Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 192 of 410
Found at i:58620412 original size:47 final size:47
Alignment explanation
Indices: 58620331--58620444 Score: 115
Period size: 47 Copynumber: 2.4 Consensus size: 47
58620321 TTAATCGAAA
* * * * *
58620331 CAATACATATATTCAAAATTAGTCGTAATCATTTCCAAAT-ATAGAA-T
1 CAATACAGATATACAAAATCAGACATAATCATTT-CAAATAAT-GAAGT
* *
58620378 CAATACAGATATACAAAATCAGACATAATTATTTCGAATAATGAAGT
1 CAATACAGATATACAAAATCAGACATAATCATTTCAAATAATGAAGT
* *
58620425 CAATACAGATGTACAGAATC
1 CAATACAGATATACAAAATC
58620445 GAACACACTT
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
46 7 0.12
47 49 0.88
ACGTcount: A:0.46, C:0.15, G:0.10, T:0.29
Consensus pattern (47 bp):
CAATACAGATATACAAAATCAGACATAATCATTTCAAATAATGAAGT
Found at i:58622348 original size:56 final size:56
Alignment explanation
Indices: 58622262--58622374 Score: 208
Period size: 56 Copynumber: 2.0 Consensus size: 56
58622252 GTCGAAGCCA
58622262 TTCTATATGGAGTAATCGAGATCAGTGCAGTACCCGGAAACAAATCAATGGCAAAC
1 TTCTATATGGAGTAATCGAGATCAGTGCAGTACCCGGAAACAAATCAATGGCAAAC
* *
58622318 TTCTATATGGAGTAATCGAGATCGGTGCAGTACCCGGCAACAAATCAATGGCAAAC
1 TTCTATATGGAGTAATCGAGATCAGTGCAGTACCCGGAAACAAATCAATGGCAAAC
58622374 T
1 T
58622375 CCATCTCCCT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (56 bp):
TTCTATATGGAGTAATCGAGATCAGTGCAGTACCCGGAAACAAATCAATGGCAAAC
Found at i:58628344 original size:59 final size:59
Alignment explanation
Indices: 58628252--58628374 Score: 246
Period size: 59 Copynumber: 2.1 Consensus size: 59
58628242 ACCTCATCCT
58628252 TAAATCCCCTGCAACGACAATTACTCTAATGAGCTTGGATCTGAATTACCAGTCCAGGC
1 TAAATCCCCTGCAACGACAATTACTCTAATGAGCTTGGATCTGAATTACCAGTCCAGGC
58628311 TAAATCCCCTGCAACGACAATTACTCTAATGAGCTTGGATCTGAATTACCAGTCCAGGC
1 TAAATCCCCTGCAACGACAATTACTCTAATGAGCTTGGATCTGAATTACCAGTCCAGGC
58628370 TAAAT
1 TAAAT
58628375 TCAGACCCTA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 64 1.00
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (59 bp):
TAAATCCCCTGCAACGACAATTACTCTAATGAGCTTGGATCTGAATTACCAGTCCAGGC
Found at i:58629002 original size:64 final size:64
Alignment explanation
Indices: 58628925--58629054 Score: 215
Period size: 64 Copynumber: 2.0 Consensus size: 64
58628915 TCGCTGAAAC
* * *
58628925 TAGACTCACATATCTTCTTACCATAAAATTTCCAGAAATTTTGGTTTTTTCAATAAGTACAGTT
1 TAGACTCACATATCTTCTTAACATAAAATTTCCAGAAATTTTGGTTTATCCAATAAGTACAGTT
* *
58628989 TAGACTCATATATCTTCTTAACATAAAATTTCCAGAATTTTTGGTTTATCCAATAAGTACAGTT
1 TAGACTCACATATCTTCTTAACATAAAATTTCCAGAAATTTTGGTTTATCCAATAAGTACAGTT
58629053 TA
1 TA
58629055 TTCTTTAAAG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 61 1.00
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.41
Consensus pattern (64 bp):
TAGACTCACATATCTTCTTAACATAAAATTTCCAGAAATTTTGGTTTATCCAATAAGTACAGTT
Found at i:58635501 original size:14 final size:14
Alignment explanation
Indices: 58635482--58635511 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
58635472 TATTCTCAAG
58635482 ATAGATTAACACAT
1 ATAGATTAACACAT
*
58635496 ATAGATTCACACAT
1 ATAGATTAACACAT
58635510 AT
1 AT
58635512 TTATAAGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.17, G:0.07, T:0.30
Consensus pattern (14 bp):
ATAGATTAACACAT
Found at i:58638580 original size:15 final size:15
Alignment explanation
Indices: 58638555--58638590 Score: 63
Period size: 15 Copynumber: 2.3 Consensus size: 15
58638545 AATTTTTGAA
58638555 TTATGTAAATTGATAG
1 TTAT-TAAATTGATAG
58638571 TTATTAAATTGATAG
1 TTATTAAATTGATAG
58638586 TTATT
1 TTATT
58638591 TGAAATGTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (15 bp):
TTATTAAATTGATAG
Found at i:58647432 original size:48 final size:43
Alignment explanation
Indices: 58647326--58647450 Score: 151
Period size: 47 Copynumber: 2.7 Consensus size: 43
58647316 TTATTTGTGT
* *
58647326 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATATTATAAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCAT---CAATATTAGAAGA
*
58647372 GCTAGTGGAAGACCATGTCTGGGACATGACATCAATATTGAGACGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACATG-CATCAATATT-AGA--AGA
58647420 GCTAGTGTAAGACATGTCTGGGACATGCATC
1 GCTAGTGTAAGACATGTCTGGGACATGCATC
58647451 GGCTACGAAA
Statistics
Matches: 70, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
45 6 0.09
46 17 0.24
47 30 0.43
48 17 0.24
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (43 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAATATTAGAAGA
Found at i:58647523 original size:48 final size:45
Alignment explanation
Indices: 58647422--58647547 Score: 157
Period size: 48 Copynumber: 2.7 Consensus size: 45
58647412 AGACGAGAGC
* * *
58647422 TAGTGTAAGA-CATGTCTGGGACATGCATCGGCTACGAAATGTGT
1 TAGTATAAGACCATGTCTAGGACATGCATCGGCTACGAAAGGTGT
*
58647466 TAGTATAAGACCATGTCTAGGACATGGCATCGGC-ACATATAGAGGTGT
1 TAGTATAAGACCATGTCTAGGACAT-GCATCGGCTAC-GA-A-AGGTGT
58647514 TAGTATAAGACCATGTCTAGGACATAGCATCGGC
1 TAGTATAAGACCATGTCTAGGACAT-GCATCGGC
58647548 CTCGATTTTG
Statistics
Matches: 72, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
44 9 0.12
45 15 0.21
46 9 0.12
47 1 0.01
48 38 0.53
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.25
Consensus pattern (45 bp):
TAGTATAAGACCATGTCTAGGACATGCATCGGCTACGAAAGGTGT
Found at i:58649798 original size:40 final size:40
Alignment explanation
Indices: 58649753--58649842 Score: 121
Period size: 40 Copynumber: 2.2 Consensus size: 40
58649743 CGGAATACAA
*
58649753 CCGGATATAACCACGT-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCAC-AATTGCCTTCGGGTCTTAAC
* *
58649793 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
58649833 CCGGATATAA
1 CCGGATATAA
58649843 TTTCCAGCAT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
39 3 0.07
40 40 0.93
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
Found at i:58656905 original size:40 final size:40
Alignment explanation
Indices: 58656860--58656949 Score: 121
Period size: 40 Copynumber: 2.2 Consensus size: 40
58656850 CGGAATACAA
*
58656860 CCGGATATAACCACGT-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCAC-AATTGCCTTCGGGTCTTAAC
* *
58656900 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
58656940 CCGGATATAA
1 CCGGATATAA
58656950 TTTCCAGCAT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
39 3 0.07
40 40 0.93
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
Found at i:58662068 original size:24 final size:24
Alignment explanation
Indices: 58662041--58662089 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
58662031 TTGGGAGATT
58662041 AAGCATTTGAGGAATAAGAGCATA
1 AAGCATTTGAGGAATAAGAGCATA
58662065 AAGCATTTGAGGAATAAGAGCATA
1 AAGCATTTGAGGAATAAGAGCATA
58662089 A
1 A
58662090 CACCTGTTAA
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:0.47, C:0.08, G:0.24, T:0.20
Consensus pattern (24 bp):
AAGCATTTGAGGAATAAGAGCATA
Found at i:58662871 original size:41 final size:41
Alignment explanation
Indices: 58662826--58662907 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
58662816 ATGTGGTCGA
58662826 ATTGATATAGCATAAATTGCTTGTTTGTGGAAATGACTATG
1 ATTGATATAGCATAAATTGCTTGTTTGTGGAAATGACTATG
*
58662867 ATTGATATAGCATAGATTGCTTGTTTGTGGAAATGACTATG
1 ATTGATATAGCATAAATTGCTTGTTTGTGGAAATGACTATG
58662908 TATGGTGAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.39
Consensus pattern (41 bp):
ATTGATATAGCATAAATTGCTTGTTTGTGGAAATGACTATG
Found at i:58663068 original size:46 final size:48
Alignment explanation
Indices: 58662999--58663311 Score: 253
Period size: 46 Copynumber: 6.6 Consensus size: 48
58662989 TTTGTATGCT
*
58662999 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAAGTC
* * *
58663045 AGTGTAAGA-CATGTCTGGAACAT-GCATCGG-CTACAAAATGT--GTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAGATGTAAGTC
* ** *
58663089 AGTGTAAGACCATGTTTGGGACATGGCATCGGCACGTATAGAGGT--GTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-C-TCGAGATGTAAGTC
* * *
58663137 AGTGTAAGACCATGTCTGGGACATAGCATCGGCAC-AGATATGTGAGAG-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGAGATGT-A-AGTC
* * *
58663186 TAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGA-TTTTAATAGTC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGT-A-AGTC
* *
58663236 AGTGTAAGACCATGTCTGGGACATGGCATC-GACT--TGATGGATAAG-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGAT-G-TAAGTC
*
58663282 TAGTGTAAGACCATGTTTGGGACATGGCAT
1 -AGTGTAAGACCATGTCTGGGACATGGCAT
58663312 TTGTAGCAGC
Statistics
Matches: 222, Mismatches: 28, Indels: 33
0.78 0.10 0.12
Matches are distributed among these distances:
44 11 0.05
45 14 0.06
46 48 0.22
47 31 0.14
48 45 0.20
49 38 0.17
50 35 0.16
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAAGTC
Found at i:58663142 original size:48 final size:48
Alignment explanation
Indices: 58662999--58663266 Score: 213
Period size: 48 Copynumber: 5.6 Consensus size: 48
58662989 TTTGTATGCT
** * *
58662999 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-C-TCGAGATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATAGAGGT--GTC
* * *
58663045 AGTGTAAGA-CATGTCTGGAACAT-GCATCGGCTAC--A-AAATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACGTATAGAGGTGTC
*
58663089 AGTGTAAGACCATGTTTGGGACATGGCATCGGCACGTATAGAGGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATAGAGGTGTC
* * *
58663137 AGTGTAAGACCATGTCTGGGACATAGCATCGGCACAG-ATATGTGAGAG-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GTATA-GAG-GTGTC
* * *
58663186 TAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATTTTA-A--TAGTC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGG-CACG--TATAGAGGT-GTC
58663236 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
58663267 ACTTGATGGA
Statistics
Matches: 186, Mismatches: 19, Indels: 31
0.79 0.08 0.13
Matches are distributed among these distances:
44 11 0.06
45 14 0.08
46 43 0.23
47 1 0.01
48 44 0.24
49 35 0.19
50 34 0.18
51 2 0.01
53 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATAGAGGTGTC
Found at i:58663207 original size:98 final size:95
Alignment explanation
Indices: 58662996--58663311 Score: 293
Period size: 96 Copynumber: 3.3 Consensus size: 95
58662986 TTATTTGTAT
** *
58662996 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCC-TCGAGATGTAAGCCAGTGTAAGA-CAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCGTATAGA-GT-AGTCAGTGTAAGACCAT
* *
58663057 GTCTGGAACATGCATCGGCTACAAAATGT--G-
64 GTCTGGGACATGCATCGGC-ACAATATGTGAGA
* *
58663087 TC-AGTGTAAGACCATGTTTGGGACATGGCATCGGCACGTATAGAGGT-GTCAGTGTAAGACCAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CGTATAGA-GTAGTCAGTGTAAGACCAT
58663150 GTCTGGGACATAGCATCGGCACAGATATGTGAGA
64 GTCTGGGACAT-GCATCGGCACA-ATATGTGAGA
* *
58663184 GCTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATTTTA-A-TAGTCAGTGTAAGACC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-C-CG--TATAGAGTAGTCAGTGTAAGACC
* *
58663247 ATGTCTGGGACATGGCATC-G-AC-TTGATG-GATAA
62 ATGTCTGGGACAT-GCATCGGCACAAT-ATGTGA-GA
*
58663280 GCTAGTGTAAGACCATGTTTGGGACATGGCAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCAT
58663312 TTGTAGCAGC
Statistics
Matches: 190, Mismatches: 18, Indels: 29
0.80 0.08 0.12
Matches are distributed among these distances:
90 9 0.05
91 14 0.07
92 19 0.10
93 17 0.09
94 19 0.10
95 3 0.02
96 35 0.18
97 3 0.02
98 32 0.17
99 35 0.18
100 1 0.01
101 3 0.02
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (95 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCGTATAGAGTAGTCAGTGTAAGACCATGT
CTGGGACATGCATCGGCACAATATGTGAGA
Found at i:58665391 original size:44 final size:43
Alignment explanation
Indices: 58665342--58665494 Score: 159
Period size: 43 Copynumber: 3.6 Consensus size: 43
58665332 CGGGCCTCGA
* *
58665342 CCTAGCAAGCTTTAA-GCTGGTGA-ATAATATTATCGGGCTTCGGG
1 CCTAGCAAGCTATAATGCCGGTGAGAT-A-A-TATCGGGCTTCGGG
*
58665386 CCTAGCAGGCTATAATGCCGGTGAGATAATATCGGGCTTCGGG
1 CCTAGCAAGCTATAATGCCGGTGAGATAATATCGGGCTTCGGG
* * * **
58665429 CCTAGCAAGCTATAATGCCAGTGAAATGATATCGGGCTTCAAG
1 CCTAGCAAGCTATAATGCCGGTGAGATAATATCGGGCTTCGGG
* * *
58665472 CCTAGTAGGCGA-AATGCCGGTGA
1 CCTAGCAAGCTATAATGCCGGTGA
58665495 ATGAGTTCAG
Statistics
Matches: 94, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
42 10 0.11
43 60 0.64
44 14 0.15
45 8 0.09
46 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (43 bp):
CCTAGCAAGCTATAATGCCGGTGAGATAATATCGGGCTTCGGG
Found at i:58665419 original size:43 final size:43
Alignment explanation
Indices: 58665367--58665495 Score: 170
Period size: 43 Copynumber: 3.0 Consensus size: 43
58665357 GCTGGTGAAT
*
58665367 AATATTATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGA
1 AATAATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGA
* * *
58665410 GATAATATCGGGCTTCGGGCCTAGCAAGCTATAATGCCAGTGA
1 AATAATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGA
* ** * *
58665453 AATGATATCGGGCTTCAAGCCTAGTAGGCGA-AATGCCGGTGA
1 AATAATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGA
58665495 A
1 A
58665496 TGAGTTCAGA
Statistics
Matches: 74, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
42 11 0.15
43 63 0.85
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.23
Consensus pattern (43 bp):
AATAATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGA
Found at i:58669712 original size:54 final size:54
Alignment explanation
Indices: 58669588--58669748 Score: 222
Period size: 53 Copynumber: 3.0 Consensus size: 54
58669578 TGGAGGAAGC
58669588 GTCCT-GTGGCTATGCCACAATTTATCTAATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAA-TTATCTAATCTGGTGGCTCTGCCACATATATCT
*
58669642 GTCCTGGT-GCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCT
* * * * *
58669695 GTTCTGGTGGCTCTGCCACAA-TATCTATATCTGGTGACTTTGTCACA-ATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTA-ATCTGGTGGCTCTGCCACATATATCT
58669748 G
1 G
58669749 GCAGCCTCGC
Statistics
Matches: 97, Mismatches: 7, Indels: 7
0.87 0.06 0.06
Matches are distributed among these distances:
53 51 0.53
54 44 0.45
55 2 0.02
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCT
Found at i:58669727 original size:27 final size:27
Alignment explanation
Indices: 58669593--58669747 Score: 149
Period size: 27 Copynumber: 5.7 Consensus size: 27
58669583 GAAGCGTCCT
*
58669593 GTGGCTATGCCACAATTTATCTA-ATCTG
1 GTGGCTCTGCCACAA--TATCTATATCTG
* *
58669621 GTGGCTCTGCCACATATATCTGT-CCTG
1 GTGGCTCTGCCACA-ATATCTATATCTG
* *
58669648 GT-GCTATGCCACAATTATCT-GATCTG
1 GTGGCTCTGCCACAA-TATCTATATCTG
*
58669674 GTGGCTCTGCCACATATATCTGT-TCTG
1 GTGGCTCTGCCACA-ATATCTATATCTG
58669701 GTGGCTCTGCCACAATATCTATATCTG
1 GTGGCTCTGCCACAATATCTATATCTG
* * *
58669728 GTGACTTTGTCACAATATCT
1 GTGGCTCTGCCACAATATCT
58669748 GGCAGCCTCG
Statistics
Matches: 107, Mismatches: 12, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
25 1 0.01
26 27 0.25
27 64 0.60
28 14 0.13
29 1 0.01
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTATATCTG
Found at i:58674259 original size:19 final size:19
Alignment explanation
Indices: 58674230--58674280 Score: 93
Period size: 19 Copynumber: 2.6 Consensus size: 19
58674220 GATGGAGTTC
58674230 TGTGTTTCCGAGGAAGAATT
1 TGTG-TTCCGAGGAAGAATT
58674250 TGTGTTCCGAGGAAGAATT
1 TGTGTTCCGAGGAAGAATT
58674269 TGTGTTCCGAGG
1 TGTGTTCCGAGG
58674281 GACTCTAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 27 0.87
20 4 0.13
ACGTcount: A:0.22, C:0.12, G:0.33, T:0.33
Consensus pattern (19 bp):
TGTGTTCCGAGGAAGAATT
Found at i:58677609 original size:53 final size:53
Alignment explanation
Indices: 58677524--58677631 Score: 182
Period size: 53 Copynumber: 2.0 Consensus size: 53
58677514 TGGAGGAAGC
58677524 GTCCTGGTGGCTATGCCACAATTATCTAATCTGGTGGCT-TGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACA-ATATCT
* *
58677577 GTCCTGGTGGCTATGCCACAGTTATCTGATCTGGTGGCTCTGCCACAATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACAATATCT
58677630 GT
1 GT
58677632 ATCTGGTGAC
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
53 45 0.87
54 7 0.13
ACGTcount: A:0.19, C:0.25, G:0.23, T:0.33
Consensus pattern (53 bp):
GTCCTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACAATATCT
Found at i:58677635 original size:27 final size:26
Alignment explanation
Indices: 58677527--58677657 Score: 133
Period size: 27 Copynumber: 4.9 Consensus size: 26
58677517 AGGAAGCGTC
*
58677527 CTGGTGGCTATGCCACAATTATCT-AAT
1 CTGGTGGCT-TGCCACAA-TATCTGTAT
*
58677554 CTGGTGGCTTGCCACATATATCTGT-C
1 CTGGTGGCTTGCCACA-ATATCTGTAT
*
58677580 CTGGTGGCTATGCCACAGTTATCTG-AT
1 CTGGTGGCT-TGCCACA-ATATCTGTAT
58677607 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCT-TGCCACAATATCTGTAT
* *
58677634 CTGGTGACTTCGTCACAATATCTG
1 CTGGTGGCTT-GCCACAATATCTG
58677658 GCAGCCTCGC
Statistics
Matches: 89, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
26 28 0.31
27 61 0.69
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (26 bp):
CTGGTGGCTTGCCACAATATCTGTAT
Found at i:58677656 original size:53 final size:52
Alignment explanation
Indices: 58677524--58677657 Score: 155
Period size: 53 Copynumber: 2.5 Consensus size: 52
58677514 TGGAGGAAGC
* *
58677524 GTCCTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTTGCCACATATATCT
1 GTCCTGGTGACTATGCCACAA-TATCTGATCTGGTGGCTTGCCACATATATCT
* *
58677577 GTCCTGGTGGCTATGCCACAGTTATCTGATCTGGTGGCTCTGCCACA-ATATCT
1 GTCCTGGTGACTATGCCACA-ATATCTGATCTGGTGGCT-TGCCACATATATCT
* *
58677630 GTATCTGGTGACT-TCGTCACAATATCTG
1 GT-CCTGGTGACTAT-GCCACAATATCTG
58677658 GCAGCCTCGC
Statistics
Matches: 71, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
53 51 0.72
54 20 0.28
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (52 bp):
GTCCTGGTGACTATGCCACAATATCTGATCTGGTGGCTTGCCACATATATCT
Found at i:58693467 original size:29 final size:29
Alignment explanation
Indices: 58693432--58693505 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
58693422 GTTGTGAGAT
* *
58693432 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
58693461 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
58693490 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
58693506 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:58695953 original size:17 final size:17
Alignment explanation
Indices: 58695908--58695956 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
58695898 TATAAGGGAT
58695908 AAATAGATTGAAT-T-TG
1 AAAT-GATTGAATGTATG
*
58695924 -AATGA-TGATTGTATG
1 AAATGATTGAATGTATG
58695939 AAATGATTGAATGTATG
1 AAATGATTGAATGTATG
58695956 A
1 A
58695957 GAAAAGTATG
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
13 4 0.15
14 3 0.11
15 5 0.19
16 5 0.19
17 10 0.37
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (17 bp):
AAATGATTGAATGTATG
Found at i:58704932 original size:20 final size:20
Alignment explanation
Indices: 58704890--58704932 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
58704880 TCCACATACG
**
58704890 TATAATTTTAAAAATATTTT
1 TATAATTTTAAAAATATGAT
58704910 TATAATTTTCAAAAATA-GAT
1 TATAATTTT-AAAAATATGAT
58704930 TAT
1 TAT
58704933 GTGTTTTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (20 bp):
TATAATTTTAAAAATATGAT
Found at i:58706568 original size:31 final size:31
Alignment explanation
Indices: 58706530--58706599 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 31
58706520 CTCACAAAAT
*
58706530 AGTCACTAAACTATTGAAAAGTT-TTCATTCA
1 AGTCACTAAACTATTCAAAAGTTATT-ATTCA
*
58706561 AGTCACTAAACTATTCAAAAGTTATTATTTA
1 AGTCACTAAACTATTCAAAAGTTATTATTCA
58706592 AGTCACTA
1 AGTCACTA
58706600 GGGTTTTAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
31 34 0.94
32 2 0.06
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.36
Consensus pattern (31 bp):
AGTCACTAAACTATTCAAAAGTTATTATTCA
Found at i:58707030 original size:6 final size:6
Alignment explanation
Indices: 58707019--58707050 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
58707009 TACCTTTTAT
*
58707019 TATACA TATACA TATACA CATACA TATACA TA
1 TATACA TATACA TATACA TATACA TATACA TA
58707051 CATCATATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (6 bp):
TATACA
Found at i:58709487 original size:44 final size:45
Alignment explanation
Indices: 58709391--58709516 Score: 129
Period size: 44 Copynumber: 2.9 Consensus size: 45
58709381 TTTTCTCAAA
* *
58709391 TCACCGGCATT-TCGCCTGTTAGGCTCG-AGGCCCG-ATATCAGT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCAGT
*
58709433 TCACCAGCATTATAGCCTGCTAGGCTCGAAGG-CCGAATAGT-A-T
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA-TCAGT
** * *
58709476 CTCACCGGCATTATAGTTTGCTAAGCTCAAAGGCCCGAATA
1 -TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA
58709517 ATCAAGTCAA
Statistics
Matches: 70, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
42 10 0.14
43 18 0.26
44 34 0.49
45 8 0.11
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCAGT
Found at i:58709926 original size:42 final size:43
Alignment explanation
Indices: 58709845--58709955 Score: 206
Period size: 42 Copynumber: 2.6 Consensus size: 43
58709835 CCGGCATTAC
*
58709845 GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
58709888 GCCTGCTAGGCACGAAGG-CCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
58709930 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
58709956 TAATACAGCA
Statistics
Matches: 66, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
42 41 0.62
43 25 0.38
ACGTcount: A:0.30, C:0.32, G:0.27, T:0.11
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:58710026 original size:36 final size:38
Alignment explanation
Indices: 58709948--58710146 Score: 240
Period size: 37 Copynumber: 5.5 Consensus size: 38
58709938 GGCACGAAGG
* * * *
58709948 CCCGAATATAATA-CAGCACTAGGCCTGCGAGA--TAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGAGATTTAA
*
58709983 CCCGGATATA-TACCGGCACGAAG-CTGCGAGATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGAGATTTAA
* *
58710019 CCAGGATATATTA-CAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGAGATTTAA
*
58710056 CCCGGATA-ATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGAGATTTAA
58710093 CCCGGATATA-TACCAGCACGAAGCCTGCG-GATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGAGATTTAA
58710129 CCC-GATATAATT-CCAGCA
1 CCCGGATAT-ATTACCAGCA
58710147 TATAGCCTGG
Statistics
Matches: 147, Mismatches: 8, Indels: 17
0.85 0.05 0.10
Matches are distributed among these distances:
34 10 0.07
35 21 0.14
36 42 0.29
37 73 0.50
38 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.22, T:0.20
Consensus pattern (38 bp):
CCCGGATATATTACCAGCACGAAGCCTGCGAGATTTAA
Found at i:58715524 original size:43 final size:43
Alignment explanation
Indices: 58715459--58715570 Score: 206
Period size: 43 Copynumber: 2.6 Consensus size: 43
58715449 CCTGCATTAC
* *
58715459 GCCTGCTAGGCACGAAGTCCCGAATACACATCACTGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
58715502 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
58715545 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
58715571 TAATACCAGC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 67 1.00
ACGTcount: A:0.29, C:0.33, G:0.26, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:58715616 original size:38 final size:38
Alignment explanation
Indices: 58715563--58715808 Score: 397
Period size: 38 Copynumber: 6.5 Consensus size: 38
58715553 GGCACGAAGG
* * * *
58715563 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
58715601 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
* *
58715639 CCAGGATATATTA-CAGCATGAAGCCTGCGGGATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
*
58715676 CCTGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
58715714 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
*
58715752 CCCGGATATATTACCAGCACGAAGCCTGTGGGATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
58715790 CCCGGATATAATT-CCAGCA
1 CCCGGATAT-ATTACCAGCA
58715809 TATAGCTTGC
Statistics
Matches: 196, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
37 35 0.18
38 158 0.81
39 3 0.02
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (38 bp):
CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
Found at i:58720024 original size:19 final size:19
Alignment explanation
Indices: 58720000--58720040 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
58719990 GAGGTTTTCA
58720000 GGGATGAAAATTCCTTTAG
1 GGGATGAAAATTCCTTTAG
*
58720019 GGGATGAAAATTCTTTTAG
1 GGGATGAAAATTCCTTTAG
58720038 GGG
1 GGG
58720041 GAGAGTTGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.29, C:0.07, G:0.32, T:0.32
Consensus pattern (19 bp):
GGGATGAAAATTCCTTTAG
Found at i:58727343 original size:42 final size:41
Alignment explanation
Indices: 58727237--58727353 Score: 121
Period size: 43 Copynumber: 2.8 Consensus size: 41
58727227 GTCTGAGACA
* *
58727237 TCGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGATT-AGATT
*
58727279 TACGTATAAGACCATGTCTGGGACATC-GGCATCGTATCT-GATT
1 T-CGTGTAAGACCATGTCTGGGACA-CAGGCATCG-AT-TAGATT
* * *
58727322 TCGTGTAAGACCCTGTCTGGGATAGAGGCATC
1 TCGTGTAAGACCATGTCTGGGACACAGGCATC
58727354 AATATTGAAT
Statistics
Matches: 63, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
42 27 0.43
43 32 0.51
44 3 0.05
45 1 0.02
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.27
Consensus pattern (41 bp):
TCGTGTAAGACCATGTCTGGGACACAGGCATCGATTAGATT
Found at i:58738611 original size:16 final size:17
Alignment explanation
Indices: 58738591--58738635 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
58738581 TAATTTAGCC
58738591 ATTTATTTTTATTTC-A
1 ATTTATTTTTATTTCTA
*
58738607 TTTTATTTTT-TTTCTA
1 ATTTATTTTTATTTCTA
58738623 ATTT-TTTTTATTT
1 ATTTATTTTTATTT
58738636 GCTTCAGGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
15 9 0.36
16 16 0.64
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (17 bp):
ATTTATTTTTATTTCTA
Found at i:58739059 original size:25 final size:25
Alignment explanation
Indices: 58739027--58739077 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
58739017 TTTAGAAGTT
58739027 TGTGATACTTTCAAGATAAATGGTG
1 TGTGATACTTTCAAGATAAATGGTG
58739052 TGTGATACTTTCAAGATAAATGGTG
1 TGTGATACTTTCAAGATAAATGGTG
58739077 T
1 T
58739078 TTCTGACGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.08, G:0.24, T:0.37
Consensus pattern (25 bp):
TGTGATACTTTCAAGATAAATGGTG
Found at i:58749660 original size:16 final size:16
Alignment explanation
Indices: 58749639--58749681 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
58749629 ATGTATCGGC
* *
58749639 AAAAGCTGAAATGCTG
1 AAAAGCCGAAATGCCG
*
58749655 AAAAGCCAAAATGCCG
1 AAAAGCCGAAATGCCG
58749671 AAAAGCCGAAA
1 AAAAGCCGAAA
58749682 GTTTGGCTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.51, C:0.19, G:0.21, T:0.09
Consensus pattern (16 bp):
AAAAGCCGAAATGCCG
Found at i:58749943 original size:29 final size:28
Alignment explanation
Indices: 58749890--58749947 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 28
58749880 GTGAGCATGA
*
58749890 ATATGAATGTGACTGGGCCTAATGGGCC
1 ATATAAATGTGACTGGGCCTAATGGGCC
* *
58749918 ATATAAATGTGATTTGGGCTTAATGGGCC
1 ATATAAATGTGA-CTGGGCCTAATGGGCC
58749947 A
1 A
58749948 GATACAGGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 11 0.42
29 15 0.58
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (28 bp):
ATATAAATGTGACTGGGCCTAATGGGCC
Found at i:58754597 original size:17 final size:18
Alignment explanation
Indices: 58754564--58754598 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
58754554 GTTTAAGAAG
58754564 GGTTTTCAATGAAAACAC
1 GGTTTTCAATGAAAACAC
*
58754582 GGTTTT-AATTAAAACAC
1 GGTTTTCAATGAAAACAC
58754599 TTTAATGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.31
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAC
Found at i:58768662 original size:20 final size:21
Alignment explanation
Indices: 58768637--58768675 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
58768627 CCCTTGAAAC
*
58768637 AGGGC-ACATGCCGGTGTGGA
1 AGGGCAACATGCCCGTGTGGA
58768657 AGGGCAACATGCCCGTGTG
1 AGGGCAACATGCCCGTGTG
58768676 TTCTTTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.21, C:0.23, G:0.41, T:0.15
Consensus pattern (21 bp):
AGGGCAACATGCCCGTGTGGA
Found at i:58782254 original size:40 final size:40
Alignment explanation
Indices: 58782203--58782469 Score: 283
Period size: 40 Copynumber: 6.7 Consensus size: 40
58782193 GCCACTAGCT
* *
58782203 CAAATGCCTTCGGGACTTAGCCCGGTTATGGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
58782243 CAAATGCCTTCGGGACTTAGCCCGG-TATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* ** *
58782282 C-AACGCCTTCGGGACTTAGCCCGAATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
58782321 CGAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * *
58782361 CGAATACCTTCGGGACTTAGCCCGG-AATTAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * ** * *
58782401 CGAATGCCTTCGGAACTTAGCCCGG-AATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
58782441 CAAATG-CTCTCGGGACTTAGCCCGGTTAT
1 CAAATGCCT-TCGGGACTTAGCCCGGTTAT
58782470 CATCCGAACA
Statistics
Matches: 201, Mismatches: 21, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
38 21 0.10
39 28 0.14
40 151 0.75
41 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:58782454 original size:80 final size:80
Alignment explanation
Indices: 58782170--58782465 Score: 313
Period size: 80 Copynumber: 3.7 Consensus size: 80
58782160 AAGCCAAGTA
** *
58782170 CCTTCGGAGTTTAG-CCGGATATAGCCACTAGCTCAAATGCCTTCGGGACTTAGCCCGG--TTAT
1 CCTTCGGAACTTAGCCCGGATATAGCCACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTA-
* * *
58782232 GGTAACTTGCACAAATG
65 -GTAGCTCGCACGAATG
* *** * *
58782249 CCTTCGGGACTTAGCCCGG-TATAATAACTCGCAC-AACGCCTTCGGGACTTAGCCC-GAATATA
1 CCTTCGGAACTTAGCCCGGATATAGCCACTAGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TA
58782311 GTAGCTCGCACGAATG
65 GTAGCTCGCACGAATG
* * * * *
58782327 CCTTCGGGACTTAGCCCGGATATAG-TAGCTCGCACGAATACCTTCGGGACTTAGCCCGGAATTA
1 CCTTCGGAACTTAGCCCGGATATAGCCA-CTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTA
58782391 GTAGCTCGCACGAATG
65 GTAGCTCGCACGAATG
*
58782407 CCTTCGGAACTTAGCCCGGA-ATTAGCCACTAGCTCAAATG-CTCTCGGGACTTAGCCCGG
1 CCTTCGGAACTTAGCCCGGATA-TAGCCACTAGCACAAATGCCT-TCGGGACTTAGCCCGG
58782466 TTATCATCCG
Statistics
Matches: 184, Mismatches: 22, Indels: 21
0.81 0.10 0.09
Matches are distributed among these distances:
77 1 0.01
78 53 0.29
79 36 0.20
80 89 0.48
81 5 0.03
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.23
Consensus pattern (80 bp):
CCTTCGGAACTTAGCCCGGATATAGCCACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
TAGCTCGCACGAATG
Found at i:58788492 original size:19 final size:19
Alignment explanation
Indices: 58788468--58788509 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
58788458 CGGTCGGACA
58788468 ACACGCCCATGAGGTTGAC
1 ACACGCCCATGAGGTTGAC
58788487 ACACGCCCATGAGGTTGAC
1 ACACGCCCATGAGGTTGAC
58788506 ACAC
1 ACAC
58788510 ATGCCCGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.29, C:0.33, G:0.24, T:0.14
Consensus pattern (19 bp):
ACACGCCCATGAGGTTGAC
Found at i:58788515 original size:21 final size:20
Alignment explanation
Indices: 58788468--58788515 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 20
58788458 CGGTCGGACA
58788468 ACAC-GCCCATGAGGTTGAC
1 ACACAGCCCATGAGGTTGAC
58788487 ACAC-GCCCATGAGGTTGAC
1 ACACAGCCCATGAGGTTGAC
58788506 ACACATGCCC
1 ACACA-GCCC
58788516 GTGTGTCTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 23 0.85
21 4 0.15
ACGTcount: A:0.27, C:0.35, G:0.23, T:0.15
Consensus pattern (20 bp):
ACACAGCCCATGAGGTTGAC
Found at i:58799883 original size:40 final size:39
Alignment explanation
Indices: 58799829--58800058 Score: 291
Period size: 40 Copynumber: 5.8 Consensus size: 39
58799819 GGATGATAAT
* * * *
58799829 CGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TTC
* *
58799869 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TTC
* * *
58799909 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTATTACATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TTC
*
58799949 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-TC
*
58799989 CGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-TC
* *
58800029 CGGGCTATGTCCCGAAGGCA-TTGAGCGAGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
58800059 AGCTATATCC
Statistics
Matches: 172, Mismatches: 17, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
39 8 0.05
40 164 0.95
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (39 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTC
Found at i:58800042 original size:120 final size:120
Alignment explanation
Indices: 58799829--58800050 Score: 349
Period size: 120 Copynumber: 1.9 Consensus size: 120
58799819 GGATGATAAT
* * *
58799829 CGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTTCGGGCTAAGTCCCGAAGGCATTTGT
1 CGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTGGT
*
58799894 GCGAGTTATTACATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTATTACATC
66 GCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTATTACATC
*
58799949 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGCT-ACTA-TATCCGGGCTAAGTCCCGAAGGCATTG
1 CGGGCTAAGTCCCGAAGGCATTTGCGCGAG-TGACTAGT-TCCGGGCTAAGTCCCGAAGGCATTG
* *
58800012 GTGCGAGTTACTATATCCGGGCTATGTCCCGAAGGCATT
64 GTGCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATT
58800051 GAGCGAGTAG
Statistics
Matches: 93, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
119 1 0.01
120 91 0.98
121 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.26
Consensus pattern (120 bp):
CGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTGGT
GCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTATTACATC
Found at i:58805206 original size:27 final size:27
Alignment explanation
Indices: 58805167--58805836 Score: 897
Period size: 27 Copynumber: 24.9 Consensus size: 27
58805157 ACATACATCA
* * *
58805167 CATAGGGGGAAAACAGTCATCTTACCAT
1 CATAAGGGCAAAACAGTCATTTTACC-T
* * *
58805195 -AAAAGGGCAAAATAGTCATTTTACCA
1 CATAAGGGCAAAACAGTCATTTTACCT
*
58805221 CATAAGGGCAAAACAGCCATTTTACCT
1 CATAAGGGCAAAACAGTCATTTTACCT
* *
58805248 CATAAGGTCAAAACAATCATTTTACCT
1 CATAAGGGCAAAACAGTCATTTTACCT
*
58805275 CATAAGCGCAAAACAGTCATTTTACCT
1 CATAAGGGCAAAACAGTCATTTTACCT
58805302 CATAAGGGCAAAACAGTCATTTTACCT
1 CATAAGGGCAAAACAGTCATTTTACCT
* *
58805329 CATAAGGGCAAAATAGTTATTTTACCT
1 CATAAGGGCAAAACAGTCATTTTACCT
* *
58805356 CAAAAGGGCAAAATAGTCATTTTACCAT
1 CATAAGGGCAAAACAGTCATTTTACC-T
*
58805384 -ATAAGGGCAAAACAGTCATTTTACCA
1 CATAAGGGCAAAACAGTCATTTTACCT
* *
58805410 CATAAGGGAAAAAGAGTCATTTTACCT
1 CATAAGGGCAAAACAGTCATTTTACCT
**
58805437 CATAAGGGCAAAATTGTCATTTTACCT
1 CATAAGGGCAAAACAGTCATTTTACCT
*
58805464 CACAAGGGCAAAACAGTCATTTTACCAT
1 CATAAGGGCAAAACAGTCATTTTACC-T
*
58805492 -ATAAGGGCTAAACAGTCATTTTACCT
1 CATAAGGGCAAAACAGTCATTTTACCT
* *
58805518 CATAAAGGCAAAACAGTCATTTTATCT
1 CATAAGGGCAAAACAGTCATTTTACCT
*
58805545 CATAAGGGCAAAACAGTCATTTTACCA
1 CATAAGGGCAAAACAGTCATTTTACCT
*
58805572 CATAAGGGCAAAATAGTCATTTTACCT
1 CATAAGGGCAAAACAGTCATTTTACCT
*
58805599 CACAAGGGC-AAA-AGTCATTTTACCT
1 CATAAGGGCAAAACAGTCATTTTACCT
* *
58805624 CACAAGGGCAAAATAGTCATTTTACCT
1 CATAAGGGCAAAACAGTCATTTTACCT
*
58805651 CACAAGGGCAAAACAGTCATATTTACCT
1 CATAAGGGCAAAACAGTCAT-TTTACCT
* *
58805679 CACAAGGGCAAAACAATCATTTTACCAT
1 CATAAGGGCAAAACAGTCATTTTACC-T
*
58805707 -ATAAGGGCAAAACAGTCATTTTACCA
1 CATAAGGGCAAAACAGTCATTTTACCT
*
58805733 CATAAGGGCAAAACAGTCATTTTACCA
1 CATAAGGGCAAAACAGTCATTTTACCT
*
58805760 CATAAGGGCAAAATAGTCATTTTACC-
1 CATAAGGGCAAAACAGTCATTTTACCT
*
58805786 CATAAGGGCAAAACAATCATTTTACC-
1 CATAAGGGCAAAACAGTCATTTTACCT
* *
58805812 CTATAAGGGGAAAACAATCATTTTA
1 C-ATAAGGGCAAAACAGTCATTTTA
58805837 TTAATTTGGG
Statistics
Matches: 578, Mismatches: 53, Indels: 23
0.88 0.08 0.04
Matches are distributed among these distances:
25 22 0.04
26 32 0.06
27 495 0.86
28 29 0.05
ACGTcount: A:0.39, C:0.21, G:0.14, T:0.26
Consensus pattern (27 bp):
CATAAGGGCAAAACAGTCATTTTACCT
Found at i:58808131 original size:20 final size:20
Alignment explanation
Indices: 58808106--58808143 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
58808096 CCTTGTAACT
58808106 TAGAA-TTTATAGTTTTGACC
1 TAGAATTTTAT-GTTTTGACC
58808126 TAGAATTTTATGTTTTGA
1 TAGAATTTTATGTTTTGA
58808144 TTAGATTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.29, C:0.05, G:0.16, T:0.50
Consensus pattern (20 bp):
TAGAATTTTATGTTTTGACC
Found at i:58810184 original size:60 final size:62
Alignment explanation
Indices: 58810067--58810185 Score: 172
Period size: 60 Copynumber: 1.9 Consensus size: 62
58810057 TCAATTTGTA
*
58810067 TTAGATATTATAATTATTTAAGTTTGCTTTTTTACCTAATTAATATTTAAATACTATTTATAC
1 TTAGATATTATAATTATTTAAGTTT-CTTTTTTACCAAATTAATATTTAAATACTATTTATAC
* *
58810130 TTAGATATTGTAATTATTTAA-TTT-TATTTTTA-CAAATTAATATTTAGATACTATTT
1 TTAGATATTATAATTATTTAAGTTTCT-TTTTTACCAAATTAATATTTAAATACTATTT
58810186 GTATTAGTTT
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
60 23 0.44
61 6 0.12
62 3 0.06
63 20 0.38
ACGTcount: A:0.35, C:0.06, G:0.05, T:0.54
Consensus pattern (62 bp):
TTAGATATTATAATTATTTAAGTTTCTTTTTTACCAAATTAATATTTAAATACTATTTATAC
Found at i:58818513 original size:2 final size:2
Alignment explanation
Indices: 58818506--58818552 Score: 55
Period size: 2 Copynumber: 25.0 Consensus size: 2
58818496 ATAGTAAAAG
* *
58818506 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT GT AT AC AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
58818546 AT A- AT AT
1 AT AT AT AT
58818553 TAAAATATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
1 3 0.08
2 35 0.92
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:58819119 original size:38 final size:39
Alignment explanation
Indices: 58819059--58819136 Score: 140
Period size: 38 Copynumber: 2.0 Consensus size: 39
58819049 AAAAAAGCTG
*
58819059 ATCCCACTCCCCCATGCTACTTTGTTTTATTATTAATTA
1 ATCCCACTCCCCCATGCCACTTTGTTTTATTATTAATTA
58819098 ATCCCACT-CCCCATGCCACTTTGTTTTATTATTAATTA
1 ATCCCACTCCCCCATGCCACTTTGTTTTATTATTAATTA
58819136 A
1 A
58819137 AACCATATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
38 30 0.79
39 8 0.21
ACGTcount: A:0.24, C:0.28, G:0.05, T:0.42
Consensus pattern (39 bp):
ATCCCACTCCCCCATGCCACTTTGTTTTATTATTAATTA
Found at i:58824460 original size:18 final size:18
Alignment explanation
Indices: 58824437--58824472 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
58824427 TCTTATAAAA
58824437 AAATATACAATCAACTCT
1 AAATATACAATCAACTCT
*
58824455 AAATATACAATCAGCTCT
1 AAATATACAATCAACTCT
58824473 CTTTATAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.47, C:0.22, G:0.03, T:0.28
Consensus pattern (18 bp):
AAATATACAATCAACTCT
Found at i:58825472 original size:11 final size:11
Alignment explanation
Indices: 58825454--58825482 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
58825444 TTATGTGTTA
58825454 TTTA-TTTTAT
1 TTTATTTTTAT
58825464 TTTATTTTTAT
1 TTTATTTTTAT
58825475 TTTATTTT
1 TTTATTTT
58825483 CACAAATTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:58830864 original size:2 final size:2
Alignment explanation
Indices: 58830847--58830891 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
58830837 TCATTCAACA
* *
58830847 AT AT AC AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
58830889 AT A
1 AT A
58830892 AATGTCATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:58836402 original size:40 final size:40
Alignment explanation
Indices: 58836337--58836580 Score: 303
Period size: 40 Copynumber: 6.1 Consensus size: 40
58836327 CGGAATACAA
* ** * * *
58836337 CCGGATATAACCACACGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
*
58836377 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
58836417 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
58836457 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
* * * * *
58836497 CCGGATATAGTC-ACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACAACTTGCACAAATGCCTTCGGGTATTAGC
** * * *
58836537 CCGGATATAATTACTAGCATAAATGTCTTCGGG-ACTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTA-TTAGC
58836577 CCGG
1 CCGG
58836581 GTATCATTCA
Statistics
Matches: 182, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
40 181 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
Found at i:58836735 original size:64 final size:64
Alignment explanation
Indices: 58836667--58836855 Score: 142
Period size: 64 Copynumber: 3.0 Consensus size: 64
58836657 GAACACAAAC
58836667 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
* * * * *** * *** * ** * *
58836731 ATATCAATA--ATCATTACACATCCATATTTCATTTTC-GTTA-C--T--AAGGCTCAAACACAA
1 ATATCACTAGCATAATTGC-CTTCGGGACTT-A-GCCCGGGTACCATTCAAATACTCATACACAC
*
58836788 AC
63 AT
58836790 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
58836854 AT
1 AT
58836856 GTTGTGACAG
Statistics
Matches: 80, Mismatches: 34, Indels: 22
0.59 0.25 0.16
Matches are distributed among these distances:
58 1 0.01
59 24 0.30
60 7 0.09
61 7 0.09
62 7 0.09
63 7 0.09
64 26 0.32
65 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (64 bp):
ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
Found at i:58836768 original size:123 final size:123
Alignment explanation
Indices: 58836549--58836855 Score: 542
Period size: 123 Copynumber: 2.5 Consensus size: 123
58836539 GGATATAATT
* * * * * * *
58836549 ACTAGCATAAATGTCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATAAATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
*
58836614 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
58836672 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
58836737 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
58836795 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATAT
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATAT
58836856 GTTGTGACAG
Statistics
Matches: 176, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 176 1.00
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.29
Consensus pattern (123 bp):
ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
Found at i:58838606 original size:40 final size:40
Alignment explanation
Indices: 58838547--58838688 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
58838537 AAATTGAATG
* * *
58838547 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
58838587 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
58838627 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
58838667 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
58838689 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:58838689 original size:40 final size:39
Alignment explanation
Indices: 58838586--58838714 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
58838576 TGCTGGAAAT
* * *
58838586 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
58838626 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
58838666 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
58838706 TATATCCGG
1 TATATCCGG
58838715 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:58843377 original size:40 final size:39
Alignment explanation
Indices: 58843312--58843515 Score: 230
Period size: 40 Copynumber: 5.1 Consensus size: 39
58843302 CGGAATACAA
* *
58843312 CCGGATATAACCAC-ACGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATATAA-CACTA-GCACAAATGCCTTCGGGTCTTAGC
* *
58843352 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAGC
* *
58843392 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
58843432 CCGGATATAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
58843472 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAGC
58843512 CCGG
1 CCGG
58843516 GTATCATTCA
Statistics
Matches: 143, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
CCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:58843670 original size:64 final size:64
Alignment explanation
Indices: 58843602--58843790 Score: 142
Period size: 64 Copynumber: 3.0 Consensus size: 64
58843592 GAACACAAAC
58843602 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
* * * * *** * *** * ** * *
58843666 ATATCAATA--ATCATTACACATCCATATTTCATTTTC-GTTA-C--T--AAGGCTCAAACACAA
1 ATATCACTAGCATAATTGC-CTTCGGGACTT-A-GCCCGGGTACCATTCAAATACTCATACACAC
*
58843723 AC
63 AT
58843725 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
58843789 AT
1 AT
58843791 GTCAATAATC
Statistics
Matches: 80, Mismatches: 34, Indels: 22
0.59 0.25 0.16
Matches are distributed among these distances:
58 1 0.01
59 24 0.30
60 7 0.09
61 7 0.09
62 7 0.09
63 7 0.09
64 26 0.32
65 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (64 bp):
ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
Found at i:58843703 original size:123 final size:123
Alignment explanation
Indices: 58843484--58843822 Score: 597
Period size: 123 Copynumber: 2.8 Consensus size: 123
58843474 GGATATAATT
* * * * * * *
58843484 ACTAGCATAAATGTCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATAAATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
*
58843549 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
58843607 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
58843672 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
*
58843730 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATGTCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
58843795 ATAATCATTACACATCCATATTTCATTT
66 ATAATCATTACACATCCATATTTCATTT
58843823 CACATAATTC
Statistics
Matches: 207, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 207 1.00
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (123 bp):
ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
Found at i:58850753 original size:40 final size:40
Alignment explanation
Indices: 58850688--58850931 Score: 294
Period size: 40 Copynumber: 6.1 Consensus size: 40
58850678 CGGAATACAA
* ** * * *
58850688 CCGGATATAACCACACGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
*
58850728 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
58850768 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
58850808 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
* * * * *
58850848 CCGGATATAGTC-ACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACAACTTGCACAAATGCCTTCGGGTATTAGC
* ** * * *
58850888 CTGGATATAATTACTAGCATAAATGTCTTCGGG-ACTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTA-TTAGC
58850928 CCGG
1 CCGG
58850932 GTATCATTCA
Statistics
Matches: 180, Mismatches: 21, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
40 179 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
Found at i:58851188 original size:122 final size:123
Alignment explanation
Indices: 58850900--58851360 Score: 834
Period size: 123 Copynumber: 3.8 Consensus size: 123
58850890 GGATATAATT
* * * * * * *
58850900 ACTAGCATAAATGTCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATAAATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
58850965 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
58851023 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
58851088 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCT-GAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
58851145 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
*
58851210 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
*
58851268 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATGTCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
58851333 ATAATCATTACACATCCATATTTCATTT
66 ATAATCATTACACATCCATATTTCATTT
58851361 CACATAATTC
Statistics
Matches: 328, Mismatches: 9, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
122 122 0.37
123 206 0.63
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (123 bp):
ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
Found at i:58851336 original size:245 final size:245
Alignment explanation
Indices: 58850900--58851360 Score: 841
Period size: 245 Copynumber: 1.9 Consensus size: 245
58850890 GGATATAATT
* * * * *
58850900 ACTAGCATAAATGTCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATAAATCA
1 ACTAGCATAAATGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATAAATCA
*
58850965 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATCACTAGCA
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATCACTAGCA
58851030 TAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCAATAATCA
131 TAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCAATAATCA
58851095 TTACACATCCATATTTCATTTTCGTTACTAAGGCTGAACACAAACATATC
196 TTACACATCCATATTTCATTTTCGTTACTAAGGCTGAACACAAACATATC
* *
58851145 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAAATGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATAAATCA
58851210 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATCACTAGCA
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATCACTAGCA
*
58851275 TAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATGTCAATAATCA
131 TAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCAATAATCA
58851340 TTACACATCCATATTTCATTT
196 TTACACATCCATATTTCATTT
58851361 CACATAATTC
Statistics
Matches: 207, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
245 207 1.00
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (245 bp):
ACTAGCATAAATGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATAAATCA
ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATCACTAGCA
TAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCAATAATCA
TTACACATCCATATTTCATTTTCGTTACTAAGGCTGAACACAAACATATC
Found at i:58853204 original size:23 final size:24
Alignment explanation
Indices: 58853177--58853223 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
58853167 CTTAAATTTT
58853177 AATAATAATAAAAT-A-TTAAAATA
1 AATAA-AATAAAATAATTTAAAATA
*
58853200 AATAAAGTAAAATAATTTAAAATA
1 AATAAAATAAAATAATTTAAAATA
58853224 CTCCTTAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 7 0.33
23 6 0.29
24 8 0.38
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (24 bp):
AATAAAATAAAATAATTTAAAATA
Found at i:58854797 original size:21 final size:21
Alignment explanation
Indices: 58854771--58854810 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
58854761 TGTATGGAGG
58854771 AAGGCACATGGCC-GTGTGACA
1 AAGGCACAT-GCCTGTGTGACA
58854792 AAGGCACATGCCTGTGTGA
1 AAGGCACATGCCTGTGTGA
58854811 ACTAGGGACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.28, C:0.23, G:0.33, T:0.17
Consensus pattern (21 bp):
AAGGCACATGCCTGTGTGACA
Found at i:58856952 original size:19 final size:19
Alignment explanation
Indices: 58856916--58856954 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
58856906 TTTTCATCAT
* *
58856916 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
58856935 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
58856954 A
1 A
58856955 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:58857465 original size:28 final size:28
Alignment explanation
Indices: 58857417--58857507 Score: 130
Period size: 28 Copynumber: 3.2 Consensus size: 28
58857407 GTGACAGAGT
*
58857417 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCAGTGC
*
58857446 CACCAGAACAGATAATTTGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCAGTGC
*
58857474 CACCAGAACAGATGATTTGTGGCA-TAGC
1 CACCAGAACAGATAATTTGTGGCAGT-GC
58857502 CACCAG
1 CACCAG
58857508 GACGCTTCCT
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
28 50 0.88
29 7 0.12
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.21
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCAGTGC
Found at i:58857660 original size:28 final size:28
Alignment explanation
Indices: 58857613--58857677 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
58857603 AAATTAACCC
*
58857613 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
58857641 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
58857669 TAGGGGTAT
1 TAGGGGTAT
58857678 TCTAGTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:58865522 original size:48 final size:48
Alignment explanation
Indices: 58865425--58865555 Score: 145
Period size: 48 Copynumber: 2.7 Consensus size: 48
58865415 GTGAAAATTA
* * * * *
58865425 TACCTTGATTTCGCTTCGAGCCATGGTGTAGGTATTTCAAAGATGAGT
1 TACCTTGATTTGGCTTCGAGCCATGGTATAGGTACTCCAAAGATAAGT
* ***
58865473 TACCTTGATTTGGCTACGAGCCATGGTATAGGTACTCCGGGGATAAGT
1 TACCTTGATTTGGCTTCGAGCCATGGTATAGGTACTCCAAAGATAAGT
* * * *
58865521 TACCTTAATTTGGCTTTGGGCCATGGTATAAGTAC
1 TACCTTGATTTGGCTTCGAGCCATGGTATAGGTAC
58865556 GTATCGATAT
Statistics
Matches: 69, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 69 1.00
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.34
Consensus pattern (48 bp):
TACCTTGATTTGGCTTCGAGCCATGGTATAGGTACTCCAAAGATAAGT
Found at i:58866889 original size:34 final size:34
Alignment explanation
Indices: 58866851--58866930 Score: 108
Period size: 34 Copynumber: 2.4 Consensus size: 34
58866841 CATGGCATCC
58866851 ATAGAGATAAGTCTACCAAGACAGTAAACAC-GAA
1 ATAGAGATAAGTCTACCAAGACAGTAAACACAG-A
* * *
58866885 ATAGAGATAAGTCTATCAGGATAGTAAACACAGA
1 ATAGAGATAAGTCTACCAAGACAGTAAACACAGA
*
58866919 ATAGAGTTAAGT
1 ATAGAGATAAGT
58866931 TCGCTGGGAC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
34 40 0.98
35 1 0.02
ACGTcount: A:0.47, C:0.12, G:0.20, T:0.20
Consensus pattern (34 bp):
ATAGAGATAAGTCTACCAAGACAGTAAACACAGA
Found at i:58870234 original size:18 final size:18
Alignment explanation
Indices: 58870211--58870258 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
58870201 TGCCAAAATG
*
58870211 GTATTGATATTTATTTGA
1 GTATTGATACTTATTTGA
58870229 GTATTGATACTTATTTGA
1 GTATTGATACTTATTTGA
58870247 GTATTGATACTT
1 GTATTGATACTT
58870259 TTTCATAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.27, C:0.04, G:0.17, T:0.52
Consensus pattern (18 bp):
GTATTGATACTTATTTGA
Found at i:58874443 original size:3 final size:3
Alignment explanation
Indices: 58874435--58874464 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
58874425 ATAAGCATGA
58874435 ATG ATG ATG ATG ATG ATG ATG ATG AT- ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
58874465 GCACGCATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.37, C:0.00, G:0.30, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:58875026 original size:34 final size:34
Alignment explanation
Indices: 58874988--58875108 Score: 161
Period size: 34 Copynumber: 3.6 Consensus size: 34
58874978 TTGGGACAAA
* *
58874988 AAACACAGAATATAGATAAGTTCGCCAGGATAGT
1 AAACACAGAATAGAGATAAGTCCGCCAGGATAGT
*
58875022 AAACATAGAATAGAGATAAGTCCGCCAGGATAGT
1 AAACACAGAATAGAGATAAGTCCGCCAGGATAGT
* * * *
58875056 AAAAATAGAATAGAGATAAGTCCGCTAGGACAGT
1 AAACACAGAATAGAGATAAGTCCGCCAGGATAGT
* *
58875090 AAACACAAAATAAAGATAA
1 AAACACAGAATAGAGATAA
58875109 TGTAACAGCC
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 77 1.00
ACGTcount: A:0.50, C:0.13, G:0.20, T:0.17
Consensus pattern (34 bp):
AAACACAGAATAGAGATAAGTCCGCCAGGATAGT
Found at i:58897451 original size:14 final size:14
Alignment explanation
Indices: 58897432--58897461 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
58897422 AATAGGGCAT
58897432 ACATACTGACTTGC
1 ACATACTGACTTGC
58897446 ACATACTGACTTGC
1 ACATACTGACTTGC
58897460 AC
1 AC
58897462 CACACGGCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.30, G:0.13, T:0.27
Consensus pattern (14 bp):
ACATACTGACTTGC
Found at i:58900872 original size:24 final size:25
Alignment explanation
Indices: 58900830--58900876 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
58900820 TAAACTCCTC
*
58900830 CTGAGCTGATAAACAGTAAGCTCAA
1 CTGAGCTGACAAACAGTAAGCTCAA
*
58900855 CTGAGCTG-CAAACGGTAAGCTC
1 CTGAGCTGACAAACAGTAAGCTC
58900877 CATTGTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.19
Consensus pattern (25 bp):
CTGAGCTGACAAACAGTAAGCTCAA
Found at i:58911085 original size:29 final size:29
Alignment explanation
Indices: 58911052--58911129 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
58911042 GTGACGAGAT
* *
58911052 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGAGCTGGAAAAATA
*
58911081 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGAGCTGGAAAAATA
* **
58911110 CGGCACTGGGTGTGCGAGCT
1 TGGCACTAAGTGTGCGAGCT
58911130 CGGAGGGTAT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.27, C:0.17, G:0.33, T:0.23
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTGGAAAAATA
Found at i:58918930 original size:29 final size:29
Alignment explanation
Indices: 58918897--58918974 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
58918887 GTGACGAGAT
* *
58918897 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGAGCTGGAAAAATA
*
58918926 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGAGCTGGAAAAATA
* **
58918955 CGGCACTGGGTGTGCGAGCT
1 TGGCACTAAGTGTGCGAGCT
58918975 CGGAGGGTAT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.27, C:0.17, G:0.33, T:0.23
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTGGAAAAATA
Found at i:58922146 original size:2 final size:2
Alignment explanation
Indices: 58922139--58922169 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
58922129 AAGTGTTGAA
58922139 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
58922170 ATAAAATAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:58922322 original size:38 final size:40
Alignment explanation
Indices: 58922278--58922355 Score: 106
Period size: 38 Copynumber: 2.0 Consensus size: 40
58922268 TGAAATCAAC
58922278 AATATATAAAAAATAATGTATAA-TATAAATTTT-AAAAT
1 AATATATAAAAAATAATGTATAAGTATAAATTTTGAAAAT
***
58922316 AATATATAATGTATAATGTATAATGTATAAATTTTGAAAA
1 AATATATAAAAAATAATGTATAA-GTATAAATTTTGAAAA
58922356 CAAAAACACA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
38 20 0.59
40 10 0.29
41 4 0.12
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.38
Consensus pattern (40 bp):
AATATATAAAAAATAATGTATAAGTATAAATTTTGAAAAT
Found at i:58922331 original size:14 final size:14
Alignment explanation
Indices: 58922314--58922345 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
58922304 AAATTTTAAA
58922314 ATAATATATAATGT
1 ATAATATATAATGT
*
58922328 ATAATGTATAATGT
1 ATAATATATAATGT
58922342 ATAA
1 ATAA
58922346 ATTTTGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (14 bp):
ATAATATATAATGT
Found at i:58922394 original size:14 final size:16
Alignment explanation
Indices: 58922375--58922407 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
58922365 ATGTATAAAG
58922375 GAAATTTTA-A-AATA
1 GAAATTTTACATAATA
58922389 GAAATTTTACATAATA
1 GAAATTTTACATAATA
58922405 GAA
1 GAA
58922408 TAATTTAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
15 1 0.06
16 7 0.41
ACGTcount: A:0.55, C:0.03, G:0.09, T:0.33
Consensus pattern (16 bp):
GAAATTTTACATAATA
Found at i:58922512 original size:22 final size:22
Alignment explanation
Indices: 58922487--58922528 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
58922477 TAAGATAATT
58922487 TTAAAAAACAAAT-AATAAAATC
1 TTAAAAAA-AAATGAATAAAATC
*
58922509 TTAAATAAAAATGAATAAAA
1 TTAAAAAAAAATGAATAAAA
58922529 ACATAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (22 bp):
TTAAAAAAAAATGAATAAAATC
Found at i:58922535 original size:22 final size:22
Alignment explanation
Indices: 58922496--58922542 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
58922486 TTTAAAAAAC
* *
58922496 AAATAATAAAATCTTAAA-TAA
1 AAATAATAAAAACATAAATTAA
58922517 AAATGAATAAAAACATAAATTAA
1 AAAT-AATAAAAACATAAATTAA
58922540 AAA
1 AAA
58922543 AACTCGATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 4 0.18
22 12 0.55
23 6 0.27
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.23
Consensus pattern (22 bp):
AAATAATAAAAACATAAATTAA
Found at i:58924259 original size:43 final size:45
Alignment explanation
Indices: 58924178--58924272 Score: 113
Period size: 43 Copynumber: 2.2 Consensus size: 45
58924168 CTGCTTAGGG
** * *
58924178 AGATAAGATCTTCAATCTTCAGTCTACTTTCTTACTACCTTAGAA
1 AGATAAGATCTTCAATCTTCAACCTACTCTCTTACTACCTCAGAA
* * *
58924223 AGATAAGA-C-TCAATCTTCAACCTGCTCTCTTGCTACCTCAGAG
1 AGATAAGATCTTCAATCTTCAACCTACTCTCTTACTACCTCAGAA
58924266 AGATAAG
1 AGATAAG
58924273 GCTAGTGGCT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
43 34 0.79
44 1 0.02
45 8 0.19
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.32
Consensus pattern (45 bp):
AGATAAGATCTTCAATCTTCAACCTACTCTCTTACTACCTCAGAA
Found at i:58924404 original size:176 final size:177
Alignment explanation
Indices: 58924073--58924497 Score: 525
Period size: 176 Copynumber: 2.4 Consensus size: 177
58924063 AGACTACAAA
* * * *
58924073 CTCTTGCTACCTTAGAGAGATAAGGCTAATGGCTAAAATCTGCTCCATTGCCGGTACATGAAGAT
1 CTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGAT
* * *
58924138 AAGATTCGCCATATTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTTCAATCTTCAGTCT
66 AAGATTCGCCATATTCGATCTACCCCACTACTGCCTAGGGAGATAAGATCTTAAATCTTCAGTCT
* *** *
58924203 ACTTTCTTACTACCTTAGAAAGATAAGAC-TCAATCTTCAACCTGCT
131 ACTTCCTTACTACAACAGAAAGATAAGACTTCAATATTCAACCTGCT
58924249 CTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGAT
1 CTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGAT
* *
58924314 AAGATTCGCCAT-CTCTGATCTACCCCACTACTGCCTAGGGAGATAAGATCTGTAAAT-TTTAGT
66 AAGATTCGCCATATTC-GATCTACCCCACTACTGCCTAGGGAGATAAGATCT-TAAATCTTCAGT
* * * ** * *
58924377 CTGCTTCCTTGCTACAACAGGAAGATAAGACTTGTATATTGAGCCTGCT
129 CTACTTCCTTACTACAACAGAAAGATAAGACTTCAATATTCAACCTGCT
* * * * * * * *
58924426 C-CAACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTAAATCTGCTCTATTGCCAATACATGGAG
1 CTC--TTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATACATGGAG
58924490 ATAAGATT
64 ATAAGATT
58924498 TGTCGTCTTT
Statistics
Matches: 215, Mismatches: 29, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
175 2 0.01
176 136 0.63
177 17 0.08
178 60 0.28
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (177 bp):
CTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGAT
AAGATTCGCCATATTCGATCTACCCCACTACTGCCTAGGGAGATAAGATCTTAAATCTTCAGTCT
ACTTCCTTACTACAACAGAAAGATAAGACTTCAATATTCAACCTGCT
Found at i:58924812 original size:64 final size:63
Alignment explanation
Indices: 58924706--58924888 Score: 287
Period size: 64 Copynumber: 2.9 Consensus size: 63
58924696 ATGCTTATGC
* *
58924706 CAAATAATTAGGACGCTATGATCAAAATGAATCAAATACTCCTAACTAAATGTGACGCTGATGT
1 CAAATAATTAGGACGCTATGATC-AAATGAATCAAATGCTCCTAACTAGATGTGACGCTGATGT
*
58924770 CAAATAATTAGGACGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGATGCTGATGT
1 CAAATAATTAGGACGCTATGATC-AAATGAATCAAATGCTCCTAACTAGATGTGACGCTGATGT
*
58924834 CAAATAATTAGGATGCTATGATCAAAGTGAATCAAATG-TGCCTAACTAGATGTGA
1 CAAATAATTAGGACGCTATGATCAAA-TGAATCAAATGCT-CCTAACTAGATGTGA
58924889 TGTGAATGAT
Statistics
Matches: 112, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
63 4 0.04
64 108 0.96
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (63 bp):
CAAATAATTAGGACGCTATGATCAAATGAATCAAATGCTCCTAACTAGATGTGACGCTGATGT
Found at i:58932768 original size:13 final size:15
Alignment explanation
Indices: 58932750--58932787 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
58932740 ATTATTGGAT
58932750 TTTTATTTTG-T-TA
1 TTTTATTTTGATCTA
*
58932763 TTTTATTTTGATCTT
1 TTTTATTTTGATCTA
58932778 TTTTATTTTG
1 TTTTATTTTG
58932788 GTTTTGGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 10 0.45
14 1 0.05
15 11 0.50
ACGTcount: A:0.13, C:0.03, G:0.08, T:0.76
Consensus pattern (15 bp):
TTTTATTTTGATCTA
Found at i:58932783 original size:15 final size:13
Alignment explanation
Indices: 58932749--58932792 Score: 52
Period size: 15 Copynumber: 3.2 Consensus size: 13
58932739 TATTATTGGA
58932749 TTTTTATTTTGTT
1 TTTTTATTTTGTT
*
58932762 ATTTTATTTTGATCT
1 TTTTTATTTTG-T-T
58932777 TTTTTATTTTGGTT
1 TTTTTATTTT-GTT
58932791 TT
1 TT
58932793 GGTATAGGCC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
13 10 0.38
14 4 0.15
15 11 0.42
16 1 0.04
ACGTcount: A:0.11, C:0.02, G:0.09, T:0.77
Consensus pattern (13 bp):
TTTTTATTTTGTT
Found at i:58933100 original size:23 final size:24
Alignment explanation
Indices: 58933069--58933173 Score: 80
Period size: 23 Copynumber: 4.6 Consensus size: 24
58933059 TTGAGCTAAT
58933069 AAATAGTAAGCTC-ATTGAGCTGC
1 AAATAGTAAGCTCTATTGAGCTGC
*
58933092 AAATGGTAAGCTCTATTGAGCTG-
1 AAATAGTAAGCTCTATTGAGCTGC
* *
58933115 -AACAGTAAGCTCT-TTCGAGTTG-
1 AAATAGTAAGCTCTATT-GAGCTGC
* * *
58933137 -AATCGATAAGCTCTAATGAGCT-A
1 AAATAG-TAAGCTCTATTGAGCTGC
*
58933160 AAACAGTAAGCTCT
1 AAATAGTAAGCTCT
58933174 TACAAGATGA
Statistics
Matches: 66, Mismatches: 10, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
21 2 0.03
22 19 0.29
23 32 0.48
24 13 0.20
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (24 bp):
AAATAGTAAGCTCTATTGAGCTGC
Found at i:58933125 original size:45 final size:46
Alignment explanation
Indices: 58933073--58933172 Score: 116
Period size: 45 Copynumber: 2.2 Consensus size: 46
58933063 GCTAATAAAT
* * *
58933073 AGTAAGCTCATT-GAGCTGCAAAT-GGTAAGCTCTATTGAGCT-GAAC
1 AGTAAGCTCATTCGAGCTG--AATCGATAAGCTCTAATGAGCTAAAAC
* *
58933118 AGTAAGCTCTTTCGAGTTGAATCGATAAGCTCTAATGAGCTAAAAC
1 AGTAAGCTCATTCGAGCTGAATCGATAAGCTCTAATGAGCTAAAAC
58933164 AGTAAGCTC
1 AGTAAGCTC
58933173 TTACAAGATG
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
44 3 0.06
45 27 0.57
46 17 0.36
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (46 bp):
AGTAAGCTCATTCGAGCTGAATCGATAAGCTCTAATGAGCTAAAAC
Found at i:58933185 original size:46 final size:45
Alignment explanation
Indices: 58933097--58933195 Score: 128
Period size: 46 Copynumber: 2.2 Consensus size: 45
58933087 GCTGCAAATG
* * * * *
58933097 GTAAGCTCTATTGAGCTGAACAGTAAGCTCTTTCGAGTTGAATC-
1 GTAAGCTCTAATGAGCTAAACAGTAAGCTCTTACAAGATGAATCA
58933141 GATAAGCTCTAATGAGCTAAAACAGTAAGCTCTTACAAGATGAATCA
1 G-TAAGCTCTAATGAGCT-AAACAGTAAGCTCTTACAAGATGAATCA
58933188 GTAAGCTC
1 GTAAGCTC
58933196 ATACGAGCAG
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
44 1 0.02
45 15 0.32
46 30 0.64
47 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.27
Consensus pattern (45 bp):
GTAAGCTCTAATGAGCTAAACAGTAAGCTCTTACAAGATGAATCA
Found at i:58936148 original size:26 final size:27
Alignment explanation
Indices: 58936086--58936150 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
58936076 ATTATTGAGG
* *
58936086 TTATTAGTTTATCGATAAATAAATATT
1 TTATTAATTTATCGACAAATAAATATT
58936113 TTATTAATTTATCGACAAATAAATA-T
1 TTATTAATTTATCGACAAATAAATATT
58936139 TTATTAATTTAT
1 TTATTAATTTAT
58936151 AGAATATTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
26 13 0.36
27 23 0.64
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.49
Consensus pattern (27 bp):
TTATTAATTTATCGACAAATAAATATT
Found at i:58936266 original size:34 final size:37
Alignment explanation
Indices: 58936227--58936297 Score: 112
Period size: 34 Copynumber: 2.0 Consensus size: 37
58936217 ACTCAACGTC
58936227 AATTGGTTCATGTAA-C-AAA-AAAAAAGAGTTAATT
1 AATTGGTTCATGTAACCAAAAGAAAAAAGAGTTAATT
58936261 AATTGGTTCATGTAACCAAAAAGAAAAAAGAGTTAAT
1 AATTGGTTCATGTAACC-AAAAGAAAAAAGAGTTAAT
58936298 GGTTTCAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
34 15 0.45
35 1 0.03
37 3 0.09
38 14 0.42
ACGTcount: A:0.51, C:0.07, G:0.15, T:0.27
Consensus pattern (37 bp):
AATTGGTTCATGTAACCAAAAGAAAAAAGAGTTAATT
Found at i:58939949 original size:35 final size:35
Alignment explanation
Indices: 58939903--58939970 Score: 136
Period size: 35 Copynumber: 1.9 Consensus size: 35
58939893 ACTGGCCTAG
58939903 ACTATGCTTATATGTTTTTCTTGAATGAATCGTAA
1 ACTATGCTTATATGTTTTTCTTGAATGAATCGTAA
58939938 ACTATGCTTATATGTTTTTCTTGAATGAATCGT
1 ACTATGCTTATATGTTTTTCTTGAATGAATCGT
58939971 TGGCGGACAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.26, C:0.12, G:0.15, T:0.47
Consensus pattern (35 bp):
ACTATGCTTATATGTTTTTCTTGAATGAATCGTAA
Found at i:58940424 original size:57 final size:59
Alignment explanation
Indices: 58940326--58940506 Score: 178
Period size: 58 Copynumber: 3.1 Consensus size: 59
58940316 GTAAGATAAA
* * *
58940326 CCTTAGTG-GACTTCCCAACACTAGATAGTCTTAAC-GAACATCC-CTTCATTTGTTAAT
1 CCTTAGCGTGACTTCCCAACAATAGATAGTCCTAACAG-ACATCCTCTTCATTTGTTAAT
* * * *
58940383 CCTT-G-GTTGACTTCCCAACAATAGATAGTCCTAACAGACATCCTCCTCATTCGATAGT
1 CCTTAGCG-TGACTTCCCAACAATAGATAGTCCTAACAGACATCCTCTTCATTTGTTAAT
* * * *
58940441 CCTTAGCGT-ACTTCTCAA-AACTAGATAGTACTAATAGACATCCTCTTCATTTGTTAGT
1 CCTTAGCGTGACTTCCCAACAA-TAGATAGTCCTAACAGACATCCTCTTCATTTGTTAAT
*
58940499 CCCTAGCG
1 CCTTAGCG
58940507 AACTTTATAG
Statistics
Matches: 104, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
55 1 0.01
56 1 0.01
57 37 0.36
58 62 0.60
59 2 0.02
60 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (59 bp):
CCTTAGCGTGACTTCCCAACAATAGATAGTCCTAACAGACATCCTCTTCATTTGTTAAT
Found at i:58943843 original size:40 final size:40
Alignment explanation
Indices: 58943788--58944008 Score: 376
Period size: 40 Copynumber: 5.6 Consensus size: 40
58943778 TATTCGAATG
58943788 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
58943828 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
58943868 ATA-CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
58943907 ATATTCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
58943947 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
58943987 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
58944009 TACTTGGGTT
Statistics
Matches: 173, Mismatches: 6, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
39 53 0.31
40 118 0.68
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:58943923 original size:79 final size:80
Alignment explanation
Indices: 58943788--58944008 Score: 367
Period size: 79 Copynumber: 2.8 Consensus size: 80
58943778 TATTCGAATG
*
58943788 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATTCGGGCTAAGTCCCGAAGGCA
58943853 TTTGTGCTAGTGACT
66 TTTGTGCTAGTGACT
58943868 ATA-CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATTCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATTCGGGCTAAGTCCCGAAGGCA
58943932 TTTGTGCTAGTGACT
66 TTTGTGCTAGTGACT
* * * *
58943947 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATA-TCCGGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTATATTCGGGCTAAGTCCCGAAGG
58944009 TACTTGGGTT
Statistics
Matches: 134, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
79 95 0.71
80 37 0.28
81 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATTCGGGCTAAGTCCCGAAGGCA
TTTGTGCTAGTGACT
Found at i:58944004 original size:119 final size:119
Alignment explanation
Indices: 58943788--58944008 Score: 374
Period size: 119 Copynumber: 1.9 Consensus size: 119
58943778 TATTCGAATG
*
58943788 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
58943853 TTTGTGCTAGTGACTATACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
66 TTTGTGCGAGTGACTATACCGGGCTAAATCCCGAAGGCATTTGTGCTAGTGACT
*
58943907 ATATTCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
58943972 TTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAGG
66 TTTGTGCGAG-TGACTATA-CCGGGCTAAATCCCGAAGG
58944009 TACTTGGGTT
Statistics
Matches: 96, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
119 92 0.96
120 4 0.04
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (119 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTGACTATACCGGGCTAAATCCCGAAGGCATTTGTGCTAGTGACT
Found at i:58959911 original size:40 final size:39
Alignment explanation
Indices: 58959855--58960073 Score: 208
Period size: 40 Copynumber: 5.5 Consensus size: 39
58959845 GCTCGATTGT
* * *
58959855 CTTCGGGACATT-GCCCGGTTATAGTGATTCGCACAATTGC
1 CTTCGGGA-ATTAGCCCGGTT-TAGTAACTCGCACAAATGC
* **
58959895 CTTAGGGAATTAGCCCGGATTTAGTAACTCGCATGAATGC
1 CTTCGGGAATTAGCCCGG-TTTAGTAACTCGCACAAATGC
* * *
58959935 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGAATTAGCCCGG-TTTAGTAACTCGCACAAATGC
* * *
58959975 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGAATTAGCCCGG-TTTAGTAACTCGCACAAATGC
* * *
58960015 CTTCGGGAATT-GACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGAATTAG-CCCGG-TTTAGTAAC-TCGCACAAATGC
*
58960056 CTTCGGGACTTAGCCCGG
1 CTTCGGGAATTAGCCCGG
58960074 ACACCATTCG
Statistics
Matches: 153, Mismatches: 21, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
39 3 0.02
40 122 0.80
41 27 0.18
42 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (39 bp):
CTTCGGGAATTAGCCCGGTTTAGTAACTCGCACAAATGC
Found at i:58959953 original size:80 final size:78
Alignment explanation
Indices: 58959855--58960074 Score: 233
Period size: 80 Copynumber: 2.7 Consensus size: 78
58959845 GCTCGATTGT
* * * * *
58959855 CTTCGGGACATTGCCCGGTTATAGTGATTCGCACAATTGCCTTAGGGAATTAGCCCGGATTTAGT
1 CTTCGGGAC-TTACCCGGTT-TAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGT
**
58959920 AACTCGCATGAATGC
64 AACTCGCACAAATGC
* * * * *
58959935 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGT
1 CTTCGGGACTT-ACCCGG-TTTAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGT
58960000 AACTCGCACAAATGC
64 AACTCGCACAAATGC
* * * *
58960015 CTTCGGGAATTGACCCGGATTTAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 CTTCGGGACTT-ACCCGG-TTTAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCGGA
58960075 CACCATTCGA
Statistics
Matches: 115, Mismatches: 22, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
79 2 0.02
80 83 0.72
81 30 0.26
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (78 bp):
CTTCGGGACTTACCCGGTTTAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAA
CTCGCACAAATGC
Found at i:58966266 original size:80 final size:79
Alignment explanation
Indices: 58966113--58966277 Score: 188
Period size: 80 Copynumber: 2.1 Consensus size: 79
58966103 TCTTCAGAAT
* * * ** *
58966113 TTAGCCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCTGGATTTGGTAACTTGCACA
1 TTAGCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACA
* *
58966178 AATGCCTTCGGGTC
66 AATACCTTCGGGAC
** * *
58966192 TTAGCACGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCA
1 TTAGC-CGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCA
*
58966256 TAAATACCTTCGGGAC
64 CAAATACCTTCGGGAC
58966272 TTAGCC
1 TTAGCC
58966278 CGGGTATCAT
Statistics
Matches: 71, Mismatches: 13, Indels: 4
0.81 0.15 0.05
Matches are distributed among these distances:
79 6 0.08
80 63 0.89
81 2 0.03
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (79 bp):
TTAGCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACA
AATACCTTCGGGAC
Found at i:58966275 original size:40 final size:40
Alignment explanation
Indices: 58966113--58966280 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
58966103 TCTTCAGAAT
* * *
58966113 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * * *** *
58966152 TTAACCTGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *
58966192 TTAGCACGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *
58966232 TTAGCCCGGATATAATC-ACTAGCATAAATACCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
58966272 TTAGCCCGG
1 TTAGCCCGG
58966281 GTATCATTCA
Statistics
Matches: 102, Mismatches: 25, Indels: 3
0.78 0.19 0.02
Matches are distributed among these distances:
39 3 0.03
40 98 0.96
41 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:58977216 original size:29 final size:29
Alignment explanation
Indices: 58977182--58977257 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
58977172 TACTCGATTT
* * *
58977182 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
** * * *
58977211 CGCACACACAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
58977240 CGCACACTTAGTGCCATA
1 CGCACACTTAGTGCCATA
58977258 TTTCAGTGCA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.25, C:0.36, G:0.18, T:0.21
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:58977314 original size:29 final size:29
Alignment explanation
Indices: 58977270--58977358 Score: 157
Period size: 27 Copynumber: 3.2 Consensus size: 29
58977260 TCAGTGCACA
58977270 TGCCATAT-TTTCCAGCATGCACACTTAG
1 TGCCATATATTTCCAGCATGCACACTTAG
58977298 TGCCATATATTTCCAGCATGCACACTTAG
1 TGCCATATATTTCCAGCATGCACACTTAG
58977327 TGCC--ATATTTCCAGCATGCACACTTAG
1 TGCCATATATTTCCAGCATGCACACTTAG
58977354 TGCCA
1 TGCCA
58977359 ATCTCGTCAC
Statistics
Matches: 59, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
27 27 0.46
28 8 0.14
29 24 0.41
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.30
Consensus pattern (29 bp):
TGCCATATATTTCCAGCATGCACACTTAG
Found at i:58981842 original size:29 final size:29
Alignment explanation
Indices: 58981808--58981994 Score: 87
Period size: 29 Copynumber: 6.6 Consensus size: 29
58981798 TACTCGATTT
* * *
58981808 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
** * * *
58981837 CGCACACACAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * *
58981866 CGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
* * ** * *
58981895 TGCACACTCAGTGCCATA-TTTTCCAGCA
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * * *
58981923 TGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
* * * *
58981952 TGCACACTTAGTGCCATA--TTTCCAGCA
1 CGCACACTTAGTGCCATACCATTCAAGCC
*
58981979 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
58981995 ATCTCGTCAC
Statistics
Matches: 136, Mismatches: 20, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 24 0.18
28 26 0.19
29 86 0.63
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:58981928 original size:86 final size:84
Alignment explanation
Indices: 58981838--58981994 Score: 217
Period size: 86 Copynumber: 1.8 Consensus size: 84
58981828 ATTTAAGCCC
* *
58981838 GCACACACAGTGCCATACCCTTCGAGC-TCGCACACTTAGTGCCATATATTTCCAGCATGCACAC
1 GCACACACAGTGCCATACACTTCCAGCAT-GCACACTTAGTGCC--ATATTTCCAGCATGCACAC
58981902 TCAGTGCCATATTTTCCAGCAT
63 TCAGTGCCATATTTTCCAGCAT
** * * *
58981924 GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATTTCCAGCATGCACACTTA
1 GCACACACAGTGCCATACACTTCCAGCATGCACACTTAGTGCCATATTTCCAGCATGCACACTCA
58981989 GTGCCA
66 GTGCCA
58981995 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
84 27 0.43
86 35 0.56
87 1 0.02
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.27
Consensus pattern (84 bp):
GCACACACAGTGCCATACACTTCCAGCATGCACACTTAGTGCCATATTTCCAGCATGCACACTCA
GTGCCATATTTTCCAGCAT
Found at i:58981940 original size:57 final size:56
Alignment explanation
Indices: 58981867--58981994 Score: 238
Period size: 57 Copynumber: 2.3 Consensus size: 56
58981857 CTTCGAGCTC
58981867 GCACACTTAGTGCCATATATTTCCAGCATGCACACTCAGTGCCATATTTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCATGCACACTCAGTGCCATA-TTTCCAGCAT
*
58981924 GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCATGCACACTCAGTGCCATATTTCCAGCAT
58981980 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
58981995 ATCTCGTCAC
Statistics
Matches: 70, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
56 25 0.36
57 45 0.64
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.29
Consensus pattern (56 bp):
GCACACTTAGTGCCATATATTTCCAGCATGCACACTCAGTGCCATATTTCCAGCAT
Found at i:58981972 original size:27 final size:27
Alignment explanation
Indices: 58981867--58981994 Score: 202
Period size: 29 Copynumber: 4.6 Consensus size: 27
58981857 CTTCGAGCTC
58981867 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCC--ATATTTCCAGCAT
*
58981896 GCACACTCAGTGCCATATTTTCCAGCAT
1 GCACACTTAGTGCCATA-TTTCCAGCAT
58981924 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCC--ATATTTCCAGCAT
58981953 GCACACTTAGTGCCATATTTCCAGCAT
1 GCACACTTAGTGCCATATTTCCAGCAT
58981980 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
58981995 ATCTCGTCAC
Statistics
Matches: 94, Mismatches: 2, Indels: 8
0.90 0.02 0.08
Matches are distributed among these distances:
27 31 0.33
28 23 0.24
29 37 0.39
30 3 0.03
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.29
Consensus pattern (27 bp):
GCACACTTAGTGCCATATTTCCAGCAT
Found at i:58986170 original size:40 final size:40
Alignment explanation
Indices: 58986121--58986288 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
58986111 TCTTCGGAAT
* * *
58986121 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *** *
58986160 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
58986200 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
58986240 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
58986280 TTAGCCCGG
1 TTAGCCCGG
58986289 GTATCATTCA
Statistics
Matches: 107, Mismatches: 20, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 103 0.96
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:58989401 original size:40 final size:40
Alignment explanation
Indices: 58989293--58989502 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
58989283 CGGGATTTAA
* * * * *
58989293 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
58989333 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
58989373 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
58989413 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
58989453 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
58989493 CCGGATATAT
1 CCGGATATAT
58989503 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:58991541 original size:318 final size:317
Alignment explanation
Indices: 58990950--58991584 Score: 798
Period size: 318 Copynumber: 2.0 Consensus size: 317
58990940 AACATGTTTC
*
58990950 ATGACATGATTTTTGCCCATAAATCCTTGTCATGGCCGGCCACTAGCTATGGGGGGGGAAATTTG
1 ATGACATGA-TTTTGCCCATAAATCCTTGTCATGGCCGGCCACTAGCTATGGGGAGGGAAATTTG
** * * * *
58991015 ACATGCAAGTCCATTGTTTTGCATGCATCCTTTAATTAGTCATCACACATTTCCCCTCATACTTT
65 ACATGCAAACCCATTGTTTTGCATGCATCCATCAACTAGTCATCACACATTTCCCATCATACTTT
* * ** *
58991080 CAAAGTTTATTACTAGGTCCTTTCTAGTGAAATTCACATCTATAATTCTAAATCAAAGCATAAAA
130 CAAAGTTTACTACTAGGTCCTTTCTAGTGAAATTCACATCTAAAACCCTAAATCAAAACATAAAA
* *
58991145 AATATCACACATGAGTTAACACACATTATAGGCAATAAAATAAATATTAAATTATTTTTATGCCT
195 AATATCACACATGAATTAACACACATTATAAGCAATAAAATAAATATTAAATTATTTTTATGCCT
* * * *
58991210 TGGTTTTGTGGTCCCGAAACCACATT-TCGACTAGGGTC-GTTTTAAGGCTGTCACATCT
260 CGGTTTGGTGGTCCCGAAACCAC-TTCCCGACTAGGGTCAATTTT-AGGCTGTCACATCT
* * * ***
58991268 ATGACATG-TTTTGCCCATAATTCTTTGTCATGGCCGGCCACTAGGCTTTAGTTTAGGGAAATTT
1 ATGACATGATTTTGCCCATAAATCCTTGTCATGGCCGGCCACTA-GCTAT-GGGGAGGGAAATTT
* * *
58991332 GACATGCAAACCCCTCAT-TTTTGCATGCAT-GATCAACTAGTCATCACACATTTCCCTATCCTA
64 GACATGCAAACCCAT--TGTTTTGCATGCATCCATCAACTAGTCATCACACATTTCCC-ATCATA
* * * *
58991395 TTTTCAAAGTTTACTACTAGGTCCTTTTTAGTGAAATTCCCATTTAAAACCCTAAATCAAAACAT
126 CTTTCAAAGTTTACTACTAGGTCCTTTCTAGTGAAATTCACATCTAAAACCCTAAATCAAAACAT
* * * * * *
58991460 -CAAAATGTCACACATGAATTAACACATATTATAAGC-ATCAAAATGAATATTAGATTATTTTTG
191 AAAAAATATCACACATGAATTAACACACATTATAAGCAAT-AAAATAAATATTAAATTATTTTTA
*
58991523 TGCCTCGGTTTGGTGGTCCCGAAACCACTTCCCGACTAGGGTCAATTTTGGGCTGTCACATC
255 TGCCTCGGTTTGGTGGTCCCGAAACCACTTCCCGACTAGGGTCAATTTTAGGCTGTCACATC
58991585 AACTGTTTTC
Statistics
Matches: 271, Mismatches: 38, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
316 33 0.12
317 8 0.03
318 153 0.56
319 76 0.28
320 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (317 bp):
ATGACATGATTTTGCCCATAAATCCTTGTCATGGCCGGCCACTAGCTATGGGGAGGGAAATTTGA
CATGCAAACCCATTGTTTTGCATGCATCCATCAACTAGTCATCACACATTTCCCATCATACTTTC
AAAGTTTACTACTAGGTCCTTTCTAGTGAAATTCACATCTAAAACCCTAAATCAAAACATAAAAA
ATATCACACATGAATTAACACACATTATAAGCAATAAAATAAATATTAAATTATTTTTATGCCTC
GGTTTGGTGGTCCCGAAACCACTTCCCGACTAGGGTCAATTTTAGGCTGTCACATCT
Found at i:58993917 original size:18 final size:17
Alignment explanation
Indices: 58993894--58993935 Score: 66
Period size: 18 Copynumber: 2.4 Consensus size: 17
58993884 AATAACATTA
*
58993894 TAATAATCATATTAATAT
1 TAATAATCATATT-ATAG
58993912 TAATAATCATATTATAG
1 TAATAATCATATTATAG
58993929 TAATAAT
1 TAATAAT
58993936 AAATAAATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (17 bp):
TAATAATCATATTATAG
Found at i:58995638 original size:10 final size:10
Alignment explanation
Indices: 58995623--58995656 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
58995613 GGCTGTGCCC
*
58995623 AGAGAGAAAT
1 AGAGAGAAAG
58995633 AGAGAGAAAG
1 AGAGAGAAAG
58995643 AGAGAGAAAG
1 AGAGAGAAAG
58995653 AGAG
1 AGAG
58995657 TTTTTTCTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.59, C:0.00, G:0.38, T:0.03
Consensus pattern (10 bp):
AGAGAGAAAG
Found at i:58997258 original size:39 final size:40
Alignment explanation
Indices: 58997108--58997332 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
58997098 GCTACTCGTT
* *
58997108 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
* *
58997148 CAAATGCCTTGGGGACTTAACCCGGATTTAGTGACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
58997188 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCTCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
58997228 CCAATGCCTTTGGG-CTTAACCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
58997267 CAAATGCCTTC-GGATCTTAGTCTGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
58997308 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
58997333 CATCATTCGA
Statistics
Matches: 158, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.20
40 111 0.70
41 13 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:58997316 original size:79 final size:80
Alignment explanation
Indices: 58997108--58997332 Score: 253
Period size: 79 Copynumber: 2.8 Consensus size: 80
58997098 GCTACTCGTT
* * * *
58997108 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTC-GCACAAATGCCTTGGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTCTGCACAAA-GCCTTCGGGACTTAACCCG
* *
58997172 GATTTAGTGACTCGCA
65 GAATTAGTAACTCGCA
* * *
58997188 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCT-CACCAATGCCTTTGGG-CTTAACCCG
1 CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTCTGCA-CAAAGCCTTCGGGACTTAACCCG
58997251 GAATTAGTAACTCGCA
65 GAATTAGTAACTCGCA
** * * *
58997267 CAAATGCCTTC-GGATCTTAGTCTGGATATAGTCACT-TAGCACAAAGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAACCCGGATATAGTAACTCT-GCACAAAGCCTTCGGGACTTAACCC
58997330 GGA
64 GGA
58997333 CATCATTCGA
Statistics
Matches: 123, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
78 4 0.03
79 61 0.50
80 55 0.45
81 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTCTGCACAAAGCCTTCGGGACTTAACCCGG
AATTAGTAACTCGCA
Found at i:59002677 original size:30 final size:30
Alignment explanation
Indices: 59002638--59002695 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
59002628 CATGATGACC
*
59002638 CCCGAGTGTCATACACGGCCTAGACACATG
1 CCCGAGTGTCACACACGGCCTAGACACATG
* *
59002668 CCCGTGTGTCACACACTGCCTAGACACA
1 CCCGAGTGTCACACACGGCCTAGACACA
59002696 CGCTTGTGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.26, C:0.36, G:0.21, T:0.17
Consensus pattern (30 bp):
CCCGAGTGTCACACACGGCCTAGACACATG
Found at i:59002705 original size:30 final size:30
Alignment explanation
Indices: 59002638--59002707 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
59002628 CATGATGACC
* * *
59002638 CCCGAGTGTCATACACGGCCTAGACACATG
1 CCCGTGTGTCACACACGGCCTAGACACACG
*
59002668 CCCGTGTGTCACACACTGCCTAGACACACG
1 CCCGTGTGTCACACACGGCCTAGACACACG
**
59002698 CTTGTGTGTC
1 CCCGTGTGTC
59002708 TACCCGTGTG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.21, C:0.34, G:0.23, T:0.21
Consensus pattern (30 bp):
CCCGTGTGTCACACACGGCCTAGACACACG
Done.