATCTTATAAATA
60480200 CTATAAACATCTTATAAATA
1 CTATAAACATCTTATAAATA
60480220 C
1 C
60480221 AGCTTATTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (20 bp):
CTATAAACATCTTATAAATA
Found at i:60481556 original size:64 final size:64
Alignment explanation
Indices: 60481485--60481612 Score: 247
Period size: 64 Copynumber: 2.0 Consensus size: 64
60481475 AATCAACTCC
*
60481485 ATAATTATATTTTTTTAATTAGAATAAATAGAGTTTTAAGATAAAAATAATTTCTCACACAATT
1 ATAATTATATTTTTTTAATTAGAATAAATAAAGTTTTAAGATAAAAATAATTTCTCACACAATT
60481549 ATAATTATATTTTTTTAATTAGAATAAATAAAGTTTTAAGATAAAAATAATTTCTCACACAATT
1 ATAATTATATTTTTTTAATTAGAATAAATAAAGTTTTAAGATAAAAATAATTTCTCACACAATT
60481613 TTCTTAAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.46, C:0.06, G:0.05, T:0.42
Consensus pattern (64 bp):
ATAATTATATTTTTTTAATTAGAATAAATAAAGTTTTAAGATAAAAATAATTTCTCACACAATT
Found at i:60484234 original size:19 final size:19
Alignment explanation
Indices: 60484210--60484251 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
60484200 ATATGTTTTA
60484210 TATTATAAAATCAAATAAT
1 TATTATAAAATCAAATAAT
60484229 TATTATAAAATCAAATAAT
1 TATTATAAAATCAAATAAT
60484248 TATT
1 TATT
60484252 TCAAATATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (19 bp):
TATTATAAAATCAAATAAT
Found at i:60487034 original size:48 final size:48
Alignment explanation
Indices: 60486911--60487041 Score: 190
Period size: 48 Copynumber: 2.7 Consensus size: 48
60486901 GCTCATATCG
* * ** *
60486911 ATGCCATGCCCCAGACATGGTCTTACACGAAATCATATATCGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
* *
60486959 ATGCCATATCCCAGATATGGTCTTACATGGGATCACATATCGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
*
60487007 ATGCCATGTGCCAGACATGGTCTTACATGGGATCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCA
60487042 TACATAACCC
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 73 1.00
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
Found at i:60495577 original size:73 final size:73
Alignment explanation
Indices: 60495474--60495609 Score: 209
Period size: 73 Copynumber: 1.9 Consensus size: 73
60495464 TCACATACTA
* * *
60495474 TTTTTAGATAGATAAGTAGTATAGTTAAATAAGCTTTTGTTTGGCCCTATCATATGTCTATTCGC
1 TTTTTAGATAGACAAGTAGTATAGTTAAATAAACTTTTGTTTGACCCTATCATATGTCTATTCGC
60495539 ACACTATT
66 ACACTATT
* * * *
60495547 TTTTTAGATGGACAAGTAGTATAGTTAAATAAACTTTTGTTTGACCTTGTCATATGTTTATTC
1 TTTTTAGATAGACAAGTAGTATAGTTAAATAAACTTTTGTTTGACCCTATCATATGTCTATTC
60495610 TCATCGGAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
73 56 1.00
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.44
Consensus pattern (73 bp):
TTTTTAGATAGACAAGTAGTATAGTTAAATAAACTTTTGTTTGACCCTATCATATGTCTATTCGC
ACACTATT
Found at i:60507246 original size:49 final size:49
Alignment explanation
Indices: 60507170--60507535 Score: 301
Period size: 49 Copynumber: 7.7 Consensus size: 49
60507160 GGAATAAGTT
* *
60507170 GCCGATGCCATGTCCCAAACATGGTTTTACACTGGCTATCGTCATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCGTCATCGAG
* *
60507219 GCCAATGCCATGTCCCAGACATGGTTTTACACTGGCTATCGTCATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCGTCATCGAG
* * * * * *
60507268 GCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTTGTATATACG-T
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCGT-CAT-CGAG
* * * * * ** *
60507318 GCTGATGTCATATCCCAGACATGGTCTTATACTAGC-A-CAAC-TCTTA-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCGTCATC-GAG
* * * *
60507364 GCTGATG-CATGTCCCAGACAT-GTTTTACACAGGCTATCATCATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCGTCATCGAG
* * * *
60507411 GCCGATG-CATGTCCCAGAAAT-GTCTTACACTAGC-ACTCGTC-TCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTA-TCGTCATCGAG
* * * * * *
60507457 ACTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCGTCATCGAG
*
60507505 GCCGATG-CATGTCCCAGACAT-GTTTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
60507536 AGCACACAAA
Statistics
Matches: 257, Mismatches: 47, Indels: 29
0.77 0.14 0.09
Matches are distributed among these distances:
44 9 0.04
45 15 0.06
46 30 0.12
47 62 0.24
48 20 0.08
49 86 0.33
50 33 0.13
51 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (49 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCGTCATCGAG
Found at i:60507473 original size:94 final size:96
Alignment explanation
Indices: 60507173--60507540 Score: 314
Period size: 94 Copynumber: 3.9 Consensus size: 96
60507163 ATAAGTTGCC
* * * * *
60507173 GATGCCATGTCCCAAACATGGTTTTACACTGGCTATCGTCATCGAGGCCAATGCCATGTCCCAGA
1 GATGCCATGTCCCAGACATGGTCTTACACAGGCTATCATCATCGAGGCCGATGCCATGTCCCAGA
* * ** *
60507238 CATGGTTTTACACTGGCTA-TCGTCATCGAGGCC
66 CATGGTCTTACACTAGC-ACTCGTC-TC-ATACT
* * * * * * *
60507271 AATGCCATGTCCCAGACATGGTCTTACACTA-GCTCTTGTAT-ATACG-TGCTGATGTCATATCC
1 GATGCCATGTCCCAGACATGGTCTTACAC-AGGCT-AT-CATCAT-CGAGGCCGATGCCATGTCC
* *
60507333 CAGACATGGTCTTATACTAGCACAAC-TCT--TAGCT
62 CAGACATGGTCTTACACTAGCAC-TCGTCTCATA-CT
*
60507367 GATG-CATGTCCCAGACAT-GTTTTACACAGGCTATCATCATCGAGGCCGATG-CATGTCCCAGA
1 GATGCCATGTCCCAGACATGGTCTTACACAGGCTATCATCATCGAGGCCGATGCCATGTCCCAGA
*
60507429 AAT-GTCTTACACTAGCACTCGTCTCAATACT
66 CATGGTCTTACACTAGCACTCGTCTC-ATACT
* * * *
60507460 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATG-CATGTCCCAGA
1 GATGCCATGTCCCAGACATGGTCTTACACAGGCTATCATCATCGAGGCCGATGCCATGTCCCAGA
*
60507523 CAT-GTTTTACACTAGCAC
66 CATGGTCTTACACTAGCAC
60507541 ACAAATAACC
Statistics
Matches: 218, Mismatches: 36, Indels: 36
0.75 0.12 0.12
Matches are distributed among these distances:
90 1 0.00
91 17 0.08
92 16 0.07
93 16 0.07
94 63 0.29
95 32 0.15
96 4 0.02
98 31 0.14
99 34 0.16
100 4 0.02
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (96 bp):
GATGCCATGTCCCAGACATGGTCTTACACAGGCTATCATCATCGAGGCCGATGCCATGTCCCAGA
CATGGTCTTACACTAGCACTCGTCTCATACT
Found at i:60517199 original size:13 final size:13
Alignment explanation
Indices: 60517183--60517209 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
60517173 CCTAGACACA
60517183 TGCCCGTGTCCTT
1 TGCCCGTGTCCTT
60517196 TGCCCGTGTCCTT
1 TGCCCGTGTCCTT
60517209 T
1 T
60517210 TACATGGCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.00, C:0.37, G:0.22, T:0.41
Consensus pattern (13 bp):
TGCCCGTGTCCTT
Found at i:60518335 original size:47 final size:47
Alignment explanation
Indices: 60518132--60518445 Score: 182
Period size: 47 Copynumber: 6.6 Consensus size: 47
60518122 ATAAGTTGCT
* * *
60518132 GATGCCATGTCCTAGACATGGTTTTACACTGGCTATCATCATCGAGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATCATTGAGGCC
* * * * * *
60518181 AATGCCATGTCCCA-AGCATGGTCTTACTCTAGCTCTCGT-ATAT-ACGTGCT
1 GATG-CATGTCCCAGA-CAT-GTCTTACACTGGCTATCATCAT-TGA-G-GCC
* * * *
60518231 GATGTCATATCCCAGACATGGTCTTATACTAGC-A-CAACTC-TT-A-GCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTATC-A-TCATTGAGGCC
* *
60518277 AATGCATGTCCCAGACATGTTTTACACTGGCTATCATCATTGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTATCATCATTGAGGCC
* * * ** **
60518324 GATGCATGTCCCAGAAATGTCTTACACTAGC-ACTCGTC-TCAATACC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTA-TCATCATTGAGGCC
* * * *
60518370 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCAT-AATGTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATCATTGAGGCC
60518418 GATGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
60518446 AGCACTCAAA
Statistics
Matches: 204, Mismatches: 43, Indels: 39
0.71 0.15 0.14
Matches are distributed among these distances:
44 12 0.06
45 17 0.08
46 27 0.13
47 58 0.28
48 26 0.13
49 33 0.16
50 30 0.15
51 1 0.00
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTATCATCATTGAGGCC
Found at i:60518418 original size:94 final size:94
Alignment explanation
Indices: 60518281--60518452 Score: 274
Period size: 94 Copynumber: 1.8 Consensus size: 94
60518271 TTAGCTAATG
* * *
60518281 CATGTCCCAGACATGTTTTACACTGGCTATCATCATTGAGGCCGATGCATGTCCCAGAAATGTCT
1 CATGTCCCAAACATGTCTTACACTGGCTATCATCAATGAGGCCGATGCATGTCCCAGAAATGTCT
60518346 TACACTAGCACTCGTCTCAATACCGATGC
66 TACACTAGCACTCGTCTCAATACCGATGC
* * *
60518375 CATGTCCCAAACATGGTCTTACACTGGCTCTCAT-AATGTGGCCGATGCATGTCCCAGACATGTC
1 CATGTCCCAAACAT-GTCTTACACTGGCTATCATCAATGAGGCCGATGCATGTCCCAGAAATGTC
60518439 TTACACTAGCACTC
65 TTACACTAGCACTC
60518453 AAATAACCCC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
94 54 0.76
95 17 0.24
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (94 bp):
CATGTCCCAAACATGTCTTACACTGGCTATCATCAATGAGGCCGATGCATGTCCCAGAAATGTCT
TACACTAGCACTCGTCTCAATACCGATGC
Found at i:60522279 original size:13 final size:13
Alignment explanation
Indices: 60522261--60522285 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60522251 GGCATAAATT
60522261 CACAAAAAATAAA
1 CACAAAAAATAAA
60522274 CACAAAAAATAA
1 CACAAAAAATAA
60522286 TTTTAAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.16, G:0.00, T:0.08
Consensus pattern (13 bp):
CACAAAAAATAAA
Found at i:60525623 original size:48 final size:48
Alignment explanation
Indices: 60525568--60525790 Score: 198
Period size: 48 Copynumber: 4.6 Consensus size: 48
60525558 TGTGCTAGTG
* *
60525568 TAAGACCATGTCTGGGACATGGTATCGGCCACGATATGAGAGTCCA-TA
1 TAAGACCATGTCTGGGACATGGCATCGGCAACGATATGAGAG-CCAGTA
* * * * *
60525616 TAAGACCATGTTTGGAACATGGCATCGGCAATGTTATGAGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCAACGATATGAGAGCCAGTA
* ** * * * * *
60525664 TAAGACCAGGTCTGGGACATGGCATTAGCATCGATATGTGTGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCAACGATATGAGAGCCAGTA
* * * ** * *
60525712 TAAGACCATGTCTAGGACATGTCATCAGCTTCGACATGTA-AGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCAACGATATG-AGAGCCAGTA
* *
60525760 TAAGACCATGTCTGAGACGTGGCATCGGCAA
1 TAAGACCATGTCTGGGACATGGCATCGGCAA
60525791 TTTACCCTCT
Statistics
Matches: 139, Mismatches: 34, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
47 3 0.02
48 136 0.98
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGGCATCGGCAACGATATGAGAGCCAGTA
Found at i:60527281 original size:39 final size:40
Alignment explanation
Indices: 60527236--60527407 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
60527226 GCTCCTCGTT
* * *
60527236 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
60527276 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
60527315 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
60527355 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
60527395 CAAATGCCTTCGG
1 CAAATGCCTTCGG
60527408 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:60527336 original size:40 final size:39
Alignment explanation
Indices: 60527238--60527460 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
60527228 TCCTCGTTCA
* * * *
60527238 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
60527277 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
60527316 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
60527356 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
60527396 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
60527437 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
60527461 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:60527420 original size:80 final size:79
Alignment explanation
Indices: 60527236--60527460 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
60527226 GCTCCTCGTT
* * * * *
60527236 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
60527300 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
60527315 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
60527380 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
60527395 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
60527459 GA
63 GA
60527461 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:60527469 original size:41 final size:41
Alignment explanation
Indices: 60527392--60527469 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
60527382 TTTGTATCTC
* * *
60527392 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
60527433 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
60527470 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:60531732 original size:9 final size:9
Alignment explanation
Indices: 60531713--60531746 Score: 59
Period size: 9 Copynumber: 3.7 Consensus size: 9
60531703 TGCAACTGAG
60531713 CTTTCAACTC
1 CTTT-AACTC
60531723 CTTTAACTC
1 CTTTAACTC
60531732 CTTTAACTC
1 CTTTAACTC
60531741 CTTTAA
1 CTTTAA
60531747 TTCTTTGTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 20 0.83
10 4 0.17
ACGTcount: A:0.24, C:0.32, G:0.00, T:0.44
Consensus pattern (9 bp):
CTTTAACTC
Found at i:60535053 original size:39 final size:40
Alignment explanation
Indices: 60535008--60535178 Score: 222
Period size: 39 Copynumber: 4.3 Consensus size: 40
60534998 GCTCCTCGTT
* * *
60535008 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
60535048 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
60535087 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
60535127 CAAAGGCCTTCGGG-CTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
60535166 CAAATGCCTTCGG
1 CAAATGCCTTCGG
60535179 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
39 67 0.56
40 52 0.44
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:60535108 original size:40 final size:39
Alignment explanation
Indices: 60535010--60535231 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
60535000 TCCTCGTTCA
* * * *
60535010 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
60535049 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
60535088 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
60535128 AAAGGCCTTCGGG-CTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
60535167 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
60535208 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
60535232 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 19, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.01
39 68 0.43
40 79 0.50
41 8 0.05
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:60535191 original size:79 final size:79
Alignment explanation
Indices: 60535008--60535231 Score: 240
Period size: 79 Copynumber: 2.8 Consensus size: 79
60534998 GCTCCTCGTT
* * * * *
60535008 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
60535072 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* *
60535087 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGG-CTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
60535151 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
60535166 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
60535230 GA
63 GA
60535232 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 13
0.81 0.11 0.09
Matches are distributed among these distances:
78 4 0.03
79 86 0.70
80 32 0.26
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:60535240 original size:41 final size:41
Alignment explanation
Indices: 60535163--60535240 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
60535153 TTTGTATCTC
* * *
60535163 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
60535204 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
60535241 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:60539666 original size:48 final size:48
Alignment explanation
Indices: 60539590--60539779 Score: 274
Period size: 48 Copynumber: 4.0 Consensus size: 48
60539580 ATATCGATTT
* * *
60539590 CGATGCCATGTCCTAGATATGGTCTTACACTGGCTCTCATAATAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATAATGC
* *
60539638 CGATACCATGTCCCAGACATGGTCTTACACTAGG-TCACATAATGATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACT-GGCTCACATAATAATGC
* *
60539686 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTGACATAATGATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATAATGC
* **
60539734 TGATGCCATGTCCTGGACATGGTCTTACACTGGCTCACATAATAAT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATAAT
60539780 AGCAGTGTCT
Statistics
Matches: 128, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
47 2 0.02
48 124 0.97
49 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATAATGC
Found at i:60545747 original size:48 final size:48
Alignment explanation
Indices: 60545658--60545907 Score: 313
Period size: 48 Copynumber: 5.2 Consensus size: 48
60545648 GGAAATCTTA
* * * ** *
60545658 CACAT-ATAGATGCCGATGCCATATCTCAGTTATGGTATTACACTGGCT
1 CACATAATA-ATGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCT
* * * * *
60545706 CTCATAATAATGCCGATGCCTTGTCCCAGACATGTTCTTACACTAGCT
1 CACATAATAATGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCT
* * *
60545754 CACTTAATGATGCTAATGCCATGTCCCAGACATGGTCTTACACTGGCT
1 CACATAATAATGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCT
*
60545802 CACATAATAATGCCAATGCCATGTCCCAGACATGGTCTTTCACTGGCT
1 CACATAATAATGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCT
* * * *
60545850 TACATAATGATACCAATGCCATGTCCCAAACATGGTCTTACACTGGCT
1 CACATAATAATGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCT
60545898 CACATAATAA
1 CACATAATAA
60545908 CAACTGTGTC
Statistics
Matches: 173, Mismatches: 28, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
48 170 0.98
49 3 0.02
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (48 bp):
CACATAATAATGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCT
Found at i:60547484 original size:21 final size:21
Alignment explanation
Indices: 60547458--60547512 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
60547448 GTTAAAAAAA
60547458 CACACGGGCGTGTCACCCTTC
1 CACACGGGCGTGTCACCCTTC
60547479 CACACGGGCGTGTCACCCTTC
1 CACACGGGCGTGTCACCCTTC
*
60547500 CACACGAGCGTGT
1 CACACGGGCGTGT
60547513 GCCCTTGTCT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.16, C:0.40, G:0.25, T:0.18
Consensus pattern (21 bp):
CACACGGGCGTGTCACCCTTC
Found at i:60551076 original size:40 final size:40
Alignment explanation
Indices: 60550987--60551250 Score: 319
Period size: 40 Copynumber: 6.7 Consensus size: 40
60550977 TTGAATTCTG
*
60550987 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAA-A
* *
60551026 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAA
*
60551066 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACCAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* * *
60551105 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* *
60551145 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
*
60551185 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTA-AA
*
60551226 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
60551251 AACGAGGAGC
Statistics
Matches: 202, Mismatches: 14, Indels: 17
0.87 0.06 0.07
Matches are distributed among these distances:
39 53 0.26
40 136 0.67
41 12 0.06
42 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:60551268 original size:80 final size:78
Alignment explanation
Indices: 60550988--60551283 Score: 300
Period size: 80 Copynumber: 3.7 Consensus size: 78
60550978 TGAATTCTGT
* **
60550988 CCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGCAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAG-GACTAA-ATCCGGGTTAAG-TCCCGAAGGCAT
*
60551049 TTGTGCGAGA-TACTAATT
62 TTGTGCGA-ATTACTAA-A
* * *
60551067 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACCAAATCCGGGTTAAGTCCCGAAGGCCTTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-GACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
*
60551131 TGCGAGTTACTAAA
65 TGCGAATTACTAAA
* *
60551145 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-GACTAAATCCGGGTTAAGTCCCGAAGGCATTT
60551210 GTGCGAATTACTATAA
64 GTGCGAATTACTA-AA
* ** * * *
60551226 CCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGGA-CTAAATCCGGGTTAAGTCCCGAAGG
60551284 TACGTGATTT
Statistics
Matches: 187, Mismatches: 21, Indels: 18
0.83 0.09 0.08
Matches are distributed among these distances:
78 10 0.05
79 71 0.38
80 104 0.56
81 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
GCGAATTACTAAA
Found at i:60551268 original size:120 final size:118
Alignment explanation
Indices: 60550987--60551283 Score: 313
Period size: 119 Copynumber: 2.5 Consensus size: 118
60550977 TTGAATTCTG
* *
60550987 TCCGGGCTAAGTCCCGAAGGC-TTGTG--CTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGCATT-TGAAC-GAGTGACTAA-ATCCGG-TTAA-ATCCCGAAGGC
*
60551047 ATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACCAAA
61 ATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACCAAA
* * ** * *
60551105 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTT
* * *
60551170 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATAA
65 GTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACCA-AA
* * *
60551226 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
60551284 TACGTGATTT
Statistics
Matches: 151, Mismatches: 18, Indels: 19
0.80 0.10 0.10
Matches are distributed among these distances:
118 23 0.15
119 65 0.43
120 61 0.40
121 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (118 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTG
TGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACCAAA
Found at i:60559162 original size:40 final size:40
Alignment explanation
Indices: 60559073--60559336 Score: 319
Period size: 40 Copynumber: 6.7 Consensus size: 40
60559063 TTGAATTCTG
*
60559073 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAA-A
* *
60559112 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAA
*
60559152 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACCAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* * *
60559191 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* *
60559231 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
*
60559271 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTA-AA
*
60559312 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
60559337 AACGAGGAGC
Statistics
Matches: 202, Mismatches: 14, Indels: 17
0.87 0.06 0.07
Matches are distributed among these distances:
39 53 0.26
40 136 0.67
41 12 0.06
42 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:60559354 original size:80 final size:78
Alignment explanation
Indices: 60559074--60559369 Score: 300
Period size: 80 Copynumber: 3.7 Consensus size: 78
60559064 TGAATTCTGT
* **
60559074 CCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGCAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAG-GACTAA-ATCCGGGTTAAG-TCCCGAAGGCAT
*
60559135 TTGTGCGAGA-TACTAATT
62 TTGTGCGA-ATTACTAA-A
* * *
60559153 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACCAAATCCGGGTTAAGTCCCGAAGGCCTTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-GACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
*
60559217 TGCGAGTTACTAAA
65 TGCGAATTACTAAA
* *
60559231 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-GACTAAATCCGGGTTAAGTCCCGAAGGCATTT
60559296 GTGCGAATTACTATAA
64 GTGCGAATTACTA-AA
* ** * * *
60559312 CCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGGA-CTAAATCCGGGTTAAGTCCCGAAGG
60559370 TACGTGATTT
Statistics
Matches: 187, Mismatches: 21, Indels: 18
0.83 0.09 0.08
Matches are distributed among these distances:
78 10 0.05
79 71 0.38
80 104 0.56
81 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
GCGAATTACTAAA
Found at i:60559354 original size:120 final size:118
Alignment explanation
Indices: 60559073--60559369 Score: 313
Period size: 119 Copynumber: 2.5 Consensus size: 118
60559063 TTGAATTCTG
* *
60559073 TCCGGGCTAAGTCCCGAAGGC-TTGTG--CTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGCATT-TGAAC-GAGTGACTAA-ATCCGG-TTAA-ATCCCGAAGGC
*
60559133 ATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACCAAA
61 ATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACCAAA
* * ** * *
60559191 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTT
* * *
60559256 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATAA
65 GTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACCA-AA
* * *
60559312 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
60559370 TACGTGATTT
Statistics
Matches: 151, Mismatches: 18, Indels: 19
0.80 0.10 0.10
Matches are distributed among these distances:
118 23 0.15
119 65 0.43
120 61 0.40
121 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (118 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTG
TGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACCAAA
Found at i:60564803 original size:48 final size:48
Alignment explanation
Indices: 60564744--60565063 Score: 276
Period size: 48 Copynumber: 6.7 Consensus size: 48
60564734 TATGTGTGCT
*
60564744 AGTGTAAGACCATGTCTGGGACATGGTGTCGGCCA-CGATATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGTATCGG-CATCGATATGAGAGCC
* * * *
60564792 AGTGTAAGACCATGTCTGGGACATGGAATCTGCATTGATA--AGTATGCT
1 AGTGTAAGACCATGTCTGGGACATGGTATCGGCATCGATATGAG-A-GCC
* * * *
60564840 AGTTTAAGACCATGTCTGGGACATGCTGTCAGCCA-C-ATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGTATC-GGCATCGA-TATGAGAGCC
* * * * * *
60564888 AGTGTAAGACCATGTCTAGGACATGGCATCTGCATCGATATGTGTGCT
1 AGTGTAAGACCATGTCTGGGACATGGTATCGGCATCGATATGAGAGCC
* * * * * *
60564936 AGTTTAGGACCATGTCTAGGACATGCTGTTGGCCAT--ATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGTATCGG-CATCGA-TATGAGAGCC
** * * *
60564984 AGTGTAAGACCATGAATGGGACATGGCATCGGCATTGAGATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGTATCGGCATCGATATGAGAGCC
* *
60565032 AGTGTAAGACCATGTCTGGGACGTGGCATCGG
1 AGTGTAAGACCATGTCTGGGACATGGTATCGG
60565064 TAATTTACCC
Statistics
Matches: 213, Mismatches: 46, Indels: 26
0.75 0.16 0.09
Matches are distributed among these distances:
46 2 0.01
47 10 0.05
48 191 0.90
49 8 0.04
50 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGTATCGGCATCGATATGAGAGCC
Found at i:60564895 original size:96 final size:96
Alignment explanation
Indices: 60564731--60565053 Score: 418
Period size: 96 Copynumber: 3.4 Consensus size: 96
60564721 TGACATTGGG
* * *
60564731 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGTGTCGGCCACGA-TATGAGAGCCAGT
1 TGATAAGTATGCTAGTGTAAGACCATGTCTGGGACATGCTGTCGGCCAC-ATTATGAGAGCCAGT
*
60564795 GTAAGACCATGTCTGGGACATGGAATCTGCAT
65 GTAAGACCATGTCTGGGACATGGCATCTGCAT
* *
60564827 TGATAAGTATGCTAGTTTAAGACCATGTCTGGGACATGCTGTCAGCCACATTATGAGAGCCAGTG
1 TGATAAGTATGCTAGTGTAAGACCATGTCTGGGACATGCTGTCGGCCACATTATGAGAGCCAGTG
*
60564892 TAAGACCATGTCTAGGACATGGCATCTGCAT
66 TAAGACCATGTCTGGGACATGGCATCTGCAT
* * * * * * * *
60564923 CGATATGTGTGCTAGTTTAGGACCATGTCTAGGACATGCTGTTGGCCATATTATGAGAGCCAGTG
1 TGATAAGTATGCTAGTGTAAGACCATGTCTGGGACATGCTGTCGGCCACATTATGAGAGCCAGTG
** *
60564988 TAAGACCATGAATGGGACATGGCATCGGCAT
66 TAAGACCATGTCTGGGACATGGCATCTGCAT
* *
60565019 TGAGATGAG-A-GCCAGTGTAAGACCATGTCTGGGAC
1 T--GATAAGTATGCTAGTGTAAGACCATGTCTGGGAC
60565054 GTGGCATCGG
Statistics
Matches: 197, Mismatches: 27, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
95 1 0.01
96 192 0.97
98 4 0.02
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (96 bp):
TGATAAGTATGCTAGTGTAAGACCATGTCTGGGACATGCTGTCGGCCACATTATGAGAGCCAGTG
TAAGACCATGTCTGGGACATGGCATCTGCAT
Found at i:60567007 original size:21 final size:20
Alignment explanation
Indices: 60566983--60567021 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
60566973 AAACTTATAC
60566983 ATCTATCAACAAACATTCACA
1 ATCTATCAACAAAC-TTCACA
*
60567004 ATCTATCAAGAAACTTCA
1 ATCTATCAACAAACTTCA
60567022 AAATACACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.46, C:0.26, G:0.03, T:0.26
Consensus pattern (20 bp):
ATCTATCAACAAACTTCACA
Found at i:60570331 original size:21 final size:21
Alignment explanation
Indices: 60570298--60570342 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
60570288 ATTGAAATGG
60570298 TTGTGAATGAAATGACATGTT
1 TTGTGAATGAAATGACATGTT
* * *
60570319 TTGTGTATTAAATGGCATGTT
1 TTGTGAATGAAATGACATGTT
60570340 TTG
1 TTG
60570343 ATTGCTTTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.27, C:0.04, G:0.24, T:0.44
Consensus pattern (21 bp):
TTGTGAATGAAATGACATGTT
Found at i:60572686 original size:43 final size:43
Alignment explanation
Indices: 60572638--60572727 Score: 171
Period size: 43 Copynumber: 2.1 Consensus size: 43
60572628 TGCATTTATG
60572638 TCATCAAACAATGAGTTAACATAAAGTTTATTCACACATTAAA
1 TCATCAAACAATGAGTTAACATAAAGTTTATTCACACATTAAA
*
60572681 TCATCAAACAATGAGTTAACATAAAGTTTATTCACACATTAAC
1 TCATCAAACAATGAGTTAACATAAAGTTTATTCACACATTAAA
60572724 TCAT
1 TCAT
60572728 AATTTTTCAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.44, C:0.18, G:0.07, T:0.31
Consensus pattern (43 bp):
TCATCAAACAATGAGTTAACATAAAGTTTATTCACACATTAAA
Found at i:60574083 original size:21 final size:20
Alignment explanation
Indices: 60574059--60574098 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
60574049 AAAACTTGTA
60574059 AATCTATCAACAAACATTCAT
1 AATCTATCAACAAAC-TTCAT
*
60574080 AATCTATCAAGAAACTTCA
1 AATCTATCAACAAACTTCA
60574099 AAATACACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.47, C:0.23, G:0.03, T:0.28
Consensus pattern (20 bp):
AATCTATCAACAAACTTCAT
Found at i:60576111 original size:10 final size:10
Alignment explanation
Indices: 60576099--60576180 Score: 67
Period size: 10 Copynumber: 7.6 Consensus size: 10
60576089 TTCAAAATTT
*
60576099 AAAAAAAAAT
1 AAAAAAAAAC
60576109 AAATAAAAAAC
1 AAA-AAAAAAC
*
60576120 AAAAAAACAC
1 AAAAAAAAAC
*
60576130 AAAAAAAGAAGA
1 AAAAAAA-AA-C
60576142 AGAAAACAAAAC
1 A-AAAA-AAAAC
60576154 AACAAAAAAA-
1 AA-AAAAAAAC
60576164 AACAAAAAAAC
1 AA-AAAAAAAC
60576175 AAAAAA
1 AAAAAA
60576181 TGCCAAAAAG
Statistics
Matches: 60, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
10 30 0.50
11 17 0.28
12 5 0.08
13 6 0.10
14 2 0.03
ACGTcount: A:0.84, C:0.10, G:0.04, T:0.02
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:60576126 original size:8 final size:8
Alignment explanation
Indices: 60576113--60576180 Score: 55
Period size: 9 Copynumber: 7.6 Consensus size: 8
60576103 AAAAATAAAT
60576113 AAAAAACAA
1 AAAAAAC-A
60576122 AAAAACACA
1 AAAAA-ACA
*
60576131 AAAAAAGAA
1 AAAAAA-CA
60576140 GAAGAAAACA
1 -AA-AAAACA
*
60576150 AAACAACAAA
1 AAA-AA-ACA
60576160 AAAAAACA
1 AAAAAACA
60576168 AAAAAACA
1 AAAAAACA
60576176 AAAAA
1 AAAAA
60576181 TGCCAAAAAG
Statistics
Matches: 49, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
8 17 0.35
9 18 0.37
10 10 0.20
11 4 0.08
ACGTcount: A:0.84, C:0.12, G:0.04, T:0.00
Consensus pattern (8 bp):
AAAAAACA
Found at i:60576134 original size:29 final size:26
Alignment explanation
Indices: 60576100--60576180 Score: 90
Period size: 29 Copynumber: 2.9 Consensus size: 26
60576090 TCAAAATTTA
60576100 AAAAAAAATAAATAAAAAACAAAAAAAC
1 AAAAAAAA-AAA-AAAAAACAAAAAAAC
* *
60576128 ACAAAAAAAGAAGAAGAAAACAAAACAAC
1 A-AAAAAAA-AA-AAAAAAACAAAAAAAC
*
60576157 AAAAAAAAACAAAAAAACAAAAAA
1 AAAAAAAAAAAAAAAAACAAAAAA
60576181 TGCCAAAAAG
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
26 12 0.27
27 1 0.02
28 8 0.18
29 23 0.51
30 1 0.02
ACGTcount: A:0.84, C:0.10, G:0.04, T:0.02
Consensus pattern (26 bp):
AAAAAAAAAAAAAAAAACAAAAAAAC
Found at i:60576152 original size:26 final size:26
Alignment explanation
Indices: 60576114--60576178 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
60576104 AAAATAAATA
* *
60576114 AAAAACAAAAAAAC-ACAAAAAAAGAAG
1 AAAAA-AACAAAACAACAAAAAAA-AAC
*
60576141 AAGAAAACAAAACAACAAAAAAAAAC
1 AAAAAAACAAAACAACAAAAAAAAAC
60576167 AAAAAAACAAAA
1 AAAAAAACAAAA
60576179 AATGCCAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 20 0.61
27 13 0.39
ACGTcount: A:0.83, C:0.12, G:0.05, T:0.00
Consensus pattern (26 bp):
AAAAAAACAAAACAACAAAAAAAAAC
Found at i:60578133 original size:47 final size:47
Alignment explanation
Indices: 60578082--60578319 Score: 141
Period size: 47 Copynumber: 5.3 Consensus size: 47
60578072 TATCAGGCAG
60578082 GAAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTT
1 GAAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTT
* * ** ** *
60578129 GAAGCAGATC-----CA-AGATGATTTGGC-ATC-TTTGTACCAGGCG-G
1 GAAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT-TTA--CGTT
*
60578170 GAAGCAGATTGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTT
1 GAAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTT
* * * ** * **
60578217 GAAGCAGATC-----CA-AGATGATTTGGC-ATCTC-TGTACCAGGCAG
1 GAAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT-TTACG-TT
*
60578258 GGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTT
1 GAAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTT
* *
60578305 GAAGCAAATCTAAGA
1 GAAGCAGATCGAAGA
60578320 TGATTTGGCG
Statistics
Matches: 133, Mismatches: 36, Indels: 44
0.62 0.17 0.21
Matches are distributed among these distances:
39 6 0.05
40 8 0.06
41 40 0.30
42 6 0.05
46 6 0.05
47 53 0.40
48 8 0.06
49 6 0.05
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (47 bp):
GAAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTT
Found at i:60578151 original size:88 final size:88
Alignment explanation
Indices: 60578037--60578359 Score: 533
Period size: 88 Copynumber: 3.7 Consensus size: 88
60578027 ATCTGAGCTT
* *
60578037 CGTTGAAGCAGATCCAAGATGATTTGGCATCTCTATATCAGGCAGGAAGCAGATCGAAGACATAG
1 CGTTGAAGCAGATCCAAGATGATTTGGCATCTCTGTACCAGGCAGGAAGCAGATCGAAGACATAG
60578102 CTGATTTGGCTTTCACGTGTTTA
66 CTGATTTGGCTTTCACGTGTTTA
* * *
60578125 CGTTGAAGCAGATCCAAGATGATTTGGCATCTTTGTACCAGGCGGGAAGCAGATTGAAGACATAG
1 CGTTGAAGCAGATCCAAGATGATTTGGCATCTCTGTACCAGGCAGGAAGCAGATCGAAGACATAG
60578190 CTGATTTGGCTTTCACGTGTTTA
66 CTGATTTGGCTTTCACGTGTTTA
*
60578213 CGTTGAAGCAGATCCAAGATGATTTGGCATCTCTGTACCAGGCAGGGAGCAGATCGAAGACATAG
1 CGTTGAAGCAGATCCAAGATGATTTGGCATCTCTGTACCAGGCAGGAAGCAGATCGAAGACATAG
60578278 CTGATTTGGCTTTCACGTGTTTA
66 CTGATTTGGCTTTCACGTGTTTA
* * * *
60578301 CGTTGAAGCAAATCTAAGATGATTTGGCGTCTCTGTAGC-GGC-GGAGAGCAGATCGAAGA
1 CGTTGAAGCAGATCCAAGATGATTTGGCATCTCTGTACCAGGCAGGA-AGCAGATCGAAGA
60578360 TTGCAGATTT
Statistics
Matches: 220, Mismatches: 14, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
86 2 0.01
87 16 0.07
88 202 0.92
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (88 bp):
CGTTGAAGCAGATCCAAGATGATTTGGCATCTCTGTACCAGGCAGGAAGCAGATCGAAGACATAG
CTGATTTGGCTTTCACGTGTTTA
Found at i:60578473 original size:44 final size:43
Alignment explanation
Indices: 60578349--60579260 Score: 458
Period size: 44 Copynumber: 21.0 Consensus size: 43
60578339 CGGCGGAGAG
** * * *
60578349 CAGATCGAAGATTGCAGATTTAGCATCCCTATGTTTATAGGGAA
1 CAGATCGAAGATAACAGA-TTGGCATCCCTGTGCTTATAGGGAA
* * * * * *
60578393 CAAATCAAAGATAGCAGATCTGACATTCCC-GTGCTTACAGTGAA
1 CAGATCGAAGATAACAGAT-TGGCA-TCCCTGTGCTTATAGGGAA
**
60578437 GCAGATCGAAGATTTCAGCA-TGGCATCCCTGTGCTTATAGGGAA
1 -CAGATCGAAGATAACAG-ATTGGCATCCCTGTGCTTATAGGGAA
* * * *
60578481 CA-AGTTGAAAATAGCAGATTTGGCATCCTTGTGCTTATAGGGAA
1 CAGA-TCGAAGATAACAGA-TTGGCATCCCTGTGCTTATAGGGAA
* * * * *
60578525 TAGATCGAAGATAACAGATCTGACATTCCTGTGCTTACAGTGAA
1 CAGATCGAAGATAACAGAT-TGGCATCCCTGTGCTTATAGGGAA
* ** *
60578569 GTAGATCGAAGATTTCAGCA-TGGCATCCATGTGCTTATAGGGAA
1 -CAGATCGAAGATAACAG-ATTGGCATCCCTGTGCTTATAGGGAA
* * * *
60578613 CA-AGTTGAAAATAACAGATTTGGCATCACTGTGTTTATAGGGAA
1 CAGA-TCGAAGATAACAGA-TTGGCATCCCTGTGCTTATAGGGAA
* * ** * * * * *
60578657 CATATCGAAGATAGCAGATCTAACATTCTTGTACTTACAGTGAA
1 CAGATCGAAGATAACAGAT-TGGCATCCCTGTGCTTATAGGGAA
* ** * *
60578701 GCAGATCAAAGATTTCAGCA-TGGCATTCTTGTGCTTATAGGGAA
1 -CAGATCGAAGATAACAG-ATTGGCATCCCTGTGCTTATAGGGAA
* * *
60578745 CA-AGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
1 CAGA-TCGAAGATAACAGA-TTGGCATCCCTGTGCTTATAGGGAA
* * *
60578789 CAGATCGAAGATAACAGATCTGACA-CTCCTGTGCTTACAGTGAA
1 CAGATCGAAGATAACAGAT-TGGCATC-CCTGTGCTTATAGGGAA
* **
60578833 GCAGATCAAAGATTTCAGCA-TGGCATCCCTGTGCTTATAGGGAA
1 -CAGATCGAAGATAACAG-ATTGGCATCCCTGTGCTTATAGGGAA
* *
60578877 CA-AGTTGAAAATAACAGATTTGGCATCCCTGTGCTTATAGGGAA
1 CAGA-TCGAAGATAACAGA-TTGGCATCCCTGTGCTTATAGGGAA
* * * * *
60578921 CAGATCGAAGATAACAGATCTGACATTCCTGTTCTTACAGTGAA
1 CAGATCGAAGATAACAGAT-TGGCATCCCTGTGCTTATAGGGAA
** *
60578965 GCAGATCGAAGATTTCAGCA-TGGCATCCCTGTGCTTATAAGGAA
1 -CAGATCGAAGATAACAG-ATTGGCATCCCTGTGCTTATAGGGAA
* * * * * ** * **
60579009 CA-AGTTGAAAATAAAAGATTTG-AT---AG-G-GAACAGATCAA
1 CAGA-TCGAAGATAACAGATTGGCATCCCTGTGCTTATAG-GGAA
* * * * * *
60579047 -AGATAGTAGAT--C----TGACATTCCTGTGCTTACAGTGAA
1 CAGATCGAAGATAACAGATTGGCATCCCTGTGCTTATAGGGAA
**
60579083 GCAGATCGAAGATTTCAGCA-TGGCATCCCTGTGCTTATAGGGAA
1 -CAGATCGAAGATAACAG-ATTGGCATCCCTGTGCTTATAGGGAA
* * * *
60579127 CA-AGTTGAAAATAGCAGATTTGGCATCCCTGTGTTTATAGGGAA
1 CAGA-TCGAAGATAACAGA-TTGGCATCCCTGTGCTTATAGGGAA
* * ** * *
60579171 CAGATCGAAGATAGCAGATCTGACATTACTGTGCTTACAGTGAA
1 CAGATCGAAGATAACAGAT-TGGCATCCCTGTGCTTATAGGGAA
* ** *
60579215 GCAGATTGAAGATTTCAGCA-TGGCATCCCTGTGTTTATAGGGAA
1 -CAGATCGAAGATAACAG-ATTGGCATCCCTGTGCTTATAGGGAA
60579259 CA
1 CA
60579261 AGTTGAAGAT
Statistics
Matches: 652, Mismatches: 156, Indels: 121
0.70 0.17 0.13
Matches are distributed among these distances:
31 1 0.00
32 2 0.00
35 1 0.00
36 4 0.01
37 12 0.02
38 13 0.02
39 1 0.00
40 1 0.00
42 14 0.02
43 77 0.12
44 426 0.65
45 94 0.14
46 6 0.01
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (43 bp):
CAGATCGAAGATAACAGATTGGCATCCCTGTGCTTATAGGGAA
Found at i:60578602 original size:132 final size:132
Alignment explanation
Indices: 60578362--60579280 Score: 1407
Period size: 132 Copynumber: 7.1 Consensus size: 132
60578352 ATCGAAGATT
* * * * * *
60578362 GCAGATTTAGCATCCCTATGTTTATAGGGAACAAATCAAAGATAGCAGATCTGACATTCCCGTGC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
60578427 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
66 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
60578492 TA
131 TA
* * *
60578494 GCAGATTTGGCATCCTTGTGCTTATAGGGAATAGATCGAAGATAACAGATCTGACATTCCTGTGC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
* *
60578559 TTACAGTGAAGTAGATCGAAGATTTCAGCATGGCATCCATGTGCTTATAGGGAACAAGTTGAAAA
66 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
60578624 TA
131 TA
* * * * * * *
60578626 ACAGATTTGGCATCACTGTGTTTATAGGGAACATATCGAAGATAGCAGATCTAACATTCTTGTAC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
* * *
60578691 TTACAGTGAAGCAGATCAAAGATTTCAGCATGGCATTCTTGTGCTTATAGGGAACAAGTTGAAAA
66 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
60578756 TA
131 TA
* *
60578758 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACACTCCTGTGC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
*
60578823 TTACAGTGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
66 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
60578888 TA
131 TA
* * *
60578890 ACAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTTC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
*
60578955 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAAGGAACAAGTTGAAAA
66 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
60579020 TA
131 TA
* * *
60579022 --A-A---AG-AT---T-TG---ATAGGGAACAGATCAAAGATAGTAGATCTGACATTCCTGTGC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
60579073 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
66 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
60579138 TA
131 TA
* *
60579140 GCAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTACTGTGC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
* * *
60579205 TTACAGTGAAGCAGATTGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGA
66 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
60579270 TA
131 TA
*
60579272 GTAGATTTG
1 GCAGATTTG
60579281 ACCCCTTAAG
Statistics
Matches: 718, Mismatches: 55, Indels: 28
0.90 0.07 0.03
Matches are distributed among these distances:
118 104 0.14
120 1 0.00
121 3 0.00
122 1 0.00
124 1 0.00
125 4 0.01
126 1 0.00
128 1 0.00
129 3 0.00
130 1 0.00
132 598 0.83
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (132 bp):
GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
TA
Found at i:60579121 original size:118 final size:118
Alignment explanation
Indices: 60578913--60579281 Score: 504
Period size: 118 Copynumber: 3.0 Consensus size: 118
60578903 CCCTGTGCTT
* *
60578913 ATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTTCTTACAGTGAAGCAGATCGAAGAT
1 ATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGAT
*
60578978 TTCAGCATGGCATCCCTGTGCTTATAAGGAACAAGTTGAAAATAAAAGATTTG
66 TTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAAAAGATTTG
* *
60579031 ATAGGGAACAGATCAAAGATAGTAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGAT
1 ATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGAT
*
60579096 TTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTG
66 TTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATA--A-A---AG-AT---T-TG
* *
60579160 TTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTACTGTGCTTACAGTGAAGCAGATTGAA
1 ---ATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAA
* * **
60579225 GATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGTAGATTTG
63 GATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAAAAGATTTG
60579281 A
1 A
60579282 CCCCTTAAGC
Statistics
Matches: 222, Mismatches: 15, Indels: 28
0.84 0.06 0.11
Matches are distributed among these distances:
118 105 0.47
120 1 0.00
121 3 0.01
122 1 0.00
124 1 0.00
125 4 0.02
126 1 0.00
128 1 0.00
129 2 0.01
132 103 0.46
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.27
Consensus pattern (118 bp):
ATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGAT
TTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAAAAGATTTG
Found at i:60579203 original size:88 final size:88
Alignment explanation
Indices: 60579111--60579282 Score: 208
Period size: 88 Copynumber: 2.0 Consensus size: 88
60579101 CATGGCATCC
*
60579111 CTGTGCTTATAGGGAA-CA-AGTTGAAAATAGCAG-ATTTGGCATCCCTGTGTTTATAGGGAAC-
1 CTGTGCTTACAGGGAAGCAGA-TTGAAAATAGCAGCA--TGGCATCCCTGTGTTTATAGGGAACA
60579172 AGATCGAAGATAGCAGATCTGACATTA
63 AG-TCGAAGATAGCAGATCTGACATTA
* * **
60579199 CTGTGCTTACAGTGAAGCAGATTGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGT
1 CTGTGCTTACAGGGAAGCAGATTGAAAATAGCAGCATGGCATCCCTGTGTTTATAGGGAACAAGT
* * *
60579264 TGAAGATAGTAGATTTGAC
66 CGAAGATAGCAGATCTGAC
60579283 CCCTTAAGCA
Statistics
Matches: 72, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
88 56 0.78
89 14 0.19
90 2 0.03
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (88 bp):
CTGTGCTTACAGGGAAGCAGATTGAAAATAGCAGCATGGCATCCCTGTGTTTATAGGGAACAAGT
CGAAGATAGCAGATCTGACATTA
Found at i:60579380 original size:87 final size:87
Alignment explanation
Indices: 60579281--60580288 Score: 1120
Period size: 87 Copynumber: 11.7 Consensus size: 87
60579271 AGTAGATTTG
* * * *
60579281 ACCCCTTAAGCAGTAGGGAAACAGATCGAAAGTGATGGGCCTT-AACTCCCTAAGTAGTAGGGTA
1 ACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGATGAGCCTTAAAC-CCCTAAGCAGTAGGGTA
60579345 ACAGGCTAAATTTACAGATCTTA
65 ACAGGCTAAATTTACAGATCTTA
* *
60579368 ACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGAACCTTAAACCCCTAAGCAGTAGGGTAA
1 ACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGATGAGCCTTAAACCCCTAAGCAGTAGGGTAA
* * *
60579433 TAGGTTGAATTTACAGATCTTA
66 CAGGCTAAATTTACAGATCTTA
* * * * * *
60579455 ACCCCCTAAGTAGTAGGGAAACAAATCGAAAGCGACGGGCCTT-AACTCCCTAAGTAGAAGGGTA
1 ACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGATGAGCCTTAAAC-CCCTAAGCAGTAGGGTA
60579519 ACAGGCTAAATTTACAGATCTTA
65 ACAGGCTAAATTTACAGATCTTA
* * * *
60579542 ACCCCCTAAGCAGTAGGG-AATAGATC-AAAGGCAATGAACCTTAAACCCCTAAGTAGTAGGGTA
1 ACCCCCTAAGCAGTAGGGAAACAGATCGAAA-GCGATGAGCCTTAAACCCCTAAGCAGTAGGGTA
* **
60579605 ACAGGTTGGATTTACAGATCTTA
65 ACAGGCTAAATTTACAGATCTTA
*
60579628 ACCCCCTAAGCAGTAGGGAAACAGATC-AAAGGCAATG-GACCTTAAACCCCTAAGCAGTAGGGT
1 ACCCCCTAAGCAGTAGGGAAACAGATCGAAA-GCGATGAG-CCTTAAACCCCTAAGCAGTAGGGT
* * *
60579691 AATAGG-TGGAATTTATAGATCTTA
64 AACAGGCT-AAATTTACAGATCTTA
*
60579715 ACCCCCTAAGCAGTAGGGAATCAGATC-AAAGGCGATG-GACCTTAAACCCCTAAGCAGTAGGGT
1 ACCCCCTAAGCAGTAGGGAAACAGATCGAAA-GCGATGAG-CCTTAAACCCCTAAGCAGTAGGGT
* *
60579778 AATAGGCTGAATTTACAGATCTTA
64 AACAGGCTAAATTTACAGATCTTA
* * *
60579802 ACCCCATAAGCAGTAGGGAAACAGATC-AAAGACGATAAGCCTTAAACCCCTAAGTAGTAGGGTA
1 ACCCCCTAAGCAGTAGGGAAACAGATCGAAAG-CGATGAGCCTTAAACCCCTAAGCAGTAGGGTA
* *
60579866 ACAGGTTAAATTTATAG------
65 ACAGGCTAAATTTACAGATCTTA
* * * **
60579883 A--CCCTAAACAGTAGGGAAACAGATCGAAGGTGACAAGCCTTAAACCCCTAAGCAGTAGGGTAA
1 ACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGATGAGCCTTAAACCCCTAAGCAGTAGGGTAA
60579946 CAGGCTGAAGATTTACAGATCTTAA
66 CAGGCT-AA-ATTTACAGATCTT-A
* * ** *
60579971 ACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGACAAGCCTT-AACCCCTAAACAGTAGGGTAA
1 ACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGATGAGCCTTAAACCCCTAAGCAGTAGGGTAA
60580035 CAGGCTAAATTTACAG------
66 CAGGCTAAATTTACAGATCTTA
* * * * **
60580051 A--CCCTAAACAGTAGGGAAATAGATCGAAGGTGACAAGCCTTAAACCCCTAAGCAGTAGGGTAA
1 ACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGATGAGCCTTAAACCCCTAAGCAGTAGGGTAA
*
60580114 TAGGCTGAAGATTTACAGATCTTAA
66 CAGGCT-AA-ATTTACAGATCTT-A
* * * * ** *
60580139 ACCCCCTAAGCAGTAGGGTAATAGATCGAAGGTGACAAGCCTT-AACCCCTAAACAGTAGGGTAA
1 ACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGATGAGCCTTAAACCCCTAAGCAGTAGGGTAA
60580203 CAGGCTAAATTTACAGATCTTA
66 CAGGCTAAATTTACAGATCTTA
** *
60580225 ACATCCTAAGCAGTAGGGAAACAGATCG-AAGACGATGGGCCTTAAACCCCTAAGCAGTAGGGTA
1 ACCCCCTAAGCAGTAGGGAAACAGATCGAAAG-CGATGAGCCTTAAACCCCTAAGCAGTAGGGTA
60580289 CCAAGCTGAA
Statistics
Matches: 809, Mismatches: 76, Indels: 72
0.85 0.08 0.08
Matches are distributed among these distances:
78 38 0.05
79 82 0.10
80 8 0.01
81 16 0.02
85 5 0.01
86 105 0.13
87 416 0.51
88 11 0.01
89 51 0.06
90 77 0.10
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.20
Consensus pattern (87 bp):
ACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGATGAGCCTTAAACCCCTAAGCAGTAGGGTAA
CAGGCTAAATTTACAGATCTTA
Found at i:60579943 original size:79 final size:79
Alignment explanation
Indices: 60579808--60580288 Score: 444
Period size: 79 Copynumber: 5.7 Consensus size: 79
60579798 CTTAACCCCA
* ** * *
60579808 TAAGCAGTAGGGAAACAGATCAAAGACGATAAGCCTTAAACCCCTAAGTAGTAGGGTAACAGGTT
1 TAAGCAGTAGGGAAACAGATCGAAGGTGACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGTT
60579873 AAATTTATAGACCC
66 AAATTTATAGACCC
*
60579887 TAAACAGTAGGGAAACAGATCGAAGGTGACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCT
1 TAAGCAGTAGGGAAACAGATCGAAGGTGACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGG-T
* *
60579952 GAAGATTTACAGATCTTAAACCCCC
65 TAA-ATTT----A---TAGA--CCC
* *
60579977 TAAGCAGTAGGGAAACAGATCGAAGGTGACAAGCCTT-AACCCCTAAACAGTAGGGTAACAGGCT
1 TAAGCAGTAGGGAAACAGATCGAAGGTGACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGTT
*
60580041 AAATTTACAGACCC
66 AAATTTATAGACCC
* * *
60580055 TAAACAGTAGGGAAATAGATCGAAGGTGACAAGCCTTAAACCCCTAAGCAGTAGGGTAATAGGCT
1 TAAGCAGTAGGGAAACAGATCGAAGGTGACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGG-T
* *
60580120 GAAGATTTACAGATCTTAAACCCCC
65 TAA-ATTT----A---TAGA--CCC
* * * *
60580145 TAAGCAGTAGGGTAATAGATCGAAGGTGACAAGCCTT-AACCCCTAAACAGTAGGGTAACAGGCT
1 TAAGCAGTAGGGAAACAGATCGAAGGTGACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGTT
*
60580209 AAATTTACAGATCTTAACATCC
66 AAATTTATAG------AC--CC
** ***
60580231 TAAGCAGTAGGGAAACAGATCGAAGACGATGGGCCTTAAACCCCTAAGCAGTAGGGTA
1 TAAGCAGTAGGGAAACAGATCGAAGGTGACAAGCCTTAAACCCCTAAGCAGTAGGGTA
60580289 CCAAGCTGAA
Statistics
Matches: 332, Mismatches: 38, Indels: 56
0.78 0.09 0.13
Matches are distributed among these distances:
78 38 0.11
79 80 0.24
80 8 0.02
81 8 0.02
83 2 0.01
84 1 0.00
85 2 0.01
86 33 0.10
87 27 0.08
88 9 0.03
89 47 0.14
90 77 0.23
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.19
Consensus pattern (79 bp):
TAAGCAGTAGGGAAACAGATCGAAGGTGACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGTT
AAATTTATAGACCC
Found at i:60579987 original size:46 final size:44
Alignment explanation
Indices: 60579920--60580248 Score: 203
Period size: 43 Copynumber: 7.6 Consensus size: 44
60579910 AGGTGACAAG
60579920 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGA
1 CCTT-AACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGA
* * * * *
60579965 TCTTAAACCCCCTAAGCAGTAGGGAAACA-GATCGAAG-GTGACA-A
1 CCTT-AA-CCCCTAAGCAGTAGGGTAACAGGCT-GAAGATTTACAGA
*
60580009 GCCTTAACCCCTAAACAGTAGGGTAACAGGCT-AA-ATTTACAG-
1 -CCTTAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGA
* * * * * *
60580051 -----A-CCCTAAACAGTAGGGAAATA-GATCGAAG-GTGACA-A
1 CCTTAACCCCTAAGCAGTAGGGTAACAGGCT-GAAGATTTACAGA
*
60580087 GCCTTAAACCCCTAAGCAGTAGGGTAATAGGCTGAAGATTTACAGA
1 -CCTT-AACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGA
* * * * *
60580133 TCTTAAACCCCCTAAGCAGTAGGGTAATA-GATCGAAG-GTGACA-A
1 CCTT-AA-CCCCTAAGCAGTAGGGTAACAGGCT-GAAGATTTACAGA
*
60580177 GCCTTAACCCCTAAACAGTAGGGTAACAGGCT-AA-ATTTACAGA
1 -CCTTAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGA
* * *
60580220 TCTTAACATCCTAAGCAGTAGGGAAACAG
1 CCTTAAC-CCCTAAGCAGTAGGGTAACAG
60580249 ATCGAAGACG
Statistics
Matches: 221, Mismatches: 35, Indels: 58
0.70 0.11 0.18
Matches are distributed among these distances:
34 2 0.01
35 18 0.08
36 7 0.03
42 18 0.08
43 58 0.26
44 32 0.14
45 36 0.16
46 50 0.23
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.19
Consensus pattern (44 bp):
CCTTAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGA
Found at i:60580116 original size:44 final size:44
Alignment explanation
Indices: 60580052--60580202 Score: 182
Period size: 46 Copynumber: 3.4 Consensus size: 44
60580042 AATTTACAGA
*
60580052 CCCTAAACAGTAGGGAAATAGATCGAAGGTGACAAGCCTTAAAC
1 CCCTAAACAGTAGGGTAATAGATCGAAGGTGACAAGCCTTAAAC
* * * * *
60580096 CCCTAAGCAGTAGGGTAATAG-GCTGAAGATTTAC-AGATCTTAAACC
1 CCCTAAACAGTAGGGTAATAGATC-GAAG-GTGACAAG-CCTTAAA-C
*
60580142 CCCTAAGCAGTAGGGTAATAGATCGAAGGTGACAAGCCTT-AAC
1 CCCTAAACAGTAGGGTAATAGATCGAAGGTGACAAGCCTTAAAC
60580185 CCCTAAACAGTAGGGTAA
1 CCCTAAACAGTAGGGTAA
60580203 CAGGCTAAAT
Statistics
Matches: 90, Mismatches: 11, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
43 19 0.21
44 27 0.30
45 15 0.17
46 28 0.31
47 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (44 bp):
CCCTAAACAGTAGGGTAATAGATCGAAGGTGACAAGCCTTAAAC
Found at i:60580861 original size:18 final size:18
Alignment explanation
Indices: 60580810--60580862 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
60580800 AAACCCTAGC
60580810 CACCTTGCCTCCCACTTG
1 CACCTTGCCTCCCACTTG
*
60580828 CACC-T-ACT-CCAC---
1 CACCTTGCCTCCCACTTG
60580840 CACCTTGCCTCCCACTTG
1 CACCTTGCCTCCCACTTG
60580858 CACCT
1 CACCT
60580863 ACACCATCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 12
0.66 0.05 0.29
Matches are distributed among these distances:
12 4 0.15
13 1 0.04
14 2 0.07
15 8 0.30
16 2 0.07
17 1 0.04
18 9 0.33
ACGTcount: A:0.15, C:0.53, G:0.08, T:0.25
Consensus pattern (18 bp):
CACCTTGCCTCCCACTTG
Found at i:60581363 original size:3 final size:3
Alignment explanation
Indices: 60581352--60581558 Score: 60
Period size: 3 Copynumber: 67.3 Consensus size: 3
60581342 TTTTATTTTT
* * *
60581352 TTA TT- TTA TTA TTT TTA CTA TTA TTA ATA TTA TTA TTA TT- TCTCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-T-A
* * * *
60581397 TGTA TATA TTA TTA TT- TATA TTA TTA -TA TTA TATA TGTC CTC TCCA
1 T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA T-TA T-TA TTA T-TA
* * *
60581443 -TA TTTA TT- TATA TTA TTA CTA TCA TTA TTG TTA CTT- TTA TTA TT-
1 TTA -TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
* *
60581487 TT- TTA TT- TCTGA CTA CTA TTA TTA TTA -TA TATA TGTA TGTA TTA
1 TTA TTA TTA T-T-A TTA TTA TTA TTA TTA TTA T-TA T-TA T-TA TTA
*
60581531 TTG TT- TGTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA T-TA TTA TTA TTA TTA TTA TTA T
60581559 CACCCCTATT
Statistics
Matches: 156, Mismatches: 25, Indels: 46
0.69 0.11 0.20
Matches are distributed among these distances:
2 18 0.12
3 109 0.70
4 27 0.17
5 2 0.01
ACGTcount: A:0.29, C:0.07, G:0.04, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:60581373 original size:9 final size:9
Alignment explanation
Indices: 60581344--60581421 Score: 52
Period size: 9 Copynumber: 8.6 Consensus size: 9
60581334 GAGCTTTGTT
60581344 TTATTTTT-
1 TTATTTTTA
60581352 TTA-TTTTA
1 TTATTTTTA
60581360 TTATTTTTA
1 TTATTTTTA
* *
60581369 CTATTATTA
1 TTATTTTTA
* *
60581378 ATATTATTA
1 TTATTTTTA
*
60581387 TTATTTCTCA
1 TTATTT-TTA
*
60581397 TGTATATATTA
1 T-TAT-TTTTA
*
60581408 TTATTTATA
1 TTATTTTTA
60581417 TTATT
1 TTATT
60581422 ATATTATATA
Statistics
Matches: 55, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
7 4 0.07
8 6 0.11
9 32 0.58
10 6 0.11
11 6 0.11
12 1 0.02
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.67
Consensus pattern (9 bp):
TTATTTTTA
Found at i:60581807 original size:118 final size:115
Alignment explanation
Indices: 60581636--60581847 Score: 293
Period size: 118 Copynumber: 1.8 Consensus size: 115
60581626 TTGCTATTAC
* * * *
60581636 TATTATTATATATTAGTGTATATTTTTATGTATATATATATTTATATATAGTATTGTTTTTTA-T
1 TATTATTATATAGTAGTGTATATTTTTATATATATATATATTTATATATAGTATTATTATTTACT
*
60581700 TACTTTAAT-TTAATATTTTTATTATATTTGCTTTTTGTATTTCTATATT
66 TACTTTAATATTAATATTATTATTATATTTGCTTTTTGTATTTCTATATT
*
60581749 TATTATTATATAGTAGTGTGTATTTCTATTATATACATATATATATTTATATATAGTATTATTAT
1 TATTATTATATAGTAGTGTATA-TT-T-TTATAT--ATATATATATTTATATATAGTATTATTAT
*
60581814 TTACTTTACTTTAATATTATTATTATTATTATAT
61 TTAC-TTACTTTAATATTAATATTATTATTATAT
60581848 CCAACCCAAT
Statistics
Matches: 84, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
113 20 0.24
114 2 0.02
115 1 0.01
116 5 0.06
118 30 0.36
120 10 0.12
121 16 0.19
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.60
Consensus pattern (115 bp):
TATTATTATATAGTAGTGTATATTTTTATATATATATATATTTATATATAGTATTATTATTTACT
TACTTTAATATTAATATTATTATTATATTTGCTTTTTGTATTTCTATATT
Found at i:60584202 original size:40 final size:40
Alignment explanation
Indices: 60584147--60584334 Score: 340
Period size: 40 Copynumber: 4.7 Consensus size: 40
60584137 GAGCATTGGA
60584147 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
60584187 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
60584227 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
60584267 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
60584307 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
60584335 ATGTGTTTGC
Statistics
Matches: 143, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 143 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.21
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:60592867 original size:40 final size:40
Alignment explanation
Indices: 60592812--60592999 Score: 340
Period size: 40 Copynumber: 4.7 Consensus size: 40
60592802 GAGCATTGGA
60592812 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
60592852 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
60592892 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
60592932 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
60592972 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
60593000 ATGTGTTTGC
Statistics
Matches: 143, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 143 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.21
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:60597215 original size:79 final size:82
Alignment explanation
Indices: 60597104--60597288 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
60597094 GCTACTCGTT
* * *
60597104 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
60597167 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
60597184 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
60597247 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
60597264 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
60597289 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:60597288 original size:40 final size:40
Alignment explanation
Indices: 60597085--60597288 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
60597075 CGGAATTTAA
** *
60597085 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
60597125 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
60597165 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
60597204 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
60597244 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
60597284 CCGGA
1 CCGGA
60597289 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:60601233 original size:39 final size:40
Alignment explanation
Indices: 60601128--60601310 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
60601118 TTGAATGCTG
* * * *
60601128 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
60601167 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
60601208 TCCGGGTTAAGT-CCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
60601247 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
60601287 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
60601311 GTATGAGTTA
Statistics
Matches: 124, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 38 0.31
40 76 0.61
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Done.