Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 183 of 335
Found at i:55079786 original size:20 final size:21
Alignment explanation
Indices: 55079761--55079805 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
55079751 TCACTTAACA
*
55079761 AAACTTGTATAA-CTATCATC
1 AAACTTGTATAATCCATCATC
*
55079781 AAACTTTTATAATCCATCATC
1 AAACTTGTATAATCCATCATC
55079802 AAAC
1 AAAC
55079806 ATCAAAATAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.42, C:0.22, G:0.02, T:0.33
Consensus pattern (21 bp):
AAACTTGTATAATCCATCATC
Found at i:55088698 original size:547 final size:550
Alignment explanation
Indices: 55087658--55088757 Score: 1848
Period size: 547 Copynumber: 2.0 Consensus size: 550
55087648 TCAGTAACAA
55087658 AGTTCATGCTTTTCTATATTTAGACAGTCAATAATTTAGGGTGTGTCGGCTCATACGGTCTCAAA
1 AGTTCATGCTTTTCTATATTTAGACAGTCAATAATTTAGGGTGTGTCGGCTCATACGGTCTCAAA
55087723 CATTTATATATATATATATATATATATAAGAACATATATTATTCTTAATTCATACAAACATTCAT
66 C---TATATATATATATATATATATATAAGAACATATATTATTCTTAATTCATACAAACATTCAT
*
55087788 AATGGTAAATAAACACCGTATTGATTTAATCATTCATATATTCTAGCATGCTTCGTATCATCAAG
128 AATGGCAAATAAACACCGTATTGATTTAATCATTCATATATTCTAGCATGCTTCGTATCATCAAG
** *
55087853 GATTTAATTGCATATTTAAATTCACTAAAAATAGTTTGAAACCTATTCAGGGACTAAACTAATCA
193 GACCTAATTGCATATTTAAATTCACTAAAAATAGTTTGAAACCTATTCAGAGACTAAACTAATCA
55087918 AAACATAAAATTTTGGGTTAAAACTATAATTTCTTGTTTCTAAGGGACACACGACTATGTGACCA
258 AAACATAAAATTTTGGGTTAAAACTATAATTTCTTGTTTCTAAGGGACACACGACTATGTGACCA
*
55087983 AACCATGTGGGGAGCTCTGGGCTGTGTAGCTAGGCCTTGTAAGAGACTAAGATCGTGTGACATTC
323 AACCATGTGGGGAGCTCTGGGCTGTGTAGCTAGGCCTTGTAAGAGACTAAGACCGTGTGACATTC
* * * *
55088048 AAAATTTCAACCTACAAGGAAGAAATGATCGTGTGGCAGGCCGTGTGGGGGGTCTTAAGCCGTGT
388 AAAATTTCAACCTACAAGGAAGAAACGATCGTGTGGCAAGCCGTGCGGAGGGTCTTAAGCCGTGT
* * *
55088113 GAGAAGAGAAAACCTAGGGTTTCAAGGGGGAACCTAACTATATGTGAGGTCATGCAATCCACATT
453 GAGAAGAGAAAACCTAAGGTTTCAAGGGGAAACCTAACTATATGTGAGGTCATGCAATACACATT
* *
55088178 GGCAGGCCACACTCCCATATGGACTGGGCTGTT
518 GGCAGGCCACACACCCATATGGACTAGGCTGTT
* *
55088211 AGTTCATGCTTTTCTATATTTAGATAGTCAATAATTTAGGGTGTGTCGGCTCATACGGTCTCTAA
1 AGTTCATGCTTTTCTATATTTAGACAGTCAATAATTTAGGGTGTGTCGGCTCATACGGTCTCAAA
* *
55088276 C-AT-T-TATATGTATATATATATAAGAACATATATTATTCTTAATTCATGCAAACATTCATAAT
66 CTATATATATATATATATATATATAAGAACATATATTATTCTTAATTCATACAAACATTCATAAT
55088338 GGCAAATAAACACCGTATTGATTTAATCATTCATATATTCTAGCATGCTTCGTATCATC-AGAGA
131 GGCAAATAAACACCGTATTGATTTAATCATTCATATATTCTAGCATGCTTCGTATCATCAAG-GA
*
55088402 CCTAATTGCATATTTAAATTCACTAAAATTAGTTTGAAACCTATTCAGAGACTAAACTAATCAAA
195 CCTAATTGCATATTTAAATTCACTAAAAATAGTTTGAAACCTATTCAGAGACTAAACTAATCAAA
*
55088467 ACATAAAATTTTGGGTTAAAACTATAATTTCTTGTTTCTAGGGGACACACGACTATGTGACCAAA
260 ACATAAAATTTTGGGTTAAAACTATAATTTCTTGTTTCTAAGGGACACACGACTATGTGACCAAA
* * * *
55088532 CCATGTGGGGAGCTTTGGGCTGTGTGGCTAGGCCTTGTAAGAGACTGAGGCCGTGTGACATTCAA
325 CCATGTGGGGAGCTCTGGGCTGTGTAGCTAGGCCTTGTAAGAGACTAAGACCGTGTGACATTCAA
* *
55088597 AATTTCAACCTACAAGGAAGACACGGTCGTGTGGCAAGCCGTGCGGAGGGTCTTAAGCCGTGTGA
390 AATTTCAACCTACAAGGAAGAAACGATCGTGTGGCAAGCCGTGCGGAGGGTCTTAAGCCGTGTGA
** * *
55088662 GAAGTTAAAACCTAAGGTTTCAAGGGGAAACCTAACTATGTGTGAGGTTATGCAATACACATTGG
455 GAAGAGAAAACCTAAGGTTTCAAGGGGAAACCTAACTATATGTGAGGTCATGCAATACACATTGG
* *
55088727 CGGGCCACACACCCGTATGGACTAGGCTGTT
520 CAGGCCACACACCCATATGGACTAGGCTGTT
55088758 TTGATTTTTG
Statistics
Matches: 514, Mismatches: 32, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
546 2 0.00
547 445 0.87
548 1 0.00
549 2 0.00
553 64 0.12
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (550 bp):
AGTTCATGCTTTTCTATATTTAGACAGTCAATAATTTAGGGTGTGTCGGCTCATACGGTCTCAAA
CTATATATATATATATATATATATAAGAACATATATTATTCTTAATTCATACAAACATTCATAAT
GGCAAATAAACACCGTATTGATTTAATCATTCATATATTCTAGCATGCTTCGTATCATCAAGGAC
CTAATTGCATATTTAAATTCACTAAAAATAGTTTGAAACCTATTCAGAGACTAAACTAATCAAAA
CATAAAATTTTGGGTTAAAACTATAATTTCTTGTTTCTAAGGGACACACGACTATGTGACCAAAC
CATGTGGGGAGCTCTGGGCTGTGTAGCTAGGCCTTGTAAGAGACTAAGACCGTGTGACATTCAAA
ATTTCAACCTACAAGGAAGAAACGATCGTGTGGCAAGCCGTGCGGAGGGTCTTAAGCCGTGTGAG
AAGAGAAAACCTAAGGTTTCAAGGGGAAACCTAACTATATGTGAGGTCATGCAATACACATTGGC
AGGCCACACACCCATATGGACTAGGCTGTT
Found at i:55093555 original size:54 final size:54
Alignment explanation
Indices: 55093449--55093605 Score: 170
Period size: 56 Copynumber: 2.8 Consensus size: 54
55093439 CATGACATAG
* * * * * * *
55093449 CACACGTCTCAACAGGGCTGCATATAAGCACCTGGACCTAGCATGCATCACATTAC
1 CACACCTCTCAACAGGGCT--ACATAAGCTCCCGGACCTAGCATGTACCACATAAC
* * *
55093505 CACACCTCTCAACAGGGCTACATAAGCTCCCGGACCGAGCGTGTACCACATAAT
1 CACACCTCTCAACAGGGCTACATAAGCTCCCGGACCTAGCATGTACCACATAAC
* *
55093559 TACATGCCTCTCAACAGGGCTACACAAGCTCCCGGACCTAGCATGTA
1 CACA--CCTCTCAACAGGGCTACATAAGCTCCCGGACCTAGCATGTA
55093606 TCATGTCATT
Statistics
Matches: 85, Mismatches: 14, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
54 29 0.34
56 56 0.66
ACGTcount: A:0.29, C:0.34, G:0.18, T:0.18
Consensus pattern (54 bp):
CACACCTCTCAACAGGGCTACATAAGCTCCCGGACCTAGCATGTACCACATAAC
Found at i:55097948 original size:17 final size:17
Alignment explanation
Indices: 55097928--55097966 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
55097918 AAAATAATAT
*
55097928 TATTTTACTAGATTTAA
1 TATTTTACTAAATTTAA
* *
55097945 TATTATATTAAATTTAA
1 TATTTTACTAAATTTAA
55097962 TATTT
1 TATTT
55097967 ATCTTAATAG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (17 bp):
TATTTTACTAAATTTAA
Found at i:55098004 original size:20 final size:19
Alignment explanation
Indices: 55097981--55098033 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
55097971 TAATAGTATT
55097981 TTATTAATTTAATATTAAA
1 TTATTAATTTAATATTAAA
55098000 GTTATT-ATATTAATATTAAA
1 -TTATTAAT-TTAATATTAAA
55098020 -T-TTAATTTAATATT
1 TTATTAATTTAATATT
55098034 TATCTTGTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
17 10 0.32
18 3 0.10
19 2 0.06
20 16 0.52
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
TTATTAATTTAATATTAAA
Found at i:55098084 original size:62 final size:59
Alignment explanation
Indices: 55098009--55098125 Score: 162
Period size: 62 Copynumber: 1.9 Consensus size: 59
55097999 AGTTATTATA
** * *
55098009 TTAATATTAAATTTAATTTAATATTTATCTTGTAGATAATTATTCTATTAATTTAATAAGAT
1 TTAATATTAAATTTAATCCAATATTTATC-T-T-GATAAGTATTATATTAATTTAATAAGAT
*
55098071 TTAATATTAAATTTAATCCGATATTTATCTTGATAAGTATTATATTAATTTAATA
1 TTAATATTAAATTTAATCCAATATTTATCTTGATAAGTATTATATTAATTTAATA
55098126 TTAAAGTGAT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 22 0.44
60 1 0.02
61 1 0.02
62 26 0.52
ACGTcount: A:0.40, C:0.04, G:0.05, T:0.50
Consensus pattern (59 bp):
TTAATATTAAATTTAATCCAATATTTATCTTGATAAGTATTATATTAATTTAATAAGAT
Found at i:55103097 original size:40 final size:39
Alignment explanation
Indices: 55103061--55103167 Score: 151
Period size: 39 Copynumber: 2.7 Consensus size: 39
55103051 ATATCCGGAC
*
55103061 TAAGATCCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGT
1 TAAG-TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
* * * *
55103101 TAAGCCCGAAGGCATTTGTGCGAGTTACTAAACCCGGGT
1 TAAGTCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
55103140 TAAGTCCCGAAGGCATTCGTGCGAGTTA
1 TAAGT-CCGAAGGCATTCGTGCGAGTTA
55103168 CTATAACCGG
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
39 34 0.58
40 25 0.42
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
Found at i:55103168 original size:40 final size:40
Alignment explanation
Indices: 55103067--55103205 Score: 183
Period size: 40 Copynumber: 3.5 Consensus size: 40
55103057 GGACTAAGAT
* * *
55103067 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
*
55103106 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
* *
55103146 CCGAAGGCATTCGTGCGAGTTACTATAACCGGGGTT-TGTC
1 CCGAAGGCATTCGTGCGAGTTACTA-AACCCGGGTTAAGTC
* *
55103186 CCGAAGGCATTTGAGCGAGT
1 CCGAAGGCATTCGTGCGAGT
55103206 CGTTATATCC
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
39 34 0.38
40 46 0.52
41 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.24
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
Found at i:55103229 original size:79 final size:79
Alignment explanation
Indices: 55103066--55103231 Score: 185
Period size: 79 Copynumber: 2.1 Consensus size: 79
55103056 CGGACTAAGA
* * *
55103066 TCCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAGCCCGAAGGCATTTGTGCGAGTTACTA
1 TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGTTAAGCCCGAAGGCATTTGAGCGAGTCACTA
*
55103131 AACCCGGGTTAAGT
66 AACCCGGGTTAAAT
* * * *
55103145 CCCGAAGGCATTCGTGCGAGTTACTATAA-CCGGGGTT-TGTCCCGAAGGCATTTGAGCGAGTCG
1 TCCGAAGGCATTCGTGCGAGTTAATA-AATCC-GGGTTAAG-CCCGAAGGCATTTGAGCGAGTCA
* * *
55103208 TTATATCC-GGTTAAAT
63 CTAAACCCGGGTTAAAT
55103224 TCCGAAGG
1 TCCGAAGG
55103232 TACGTGATTC
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
79 40 0.56
80 32 0.44
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (79 bp):
TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGTTAAGCCCGAAGGCATTTGAGCGAGTCACTA
AACCCGGGTTAAAT
Found at i:55109634 original size:54 final size:54
Alignment explanation
Indices: 55109564--55109673 Score: 202
Period size: 54 Copynumber: 2.0 Consensus size: 54
55109554 GCAAGCTTCA
* *
55109564 TACATCAATTAGGTACAGGAATGTTTTGTAGTGACTGATGCGAAGCTAGGCGCT
1 TACATCAATTAGGTACAGGAATGTTCTATAGTGACTGATGCGAAGCTAGGCGCT
55109618 TACATCAATTAGGTACAGGAATGTTCTATAGTGACTGATGCGAAGCTAGGCGCT
1 TACATCAATTAGGTACAGGAATGTTCTATAGTGACTGATGCGAAGCTAGGCGCT
55109672 TA
1 TA
55109674 GCTGACTACA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.29
Consensus pattern (54 bp):
TACATCAATTAGGTACAGGAATGTTCTATAGTGACTGATGCGAAGCTAGGCGCT
Found at i:55111858 original size:166 final size:166
Alignment explanation
Indices: 55111579--55111935 Score: 570
Period size: 166 Copynumber: 2.2 Consensus size: 166
55111569 ACGGCCAAGC
* * * * **
55111579 ACACCGGCATGTGTCCAGGCTGTGTGACCCACATGGTCGTGCGTAAGGCCGTATAGGTGGTTGTG
1 ACACGGGCATGTATCCAGGCCGTGTGACCCACATGGTCGTGCATAAGGCCGTATAGGTGGCCGTG
* *
55111644 TAACTCATAGTTCATCGATTTGGAGCCACACGGGCAAGGCACATGAGCATGTGTCCAAGCTGTGT
66 TAACTCATAGTTCATCGATTTGGAGCCACACAGGCAAGGCACATGAGCATGTGTCCAAGCCGTGT
55111709 GTGGCCATGTTAGTGCAAGGTTCACACGGGCATGGG
131 GTGGCCATGTTAGTGCAAGGTTCACACGGGCATGGG
* *
55111745 ACACGGGCATGTATCCAGGCCGTGTGACCCACATGGTCGTGCATAAGGCCGTGTGGGTGGCCGTG
1 ACACGGGCATGTATCCAGGCCGTGTGACCCACATGGTCGTGCATAAGGCCGTATAGGTGGCCGTG
* ** *
55111810 TAATTCATAGTTCATTTATTTGGAGCCACACAGGCAAGGTACATGAGCATGTGTCCAAGCCGTGT
66 TAACTCATAGTTCATCGATTTGGAGCCACACAGGCAAGGCACATGAGCATGTGTCCAAGCCGTGT
*
55111875 GTGGCCATGTTAGTGCAGGGTTCACACGGGCATGGG
131 GTGGCCATGTTAGTGCAAGGTTCACACGGGCATGGG
*
55111911 ACACGAGCATGTATCCAGGCCGTGT
1 ACACGGGCATGTATCCAGGCCGTGT
55111936 AACTCACTGT
Statistics
Matches: 175, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
166 175 1.00
ACGTcount: A:0.21, C:0.23, G:0.32, T:0.24
Consensus pattern (166 bp):
ACACGGGCATGTATCCAGGCCGTGTGACCCACATGGTCGTGCATAAGGCCGTATAGGTGGCCGTG
TAACTCATAGTTCATCGATTTGGAGCCACACAGGCAAGGCACATGAGCATGTGTCCAAGCCGTGT
GTGGCCATGTTAGTGCAAGGTTCACACGGGCATGGG
Found at i:55112582 original size:14 final size:16
Alignment explanation
Indices: 55112558--55112600 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 16
55112548 TCTGCAATAT
* *
55112558 ATATATATATATATGA
1 ATATATGTATATATAA
55112574 AT-T-TGTATATATAA
1 ATATATGTATATATAA
55112588 ATATATGTATATA
1 ATATATGTATATA
55112601 ATTGTTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 11 0.48
15 2 0.09
16 10 0.43
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (16 bp):
ATATATGTATATATAA
Found at i:55114523 original size:68 final size:66
Alignment explanation
Indices: 55114449--55114647 Score: 198
Period size: 68 Copynumber: 3.0 Consensus size: 66
55114439 ATTTTAATAG
* * *
55114449 ATTTAATATTAAATTTAATTTAATACTTATCTTAAT-ATTATTTTATTAATTTAATATGAAAGTG
1 ATTTAATATTAAATTTAATTTAATATTTATCTTAATAAATATTATATTAATTTAATAT-AAA-TG
55114513 ATT
64 ATT
* *
55114516 ATCTTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAATATTCTATTAATTT-A-AT-AA
1 AT-TTAATATTAAATTTAATTTAATATTTATC-T-TA-ATAAATATTATATTAATTTAATATAAA
55114578 --A--
62 TGATT
* * *
55114579 ATTTAATATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATATTAAAATG
1 ATTTAATATTAAATTTAATTTAATATTTATCTTAATAAATATTATATTAATTTAATA-T-AAATG
55114644 ATT
64 ATT
55114647 A
1 A
55114648 AGTTTAATCA
Statistics
Matches: 109, Mismatches: 9, Indels: 27
0.75 0.06 0.19
Matches are distributed among these distances:
59 17 0.16
60 2 0.02
61 2 0.02
62 28 0.26
63 2 0.02
64 2 0.02
65 1 0.01
66 1 0.01
67 2 0.02
68 30 0.28
69 1 0.01
70 4 0.04
71 3 0.03
72 14 0.13
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.50
Consensus pattern (66 bp):
ATTTAATATTAAATTTAATTTAATATTTATCTTAATAAATATTATATTAATTTAATATAAATGAT
T
Found at i:55114642 original size:62 final size:62
Alignment explanation
Indices: 55114519--55114635 Score: 177
Period size: 62 Copynumber: 1.9 Consensus size: 62
55114509 AGTGATTATC
* * *
55114519 TTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAATATTCTATTAATTTAATAAAAT
1 TTAATATTAAATTTAATCTAATATTTATCTTGTAGATAAATATTATATTAATTTAATAAAAT
*
55114581 TTAATATTAAATTTAATCTAATATTTATC-T-T-GATAAGTATTATATTAATTTAATA
1 TTAATATTAAATTTAATCTAATATTTATCTTGTAGATAAATATTATATTAATTTAATA
55114636 TTAAAATGAT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 22 0.43
60 1 0.02
61 1 0.02
62 27 0.53
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.50
Consensus pattern (62 bp):
TTAATATTAAATTTAATCTAATATTTATCTTGTAGATAAATATTATATTAATTTAATAAAAT
Found at i:55115830 original size:82 final size:82
Alignment explanation
Indices: 55115693--55115856 Score: 292
Period size: 82 Copynumber: 2.0 Consensus size: 82
55115683 TAGGCCACTT
* *
55115693 GATTAAGTAAGACTAGAAATACATGGCAATACTCGAATAAGTTGATATGAGATATCATACTTATT
1 GATTAAGTAAGACTAGAAATAAATGGCAATACTCGAATAAGTTGATATAAGATATCATACTTATT
55115758 TGTTTATTGTAGTTTAC
66 TGTTTATTGTAGTTTAC
* *
55115775 GATTAAGTAAGACTAGAAATAAATGGCAATGCTCGAATAAGTTGATATAAGATATCATTCTTATT
1 GATTAAGTAAGACTAGAAATAAATGGCAATACTCGAATAAGTTGATATAAGATATCATACTTATT
55115840 TGTTTATTGTAGTTTAC
66 TGTTTATTGTAGTTTAC
55115857 TCGAGATATC
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 78 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (82 bp):
GATTAAGTAAGACTAGAAATAAATGGCAATACTCGAATAAGTTGATATAAGATATCATACTTATT
TGTTTATTGTAGTTTAC
Found at i:55120354 original size:20 final size:20
Alignment explanation
Indices: 55120331--55120414 Score: 84
Period size: 20 Copynumber: 4.2 Consensus size: 20
55120321 TAAAAATCAA
*
55120331 TAAAAGTTATAAAAAAATAT
1 TAAAAATTATAAAAAAATAT
**
55120351 TAAATTTTA-ATAAAAAATAT
1 TAAAAATTATA-AAAAAATAT
*
55120371 TAAAAATTAGAAAAAAA-AT
1 TAAAAATTATAAAAAAATAT
*
55120390 ATAAAAATCATAAAAAAATA-
1 -TAAAAATTATAAAAAAATAT
55120410 TAAAA
1 TAAAA
55120415 GTGTAAACTT
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
19 8 0.15
20 44 0.81
21 2 0.04
ACGTcount: A:0.69, C:0.01, G:0.02, T:0.27
Consensus pattern (20 bp):
TAAAAATTATAAAAAAATAT
Found at i:55120463 original size:28 final size:27
Alignment explanation
Indices: 55120426--55120509 Score: 80
Period size: 30 Copynumber: 3.0 Consensus size: 27
55120416 TGTAAACTTT
*
55120426 TATAT-AAATAGTAATAAATTATAAAA
1 TATATAAAATAGTAAAAAATTATAAAA
*
55120452 TATATAGAAATATAGAAAAAAATTATAAAA
1 TATAT--AAA-ATAGTAAAAAATTATAAAA
* * *
55120482 TTTATAAAGTTGTAAGAAAATTATAAAA
1 TATATAAAATAGTAA-AAAATTATAAAA
55120510 AATGTAAAGA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
26 5 0.11
27 4 0.09
28 15 0.32
29 2 0.04
30 21 0.45
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (27 bp):
TATATAAAATAGTAAAAAATTATAAAA
Found at i:55120746 original size:19 final size:19
Alignment explanation
Indices: 55120722--55120805 Score: 100
Period size: 19 Copynumber: 4.4 Consensus size: 19
55120712 GTTAAAGGGC
55120722 ATTTTTTATGCA-TTTTATA
1 ATTTTTTATG-ATTTTTATA
55120741 ATTTTTTATGATTTTTATA
1 ATTTTTTATGATTTTTATA
** *
55120760 AAATTTTATAATTTTT-TA
1 ATTTTTTATGATTTTTATA
55120778 TATTTTATTATGATTTTTATA
1 -ATTTT-TTATGATTTTTATA
55120799 ATTTTTT
1 ATTTTTT
55120806 CTAATTTTAA
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
18 3 0.05
19 35 0.64
20 15 0.27
21 2 0.04
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.67
Consensus pattern (19 bp):
ATTTTTTATGATTTTTATA
Found at i:55120747 original size:10 final size:10
Alignment explanation
Indices: 55120734--55120813 Score: 85
Period size: 10 Copynumber: 8.2 Consensus size: 10
55120724 TTTTTATGCA
55120734 TTTTATAATT
1 TTTTATAATT
*
55120744 TTTTATGA-T
1 TTTTATAATT
**
55120753 TTTTATAAAA
1 TTTTATAATT
55120763 TTTTATAATT
1 TTTTATAATT
55120773 TTTTAT-ATT
1 TTTTATAATT
*
55120782 TTATTATGA-T
1 TT-TTATAATT
55120792 TTTTATAATT
1 TTTTATAATT
*
55120802 TTTTCTAATT
1 TTTTATAATT
55120812 TT
1 TT
55120814 AATAAAATTT
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
9 18 0.31
10 40 0.68
11 1 0.02
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.68
Consensus pattern (10 bp):
TTTTATAATT
Found at i:55120765 original size:29 final size:29
Alignment explanation
Indices: 55120733--55120861 Score: 149
Period size: 29 Copynumber: 4.5 Consensus size: 29
55120723 TTTTTTATGC
55120733 ATTTTATAATTTTTTATGATTTTTA-TAAA
1 ATTTTATAATTTTTTAT-ATTTTTATTAAA
*
55120762 ATTTTATAATTTTTTATA-TTTTATTATGA
1 ATTTTATAATTTTTTATATTTTTATTA-AA
* * * *
55120791 TTTTTATAATTTTTTCTAATTTTAATAAA
1 ATTTTATAATTTTTTATATTTTTATTAAA
55120820 A-TTTA-AATATTTTTATATTTTTATTAAA
1 ATTTTATAAT-TTTTTATATTTTTATTAAA
*
55120848 ATTTAATAATTTTT
1 ATTTTATAATTTTT
55120862 ATAACTTTTA
Statistics
Matches: 84, Mismatches: 10, Indels: 12
0.79 0.09 0.11
Matches are distributed among these distances:
27 8 0.10
28 24 0.29
29 42 0.50
30 10 0.12
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.63
Consensus pattern (29 bp):
ATTTTATAATTTTTTATATTTTTATTAAA
Found at i:55120778 original size:39 final size:39
Alignment explanation
Indices: 55120734--55120813 Score: 117
Period size: 39 Copynumber: 2.1 Consensus size: 39
55120724 TTTTTATGCA
55120734 TTTTATAATTTT-TTATGATTTTTATAAAATTTTATAATT
1 TTTTAT-ATTTTATTATGATTTTTATAAAATTTTATAATT
** *
55120773 TTTTATATTTTATTATGATTTTTATAATTTTTTCTAATT
1 TTTTATATTTTATTATGATTTTTATAAAATTTTATAATT
55120812 TT
1 TT
55120814 AATAAAATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
38 5 0.14
39 32 0.86
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.68
Consensus pattern (39 bp):
TTTTATATTTTATTATGATTTTTATAAAATTTTATAATT
Found at i:55120813 original size:58 final size:57
Alignment explanation
Indices: 55120722--55120871 Score: 166
Period size: 58 Copynumber: 2.6 Consensus size: 57
55120712 GTTAAAGGGC
* *
55120722 ATTTT-TTATGCATTTTATAATTTTTTATGATTTTTATAAAATTTTATAAT-TTTTTAT
1 ATTTTATTATGCATTTTATAATTTTTTATAATTTTAATAAAA-TTTA-AATATTTTTAT
*
55120779 ATTTTATTATG-ATTTTTATAATTTTTTCTAATTTTAATAAAATTTAAATATTTTTAT
1 ATTTTATTATGCA-TTTTATAATTTTTTATAATTTTAATAAAATTTAAATATTTTTAT
** *
55120836 ATTTTTATTA-AAATTTAATAA-TTTTTATAACTTTTA
1 A-TTTTATTATGCATTTTATAATTTTTTATAA-TTTTA
55120872 TTTGGTTTTT
Statistics
Matches: 81, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
56 11 0.14
57 30 0.37
58 40 0.49
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (57 bp):
ATTTTATTATGCATTTTATAATTTTTTATAATTTTAATAAAATTTAAATATTTTTAT
Found at i:55120862 original size:10 final size:9
Alignment explanation
Indices: 55120734--55120872 Score: 91
Period size: 9 Copynumber: 14.7 Consensus size: 9
55120724 TTTTTATGCA
55120734 TTTTATAATT
1 TTTTATAA-T
*
55120744 TTTTATGAT
1 TTTTATAAT
*
55120753 TTTTATAAAA
1 TTTTAT-AAT
55120763 TTTTATAATT
1 TTTTATAA-T
*
55120773 TTTTATATT
1 TTTTATAAT
*
55120782 TTATTATGAT
1 TT-TTATAAT
55120792 TTTTATAATT
1 TTTTATAA-T
*
55120802 TTTTCTAAT
1 TTTTATAAT
* *
55120811 TTTAATAAA
1 TTTTATAAT
* *
55120820 ATTTAAATAT
1 TTTTATA-AT
55120830 TTTTAT-AT
1 TTTTATAAT
*
55120838 TTTTATTAAAA
1 TTTTA-T-AAT
*
55120849 TTTAATAAT
1 TTTTATAAT
*
55120858 TTTTATAAC
1 TTTTATAAT
55120867 TTTTAT
1 TTTTAT
55120873 TTGGTTTTTT
Statistics
Matches: 98, Mismatches: 23, Indels: 17
0.71 0.17 0.12
Matches are distributed among these distances:
8 7 0.07
9 44 0.45
10 42 0.43
11 5 0.05
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (9 bp):
TTTTATAAT
Found at i:55120871 original size:29 final size:28
Alignment explanation
Indices: 55120733--55120873 Score: 126
Period size: 28 Copynumber: 4.9 Consensus size: 28
55120723 TTTTTTATGC
*
55120733 ATTTTATAATTTTTTATGATTTT-TATAAA
1 ATTTTATAA-TTTTTATAATTTTAT-TAAA
*
55120762 ATTTTATAATTTTT-TATATTTTATTATGA
1 ATTTTATAATTTTTATA-ATTTTATTA-AA
* * *
55120791 TTTTTATAATTTTTTCTAATTTTAATAAA
1 ATTTTATAA-TTTTTATAATTTTATTAAA
* *
55120820 A-TTTAAATATTTTTATATTTTTATTAAA
1 ATTTTATA-ATTTTTATAATTTTATTAAA
*
55120848 ATTTAATAATTTTTATAACTTTTATT
1 ATTTTATAATTTTTATAA-TTTTATT
55120874 TGGTTTTTTT
Statistics
Matches: 91, Mismatches: 13, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
27 1 0.01
28 43 0.47
29 32 0.35
30 13 0.14
31 2 0.02
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (28 bp):
ATTTTATAATTTTTATAATTTTATTAAA
Found at i:55122251 original size:268 final size:268
Alignment explanation
Indices: 55121899--55122422 Score: 913
Period size: 268 Copynumber: 2.0 Consensus size: 268
55121889 AAGGGGTGAG
*
55121899 AATCCAACTCCTCGATCAGAGTAGGCTTCTAGTTGGTCACTATTTTCTGAGTGGTAAGTGTGCCA
1 AATCCAACTCCTCCATCAGAGTAGGCTTCTAGTTGGTCACTATTTTCTGAGTGGTAAGTGTGCCA
* *
55121964 AAATCATTTTGAAGGCTGAGATTTTAAGATGTTAGGATTGTTAATTGGTTAGGTTTTGATGGATT
66 AAATCATTTTAAAGGCTGAGATTTTAAGATGTTAGGATTGTTAATTGGTTAGGTTTTGATGAATT
* * * *
55122029 GATTGGTGTGTTTTGTCTGAAATTGTAGGTTCGTAGGTTCTCGATAGTGGAGTGGGTCAAATGCG
131 GATTGGTGTGTTTTGTCTGAAATTGTAGGTTCATAGGTTCTCAATACTGGAGTGGGTCAAATACG
* * * *
55122094 TAATTAGGTGGGTGAAAATAACCCAAAAATTCCTTAGAAACTCGACTAAAATCGCAAAACAAAGG
196 TAATCAGGTGGGTAAAAATAACCCAAAAATCCCTTAGAAACTCAACTAAAATCGCAAAACAAAGG
55122159 TTGTACAA
261 TTGTACAA
* *
55122167 AATCCAACTCCTCCATCATAGTAGGCTTCTAGTTGGTCGCTATTTTCTGAGTGGTAAGTGTGCCA
1 AATCCAACTCCTCCATCAGAGTAGGCTTCTAGTTGGTCACTATTTTCTGAGTGGTAAGTGTGCCA
55122232 AAATCATTTTAAAGGCTGAGATTTTAAGATGTTAGGATTGTTAATTGGTTAGGTTTTGATGAATT
66 AAATCATTTTAAAGGCTGAGATTTTAAGATGTTAGGATTGTTAATTGGTTAGGTTTTGATGAATT
*
55122297 GATTGGTGTGTTTTGTTTGAAATTGTAGGTTCATAGGTTCTCAATACTGGAGTGGGTCAAATACG
131 GATTGGTGTGTTTTGTCTGAAATTGTAGGTTCATAGGTTCTCAATACTGGAGTGGGTCAAATACG
*
55122362 TAATCAGGTGGGTAAAAATAATCCAAAAATCCCTTAGAAACTCAACTAAAATCGCAAAACA
196 TAATCAGGTGGGTAAAAATAACCCAAAAATCCCTTAGAAACTCAACTAAAATCGCAAAACA
55122423 GAGATTGTGT
Statistics
Matches: 241, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
268 241 1.00
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.34
Consensus pattern (268 bp):
AATCCAACTCCTCCATCAGAGTAGGCTTCTAGTTGGTCACTATTTTCTGAGTGGTAAGTGTGCCA
AAATCATTTTAAAGGCTGAGATTTTAAGATGTTAGGATTGTTAATTGGTTAGGTTTTGATGAATT
GATTGGTGTGTTTTGTCTGAAATTGTAGGTTCATAGGTTCTCAATACTGGAGTGGGTCAAATACG
TAATCAGGTGGGTAAAAATAACCCAAAAATCCCTTAGAAACTCAACTAAAATCGCAAAACAAAGG
TTGTACAA
Found at i:55122735 original size:15 final size:15
Alignment explanation
Indices: 55122703--55122731 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
55122693 ATTTTCTATG
55122703 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
55122718 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
55122732 ATTTTGGTGA
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:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:55127733 original size:33 final size:33
Alignment explanation
Indices: 55127696--55127763 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 33
55127686 AAAGAAACAT
* * *
55127696 TGAATCAGTACTTGTTGTGTGCGAGTATCTGGA
1 TGAATCAGTACCTGTTGTGCGCGAGTATCCGGA
*
55127729 TGAATCAGTACCTGTTGTGCGTGAGTATCCGGA
1 TGAATCAGTACCTGTTGTGCGCGAGTATCCGGA
55127762 TG
1 TG
55127764 TGTTTCATGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.21, C:0.15, G:0.31, T:0.34
Consensus pattern (33 bp):
TGAATCAGTACCTGTTGTGCGCGAGTATCCGGA
Found at i:55131382 original size:31 final size:31
Alignment explanation
Indices: 55131347--55131407 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
55131337 CTTGTCACTT
55131347 GTAGCCGAAGCTACCACTAT-TCACTGATCAG
1 GTAGCCGAAGCTACCACT-TCTCACTGATCAG
*
55131378 GTAGCCGGAGCTACCACTTCTCACTGATCA
1 GTAGCCGAAGCTACCACTTCTCACTGATCA
55131408 AATTACTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 1 0.04
31 27 0.96
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTCTCACTGATCAG
Found at i:55131618 original size:40 final size:35
Alignment explanation
Indices: 55131503--55131629 Score: 175
Period size: 35 Copynumber: 3.6 Consensus size: 35
55131493 TCCTCATTGA
* * *
55131503 AATACCATACCTACATTTCACGACTCGGTATGGGA-
1 AATACCATACCTACGTTTCACAACTCAGTAT-GGAT
**
55131538 AATACCATACCTACGTTTCTTAACTCAGTATGGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
*
55131573 AATACCATACCTACGTTTCACAACTTAGTATGGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
*
55131608 GATACCATACCTACGTTTCACA
1 AATACCATACCTACGTTTCACA
55131630 CTTTGCCATA
Statistics
Matches: 82, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
34 3 0.04
35 79 0.96
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.30
Consensus pattern (35 bp):
AATACCATACCTACGTTTCACAACTCAGTATGGAT
Found at i:55145741 original size:2 final size:2
Alignment explanation
Indices: 55145730--55145767 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
55145720 TTCCTTCTTT
55145730 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
55145768 GATTCCAACA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:55149600 original size:20 final size:20
Alignment explanation
Indices: 55149571--55149608 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
55149561 CAATGCAATG
*
55149571 TATGTCTCGAGACTTGGCAA
1 TATGTCTCGAGACATGGCAA
*
55149591 TATGTTTCGAGACATGGC
1 TATGTCTCGAGACATGGC
55149609 TGAAAATTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (20 bp):
TATGTCTCGAGACATGGCAA
Found at i:55156360 original size:52 final size:52
Alignment explanation
Indices: 55156282--55156390 Score: 193
Period size: 52 Copynumber: 2.1 Consensus size: 52
55156272 AGGCTCGCAT
55156282 GAAAAATGAGAGAATTTGAGTAAAAATATAGACTCGAAAAATGGGCTTGAAC
1 GAAAAATGAGAGAATTTGAGTAAAAATATAGACTCGAAAAATGGGCTTGAAC
* *
55156334 GAAAAATGAGAGGATTTGAGTAAAAATATAGACTCGCAAAATGGGCTTGAAC
1 GAAAAATGAGAGAATTTGAGTAAAAATATAGACTCGAAAAATGGGCTTGAAC
55156386 -AAAAA
1 GAAAAA
55156391 GATAAGATCC
Statistics
Matches: 55, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
51 5 0.09
52 50 0.91
ACGTcount: A:0.49, C:0.08, G:0.23, T:0.20
Consensus pattern (52 bp):
GAAAAATGAGAGAATTTGAGTAAAAATATAGACTCGAAAAATGGGCTTGAAC
Found at i:55159203 original size:24 final size:24
Alignment explanation
Indices: 55159176--55159224 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
55159166 GAAGTAGAGA
55159176 TCTACTTCTAATCACTATTAGAAT
1 TCTACTTCTAATCACTATTAGAAT
55159200 TCTACTTCTAATCACTATTAGAAT
1 TCTACTTCTAATCACTATTAGAAT
55159224 T
1 T
55159225 TAAAGTACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (24 bp):
TCTACTTCTAATCACTATTAGAAT
Found at i:55162312 original size:42 final size:42
Alignment explanation
Indices: 55162265--55162371 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
55162255 TATTGGTCTC
55162265 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
55162307 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
* *
55162349 GGCACTACGTGTGCGGGTTTAAA
1 GGCACTAAGTGTGCGGGTATAAA
55162372 ATTGTACAGC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.29, C:0.15, G:0.34, T:0.22
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
Found at i:55162436 original size:27 final size:28
Alignment explanation
Indices: 55162379--55162448 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
55162369 AAAATTGTAC
**
55162379 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
* *
55162407 AGCACTATGTGTGCG-AGCTGATTTTAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
55162434 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
55162449 GATTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:55170279 original size:42 final size:42
Alignment explanation
Indices: 55170232--55170338 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
55170222 TATTGGTCTC
55170232 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
55170274 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
* *
55170316 GGCACTACGTGTGCGGGTTTAAA
1 GGCACTAAGTGTGCGGGTATAAA
55170339 ATTGTACAGC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.29, C:0.15, G:0.34, T:0.22
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
Found at i:55170403 original size:27 final size:28
Alignment explanation
Indices: 55170346--55170415 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
55170336 AAAATTGTAC
**
55170346 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
* *
55170374 AGCACTATGTGTGCG-AGCTGATTTTAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
55170401 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
55170416 GATTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:55172455 original size:343 final size:343
Alignment explanation
Indices: 55171829--55172517 Score: 1299
Period size: 343 Copynumber: 2.0 Consensus size: 343
55171819 TGATCCAGAA
*
55171829 TGTACAACAGAGTCTACTTCTCAAGTTAAAACAAAAACTTAGAGTAGAGTTGCTTCTTTACCACA
1 TGTACAACAGAGTCTACTTCTCAAGTTAAAACAAAAACTTAGAGTAAAGTTGCTTCTTTACCACA
*
55171894 GTCAGCACCACAATATTCTATTGCCATGAACAAACCTAGAAGAGAAATTAAACCTCCAAAAAGGT
66 GTCAGCACCACAATATTCTATTGCCAAGAACAAACCTAGAAGAGAAATTAAACCTCCAAAAAGGT
*
55171959 ATGTCAAGGCTGATCTAGTTGCTTATGCTATAAATGTAGCTAAAGATATGGATACAAATCAAAAG
131 ATGTCAAGGCTGATCTAGTTGCTTATGCTATAAATGTAGCTAAAGATATAGATACAAATCAAAAG
* * *
55172024 CCATCTACTTATTCTTAGCCAGTTAGTTGTGAACATTCAGGAAAGTGGTTGTTTGCCATGTAATA
196 CCATCTACTTATTCTGAGCCAGTTAGTTGTGAACATTCAAGAAAGTGGTTGTTTGCCATGCAATA
55172089 AGAGATGAAATCGCTCCATAAGAATAGAAAATGGAACCTAGTGAAGCTTCCT-AAGGTTAAAAAG
261 AGAGATGAAATCGCTCCATAAGAATAGAAAATGGAACCTAGTGAAGCTTCCTAAAGG-TAAAAAG
55172153 GTTGTTCATTGTAAATAAG
325 GTTGTTCATTGTAAATAAG
55172172 TGTACAACAGAGTCTACTTCTCAAGTTAAAACAAAAACTTAGAGTAAAGTTGCTTCTTTACCACA
1 TGTACAACAGAGTCTACTTCTCAAGTTAAAACAAAAACTTAGAGTAAAGTTGCTTCTTTACCACA
55172237 GTCAGCACCACAATATTCTATTGCCAAGAACAAACCTAGAAGAGAAATTAAACCTCCAAAAAGGT
66 GTCAGCACCACAATATTCTATTGCCAAGAACAAACCTAGAAGAGAAATTAAACCTCCAAAAAGGT
55172302 ATGTCAAGGCTGATCTAGTTGCTTATGCTATAAATGTAGCTAAAGATATAGATACAAATCAAAAG
131 ATGTCAAGGCTGATCTAGTTGCTTATGCTATAAATGTAGCTAAAGATATAGATACAAATCAAAAG
*
55172367 CCATCTACTTATTCTGAGCCAGTTAGTTGTGAACATTCAAGAAAGTGGTTGTTTGTCATGCAATA
196 CCATCTACTTATTCTGAGCCAGTTAGTTGTGAACATTCAAGAAAGTGGTTGTTTGCCATGCAATA
55172432 AGAGATGAAATCGCTCCATAAGAATAGAAAATGGAACCTAGTGAAGCTTCCTAAAGGTAAAAAGG
261 AGAGATGAAATCGCTCCATAAGAATAGAAAATGGAACCTAGTGAAGCTTCCTAAAGGTAAAAAGG
55172497 TTGTTCATTGTAAATAAG
326 TTGTTCATTGTAAATAAG
55172515 TGT
1 TGT
55172518 TCAAGAAGAA
Statistics
Matches: 338, Mismatches: 7, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
343 334 0.99
344 4 0.01
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.28
Consensus pattern (343 bp):
TGTACAACAGAGTCTACTTCTCAAGTTAAAACAAAAACTTAGAGTAAAGTTGCTTCTTTACCACA
GTCAGCACCACAATATTCTATTGCCAAGAACAAACCTAGAAGAGAAATTAAACCTCCAAAAAGGT
ATGTCAAGGCTGATCTAGTTGCTTATGCTATAAATGTAGCTAAAGATATAGATACAAATCAAAAG
CCATCTACTTATTCTGAGCCAGTTAGTTGTGAACATTCAAGAAAGTGGTTGTTTGCCATGCAATA
AGAGATGAAATCGCTCCATAAGAATAGAAAATGGAACCTAGTGAAGCTTCCTAAAGGTAAAAAGG
TTGTTCATTGTAAATAAG
Found at i:55179702 original size:18 final size:17
Alignment explanation
Indices: 55179660--55179703 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
55179650 AAAAATATTA
55179660 TATTTAAAAAATTAATT
1 TATTTAAAAAATTAATT
**
55179677 TAGATAAAAAATTAAGTT
1 TATTTAAAAAATTAA-TT
55179695 TATTTAAAA
1 TATTTAAAA
55179704 TATGAGATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.41
Consensus pattern (17 bp):
TATTTAAAAAATTAATT
Found at i:55179809 original size:16 final size:18
Alignment explanation
Indices: 55179768--55179810 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
55179758 TTAAAATTTA
55179768 TAATATT-TATATTATGT
1 TAATATTATATATTATGT
*
55179785 TATTATTATATATTATG-
1 TAATATTATATATTATGT
55179802 TAAT-TTATA
1 TAATATTATA
55179811 ACATATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 5 0.22
17 9 0.39
18 9 0.39
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (18 bp):
TAATATTATATATTATGT
Found at i:55183521 original size:29 final size:29
Alignment explanation
Indices: 55183469--55183546 Score: 83
Period size: 30 Copynumber: 2.7 Consensus size: 29
55183459 ATTAATAACA
*
55183469 TTTATAAAAATATAGAAAATTTTTTAAAT
1 TTTATAAAAATATAGAAAATTTTTAAAAT
55183498 TTTACTAAAAACT-TAGAAAA-TTTTAAAAT
1 TTTA-TAAAAA-TATAGAAAATTTTTAAAAT
*
55183527 TATT-TAAAAAT-TATAAAATT
1 T-TTATAAAAATATAGAAAATT
55183547 ATGATAAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
27 7 0.16
28 7 0.16
29 13 0.30
30 15 0.35
31 1 0.02
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (29 bp):
TTTATAAAAATATAGAAAATTTTTAAAAT
Found at i:55183538 original size:19 final size:19
Alignment explanation
Indices: 55183514--55183577 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
55183504 AAAAACTTAG
*
55183514 AAAATTTTAAAATTATTTA
1 AAAATTATAAAATTATTTA
*
55183533 AAAATTATAAAATTA-TGA
1 AAAATTATAAAATTATTTA
*
55183551 TAAAATATAGAAAAATTATTTA
1 -AAAAT-TA-TAAAATTATTTA
55183573 AAAAT
1 AAAAT
55183578 ATAGAAAGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
18 2 0.05
19 19 0.51
20 2 0.05
21 12 0.32
22 2 0.05
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (19 bp):
AAAATTATAAAATTATTTA
Found at i:55183567 original size:21 final size:21
Alignment explanation
Indices: 55183522--55183591 Score: 74
Period size: 21 Copynumber: 3.4 Consensus size: 21
55183512 AGAAAATTTT
* *
55183522 AAAATTATTTAAAAAT-TA-T
1 AAAATTATATAAAAATATAGA
55183541 AAAATTATGAT-AAAATATAGA
1 AAAATTAT-ATAAAAATATAGA
*
55183562 AAAATTATTTAAAAATATAGA
1 AAAATTATATAAAAATATAGA
*
55183583 AAGATTATA
1 AAAATTATA
55183592 AATTTTAAGT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
19 13 0.31
20 4 0.10
21 25 0.60
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (21 bp):
AAAATTATATAAAAATATAGA
Found at i:55183687 original size:19 final size:20
Alignment explanation
Indices: 55183655--55183697 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
55183645 TAAAATGATA
*
55183655 AAAAAATTATTAAAATTAAT
1 AAAAAATCATTAAAATTAAT
*
55183675 AAAAAATCA-TAAAATTTAT
1 AAAAAATCATTAAAATTAAT
55183694 AAAA
1 AAAA
55183698 TATATTACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (20 bp):
AAAAAATCATTAAAATTAAT
Found at i:55185238 original size:16 final size:17
Alignment explanation
Indices: 55185195--55185241 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 17
55185185 CAGTCATGCA
*
55185195 ATACTCAATTCATGAAT
1 ATACTCAATTCATGAAC
* *
55185212 ATA-TCATTTCAT-ACC
1 ATACTCAATTCATGAAC
55185227 ATACTCAATTCATGA
1 ATACTCAATTCATGA
55185242 GTATATAACT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
15 4 0.17
16 16 0.67
17 4 0.17
ACGTcount: A:0.38, C:0.21, G:0.04, T:0.36
Consensus pattern (17 bp):
ATACTCAATTCATGAAC
Found at i:55186627 original size:5 final size:5
Alignment explanation
Indices: 55186617--55186663 Score: 64
Period size: 5 Copynumber: 10.0 Consensus size: 5
55186607 ATTCTTTTAT
*
55186617 TATAA TATAA TAT-A TATAA TATAA TATAA TA-CA -ATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
55186664 CATTTACTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
3 1 0.03
4 6 0.16
5 30 0.81
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (5 bp):
TATAA
Found at i:55186655 original size:13 final size:13
Alignment explanation
Indices: 55186618--55186660 Score: 61
Period size: 13 Copynumber: 3.2 Consensus size: 13
55186608 TTCTTTTATT
55186618 ATAATATAATATA
1 ATAATATAATATA
55186631 TATAATATAATATA
1 -ATAATATAATATA
55186645 ATACA-ATAATATA
1 ATA-ATATAATATA
55186658 ATA
1 ATA
55186661 TAACATTTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 14 0.50
14 14 0.50
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (13 bp):
ATAATATAATATA
Found at i:55188312 original size:17 final size:17
Alignment explanation
Indices: 55188290--55188324 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
55188280 ATCTTAAGTG
55188290 GATGACGAACTATGTAT
1 GATGACGAACTATGTAT
55188307 GATGACGAACTATGTAT
1 GATGACGAACTATGTAT
55188324 G
1 G
55188325 CGTGACTCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.29
Consensus pattern (17 bp):
GATGACGAACTATGTAT
Found at i:55189545 original size:21 final size:21
Alignment explanation
Indices: 55189508--55189566 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 21
55189498 CCGGGAAAAT
*
55189508 AGGGT-ACACACCAGTGTGGA
1 AGGGTAACACACCCGTGTGGA
*
55189528 AGGGTAACACGCCCGTGTGGA
1 AGGGTAACACACCCGTGTGGA
*
55189549 AGAGTAACACACCCGTGT
1 AGGGTAACACACCCGTGT
55189567 CCCACACCCG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 5 0.15
21 29 0.85
ACGTcount: A:0.29, C:0.24, G:0.32, T:0.15
Consensus pattern (21 bp):
AGGGTAACACACCCGTGTGGA
Found at i:55189758 original size:13 final size:13
Alignment explanation
Indices: 55189735--55189771 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
55189725 GCATCCCCAA
*
55189735 AATGTCACACGGC
1 AATGGCACACGGC
*
55189748 TATGGCACACGGC
1 AATGGCACACGGC
55189761 AATGGCACACG
1 AATGGCACACG
55189772 CTCGTGTACT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.30, C:0.30, G:0.27, T:0.14
Consensus pattern (13 bp):
AATGGCACACGGC
Found at i:55190687 original size:50 final size:50
Alignment explanation
Indices: 55190570--55190800 Score: 220
Period size: 47 Copynumber: 4.8 Consensus size: 50
55190560 GGGTAAGGTA
* * *
55190570 CCGATGCCATGTCCCAGACATGGT-TTA-ACATAG-GCTCATATCTCAAGTG
1 CCGATGCCATGTCCCAGACATGGTCTTACAC-TAGCTCTCACATCTC-CGTG
*
55190619 --GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATCTCCGTG
* * *
55190667 CCAATGCCATATCCCAGACATGGTCTTACACT-G---ACACATCT-CGTAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATCTCCGT-G
** **
55190713 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCT--TGTCTCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATCTCCGTG
* *
55190759 CCGATGCCATGTCCCAGACATAGTCTTACGCTAGCTCTCACA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACA
55190801 ATGTGGCCTG
Statistics
Matches: 149, Mismatches: 18, Indels: 29
0.76 0.09 0.15
Matches are distributed among these distances:
44 10 0.07
45 17 0.11
46 22 0.15
47 37 0.25
48 24 0.16
49 11 0.07
50 28 0.19
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (50 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATCTCCGTG
Found at i:55192256 original size:35 final size:35
Alignment explanation
Indices: 55192212--55192378 Score: 201
Period size: 35 Copynumber: 4.6 Consensus size: 35
55192202 TCCTCATTGA
** *
55192212 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
55192247 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
55192287 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
55192322 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
55192357 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
55192379 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
35 87 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:55192295 original size:75 final size:73
Alignment explanation
Indices: 55192207--55192378 Score: 226
Period size: 75 Copynumber: 2.4 Consensus size: 73
55192197 GGTTTTCCTC
** * * **
55192207 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
55192271 TCAGTATGG
65 TCAGTATGG
*
55192280 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
55192345 CTCAGTATGG
64 CTCAGTATGG
55192355 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
55192379 CTTTGCCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 58 0.65
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:55199725 original size:35 final size:35
Alignment explanation
Indices: 55199681--55199847 Score: 201
Period size: 35 Copynumber: 4.6 Consensus size: 35
55199671 TCCTCATTGA
** *
55199681 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
55199716 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
55199756 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
55199791 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
55199826 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
55199848 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
35 87 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:55199764 original size:75 final size:73
Alignment explanation
Indices: 55199676--55199847 Score: 226
Period size: 75 Copynumber: 2.4 Consensus size: 73
55199666 GGTTTTCCTC
** * * **
55199676 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
55199740 TCAGTATGG
65 TCAGTATGG
*
55199749 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
55199814 CTCAGTATGG
64 CTCAGTATGG
55199824 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
55199848 CTTTGCCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 58 0.65
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:55202880 original size:25 final size:25
Alignment explanation
Indices: 55202852--55202947 Score: 129
Period size: 25 Copynumber: 3.8 Consensus size: 25
55202842 GAGGAAGTGC
*
55202852 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
55202877 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
* * * * *
55202902 AAAAGGGATTTTGCCCTAGTCTATCA
1 AAAAGGG-CTTTGCCCCAGTTTACCG
55202928 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
55202948 ATTAAAAGAG
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
25 41 0.67
26 20 0.33
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:55202960 original size:24 final size:24
Alignment explanation
Indices: 55202928--55202974 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
55202918 TAGTCTATCA
**
55202928 AAAAGGGCTTTGCC-CCAGTTATT
1 AAAAGGGCTAGGCCTCCAGTTATT
55202951 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTAGGCCTCCAGTTAT
55202975 ATGTTAAGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 7 0.35
25 8 0.40
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTAGGCCTCCAGTTATT
Found at i:55203210 original size:31 final size:31
Alignment explanation
Indices: 55203167--55203250 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
55203157 TTGTTACAGT
55203167 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* *
55203198 AAAGACTTCGGCCCAGTGATATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
55203229 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
55203251 CTGAGATTGA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
30 5 0.10
31 45 0.90
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:55210417 original size:46 final size:45
Alignment explanation
Indices: 55210367--55210542 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
55210357 TGTTTGGGCA
55210367 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
55210413 TCCGAACTCGTTGAGTTGAGTCAGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
55210460 TCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
55210506 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55210543 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 67 0.63
47 30 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:55210522 original size:93 final size:93
Alignment explanation
Indices: 55210363--55210534 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
55210353 AGGATGTTTG
* * *
55210363 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
55210428 TTGAGTCAGAGTTCGAGAGATGTAACTA
66 TTGAGTCAGAGTTCGAGAGATGTAACTA
* *
55210456 GGCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
55210521 TTGAGTCCGAGTTC
66 TTGAGTCAGAGTTC
55210535 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCAGAGTTCGAGAGATGTAACTA
Found at i:55213815 original size:26 final size:25
Alignment explanation
Indices: 55213746--55213841 Score: 138
Period size: 25 Copynumber: 3.8 Consensus size: 25
55213736 GAGGAAGTGC
*
55213746 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
55213771 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
* * * *
55213796 AAAAGGGCTTTTGCTCCAGTCTATCA
1 AAAAGGGC-TTTGCCCCAGTTTACCG
55213822 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
55213842 ATTAAAAGAG
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
25 42 0.67
26 21 0.33
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:55214078 original size:31 final size:31
Alignment explanation
Indices: 55214030--55214114 Score: 129
Period size: 31 Copynumber: 2.8 Consensus size: 31
55214020 ATTGTTACAG
55214030 TAAAGGCTTTGGCCCAGTGATATGAATAATGA
1 TAAAGGCTTTGGCCCAGTGATATGAATAAT-A
* *
55214062 -AAAGACTTCGGCCCAGTGATATGAATAATA
1 TAAAGGCTTTGGCCCAGTGATATGAATAATA
55214092 TAAAGGCTTTGGCCCAGT-ATATG
1 TAAAGGCTTTGGCCCAGTGATATG
55214115 CTGAGATTGA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
30 6 0.12
31 42 0.88
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (31 bp):
TAAAGGCTTTGGCCCAGTGATATGAATAATA
Found at i:55214927 original size:30 final size:30
Alignment explanation
Indices: 55214893--55214952 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
55214883 TGGAAATTCT
55214893 ACTATCTCAATGATCATTACACATTCTCAA
1 ACTATCTCAATGATCATTACACATTCTCAA
55214923 ACTATCTCAATGATCATTACACATTCTCAA
1 ACTATCTCAATGATCATTACACATTCTCAA
55214953 CTCCACAATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.27, G:0.03, T:0.33
Consensus pattern (30 bp):
ACTATCTCAATGATCATTACACATTCTCAA
Found at i:55220747 original size:24 final size:23
Alignment explanation
Indices: 55220703--55220748 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
55220693 TATGTTTTTA
*
55220703 TTTTATTTTATATGTTCAATTAC
1 TTTTATTTTATATATTCAATTAC
* *
55220726 TTTTAGTTTTATTTATTTAATTA
1 TTTTA-TTTTATATATTCAATTA
55220749 ATTGTTTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.65
Consensus pattern (23 bp):
TTTTATTTTATATATTCAATTAC
Found at i:55241948 original size:46 final size:44
Alignment explanation
Indices: 55241889--55242003 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
55241879 ACAGGACAGA
* *
55241889 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
55241935 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
55241979 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
55242004 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:55241984 original size:44 final size:45
Alignment explanation
Indices: 55241889--55242022 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
55241879 ACAGGACAGA
* *
55241889 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
55241935 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
55241979 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
55242023 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:55248964 original size:55 final size:53
Alignment explanation
Indices: 55248827--55249128 Score: 201
Period size: 55 Copynumber: 5.7 Consensus size: 53
55248817 TTTTCCTTTT
* * * * *
55248827 TGAACTTACCATTGCCATGTCTTGACATAGTCTTACGTGGTATCCTTGCCTTA
1 TGAACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTA
* *
55248880 TGAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTA
1 TGAACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTA
* * ***
55248933 TGGTAACTCATCAATGCCATGTCTCGACATGGTCTTACATGATTTCCTTGCCTTA
1 T-G-AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTA
* * * * * * *
55248988 TAGAACTTATCGATGTCATGCCTTGGCATGGTCTTACAT--GAT--AT-CCTTA
1 T-GAACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTA
* * *** * *
55249037 T---CTTACCAAATGTCATGTTCCAAACATGGTCTTACATGGTATCCTTGTCTTA
1 TGAACTCACC-AATGCCATG-TCTTGACATGGTCTTACATGGGATCCTTGCCTTA
* * *
55249089 TAGAACAT-ATCAATGCCATGCCTTGGCATGGTCTTACATG
1 T-GAAC-TCACCAATGCCATGTCTTGACATGGTCTTACATG
55249129 ATAACCTTAT
Statistics
Matches: 192, Mismatches: 41, Indels: 31
0.73 0.16 0.12
Matches are distributed among these distances:
45 5 0.03
46 8 0.04
47 14 0.07
49 8 0.04
50 1 0.01
51 1 0.01
52 8 0.04
53 44 0.23
54 46 0.24
55 51 0.27
56 5 0.03
57 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (53 bp):
TGAACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTA
Found at i:55249028 original size:54 final size:54
Alignment explanation
Indices: 55248828--55249136 Score: 242
Period size: 54 Copynumber: 5.9 Consensus size: 54
55248818 TTTCCTTTTT
* * * * * *
55248828 GAACTTACCATTGCCATGTCTTGACATAGTCTTACGTGGTATCCTTGCCTTAT-
1 GAACTTATCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * * ** *
55248881 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATG
1 GAACTTATCAATGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATA
* * * *
55248935 GTAACTCATCAATGCCATGTCTCGACATGGTCTTACATGATTTCCTTGCCTTATA
1 G-AACTTATCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * * ** *
55248990 GAACTTATCGATGTCATGCCTTGGCATGGTCTTACATGATATCCTTATCTTACCA
1 GAACTTATCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTA-TA
* * ** * *
55249045 -AA--TGTC-ATG---TTCC-AAACATGGTCTTACATGGTATCCTTGTCTTATA
1 GAACTTATCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * *
55249091 GAACATATCAATGCCATGCCTTGGCATGGTCTTACATGATAACCTT
1 GAACTTATCAATGCCATGCCTTGACATGGTCTTACATGATATCCTT
55249137 ATCTTACCAA
Statistics
Matches: 203, Mismatches: 40, Indels: 25
0.76 0.15 0.09
Matches are distributed among these distances:
46 1 0.00
47 28 0.14
48 3 0.01
49 3 0.01
50 3 0.01
51 3 0.01
52 5 0.02
53 46 0.23
54 65 0.32
55 44 0.22
56 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (54 bp):
GAACTTATCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
Found at i:55249068 original size:47 final size:47
Alignment explanation
Indices: 55249014--55249183 Score: 169
Period size: 47 Copynumber: 3.5 Consensus size: 47
55249004 CATGCCTTGG
55249014 CATGGTCTTACATGATATCCTTATCTTACCAAATGTCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTATCTTACCAAATGTCATGTTCCAAA
* * ** * * ***
55249061 CATGGTCTTACATGGTATCCTTGTCTTATAGAACATATCAATGCCATGCCTTGG
1 CATGGTCTTACATGATATCCTTATCTTA-CCAA-ATGTC-ATG---TTCC-AAA
* *
55249115 CATGGTCTTACATGATAACCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTATCTTACCAAATGTCATGTTCCAAA
*
55249162 CATGGTCTTACATGGTATCCTT
1 CATGGTCTTACATGATATCCTT
55249184 GTTGTAACAC
Statistics
Matches: 94, Mismatches: 22, Indels: 14
0.72 0.17 0.11
Matches are distributed among these distances:
47 46 0.49
48 5 0.05
49 4 0.04
50 3 0.03
51 3 0.03
52 3 0.03
53 5 0.05
54 25 0.27
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (47 bp):
CATGGTCTTACATGATATCCTTATCTTACCAAATGTCATGTTCCAAA
Found at i:55249083 original size:101 final size:101
Alignment explanation
Indices: 55248851--55249184 Score: 413
Period size: 101 Copynumber: 3.2 Consensus size: 101
55248841 CCATGTCTTG
* * * *
55248851 ACATAGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAATGCCATGCCTTGGCATGGTCTTA
1 ACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTA
* * * *
55248915 CATGGGACCTTTGCCTTATGGTAACTCATCAATGCCATG-TCTC-G
66 CAT--GA--TAT-CCTTAT-CTTAC-CA--AATGCCATGTTC-CAA
* * * *
55248959 ACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCGATGTCATGCCTTGGCATGGTCTTA
1 ACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTA
*
55249024 CATGATATCCTTATCTTACCAAATGTCATGTTCCAA
66 CATGATATCCTTATCTTACCAAATGCCATGTTCCAA
* *
55249060 ACATGGTCTTACATGGTATCCTTGTCTTATAGAACATATCAATGCCATGCCTTGGCATGGTCTTA
1 ACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTA
*
55249125 CATGATAACCTTATCTTACCAAATGCCATGTTCCAA
66 CATGATATCCTTATCTTACCAAATGCCATGTTCCAA
55249161 ACATGGTCTTACATGGTATCCTTG
1 ACATGGTCTTACATGGTATCCTTG
55249185 TTGTAACACC
Statistics
Matches: 202, Mismatches: 21, Indels: 13
0.86 0.09 0.06
Matches are distributed among these distances:
100 9 0.04
101 119 0.59
102 2 0.01
103 3 0.01
104 6 0.03
105 2 0.01
107 2 0.01
108 26 0.13
109 33 0.16
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (101 bp):
ACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTA
CATGATATCCTTATCTTACCAAATGCCATGTTCCAA
Found at i:55250761 original size:68 final size:63
Alignment explanation
Indices: 55250555--55250776 Score: 205
Period size: 67 Copynumber: 3.4 Consensus size: 63
55250545 CATAATTTTG
* * *
55250555 GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGTGACCTAG-CCACTTTATCTCGTA
1 GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGCGACCTAGTAC-CTCTATCTCGTA
** * * * * * * * *
55250618 GCTCTCTTGTTTACATGGTGTCCTTCACCTGGAACCACACATGCAACCTAGCTACATCTATCTCG
1 GCTCTCTTGTACACATGGTG---TACACATAGTATCACCCATGCGACCTAG-TACCTCTATCTCG
55250683 TA
62 TA
55250685 GCTCTCTTGT-CTACATGGTGTACACATAGTATCACCCATGCGACCTAGTTACCTCATAAAGTCT
1 GCTCTCTTGTAC-ACATGGTGTACACATAGTATCACCCATGCGACCTAG-TACCTC-T--A-TCT
55250749 CGTA
60 CGTA
*
55250753 GCTCTCTTGTACACATGGTATACA
1 GCTCTCTTGTACACATGGTGTACA
55250777 TCCCGTATTA
Statistics
Matches: 124, Mismatches: 24, Indels: 17
0.75 0.15 0.10
Matches are distributed among these distances:
63 18 0.15
64 26 0.21
65 1 0.01
66 20 0.16
67 29 0.23
68 29 0.23
69 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.32
Consensus pattern (63 bp):
GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGCGACCTAGTACCTCTATCTCGTA
Found at i:55252418 original size:47 final size:47
Alignment explanation
Indices: 55252346--55252478 Score: 146
Period size: 45 Copynumber: 2.9 Consensus size: 47
55252336 TGTCTTAGTC
** * *
55252346 CCAATGCCACATCTTGATC-TGGTCTTACATGGAATCCTTAATCAATG
1 CCAATGCCATGTCTTGA-CATGGTCTTACATGGAATCCTTAAGCAATA
* * * **
55252393 CCGATGCCATGTCTTGACATGGTCTTACAGGGGATCCTT--GCCTTA
1 CCAATGCCATGTCTTGACATGGTCTTACATGGAATCCTTAAGCAATA
*
55252438 CCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTAA
1 CCAATGCCATGTCTTGACATGGTCTTACATGGAATCCTTAA
55252479 CTGTCAATTC
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
45 38 0.54
46 1 0.01
47 32 0.45
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (47 bp):
CCAATGCCATGTCTTGACATGGTCTTACATGGAATCCTTAAGCAATA
Found at i:55252530 original size:44 final size:44
Alignment explanation
Indices: 55252481--55252565 Score: 118
Period size: 44 Copynumber: 1.9 Consensus size: 44
55252471 ATCCTTAACT
* *
55252481 GTCAATTCCTCCTTAAATGCCATGTTATGAA-CATGGACTTTTCC
1 GTCAATTCCTCCTTAAATGCCATGGTA-CAACCATGGACTTTTCC
* *
55252525 GTCAATTCTTCCTTAATTGCCATGGTACAACCATGGACTTT
1 GTCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTT
55252566 GAGATATCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
43 2 0.06
44 34 0.94
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (44 bp):
GTCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTTTCC
Found at i:55256438 original size:40 final size:40
Alignment explanation
Indices: 55256357--55256573 Score: 332
Period size: 40 Copynumber: 5.5 Consensus size: 40
55256347 AAACCAAGTA
* ** * *
55256357 CCTTCGGGATTTAG-CTAGATATAGCT-ACTCGCTCAACTG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
55256396 CCTTCGGGACTTAGCCCGGATATGGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
55256436 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
55256476 CCTTCGGAACTTAGCCCGGATATAGTAA-TCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
55256515 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
55256555 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
55256574 TTATCATCCG
Statistics
Matches: 165, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
39 52 0.32
40 113 0.68
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:55256517 original size:79 final size:80
Alignment explanation
Indices: 55256357--55256573 Score: 332
Period size: 79 Copynumber: 2.7 Consensus size: 80
55256347 AAACCAAGTA
* ** * * *
55256357 CCTTCGGGATTTAG-CTAGATATAGCT-ACTCGCTCAACTGCCTTCGGGACTTAGCCCGGATATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATA
55256420 GTAACTCGCACAAATG
65 GTAACTCGCACAAATG
*
55256436 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGAACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
55256501 TAA-TCGCACAAATG
66 TAACTCGCACAAATG
*
55256515 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
55256574 TTATCATCCG
Statistics
Matches: 127, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
79 82 0.65
80 45 0.35
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TAACTCGCACAAATG
Found at i:55264402 original size:40 final size:40
Alignment explanation
Indices: 55264332--55264509 Score: 297
Period size: 40 Copynumber: 4.5 Consensus size: 40
55264322 AAACCAAGTA
* * *
55264332 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAACTG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
55264371 CCTTCGGGACTTAGCCCGGATATGGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
55264411 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
55264451 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
55264491 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
55264510 TTATCATCCG
Statistics
Matches: 132, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 14 0.11
40 118 0.89
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:55270125 original size:23 final size:24
Alignment explanation
Indices: 55270079--55270125 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
55270069 ATACACGGAT
*
55270079 TCCAACCCAAACACACCAGTAATA
1 TCCAACCAAAACACACCAGTAATA
*
55270103 TCCAACCAAAACGCACCAG-AATA
1 TCCAACCAAAACACACCAGTAATA
55270126 ATCATGTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.47, C:0.36, G:0.06, T:0.11
Consensus pattern (24 bp):
TCCAACCAAAACACACCAGTAATA
Found at i:55270666 original size:46 final size:46
Alignment explanation
Indices: 55270613--55270868 Score: 377
Period size: 46 Copynumber: 5.6 Consensus size: 46
55270603 TGCTATAGTG
* * ** * *
55270613 TCTTTCAACTATGGTCTTACTCATTTTTTGTCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTA
** * *
55270659 TCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTA
55270705 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTA
* *
55270751 TTTTTCAACCATGGTCTTACACACTTCATATCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTA
* * *
55270797 TCTTTCATCCATGGTCTTACACATTTCATATCTTGTTGTCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTA
55270843 TCTTTCAACCATGGTCTTACACATTT
1 TCTTTCAACCATGGTCTTACACATTT
55270869 GAATCTCGAT
Statistics
Matches: 193, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 193 1.00
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTA
Found at i:55270907 original size:45 final size:45
Alignment explanation
Indices: 55270843--55270958 Score: 153
Period size: 45 Copynumber: 2.6 Consensus size: 45
55270833 TGTCATGGTA
* * *
55270843 TCTTTCAACCATGGTCTTACACATTTGAATC-TCGATACCATAGCG
1 TCTTTCAGCTATGGTCTTACTCATTTGAATCGT-GATACCATAGCG
* * *
55270888 TCTTTCAGCTATGGTCTTACTCGTCTGAATCGTGATGCCATAGCG
1 TCTTTCAGCTATGGTCTTACTCATTTGAATCGTGATACCATAGCG
*
55270933 TCTCTCAGCTATGGTCTTACTCATTT
1 TCTTTCAGCTATGGTCTTACTCATTT
55270959 CTAGTATGAT
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 60 0.98
46 1 0.02
ACGTcount: A:0.21, C:0.26, G:0.16, T:0.37
Consensus pattern (45 bp):
TCTTTCAGCTATGGTCTTACTCATTTGAATCGTGATACCATAGCG
Found at i:55273679 original size:23 final size:23
Alignment explanation
Indices: 55273620--55273679 Score: 56
Period size: 23 Copynumber: 2.7 Consensus size: 23
55273610 ATATATACGC
55273620 TAAAT-AA-AATAA-TAAAATAA
1 TAAATAAATAATAATTAAAATAA
* * *
55273640 T-AATAAATACCTTATTAAAATAT
1 TAAATAAATA-ATAATTAAAATAA
55273663 TAAATAAATAATAATTA
1 TAAATAAATAATAATTA
55273680 TCTAATTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
19 3 0.10
20 3 0.10
21 1 0.03
22 2 0.07
23 13 0.43
24 8 0.27
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (23 bp):
TAAATAAATAATAATTAAAATAA
Found at i:55273688 original size:31 final size:31
Alignment explanation
Indices: 55273614--55273689 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 31
55273604 ACACATATAT
*
55273614 ATACGCTAAATAAAATAATAAAATAATAATAA
1 ATAC-CTAATTAAAATAATAAAATAATAATAA
* *
55273646 ATACCTTATTAAAAT-ATTAAATAAATAATAA
1 ATACCTAATTAAAATAATAAAAT-AATAATAA
* *
55273677 TTATCTAATTAAA
1 ATACCTAATTAAA
55273690 TAACTATAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
30 6 0.16
31 27 0.73
32 4 0.11
ACGTcount: A:0.59, C:0.07, G:0.01, T:0.33
Consensus pattern (31 bp):
ATACCTAATTAAAATAATAAAATAATAATAA
Found at i:55275264 original size:55 final size:53
Alignment explanation
Indices: 55275139--55275327 Score: 236
Period size: 55 Copynumber: 3.5 Consensus size: 53
55275129 AACTTACCAT
* * *
55275139 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAACTCATCAA
* *
55275192 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AACTCATCAA
* * * * *
55275247 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCGA
1 TGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAACTCATCAA
*
55275301 TGCCATGCCTTGGCATGGTCTTACATG
1 TGCCATGCCTTGACATGGTCTTACATG
55275328 ATATCCTTAT
Statistics
Matches: 118, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
52 2 0.02
53 35 0.30
54 34 0.29
55 45 0.38
56 2 0.02
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.35
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAACTCATCAA
Found at i:55275370 original size:37 final size:37
Alignment explanation
Indices: 55275323--55275403 Score: 135
Period size: 37 Copynumber: 2.2 Consensus size: 37
55275313 GCATGGTCTT
*
55275323 ACATGATATCCTTATCTTACCAAATGCCATGTTCCAA
1 ACATGGTATCCTTATCTTACCAAATGCCATGTTCCAA
* *
55275360 ACATGGTATCCTTGTCTTACCAAATGCTATGTTCCAA
1 ACATGGTATCCTTATCTTACCAAATGCCATGTTCCAA
55275397 ACATGGT
1 ACATGGT
55275404 CTTACATGGT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (37 bp):
ACATGGTATCCTTATCTTACCAAATGCCATGTTCCAA
Found at i:55275614 original size:44 final size:44
Alignment explanation
Indices: 55275565--55275648 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
55275555 TCCTTAACCA
* *
55275565 TCAATTCCTCCTTAAATGCCATGTTATGAA-CATGGACTTTTCTG
1 TCAATTCCTCCTTAAATGCCATGGTA-CAACCATGGACTTTTCTG
* *
55275609 TCAATTCTTCCTTAATTGCCATGGTACAACCATGGACTTT
1 TCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTT
55275649 GAGATATCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 2 0.06
44 33 0.94
ACGTcount: A:0.25, C:0.24, G:0.13, T:0.38
Consensus pattern (44 bp):
TCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTTTCTG
Found at i:55278366 original size:46 final size:46
Alignment explanation
Indices: 55278313--55278485 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
55278303 TGGTTGAGCA
*
55278313 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
55278359 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
55278406 TCCGAACTCATTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
55278452 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
55278486 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 59 0.57
47 27 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:55278469 original size:93 final size:93
Alignment explanation
Indices: 55278310--55278480 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
55278300 GGATGGTTGA
* * * *
55278310 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
55278375 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
55278403 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
55278468 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
55278481 ACTTAGGGGC
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:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:55278747 original size:19 final size:20
Alignment explanation
Indices: 55278710--55278747 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
55278700 ATAAGATGGT
55278710 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
55278730 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
55278748 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:55283842 original size:40 final size:40
Alignment explanation
Indices: 55283768--55283989 Score: 358
Period size: 40 Copynumber: 5.6 Consensus size: 40
55283758 AACCCAAGTA
* *
55283768 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* * *
55283807 CCTTCAGGTCTTAGCTCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
55283847 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
55283887 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
55283927 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
55283967 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
55283990 CATTCGAATA
Statistics
Matches: 170, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 11 0.06
40 156 0.92
41 3 0.02
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:55292173 original size:40 final size:40
Alignment explanation
Indices: 55292099--55292320 Score: 376
Period size: 40 Copynumber: 5.6 Consensus size: 40
55292089 AACCCAAGTA
* *
55292099 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
*
55292138 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
55292178 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
55292218 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
55292258 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
55292298 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
55292321 CATTCGAATA
Statistics
Matches: 174, Mismatches: 7, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
39 12 0.07
40 159 0.91
41 3 0.02
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:55296879 original size:54 final size:54
Alignment explanation
Indices: 55296683--55296991 Score: 264
Period size: 54 Copynumber: 5.9 Consensus size: 54
55296673 TTTCCTTTTT
* * * * *
55296683 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* *
55296736 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATTG-GA-CCTTTGCCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACA-TGATATCC-TTGCCTTATA
* * * *
55296790 GTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCTTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * * * **
55296845 GAACTTATCAATGCCATGCCTTGGCATGATCTTACATGATATCCTTATC-T-T-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* ** * *
55296896 --AC-CA--AATGCAATGTTCC-AAACATGGTCTTACATGGTATCCTTGTCTTATA
1 GAACTCACCAATGCCATG--CCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * *
55296946 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTT
55296992 ATCTTACGAA
Statistics
Matches: 205, Mismatches: 34, Indels: 33
0.75 0.12 0.12
Matches are distributed among these distances:
46 8 0.04
47 22 0.11
48 4 0.02
49 3 0.01
52 5 0.02
53 45 0.22
54 66 0.32
55 50 0.24
56 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
Found at i:55296928 original size:47 final size:47
Alignment explanation
Indices: 55296869--55297091 Score: 205
Period size: 47 Copynumber: 4.6 Consensus size: 47
55296859 CATGCCTTGG
* * *
55296869 CATGATCTTACATGATATCCTTATCTTACCAAATGCAATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACAAAATGCAATGTTCCAAA
* * * ***
55296916 CATGGTCTTACATGGTATCCTTGTCTTATAGAACTTAT-CAATGCCATGCCTTGG
1 CATGGTCTTACATGGTATCCTTATCTTACA-AA---ATGCAATG---TTCC-AAA
* * *
55296970 CATGGTCTTACATGATATCCTTATCTTACGAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACAAAATGCAATGTTCCAAA
* * * *
55297017 CATGATCTTACATGGTATCCTTGTCTTACAAAATGCCATGTTCCACA
1 CATGGTCTTACATGGTATCCTTATCTTACAAAATGCAATGTTCCAAA
* *
55297064 CATCGTCTTAAATGGTATCCTTATCTTA
1 CATGGTCTTACATGGTATCCTTATCTTA
55297092 ATGCCAATGC
Statistics
Matches: 140, Mismatches: 27, Indels: 18
0.76 0.15 0.10
Matches are distributed among these distances:
47 91 0.65
48 5 0.04
50 7 0.05
51 6 0.04
53 5 0.04
54 26 0.19
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTATCTTACAAAATGCAATGTTCCAAA
Found at i:55297040 original size:101 final size:101
Alignment explanation
Indices: 55296706--55297044 Score: 423
Period size: 101 Copynumber: 3.3 Consensus size: 101
55296696 CCATGTCTTG
* * * *
55296706 ACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAATGCCATGCCTTGGCATGGTCTTA
1 ACATGGTCTTACATGGTATCCTTGTCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTA
* * * ***
55296770 CATTGGACCTTTGCCTTATAGTAACTCATCAATGCCATG-TCTTG
66 CA-T-GA--TAT-CCTTAT-CTTAC-CA--AATGCCATGTTCCAA
* * *
55296814 ACATGGTCTTACATGATTTCCTTG-CTTTATAGAACTTATCAATGCCATGCCTTGGCATGATCTT
1 ACATGGTCTTACATGGTATCCTTGTC-TTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTT
*
55296878 ACATGATATCCTTATCTTACCAAATGCAATGTTCCAA
65 ACATGATATCCTTATCTTACCAAATGCCATGTTCCAA
55296915 ACATGGTCTTACATGGTATCCTTGTCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTA
1 ACATGGTCTTACATGGTATCCTTGTCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTA
*
55296980 CATGATATCCTTATCTTACGAAATGCCATGTTCCAA
66 CATGATATCCTTATCTTACCAAATGCCATGTTCCAA
*
55297016 ACATGATCTTACATGGTATCCTTGTCTTA
1 ACATGGTCTTACATGGTATCCTTGTCTTA
55297045 CAAAATGCCA
Statistics
Matches: 208, Mismatches: 19, Indels: 15
0.86 0.08 0.06
Matches are distributed among these distances:
100 8 0.04
101 124 0.60
102 3 0.01
103 3 0.01
104 6 0.03
105 2 0.01
107 3 0.01
108 26 0.12
109 33 0.16
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.36
Consensus pattern (101 bp):
ACATGGTCTTACATGGTATCCTTGTCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTA
CATGATATCCTTATCTTACCAAATGCCATGTTCCAA
Found at i:55310449 original size:46 final size:49
Alignment explanation
Indices: 55310314--55310579 Score: 206
Period size: 46 Copynumber: 5.7 Consensus size: 49
55310304 GGGGTAAGGT
* * * *
55310314 GCCGATGTCATGTCCTAGACATGGTCTTACACTGG-ATATCATCT-TTGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTA-CATCTCGT-AG
* *
55310363 GCCGATGCCATGTCCCAGGCATGGTCTTACACTGAC--ACATCTCGTA-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGTAG
* *
55310409 GTCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATCCCG-AG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGTAG
* * * * *
55310455 GCCGATG-CATGTCCCAGAC-TTGTCTTACACTGGCACT-CGTCTC-AAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TTACATCTCGTAG
* * * *
55310501 GTCGATGCCATATCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GCA-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TACAT-CTCGTAG
*
55310549 GCCGATG-CATGTCTCAGACAT-GTCTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
55310580 AGCCCACAAT
Statistics
Matches: 180, Mismatches: 24, Indels: 29
0.77 0.10 0.12
Matches are distributed among these distances:
44 12 0.07
45 15 0.08
46 65 0.36
47 30 0.17
48 25 0.14
49 33 0.18
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (49 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGTAG
Found at i:55310553 original size:94 final size:90
Alignment explanation
Indices: 55310316--55310579 Score: 266
Period size: 94 Copynumber: 2.8 Consensus size: 90
55310306 GGTAAGGTGC
* * **
55310316 CGATGTCATGTCCTAGACATGGTCTTACACTGGATATCATCTTTGAGGCCGATGCCATGTCCCAG
1 CGATG-CATGTCCCAGACATGGTCTTACACTGGCT-TCAT-AATGAGGCCGATG-CATGTCCCAG
* *
55310381 GCATGGTCTTACACTGACACATCTCGTAGT
62 AC-TTGTCTTACACTGACACATCTCGTAGT
***
55310411 CGATGCATGTCCCAGACAT-GTCTTACACTGGCTTACATCCCGAGGCCGATGCATGTCCCAGACT
1 CGATGCATGTCCCAGACATGGTCTTACACTGGCTT-CATAATGAGGCCGATGCATGTCCCAGACT
*
55310475 TGTCTTACACTGGCAC-TCGTC-TCAATGT
65 TGTCTTACACTGACACATC-TCGT--A-GT
* *
55310503 CGATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATAATGCA-GCCGATGCATGTCTCAGA
1 CGATG-CATGTCCCAGACATGGTCTTACACTGGCT-TCATAATG-AGGCCGATGCATGTCCCAGA
*
55310567 CATGTCTTACACT
63 CTTGTCTTACACT
55310580 AGCCCACAAT
Statistics
Matches: 146, Mismatches: 14, Indels: 19
0.82 0.08 0.11
Matches are distributed among these distances:
89 3 0.02
90 17 0.12
91 12 0.08
92 18 0.12
93 29 0.20
94 60 0.41
95 7 0.05
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.28
Consensus pattern (90 bp):
CGATGCATGTCCCAGACATGGTCTTACACTGGCTTCATAATGAGGCCGATGCATGTCCCAGACTT
GTCTTACACTGACACATCTCGTAGT
Found at i:55314810 original size:40 final size:39
Alignment explanation
Indices: 55314719--55314832 Score: 131
Period size: 40 Copynumber: 2.8 Consensus size: 39
55314709 ATAAGCATGT
* * * *
55314719 GCACAAATGCCTTCGGGTCTTAGCCTGGATAGAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACGACTA
*
55314759 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCG-CTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATA-ACGACTA
*
55314799 GCACAATTGCCTTCGGGTCTTAACCCGGATATAA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAA
55314833 TTTCCAGCAT
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
39 2 0.03
40 61 0.95
41 1 0.02
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.25
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACGACTA
Found at i:55314847 original size:40 final size:40
Alignment explanation
Indices: 55314719--55314870 Score: 130
Period size: 40 Copynumber: 3.8 Consensus size: 40
55314709 ATAAGCATGT
* * * *
55314719 GCACAAATGCCTTCGGGTCTTAGCCTGGATAGAA-TGACTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACCG-C-CA
* *
55314759 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCGCTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACCGCCA
* ***
55314799 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACCGCCA
* * * *
55314839 GCATAATTGTCTTTGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
55314871 CATTCAATTT
Statistics
Matches: 92, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
39 2 0.02
40 87 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACCGCCA
Found at i:55318502 original size:13 final size:13
Alignment explanation
Indices: 55318484--55318509 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
55318474 ACAAATCATT
55318484 TCTTTAAAACCCA
1 TCTTTAAAACCCA
55318497 TCTTTAAAACCCA
1 TCTTTAAAACCCA
55318510 AATCCACAGC
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:0.38, C:0.31, G:0.00, T:0.31
Consensus pattern (13 bp):
TCTTTAAAACCCA
Found at i:55330945 original size:39 final size:39
Alignment explanation
Indices: 55330827--55331009 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
55330817 TCGTTCAAAC
* * ** * **
55330827 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
55330867 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
*
55330907 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
55330946 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
55330985 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
55331010 CTCGAACATT
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:55338377 original size:39 final size:39
Alignment explanation
Indices: 55338259--55338441 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
55338249 TCGTTCAAAC
* * ** * **
55338259 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
55338299 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
*
55338339 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
55338378 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
55338417 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
55338442 CTCGAACATT
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:55342363 original size:29 final size:29
Alignment explanation
Indices: 55342330--55342461 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
55342320 GTGACGAGAT
55342330 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
55342359 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
55342388 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
55342417 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
55342446 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
55342462 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:55350211 original size:29 final size:29
Alignment explanation
Indices: 55350178--55350309 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
55350168 GTGACGAGAT
55350178 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* *
55350207 TGGCACTAAGTGTGCATGCTGGGAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
55350236 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
55350265 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
55350294 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
55350310 AAATCGAGTA
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 2 0.02
29 84 0.98
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:55355401 original size:95 final size:95
Alignment explanation
Indices: 55355174--55355375 Score: 287
Period size: 95 Copynumber: 2.1 Consensus size: 95
55355164 AAGTATAGGA
* * * **
55355174 CAGTTAATCTACATTAATGTGAAACTATTCACGATTTGATTATATGACAGTTTATCTGTGACTCT
1 CAGTTTATCTACATTAATGTGACACTAATCACGATTTGATTATATGACAGTTTATCTACGACTCT
*
55355239 GATGGCTTGTCCATGATTTTGTTTATGTGG
66 GATGGCTTGTCCATGATTTTGATTATGTGG
* * ** *
55355269 CAGTTTATTTGCATTAATGTGACACTAATCACGATTTGATTATATGGGAGTTTATGTACGACTCT
1 CAGTTTATCTACATTAATGTGACACTAATCACGATTTGATTATATGACAGTTTATCTACGACTCT
* *
55355334 GGTGGCTTGTGCATGATTTTGATTATGTGG
66 GATGGCTTGTCCATGATTTTGATTATGTGG
55355364 CAGTTTATCTAC
1 CAGTTTATCTAC
55355376 GTTGCTGTGA
Statistics
Matches: 92, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
95 92 1.00
ACGTcount: A:0.24, C:0.13, G:0.21, T:0.42
Consensus pattern (95 bp):
CAGTTTATCTACATTAATGTGACACTAATCACGATTTGATTATATGACAGTTTATCTACGACTCT
GATGGCTTGTCCATGATTTTGATTATGTGG
Found at i:55359096 original size:49 final size:48
Alignment explanation
Indices: 55359043--55359137 Score: 147
Period size: 49 Copynumber: 2.0 Consensus size: 48
55359033 ACATCTTCAT
55359043 ATATCAAT-CTCATAGCCCAGCTATAGTCTTACACGTAATCACATATCAC
1 ATATCAATGC-CATAGCCCAGCTATAGTCTTACACG-AATCACATATCAC
* *
55359092 ATATCGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATC
1 ATATCAATGCCATAGCCCAGCTATAGTCTTACACGAATCACATATC
55359138 TCACTGATGC
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
48 11 0.26
49 31 0.72
50 1 0.02
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.27
Consensus pattern (48 bp):
ATATCAATGCCATAGCCCAGCTATAGTCTTACACGAATCACATATCAC
Found at i:55359197 original size:47 final size:46
Alignment explanation
Indices: 55359053--55359219 Score: 154
Period size: 47 Copynumber: 3.5 Consensus size: 46
55359043 ATATCAATCT
* * * * * *
55359053 CATAGCCCAGCTATAGTCTTACACGTAATCACATATCACATATCGATGC
1 CATACCCCAGATATGGTCTTATACG-AAGCACATATCAC--ACCGATGC
* * * * * *
55359102 CATAGCCCAGCTATGGTCTTACACGAATCACATATCTCACTGATGC
1 CATACCCCAGATATGGTCTTATACGAAGCACATATCACACCGATGC
* * * *
55359148 CATATCCCAGATAAGGTCTTATACAGTAGCATATATCACACCGATGC
1 CATACCCCAGATATGGTCTTATAC-GAAGCACATATCACACCGATGC
55359195 CATACCCCAGATATGGTCTTATACG
1 CATACCCCAGATATGGTCTTATACG
55359220 GAAATCACTT
Statistics
Matches: 102, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
46 27 0.26
47 39 0.38
48 12 0.12
49 24 0.24
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.26
Consensus pattern (46 bp):
CATACCCCAGATATGGTCTTATACGAAGCACATATCACACCGATGC
Found at i:55359280 original size:31 final size:31
Alignment explanation
Indices: 55359241--55359385 Score: 218
Period size: 31 Copynumber: 4.7 Consensus size: 31
55359231 TCAGTTGTAA
*
55359241 CCGAAGCTACCACTATTCACTGATCAGGTAG
1 CCGAAGCTACCACTTTTCACTGATCAGGTAG
* *
55359272 CCGGAGCTACCATTTTTCACTGATCAGGTAG
1 CCGAAGCTACCACTTTTCACTGATCAGGTAG
* *
55359303 TCGAAGCTACCATTTTTCACTGATCAGGTAG
1 CCGAAGCTACCACTTTTCACTGATCAGGTAG
** *
55359334 TAGAAGCTACCACTTTTCACTAATCAGGTAG
1 CCGAAGCTACCACTTTTCACTGATCAGGTAG
55359365 CCGAAGCTACCACTTTTCACT
1 CCGAAGCTACCACTTTTCACT
55359386 TGTCATTTGT
Statistics
Matches: 104, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 104 1.00
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (31 bp):
CCGAAGCTACCACTTTTCACTGATCAGGTAG
Found at i:55359464 original size:50 final size:51
Alignment explanation
Indices: 55359361--55359489 Score: 197
Period size: 50 Copynumber: 2.5 Consensus size: 51
55359351 CACTAATCAG
* * * * *
55359361 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTATCCTTGATCAAATAAGT
*
55359412 GTAGCCGAAGCTATTACTTATCACTT-TCACTTATCCTTGATCAAATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTATCCTTGATCAAATAAGT
55359462 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
55359490 TGCCATGGTC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
50 46 0.66
51 24 0.34
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCACTTATCCTTGATCAAATAAGT
Found at i:55366063 original size:12 final size:12
Alignment explanation
Indices: 55366044--55366077 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
55366034 AGTATTTTTT
55366044 TAAAAAATTATA
1 TAAAAAATTATA
* *
55366056 TAATAAATAATA
1 TAAAAAATTATA
55366068 TAAAAAATTA
1 TAAAAAATTA
55366078 ATACGGCTGG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
TAAAAAATTATA
Found at i:55367738 original size:12 final size:13
Alignment explanation
Indices: 55367721--55367750 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
55367711 AAATAACAAC
55367721 TAAAAATCAAATT
1 TAAAAATCAAATT
55367734 TAAAAATCAAATT
1 TAAAAATCAAATT
55367747 TAAA
1 TAAA
55367751 CTATTTATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (13 bp):
TAAAAATCAAATT
Found at i:55368436 original size:116 final size:115
Alignment explanation
Indices: 55368231--55368441 Score: 350
Period size: 116 Copynumber: 1.8 Consensus size: 115
55368221 TCAATATATA
* * *
55368231 CTTTTTTTTTTTACATATTTGAGACATAGTCAAACCTTTTTACACGAAATGAGATGACAACCCAA
1 CTTTTTTTTTTAACATATTTGAGACATAGTCAAACCTTTTTACACAAAATAAGATGACAACCCAA
55368296 GCACCTCACCTCAGTTACTCAATTTGACATTTATTTTTTCACTTTTTCCC
66 GCACCTCACCTCAGTTACTCAATTTGACATTTATTTTTTCACTTTTTCCC
* ** *
55368346 CTTTTTTTTTTAAACATATTTGAGACATAGTCAAATCTTTTTATGCAAAATAAGATGACAACTCA
1 CTTTTTTTTTT-AACATATTTGAGACATAGTCAAACCTTTTTACACAAAATAAGATGACAACCCA
55368411 AGCACCTCACCTCAGTTACTCAATTTGACAT
65 AGCACCTCACCTCAGTTACTCAATTTGACAT
55368442 ATCCATAAGC
Statistics
Matches: 88, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
115 11 0.12
116 77 0.88
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.38
Consensus pattern (115 bp):
CTTTTTTTTTTAACATATTTGAGACATAGTCAAACCTTTTTACACAAAATAAGATGACAACCCAA
GCACCTCACCTCAGTTACTCAATTTGACATTTATTTTTTCACTTTTTCCC
Found at i:55369002 original size:9 final size:9
Alignment explanation
Indices: 55368990--55369015 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
55368980 TAACAAGTAA
55368990 ATTATTTTT
1 ATTATTTTT
55368999 ATTATTTTT
1 ATTATTTTT
55369008 ATTATTTT
1 ATTATTTT
55369016 AATGTTTATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (9 bp):
ATTATTTTT
Found at i:55372376 original size:96 final size:96
Alignment explanation
Indices: 55372212--55372398 Score: 313
Period size: 96 Copynumber: 1.9 Consensus size: 96
55372202 ATGTATCGTA
* * * *
55372212 CCAATGCCATGTCTCAGACATGGTCTTACACTAGCTCTTATATCGTGGCTGATGCCATGTCTCAG
1 CCAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCGTGGCTGATGACATGTCCCAG
55372277 ACATGGTCTTACACTAGCAT-ACATATCAATG
66 ACATGGTCTTACACTAGC-TCACATATCAATG
*
55372308 CCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGTGGCTGATGACATGTCCCAG
1 CCAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCGTGGCTGATGACATGTCCCAG
55372373 ACATGGTCTTACACTAGCTCACATAT
66 ACATGGTCTTACACTAGCTCACATAT
55372399 TGCCATGGTC
Statistics
Matches: 85, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
95 1 0.01
96 84 0.99
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (96 bp):
CCAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCGTGGCTGATGACATGTCCCAG
ACATGGTCTTACACTAGCTCACATATCAATG
Found at i:55372398 original size:48 final size:48
Alignment explanation
Indices: 55372215--55372398 Score: 246
Period size: 48 Copynumber: 3.8 Consensus size: 48
55372205 TATCGTACCA
* **
55372215 ATGCCATGTCTCAGACATGGTCTTACACTAGCTCTTATATCGTGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGTGGCTG
* * **
55372263 ATGCCATGTCTCAGACATGGTCTTACACTAGCAT-ACATATCAAT-GCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGC-TCACATATC-GTGGCTG
* *
55372311 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGTGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGTGGCTG
*
55372359 ATGACATGTCCCAGACATGGTCTTACACTAGCTCACATAT
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAT
55372399 TGCCATGGTC
Statistics
Matches: 118, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
47 2 0.02
48 114 0.97
49 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.29
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGTGGCTG
Found at i:55373472 original size:32 final size:32
Alignment explanation
Indices: 55373433--55373560 Score: 211
Period size: 32 Copynumber: 4.0 Consensus size: 32
55373423 CATAAAAAAT
* *
55373433 ATCATACATTTGTTTTACATATAAAAAAGTAA
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
* *
55373465 ATCATACATTAGGTTTACATATAAAAAAGTTG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
*
55373497 ATCATACATTAGTTTTGCATATAAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
55373529 ATCATACATTAGTTTTACATATAAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
55373561 TATAGTTAGA
Statistics
Matches: 88, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 88 1.00
ACGTcount: A:0.45, C:0.09, G:0.10, T:0.35
Consensus pattern (32 bp):
ATCATACATTAGTTTTACATATAAAAAAGTAG
Found at i:55379178 original size:46 final size:46
Alignment explanation
Indices: 55379111--55379286 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
55379101 TGTAACCCGC
*
55379111 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* *
55379157 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCG---GAC--GTTCGCAT
* * * *
55379207 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
*
55379250 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
55379287 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 3 0.03
45 2 0.02
46 64 0.58
47 26 0.23
48 2 0.02
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
Found at i:55379231 original size:93 final size:93
Alignment explanation
Indices: 55379119--55379289 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
55379109 GCCCATAAGT
* *
55379119 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
55379184 CGAGCTCGAATGCCTAGTTACATCTCAC
66 CGAGCTCGAATGCCTAGTTACATCTCAC
*
55379212 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
55379277 CGAGTTCGGATGC
66 CGAGCTCGAATGC
55379290 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGAATGCCTAGTTACATCTCAC
Found at i:55379740 original size:30 final size:30
Alignment explanation
Indices: 55379706--55379765 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
55379696 ATTTAATACG
55379706 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * * * *
55379736 AACTTTTGCATATTTACATTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
55379766 GGCTCGGGAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.40
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:55381799 original size:20 final size:19
Alignment explanation
Indices: 55381774--55381813 Score: 71
Period size: 20 Copynumber: 2.1 Consensus size: 19
55381764 TGGTAAATAA
55381774 ATTATTTTCTTGATCACTTT
1 ATTATTTTCTTGATCA-TTT
55381794 ATTATTTTCTTGATCATTT
1 ATTATTTTCTTGATCATTT
55381813 A
1 A
55381814 GCACAGGAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.23, C:0.12, G:0.05, T:0.60
Consensus pattern (19 bp):
ATTATTTTCTTGATCATTT
Found at i:55381900 original size:5 final size:5
Alignment explanation
Indices: 55381890--55381933 Score: 70
Period size: 5 Copynumber: 8.8 Consensus size: 5
55381880 AGCTACAATC
* *
55381890 ATTAG ATTAG ATTAA ATTAG ATTAG ATTAG AATAG ATTAG ATTA
1 ATTAG ATTAG ATTAG ATTAG ATTAG ATTAG ATTAG ATTAG ATTA
55381934 CATGTTTATC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.45, C:0.00, G:0.16, T:0.39
Consensus pattern (5 bp):
ATTAG
Found at i:55387515 original size:35 final size:31
Alignment explanation
Indices: 55387469--55387557 Score: 112
Period size: 29 Copynumber: 2.8 Consensus size: 31
55387459 TTTGGTACCT
55387469 ATACAAGTAGAAATCTCAATGTTAAGCACAGACCC
1 ATACAAGTAGAAATCTCAATGTT-AG--CA-ACCC
55387504 ATACAAGTAGAAATCTC-A-GCTT-GCAACCC
1 ATACAAGTAGAAATCTCAATG-TTAGCAACCC
55387533 ATACAAGTAGAAATCTCAATGTTAG
1 ATACAAGTAGAAATCTCAATGTTAG
55387558 GTATAGACCC
Statistics
Matches: 50, Mismatches: 0, Indels: 12
0.81 0.00 0.19
Matches are distributed among these distances:
29 21 0.42
30 5 0.10
31 2 0.04
32 1 0.02
33 1 0.02
34 3 0.06
35 17 0.34
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.22
Consensus pattern (31 bp):
ATACAAGTAGAAATCTCAATGTTAGCAACCC
Found at i:55387766 original size:35 final size:35
Alignment explanation
Indices: 55387727--55387798 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 35
55387717 GAGGAGTTGA
* *
55387727 CACAGCTTATAGCAGAGGTATTTCTTCCTCGTTAT
1 CACAGCTTACAGAAGAGGTATTTCTTCCTCGTTAT
*
55387762 CACAGCTTGCAGAAGAGGTATTTCTTCCTCGTTAT
1 CACAGCTTACAGAAGAGGTATTTCTTCCTCGTTAT
55387797 CA
1 CA
55387799 GCAGAATTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.35
Consensus pattern (35 bp):
CACAGCTTACAGAAGAGGTATTTCTTCCTCGTTAT
Done.