Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 217 of 378
Found at i:64472459 original size:27 final size:26
Alignment explanation
Indices: 64472417--64472518 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 26
64472407 GCAAAGTTAT
* *
64472417 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
*
64472444 CAGATATTATGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
64472470 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* *
64472498 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
64472519 TAACAAAATA
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 7 0.11
27 51 0.77
28 8 0.12
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:64472704 original size:22 final size:23
Alignment explanation
Indices: 64472676--64472737 Score: 83
Period size: 22 Copynumber: 2.8 Consensus size: 23
64472666 GCAAATACGT
*
64472676 TTGGCACACAGCCATAAT-TAGG
1 TTGGCACAAAGCCATAATGTAGG
*
64472698 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAATGTAGG
*
64472720 TTGACACAAAGCCATAAT
1 TTGGCACAAAGCCATAAT
64472738 CAGAAGGCTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.23
Consensus pattern (23 bp):
TTGGCACAAAGCCATAATGTAGG
Found at i:64474764 original size:49 final size:49
Alignment explanation
Indices: 64474636--64474992 Score: 578
Period size: 49 Copynumber: 7.4 Consensus size: 49
64474626 CCCTTCGAGA
* *
64474636 CTTATCACAT-T-TATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
64474683 CCTATCAC--ATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
64474730 CTTATCACATTTATATACACTTTCACATTCATCACGTCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
64474779 CTTATCACATATATACACACTTTCACATTCATCACGTCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
64474828 CTTATCACATATATACACACTTTCACATTCATCACGTCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
64474877 CTTATCACATATATACACACTTTCACATTCTTCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
64474926 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
64474975 CTTATCACATATATATAC
1 CTTATCACATATATATAC
64474993 CTCATACAAA
Statistics
Matches: 292, Mismatches: 14, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
46 1 0.00
47 47 0.16
49 244 0.84
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:64480930 original size:40 final size:39
Alignment explanation
Indices: 64480765--64480948 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
64480755 AAATTGAATG
* * *
64480765 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
64480805 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
64480845 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
64480885 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
64480924 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
64480949 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:64480973 original size:80 final size:81
Alignment explanation
Indices: 64480805--64480993 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
64480795 GCTGGAAATT
* * * *
64480805 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
64480870 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
64480886 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
64480949 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
64480965 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
64480994 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:64485926 original size:46 final size:46
Alignment explanation
Indices: 64485874--64486051 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
64485864 TGTAACCCGC
* *
64485874 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
* * * * *
64485920 CCATAAGTGAACTCAGAATCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG-TTCGCAT
* *** * * **
64485966 ACATTTCTCGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
* *
64486013 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG
64486052 CCCAAATATC
Statistics
Matches: 101, Mismatches: 28, Indels: 6
0.75 0.21 0.04
Matches are distributed among these distances:
46 69 0.68
47 32 0.32
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
Found at i:64485994 original size:93 final size:93
Alignment explanation
Indices: 64485882--64486053 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 93
64485872 GCCCATAAGT
***
64485882 GAACTCGGACTCAACTCAACAAGCTCGGGTGTTCGCATCCATAAGTGAACTCAGAATCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCAGAATCAACTCAA
64485947 CGAGCTCGGATGCCTAGTTACATTTCTC
66 CGAGCTCGGATGCCTAGTTACATTTCTC
* * * * *
64485975 GAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCAGAATCAACTCAA
* *
64486040 TGAGTTCGGATGCC
66 CGAGCTCGGATGCC
64486054 CAAATATCCT
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCAGAATCAACTCAA
CGAGCTCGGATGCCTAGTTACATTTCTC
Found at i:64494363 original size:23 final size:23
Alignment explanation
Indices: 64494319--64494364 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
64494309 AATACTGTTA
* * *
64494319 TTAGTAGCTTTGCTGCGTTATTG
1 TTAGTAGCCTCGCTGCGATATTG
*
64494342 TTAGTAGCCTCGCTGTGATATTG
1 TTAGTAGCCTCGCTGCGATATTG
64494365 GTGTGTTGGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.15, C:0.15, G:0.26, T:0.43
Consensus pattern (23 bp):
TTAGTAGCCTCGCTGCGATATTG
Found at i:64498460 original size:17 final size:18
Alignment explanation
Indices: 64498432--64498466 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
64498422 ATAAATCTGT
*
64498432 GATGGAATATTTTCATGC
1 GATGGAATATTTTAATGC
64498450 GATGG-ATATTTTAATGC
1 GATGGAATATTTTAATGC
64498467 AACAAGCTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.40
Consensus pattern (18 bp):
GATGGAATATTTTAATGC
Found at i:64500794 original size:24 final size:23
Alignment explanation
Indices: 64500762--64500845 Score: 91
Period size: 23 Copynumber: 3.6 Consensus size: 23
64500752 TTAACATTGC
* *
64500762 TCATTAACATGTTCAATTATATGT
1 TCATGAACATGTTCGATTA-ATGT
*
64500786 TCATGAACATGTTCGTTTAATGTT
1 TCATGAACATGTTCGATTAATG-T
64500810 TC-TGAACATGTTCGATTAA-GT
1 TCATGAACATGTTCGATTAATGT
*
64500831 TAAATGAACATGTTC
1 T-CATGAACATGTTC
64500846 TTGAACATTA
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
21 2 0.04
22 1 0.02
23 30 0.58
24 19 0.37
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.42
Consensus pattern (23 bp):
TCATGAACATGTTCGATTAATGT
Found at i:64503535 original size:16 final size:16
Alignment explanation
Indices: 64503514--64503544 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
64503504 AGTTTAGGGG
64503514 CAAAATGTAATTTTTC
1 CAAAATGTAATTTTTC
*
64503530 CAAAATGTGATTTTT
1 CAAAATGTAATTTTT
64503545 GGATCACATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.45
Consensus pattern (16 bp):
CAAAATGTAATTTTTC
Found at i:64504383 original size:49 final size:50
Alignment explanation
Indices: 64504162--64504387 Score: 194
Period size: 50 Copynumber: 4.5 Consensus size: 50
64504152 TGAGAACACA
* ** * *
64504162 TGTGTAGTACTATGTGCAGGCTACT--ATGTTTAAAATGGTTTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACATGGATCAGATGG--TTAGGTCACG
* * *** *
64504212 TGTGTAGTACTAAGTGCAGGCTACTATGCAT--ACCCGACAACTTCA-ATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTA--CATGGATCAGA-TGGTT-AGGTCACG
*
64504263 TGTGTAGTACTAAGTGCAAGCTACTACATGGATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACATGGATCAGATGGTTAGGTCACG
* * ** * *
64504313 TGTGTAGTACTAAGTGTAGGCTACTACATGTATTGGATTGTT-GGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACATGGATCAGATGGTTAGGTCACG
64504362 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
64504388 TGCGTACCAG
Statistics
Matches: 142, Mismatches: 25, Indels: 19
0.76 0.13 0.10
Matches are distributed among these distances:
49 35 0.25
50 67 0.47
51 36 0.25
52 2 0.01
54 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACATGGATCAGATGGTTAGGTCACG
Found at i:64504490 original size:22 final size:22
Alignment explanation
Indices: 64504462--64504504 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
64504452 ATTCTGATGA
64504462 GTTCAACAGTAAATCGACTAAT
1 GTTCAACAGTAAATCGACTAAT
64504484 GTTCAACAGTAAATCGACTAA
1 GTTCAACAGTAAATCGACTAA
64504505 GTGAAAATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.26
Consensus pattern (22 bp):
GTTCAACAGTAAATCGACTAAT
Found at i:64507950 original size:19 final size:19
Alignment explanation
Indices: 64507926--64507966 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
64507916 ATCGACATTT
64507926 ACATTAGTATCGATACCTA
1 ACATTAGTATCGATACCTA
64507945 ACATTAGTATCGATACCTA
1 ACATTAGTATCGATACCTA
64507964 ACA
1 ACA
64507967 CATAAATGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.29
Consensus pattern (19 bp):
ACATTAGTATCGATACCTA
Found at i:64508280 original size:22 final size:23
Alignment explanation
Indices: 64508237--64508280 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
64508227 TTTAGTGGTA
*
64508237 TCAGAGCCTAGGTTATCTAATAC
1 TCAGAGCCTAAGTTATCTAATAC
64508260 TCAGA-CCTAAGTT-TCTCAATA
1 TCAGAGCCTAAGTTATCT-AATA
64508281 TTCAAGACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 3 0.16
22 11 0.58
23 5 0.26
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.32
Consensus pattern (23 bp):
TCAGAGCCTAAGTTATCTAATAC
Found at i:64511336 original size:30 final size:30
Alignment explanation
Indices: 64511300--64511400 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
64511290 GACAAGATTG
* * *
64511300 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
64511330 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
64511358 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
64511387 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
64511401 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:64511412 original size:29 final size:28
Alignment explanation
Indices: 64511329--64511404 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
64511319 AAAATTGTAC
* *
64511329 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
64511357 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
64511386 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
64511405 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:64518444 original size:30 final size:30
Alignment explanation
Indices: 64518408--64518508 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
64518398 GACAAGATTG
* * *
64518408 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
64518438 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
64518466 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
64518495 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
64518509 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:64518520 original size:29 final size:28
Alignment explanation
Indices: 64518437--64518512 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
64518427 AAAATTGTAC
* *
64518437 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
64518465 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
64518494 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
64518513 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:64525869 original size:27 final size:27
Alignment explanation
Indices: 64525839--64525919 Score: 126
Period size: 27 Copynumber: 3.0 Consensus size: 27
64525829 AATCTCATAT
64525839 CTGTAGGATAGAATTACTGAAATACCC
1 CTGTAGGATAGAATTACTGAAATACCC
64525866 CTGTAGGATAGAATTACTGAAATACCC
1 CTGTAGGATAGAATTACTGAAATACCC
* * **
64525893 CTATAGGGTAGAATTACCAAAATACCC
1 CTGTAGGATAGAATTACTGAAATACCC
64525920 TCGATTAGCA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (27 bp):
CTGTAGGATAGAATTACTGAAATACCC
Found at i:64525934 original size:27 final size:27
Alignment explanation
Indices: 64525904--64526257 Score: 342
Period size: 27 Copynumber: 13.2 Consensus size: 27
64525894 TATAGGGTAG
* *
64525904 AATTACCAAAATACCCTCGATTAGCAA
1 AATTACCAAAATACCCTCGATTTGTAA
64525931 AATTACCAAAATACCCT-GATTTGTAA
1 AATTACCAAAATACCCTCGATTTGTAA
* * *
64525957 AATTAGCAAAATACCC-CTAATTTGTGA
1 AATTACCAAAATACCCTC-GATTTGTAA
* * **
64525984 AATTACCGAAATACCCTTGACCTGTAA
1 AATTACCAAAATACCCTCGATTTGTAA
* * ** *
64526011 AATTACCGAAATATCCTCGACCTATAA
1 AATTACCAAAATACCCTCGATTTGTAA
* * *
64526038 AATTATCGATATACCCTCGATTTGTAA
1 AATTACCAAAATACCCTCGATTTGTAA
64526065 AATTACCAAAATACCC-C-AGTTTGTAA
1 AATTACCAAAATACCCTCGA-TTTGTAA
* **
64526091 AATTACCGAAATACCCTTAATTTGTAA
1 AATTACCAAAATACCCTCGATTTGTAA
* *
64526118 AATTACCAAAATATCCTCGACTTGTAA
1 AATTACCAAAATACCCTCGATTTGTAA
* * ** *
64526145 AATTAACGAAATACCCTAAACTTGTAA
1 AATTACCAAAATACCCTCGATTTGTAA
64526172 AATTACC-AAATACCCTCGATTTGTAA
1 AATTACCAAAATACCCTCGATTTGTAA
* *
64526198 AATTACCAAAATACCC-CTAATTTGGAA
1 AATTACCAAAATACCCTC-GATTTGTAA
* * * *
64526225 AATTATCGAAATACCCTTGATTTGGAA
1 AATTACCAAAATACCCTCGATTTGTAA
64526252 AATTAC
1 AATTAC
64526258 AGAAACACCC
Statistics
Matches: 271, Mismatches: 47, Indels: 18
0.81 0.14 0.05
Matches are distributed among these distances:
25 1 0.00
26 69 0.25
27 200 0.74
28 1 0.00
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCTCGATTTGTAA
Found at i:64525988 original size:80 final size:81
Alignment explanation
Indices: 64525904--64526267 Score: 355
Period size: 80 Copynumber: 4.5 Consensus size: 81
64525894 TATAGGGTAG
* * * *
64525904 AATTACCAAAATACCCTCGA-TTAGCAAAATTACCAAAATACCCT-GATTTGTAAAATTAGCAAA
1 AATTACCGAAATACCCTCGACTT-GTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCAAA
*
64525967 ATACCC-CTAATTTGTGA
65 ATACCCTC-AATTTGTAA
* * * ** * * * *
64525984 AATTACCGAAATACCCTTGACCTGTAAAATTACCGAAATATCCTCGACCTATAAAATTATCGATA
1 AATTACCGAAATACCCTCGACTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCAAAA
*
64526049 TACCCTCGATTTGTAA
66 TACCCTCAATTTGTAA
* * **
64526065 AATTACCAAAATACCC-C-AGTTTGTAAAATTACCGAAATACCCTTAATTTGTAAAATTACCAAA
1 AATTACCGAAATACCCTCGA-CTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCAAA
* * *
64526128 ATATCCTCGACTTGTAA
65 ATACCCTCAATTTGTAA
* **
64526145 AATTAACGAAATACCCTAAACTTGTAAAATTACC-AAATACCCTCGATTTGTAAAATTACCAAAA
1 AATTACCGAAATACCCTCGACTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCAAAA
*
64526209 TACCC-CTAATTTGGAA
66 TACCCTC-AATTTGTAA
* * * * * *
64526225 AATTATCGAAATACCCTTGATTTGGAAAATTACAGAAACACCC
1 AATTACCGAAATACCCTCGACTTGTAAAATTACCGAAATACCC
64526268 CTAATTTATA
Statistics
Matches: 230, Mismatches: 46, Indels: 15
0.79 0.16 0.05
Matches are distributed among these distances:
79 2 0.01
80 164 0.71
81 62 0.27
82 2 0.01
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (81 bp):
AATTACCGAAATACCCTCGACTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCAAAA
TACCCTCAATTTGTAA
Found at i:64526219 original size:107 final size:104
Alignment explanation
Indices: 64525904--64526256 Score: 384
Period size: 107 Copynumber: 3.3 Consensus size: 104
64525894 TATAGGGTAG
* * * *
64525904 AATTACCAAAATACCCTCGA-TTAGCAAAATTACCAAAATACCCTGATTTGTAAAATTAGCAAAA
1 AATTACCAAAATACCCTCGACTT-GTAAAATTAACGAAATACCCTGATTTGTAAAATTA-CCAAA
* * **
64525968 TACCCCTAATTTGTGAAATTACCGAAATACCCTTGACCTGTAA
64 TACCCC--ATTTGTAAAATTACCGAAATACCCTTAATTTGTAA
* * * * * *
64526011 AATTACCGAAATATCCTCGACCTATAAAATTATCGATATACCCTCGATTTGTAAAATTACCAAAA
1 AATTACCAAAATACCCTCGACTTGTAAAATTAACGAAATACCCT-GATTTGTAAAATTACC-AAA
64526076 TACCCCAGTTTGTAAAATTACCGAAATACCCTTAATTTGTAA
64 TACCCCA-TTTGTAAAATTACCGAAATACCCTTAATTTGTAA
* * *
64526118 AATTACCAAAATATCCTCGACTTGTAAAATTAACGAAATACCCTAAACTTGTAAAATTACCAAAT
1 AATTACCAAAATACCCTCGACTTGTAAAATTAACGAAATACCCT-GATTTGTAAAATTACCAAAT
* * *
64526183 ACCCTCGATTTGTAAAATTACCAAAATACCCCTAATTTGGAA
65 ACCC-C-ATTTGTAAAATTACCGAAATACCCTTAATTTGTAA
* * * * *
64526225 AATTATCGAAATACCCTTGATTTGGAAAATTA
1 AATTACCAAAATACCCTCGACTTGTAAAATTA
64526257 CAGAAACACC
Statistics
Matches: 210, Mismatches: 30, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
106 9 0.04
107 176 0.84
108 25 0.12
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (104 bp):
AATTACCAAAATACCCTCGACTTGTAAAATTAACGAAATACCCTGATTTGTAAAATTACCAAATA
CCCCATTTGTAAAATTACCGAAATACCCTTAATTTGTAA
Found at i:64526262 original size:27 final size:27
Alignment explanation
Indices: 64525904--64526359 Score: 306
Period size: 27 Copynumber: 17.0 Consensus size: 27
64525894 TATAGGGTAG
* * *
64525904 AATTACCA-AAATACCCTCGATTAGCAA
1 AATTA-CAGAAATACCCTTGATTTGTAA
64525931 AATTACCA-AAATACCC-TGATTTGTAA
1 AATTA-CAGAAATACCCTTGATTTGTAA
* * *
64525957 AATTAGCA-AAATACCCCTAATTTGTGA
1 AATTA-CAGAAATACCCTTGATTTGTAA
* **
64525984 AATTACCGAAATACCCTTGACCTGTAA
1 AATTACAGAAATACCCTTGATTTGTAA
* * * ** *
64526011 AATTACCGAAATATCCTCGACCTATAA
1 AATTACAGAAATACCCTTGATTTGTAA
* *
64526038 AATTATC-GATATACCCTCGATTTGTAA
1 AATTA-CAGAAATACCCTTGATTTGTAA
**
64526065 AATTACCA-AAATACCCCAG-TTTGTAA
1 AATTA-CAGAAATACCCTTGATTTGTAA
* *
64526091 AATTACCGAAATACCCTTAATTTGTAA
1 AATTACAGAAATACCCTTGATTTGTAA
* * *
64526118 AATTACCA-AAATATCCTCGACTTGTAA
1 AATTA-CAGAAATACCCTTGATTTGTAA
** *
64526145 AATTA-ACGAAATACCCTAAACTTGTAA
1 AATTACA-GAAATACCCTTGATTTGTAA
* *
64526172 AATTAC-CAAATACCCTCGATTTGTAA
1 AATTACAGAAATACCCTTGATTTGTAA
* * *
64526198 AATTACCA-AAATACCCCTAATTTGGAA
1 AATTA-CAGAAATACCCTTGATTTGTAA
*
64526225 AATTATC-GAAATACCCTTGATTTGGAA
1 AATTA-CAGAAATACCCTTGATTTGTAA
* * * * *
64526252 AATTACAGAAACACCCCTAATTTATAC
1 AATTACAGAAATACCCTTGATTTGTAA
**
64526279 AATTACAGAAATACCCTTGACTTTCAAA
1 AATTACAGAAATACCCTTGA-TTTGTAA
* * * * **
64526307 AATTACAAAAATAACATTGGTTTACAA
1 AATTACAGAAATACCCTTGATTTGTAA
* *
64526334 AATTACTGAAATACCCTTGGTTTGTA
1 AATTACAGAAATACCCTTGATTTGTA
64526360 GATTTACCAA
Statistics
Matches: 343, Mismatches: 71, Indels: 30
0.77 0.16 0.07
Matches are distributed among these distances:
25 2 0.01
26 65 0.19
27 254 0.74
28 22 0.06
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (27 bp):
AATTACAGAAATACCCTTGATTTGTAA
Found at i:64526283 original size:134 final size:133
Alignment explanation
Indices: 64525904--64526295 Score: 402
Period size: 134 Copynumber: 2.9 Consensus size: 133
64525894 TATAGGGTAG
* * * * *
64525904 AATTACCAAAATACCCTCGATTAGCAAAATTACCAAAATA-CCCTGATTTGTAAAATTAGCAAAA
1 AATTACC-AAATACCCTCGATTTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACCGAAA
* * * * * * * **
64525968 TACCCCTAATTTGTG-AAATTACCGAAATACCCTTGACCTGTA-AAATTACCGAAATATCCTCGA
65 TACCCTTAATTTG-GAAAATTACAGAAATACCCCT-A-ATTTATAAATTAACGAAATACCCTAAA
64526031 CCTATAA
127 CCTATAA
* * *
64526038 AATTATCGATATACCCTCGATTTGTAAAATTACCAAAATACCCC-AGTTTGTAAAATTACCGAAA
1 AATTA-CCAAATACCCTCGATTTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACCGAAA
* * * *
64526102 TACCCTTAATTTGTAAAATTACCA-AAATATCCTCGACTTGTA-AAATTAACGAAATACCCTAAA
65 TACCCTTAATTTGGAAAATTA-CAGAAATA-CCCCTAATT-TATAAATTAACGAAATACCCTAAA
* *
64526165 CTTGTAA
127 CCTATAA
* *
64526172 AATTACCAAATACCCTCGATTTGTAAAATTACCAAAATACCCCTAATTTGGAAAATTATCGAAAT
1 AATTACCAAATACCCTCGATTTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACCGAAAT
* *
64526237 ACCCTTGATTTGGAAAATTACAGAAACACCCCTAATTTATACAATT-ACAGAAATACCCT
66 ACCCTTAATTTGGAAAATTACAGAAATACCCCTAATTTATA-AATTAAC-GAAATACCCT
64526296 TGACTTTCAA
Statistics
Matches: 215, Mismatches: 32, Indels: 22
0.80 0.12 0.08
Matches are distributed among these distances:
132 2 0.01
133 49 0.23
134 157 0.73
135 7 0.03
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (133 bp):
AATTACCAAATACCCTCGATTTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACCGAAAT
ACCCTTAATTTGGAAAATTACAGAAATACCCCTAATTTATAAATTAACGAAATACCCTAAACCTA
TAA
Found at i:64526665 original size:41 final size:41
Alignment explanation
Indices: 64526620--64526738 Score: 211
Period size: 41 Copynumber: 2.9 Consensus size: 41
64526610 GAAGAAATTG
* *
64526620 AGGATCGCATGGTTGCTTGACGACCGTGGATCCATCGATTA
1 AGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGAGTA
64526661 AGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGAGTA
1 AGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGAGTA
*
64526702 AGGATCGCATGGTTGCTTGACGATCGTGGATCCACCG
1 AGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
64526739 GTGGCTTTTA
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 75 1.00
ACGTcount: A:0.21, C:0.24, G:0.31, T:0.24
Consensus pattern (41 bp):
AGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGAGTA
Found at i:64543804 original size:68 final size:70
Alignment explanation
Indices: 64543732--64543929 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
64543722 ACACCCTGTA
* * * *
64543732 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
64543794 ATAAAT
65 ATAAAT
*
64543800 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
64543865 ATAAAT
65 ATAAAT
*
64543871 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
64543930 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:64543843 original size:41 final size:41
Alignment explanation
Indices: 64543798--64543915 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
64543788 TGAAAGATAA
64543798 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
64543839 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
64543869 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
64543910 ATGTAG
1 ATGTAG
64543916 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:64543855 original size:71 final size:71
Alignment explanation
Indices: 64543766--64543929 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
64543756 GAGATGTATC
64543766 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
64543831 AGGACA
66 AGGACA
64543837 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
64543902 AGGACA
66 AGGACA
64543908 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
64543930 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:64550904 original size:68 final size:70
Alignment explanation
Indices: 64550832--64551029 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
64550822 ACACCCTGTA
* * * *
64550832 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
64550894 ATAAAT
65 ATAAAT
*
64550900 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
64550965 ATAAAT
65 ATAAAT
*
64550971 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
64551030 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:64550943 original size:41 final size:41
Alignment explanation
Indices: 64550898--64551015 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
64550888 TGAAAGATAA
64550898 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
64550939 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
64550969 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
64551010 ATGTAG
1 ATGTAG
64551016 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:64550955 original size:71 final size:71
Alignment explanation
Indices: 64550866--64551029 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
64550856 GAGATGTATC
64550866 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
64550931 AGGACA
66 AGGACA
64550937 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
64551002 AGGACA
66 AGGACA
64551008 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
64551030 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:64552948 original size:93 final size:93
Alignment explanation
Indices: 64552836--64553007 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
64552826 GCCCATAAGT
* *
64552836 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
64552901 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
64552929 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
64552994 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
64553008 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:64553003 original size:46 final size:46
Alignment explanation
Indices: 64552828--64553003 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
64552818 TGTAACCCGC
* * *
64552828 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
64552874 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
64552924 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
64552967 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
64553004 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:64555425 original size:30 final size:30
Alignment explanation
Indices: 64555381--64555469 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
64555371 CAAAGATAAC
*
64555381 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
64555410 GAGAAACCCGGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
64555440 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
64555470 CGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 9 0.18
30 34 0.68
31 7 0.14
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:64555429 original size:15 final size:14
Alignment explanation
Indices: 64555381--64555463 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
64555371 CAAAGATAAC
*
64555381 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
64555395 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
64555410 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
64555425 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
64555440 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
64555455 AAGAAACCC
1 AAGAAACCC
64555464 AAGATACGAT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 12 0.22
15 38 0.70
16 4 0.07
ACGTcount: A:0.55, C:0.17, G:0.18, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:64555469 original size:15 final size:15
Alignment explanation
Indices: 64555392--64555469 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
64555382 AGAAAACCGA
64555392 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
64555407 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
64555421 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
64555436 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
64555452 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
64555467 ATA
1 ATA
64555470 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:64558532 original size:93 final size:93
Alignment explanation
Indices: 64558420--64558591 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
64558410 GCCCATAAGT
* *
64558420 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
64558485 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
64558513 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
64558578 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
64558592 CAAATACCCA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:64558587 original size:46 final size:46
Alignment explanation
Indices: 64558412--64558587 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
64558402 TGTAACCCGC
* * *
64558412 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
64558458 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
64558508 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
64558551 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
64558588 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:64564974 original size:26 final size:26
Alignment explanation
Indices: 64564922--64565052 Score: 198
Period size: 26 Copynumber: 5.2 Consensus size: 26
64564912 GGCCTATCCT
*
64564922 CTTTT-AAT-AACTGGGGC-CAAGCC
1 CTTTTCAATAAACTGGGGCATAAGCC
**
64564945 CTTTTCGGTAAACTGGGGCATAAGCC
1 CTTTTCAATAAACTGGGGCATAAGCC
64564971 CTTTTCAATAAACTGGGGCATAAGCC
1 CTTTTCAATAAACTGGGGCATAAGCC
*
64564997 CTTCTCAATAAACTGGGGCATAAGCC
1 CTTTTCAATAAACTGGGGCATAAGCC
64565023 CTTTTCAATAAACTGGGGCAT-AGCC
1 CTTTTCAATAAACTGGGGCATAAGCC
64565048 CTTTT
1 CTTTT
64565053 GCACTTCCTC
Statistics
Matches: 98, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
23 5 0.05
24 1 0.01
25 18 0.18
26 74 0.76
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (26 bp):
CTTTTCAATAAACTGGGGCATAAGCC
Found at i:64565127 original size:20 final size:20
Alignment explanation
Indices: 64565102--64565176 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
64565092 TTATGATTAC
*
64565102 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
64565122 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
64565142 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
64565162 ATCATGT--ATATCATA
1 ATCATGTGCATATCATA
64565177 TCCCACGTAT
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
18 8 0.15
20 43 0.81
21 2 0.04
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:64565133 original size:11 final size:11
Alignment explanation
Indices: 64565102--64565157 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
64565092 TTATGATTAC
64565102 ATCATGTGCAT
1 ATCATGTGCAT
* *
64565113 TTCA--TACAT
1 ATCATGTGCAT
64565122 ATCATGTGCAT
1 ATCATGTGCAT
*
64565133 ATCA--TACAT
1 ATCATGTGCAT
64565142 ATCATGTGCAT
1 ATCATGTGCAT
64565153 ATCAT
1 ATCAT
64565158 ATCAATCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:64565174 original size:9 final size:10
Alignment explanation
Indices: 64565119--64565175 Score: 57
Period size: 9 Copynumber: 5.8 Consensus size: 10
64565109 GCATTTCATA
64565119 CATATCATGT
1 CATATCATGT
*
64565129 GCATATCAT-A
1 -CATATCATGT
64565139 CATATCATGT
1 CATATCATGT
*
64565149 GCATATCATAT
1 -CATATCATGT
64565160 CA-ATCATGT
1 CATATCATGT
64565169 -ATATCAT
1 CATATCAT
64565176 ATCCCACGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 1 0.03
9 19 0.49
10 2 0.05
11 17 0.44
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (10 bp):
CATATCATGT
Found at i:64569438 original size:26 final size:26
Alignment explanation
Indices: 64569386--64569542 Score: 232
Period size: 26 Copynumber: 6.2 Consensus size: 26
64569376 GGCCTACCCT
*
64569386 CTTTT-AAT-AACTGGGGC-CAAGCC
1 CTTTTCAATAAACTGGGGCATAAGCC
**
64569409 CTTTTCGGTAAACTGGGGCATAAGCC
1 CTTTTCAATAAACTGGGGCATAAGCC
64569435 CTTTTCAATAAACTGGGGCATAAGCC
1 CTTTTCAATAAACTGGGGCATAAGCC
64569461 CTTTTCAATAAACTGGGGCATAAGCC
1 CTTTTCAATAAACTGGGGCATAAGCC
*
64569487 CTTCTCAATAAACTGGGGCATAAGCC
1 CTTTTCAATAAACTGGGGCATAAGCC
* *
64569513 CTTTTCAATAAACTAGGGCAT-AGCT
1 CTTTTCAATAAACTGGGGCATAAGCC
64569538 CTTTT
1 CTTTT
64569543 GCACTTCCTC
Statistics
Matches: 122, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
23 5 0.04
24 1 0.01
25 17 0.14
26 99 0.81
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (26 bp):
CTTTTCAATAAACTGGGGCATAAGCC
Found at i:64576895 original size:26 final size:26
Alignment explanation
Indices: 64576863--64576974 Score: 176
Period size: 26 Copynumber: 4.4 Consensus size: 26
64576853 TAACTGGGCC
**
64576863 AAGCCCTTTTCGGTAAACTGGGGCAT
1 AAGCCCTTTTCAATAAACTGGGGCAT
64576889 AAGCCCTTTTCAATAAACTGGGGCAT
1 AAGCCCTTTTCAATAAACTGGGGCAT
64576915 AAG-CCTTTCTCAATAAACTGGGGCAT
1 AAGCCCTTT-TCAATAAACTGGGGCAT
64576941 AAGCCCTTTTCAATAAACT-GGGCAT
1 AAGCCCTTTTCAATAAACTGGGGCAT
64576966 -AGCCCTTTT
1 AAGCCCTTTT
64576975 GCACTACCTC
Statistics
Matches: 82, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
24 9 0.11
25 11 0.13
26 57 0.70
27 5 0.06
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (26 bp):
AAGCCCTTTTCAATAAACTGGGGCAT
Found at i:64577049 original size:20 final size:20
Alignment explanation
Indices: 64577024--64577098 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
64577014 TTATGATTAC
*
64577024 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
64577044 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
64577064 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
64577084 ATCATGT--ATATCATA
1 ATCATGTGCATATCATA
64577099 TCCCACGTAT
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
18 8 0.15
20 43 0.81
21 2 0.04
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:64577055 original size:11 final size:11
Alignment explanation
Indices: 64577024--64577079 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
64577014 TTATGATTAC
64577024 ATCATGTGCAT
1 ATCATGTGCAT
* *
64577035 TTCA--TACAT
1 ATCATGTGCAT
64577044 ATCATGTGCAT
1 ATCATGTGCAT
*
64577055 ATCA--TACAT
1 ATCATGTGCAT
64577064 ATCATGTGCAT
1 ATCATGTGCAT
64577075 ATCAT
1 ATCAT
64577080 ATCAATCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:64577096 original size:9 final size:10
Alignment explanation
Indices: 64577041--64577097 Score: 57
Period size: 9 Copynumber: 5.8 Consensus size: 10
64577031 GCATTTCATA
64577041 CATATCATGT
1 CATATCATGT
*
64577051 GCATATCAT-A
1 -CATATCATGT
64577061 CATATCATGT
1 CATATCATGT
*
64577071 GCATATCATAT
1 -CATATCATGT
64577082 CA-ATCATGT
1 CATATCATGT
64577091 -ATATCAT
1 CATATCAT
64577098 ATCCCACGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 1 0.03
9 19 0.49
10 2 0.05
11 17 0.44
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (10 bp):
CATATCATGT
Found at i:64583635 original size:45 final size:45
Alignment explanation
Indices: 64583574--64583699 Score: 216
Period size: 45 Copynumber: 2.8 Consensus size: 45
64583564 ATTTTGCCAG
* *
64583574 CATTATAGCCTACTAGGCTCGAAGGCCCGAATAGTATCTCACCGA
1 CATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGA
*
64583619 CATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGG
1 CATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGA
*
64583664 CATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
1 CATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
64583700 CCATACAATA
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 77 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
CATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGA
Found at i:64587428 original size:10 final size:10
Alignment explanation
Indices: 64587413--64587444 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
64587403 TAAATACAAT
64587413 TAATTAAAGA
1 TAATTAAAGA
64587423 TAATTAAAGA
1 TAATTAAAGA
64587433 TAATTAAA-A
1 TAATTAAAGA
64587442 TAA
1 TAA
64587445 AATCCTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:64587456 original size:19 final size:18
Alignment explanation
Indices: 64587432--64587475 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
64587422 ATAATTAAAG
64587432 ATAATTAAAATAAAATCCTA
1 ATAATTAAAAT--AATCCTA
*
64587452 A-AATTTAAATAATCCTA
1 ATAATTAAAATAATCCTA
64587469 ATAATTA
1 ATAATTA
64587476 TCCTAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 8 0.38
18 4 0.19
19 8 0.38
20 1 0.05
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAATTAAAATAATCCTA
Found at i:64587490 original size:15 final size:15
Alignment explanation
Indices: 64587470--64587499 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
64587460 ATAATCCTAA
64587470 TAATTATCCTAATAT
1 TAATTATCCTAATAT
64587485 TAATTATCCTAATAT
1 TAATTATCCTAATAT
64587500 AAATAAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:64588313 original size:102 final size:99
Alignment explanation
Indices: 64588135--64588315 Score: 281
Period size: 102 Copynumber: 1.8 Consensus size: 99
64588125 TATTTTTACT
* * *
64588135 TAGGAATATATTGTACCTTTTGACGCGAAGAGAGATGACAACCCAAGACCCCACCCCGGTTACTC
1 TAGGAACATATCGAACCTTTTGACGCGAAGAGAGATGACAACCCAAGACCCCACCCCGGTTACTC
*
64588200 AGCCCAGCACATTCCTACTTTTTTCTATTAGTCC
66 AGCCCAACACATTCCTACTTTTTTCTATTAGTCC
* *
64588234 TAGGAACATATCGAACCTTTTGACGTGCGAAGAGAGATGACAACCCAAGCACCTCACCCTGGTTA
1 TAGGAACATATCGAACCTTTTGAC--GCGAAGAGAGATGACAACCCAAG-ACCCCACCCCGGTTA
64588299 CTCAGCCCAACACATTC
63 CTCAGCCCAACACATTC
64588316 TCAGAAATTA
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
99 21 0.29
101 23 0.32
102 29 0.40
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (99 bp):
TAGGAACATATCGAACCTTTTGACGCGAAGAGAGATGACAACCCAAGACCCCACCCCGGTTACTC
AGCCCAACACATTCCTACTTTTTTCTATTAGTCC
Found at i:64589098 original size:22 final size:21
Alignment explanation
Indices: 64589052--64589102 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
64589042 ATTAATATCT
*
64589052 AAAAAT-AATAAATAATAAGA
1 AAAAATAAATAAATAAAAAGA
* *
64589072 TAAAATAAATAAAATAAAAATA
1 AAAAATAAAT-AAATAAAAAGA
64589094 AAAAATAAA
1 AAAAATAAA
64589103 AATTGTGTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 5 0.20
21 3 0.12
22 17 0.68
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (21 bp):
AAAAATAAATAAATAAAAAGA
Found at i:64589104 original size:13 final size:14
Alignment explanation
Indices: 64589053--64589105 Score: 65
Period size: 13 Copynumber: 3.8 Consensus size: 14
64589043 TTAATATCTA
64589053 AAAATAATAAATAAT
1 AAAATAA-AAATAAT
*
64589068 AAGAT-AAAATAAAT
1 AAAATAAAAAT-AAT
64589082 AAAATAAAAATAA-
1 AAAATAAAAATAAT
64589095 AAAATAAAAAT
1 AAAATAAAAAT
64589106 TGTGTTGCCT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
13 15 0.44
14 10 0.29
15 9 0.26
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (14 bp):
AAAATAAAAATAAT
Found at i:64593520 original size:40 final size:40
Alignment explanation
Indices: 64593429--64593539 Score: 138
Period size: 40 Copynumber: 2.8 Consensus size: 40
64593419 ATAACCACGT
* *
64593429 GCACGAATGCCTTCGGGTCTTAGCCCAGATAGAATGACTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
*
64593469 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
*
64593509 GCAC-AATTGCCTTCGGGTCTTAACCCGGATA
1 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATA
64593540 TAATTTCCAG
Statistics
Matches: 63, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
38 1 0.02
39 4 0.06
40 58 0.92
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.23
Consensus pattern (40 bp):
GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:64593557 original size:40 final size:40
Alignment explanation
Indices: 64593413--64593570 Score: 115
Period size: 40 Copynumber: 4.0 Consensus size: 40
64593403 CGGAATACAA
** *
64593413 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACCACCAGCAC-AATTGCCTTCGGGTCTTAAC
* * ** *
64593453 CCAGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-CAGCAC-AATTGCCTTCGGGTCTTAAC
* * *
64593493 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAAC
*** * * *
64593533 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTA
1 CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTA
64593571 GCCGGGTATC
Statistics
Matches: 93, Mismatches: 22, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
39 2 0.02
40 91 0.98
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAAC
Found at i:64600612 original size:41 final size:44
Alignment explanation
Indices: 64600557--64600662 Score: 119
Period size: 45 Copynumber: 2.5 Consensus size: 44
64600547 GATGCCTCTA
* * * * *
64600557 TCCCAGACAAGGTCTTACACTAATCA-A-ATA-CGATGTCGATG
1 TCCCAGACATGGTCTTACACTAACCACATATATCGATGCCAACG
*
64600598 TCCCAGACATGGTCTTACATGTAACCACATATATCGATGCCAACG
1 TCCCAGACATGGTCTTACA-CTAACCACATATATCGATGCCAACG
*
64600643 TCCCAGACGTGGTCTTACAC
1 TCCCAGACATGGTCTTACAC
64600663 GAGAACACAT
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
41 18 0.34
42 5 0.09
43 1 0.02
44 3 0.06
45 26 0.49
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (44 bp):
TCCCAGACATGGTCTTACACTAACCACATATATCGATGCCAACG
Found at i:64605910 original size:47 final size:47
Alignment explanation
Indices: 64605783--64606341 Score: 791
Period size: 47 Copynumber: 11.7 Consensus size: 47
64605773 AGGAGATGTA
64605783 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
*
64605830 TATATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG
1 TATAT--ATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
* *
64605879 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
*
64605926 TATATATATGTGATAAGGCCTAATGTCCAATGTGATGAAT-TGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
*
64605974 TATATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG
1 TATAT--ATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
* * *
64606023 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATCTGAAGGTG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
64606070 TATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGT-AAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
* *
64606118 TATATACATGTGATAAGGCTTAATGGCCAATGTGATGAATGTGAAAGAG
1 TATAT--ATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
* * *
64606167 TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATG-GAAGGTG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
*
64606213 TATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG
1 --TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
* *
64606262 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
* * * * * *
64606309 TGTATATGTGGTAAAGCCGAAGGGCTAATGTGA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGA
64606342 AATATATGTG
Statistics
Matches: 460, Mismatches: 37, Indels: 30
0.87 0.07 0.06
Matches are distributed among these distances:
46 15 0.03
47 183 0.40
48 115 0.25
49 147 0.32
ACGTcount: A:0.33, C:0.09, G:0.28, T:0.29
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
Found at i:64606040 original size:144 final size:145
Alignment explanation
Indices: 64605779--64606318 Score: 964
Period size: 144 Copynumber: 3.8 Consensus size: 145
64605769 ATGTAGGAGA
64605779 TGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGAT
1 TGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGAT
64605844 AAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATG
66 AAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATG
64605909 TGATGAATGTGAAGG
131 TGATGAATGTGAAGG
*
64605924 TGTATATATATGTGATAAGGCCTAATGTCCAATGTGATGAAT-TGAAAGTGTATATACATGTGAT
1 TGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGAT
64605988 AAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATG
66 AAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATG
*
64606053 TGATGAATCTGAAGG
131 TGATGAATGTGAAGG
64606068 TGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGT-AAAGTGTATATACATGTGAT
1 TGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGAT
* *
64606132 AAGGCTTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATGAGGCCTAATGGCCGATG
66 AAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATG
64606197 TGATGAATG-GAAGG
131 TGATGAATGTGAAGG
*
64606211 TGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATAT--ATGTGAT
1 TGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGAT
* * * *
64606274 AAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTGTATATGTG
66 AAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTG
64606319 GTAAAGCCGA
Statistics
Matches: 381, Mismatches: 12, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
142 47 0.12
143 49 0.13
144 243 0.64
145 42 0.11
ACGTcount: A:0.33, C:0.09, G:0.28, T:0.30
Consensus pattern (145 bp):
TGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGAT
AAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATG
TGATGAATGTGAAGG
Found at i:64606045 original size:95 final size:94
Alignment explanation
Indices: 64605783--64606341 Score: 800
Period size: 95 Copynumber: 5.9 Consensus size: 94
64605773 AGGAGATGTA
64605783 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATAT--ATGTGATAAGG
64605848 CCTAATGGCCAATGTGATGAATGTGAAAGAG
64 CCTAATGGCCAATGTGATGAATGTGAAAGAG
* *
64605879 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTATATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG--TATATATGTGATAAGG
* *
64605944 CCTAATGTCCAATGTGATGAAT-TGAAAGTG
64 CCTAATGGCCAATGTGATGAATGTGAAAGAG
*
64605974 TATATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGG
1 TATAT--ATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
* * * *
64606039 CCTAATGGCCGATGTGATGAATCTGAAGGTG
64 CCTAATGGCCAATGTGATGAATGTGAAAGAG
64606070 TATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGT-AAAGTGTATATACATGTGATAA
1 --TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATAT--ATGTGATAA
*
64606134 GGCTTAATGGCCAATGTGATGAATGTGAAAGAG
62 GGCCTAATGGCCAATGTGATGAATGTGAAAGAG
* * *
64606167 TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATG-GAAGGTGTATATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG--TATATATGTGATAAGG
64606231 CCTAATGGCCAATGTGATGAATGTGAAAGAG
64 CCTAATGGCCAATGTGATGAATGTGAAAGAG
* * * * *
64606262 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTGTATATGTGGTAAAGCC
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * *
64606327 GAAGGGCTAATGTGA
66 TAATGGCCAATGTGA
64606342 AATATATGTG
Statistics
Matches: 423, Mismatches: 27, Indels: 28
0.88 0.06 0.06
Matches are distributed among these distances:
94 27 0.06
95 179 0.42
96 126 0.30
97 81 0.19
98 10 0.02
ACGTcount: A:0.33, C:0.09, G:0.28, T:0.29
Consensus pattern (94 bp):
TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
TAATGGCCAATGTGATGAATGTGAAAGAG
Found at i:64606484 original size:37 final size:37
Alignment explanation
Indices: 64606430--64606520 Score: 164
Period size: 37 Copynumber: 2.4 Consensus size: 37
64606420 AACTTGGAAA
*
64606430 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
64606468 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
64606505 TATGTCCGGGTAAGAC
1 TATGTCCGGGTAAGAC
64606521 TTCGTAATAA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 48 0.92
38 4 0.08
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:64609999 original size:40 final size:40
Alignment explanation
Indices: 64609897--64610080 Score: 174
Period size: 40 Copynumber: 4.6 Consensus size: 40
64609887 AAATTGAATG
* * * * *
64609897 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TAGTT
* *
64609937 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
64609977 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
64610017 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
64610057 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
64610081 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.02
40 115 0.95
41 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:64610105 original size:80 final size:80
Alignment explanation
Indices: 64609939--64610125 Score: 189
Period size: 80 Copynumber: 2.3 Consensus size: 80
64609929 TGAAAATTAT
* * *
64609939 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTATATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCATT
* *
64610004 CGTGCAAGTTGTTAA
66 CGTGCAAGTTATCAA
* * * * * *
64610019 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGCCT
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCT-ATATCCGGGCTAAGACCCGAAGGCAT
* **
64610083 TGGTGCGGGTTATCATA
65 TCGTGCAAGTTATCA-A
* * *
64610100 A-CCGGGCTATGTCCCGAAGGCGATTG
1 ATCCGGGCTAAGACCCGAAGGCAATTG
64610126 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 18, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
79 1 0.01
80 84 0.97
81 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.24
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCATT
CGTGCAAGTTATCAA
Found at i:64618037 original size:39 final size:40
Alignment explanation
Indices: 64617979--64618079 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
64617969 AAATTGAATG
* *
64617979 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
64618018 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
64618058 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
64618080 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:64618072 original size:40 final size:40
Alignment explanation
Indices: 64617979--64618161 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
64617969 AAATTGAATG
* * * * *
64617979 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
64618018 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
64618058 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
64618098 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
64618138 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
64618162 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 32 0.26
40 87 0.72
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:64619847 original size:40 final size:40
Alignment explanation
Indices: 64619802--64620100 Score: 324
Period size: 40 Copynumber: 7.5 Consensus size: 40
64619792 GAATGATACT
* ** *
64619802 CGGGCTAAGTCCCGAAG-GCATTTATGCTAGTGAATATATC
1 CGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG-ATGTATC
** * * * *
64619842 CGGGCTAAGACCCGAAG-GCATTTGTG-TGAGTTGTTATACC
1 CGGGCTAAGTTCCGAAGAGCATTCGTGCT-AG-TGATGTATC
* * * * *
64619882 CGGGTTAAG-ACCGAAG-GCAATT-GTGCTTGTGGTTATATC
1 CGGGCTAAGTTCCGAAGAGC-ATTCGTGCTAGT-GATGTATC
64619921 C-GGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATC
1 CGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATC
*
64619960 CGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATC
1 CGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATC
*
64620000 CGGGCTAAATTCCGAAGAGCATTCGTGCTAGTGATGTATC
1 CGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATC
*
64620040 CGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATC
1 CGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATC
* *
64620080 CGGGCTAGGTCCCGAAGAGCA
1 CGGGCTAAGTTCCGAAGAGCA
64620101 ATCATGCTGG
Statistics
Matches: 229, Mismatches: 21, Indels: 18
0.85 0.08 0.07
Matches are distributed among these distances:
38 7 0.03
39 37 0.16
40 183 0.80
41 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (40 bp):
CGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATC
Found at i:64623996 original size:145 final size:145
Alignment explanation
Indices: 64623733--64624275 Score: 991
Period size: 145 Copynumber: 3.8 Consensus size: 145
64623723 ATGTAGGAGA
*
64623733 TGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTATATATACATGTGAT
1 TGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGAT
64623798 AAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATG
66 AAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATG
64623863 TGATGAATGTGAAGG
131 TGATGAATGTGAAGG
* *
64623878 TGTATATACATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGAT
1 TGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGAT
64623943 AAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATG
66 AAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATG
64624008 TGATGAATGTGAAGG
131 TGATGAATGTGAAGG
64624023 TGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGAT
1 TGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGAT
*
64624088 AAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATGAGGCCTAATGGCCGATG
66 AAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATG
64624153 TGATGAATGTGAAGG
131 TGATGAATGTGAAGG
*
64624168 TGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATAT--ATGTGAT
1 TGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGAT
* * * *
64624231 AAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTGTATATGTG
66 AAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTG
64624276 GTAAAGCCGA
Statistics
Matches: 387, Mismatches: 11, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
143 48 0.12
145 339 0.88
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (145 bp):
TGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGAT
AAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATG
TGATGAATGTGAAGG
Found at i:64624271 original size:49 final size:48
Alignment explanation
Indices: 64623733--64624298 Score: 781
Period size: 49 Copynumber: 11.8 Consensus size: 48
64623723 ATGTAGGAGA
64623733 TGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAG
1 TGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTG-AAG
* *
64623782 TATATATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA-
1 TGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAG
* *
64623829 AG-AGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGG
1 TGTA-TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA-G
* *
64623878 TGTATATACATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
1 TGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTG-AAG
*
64623927 TGTATATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA-
1 TGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAG
* *
64623974 AG-AGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGG
1 TGTA-TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA-G
64624023 TGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAG
1 TGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTG-AAG
*
64624072 TGTATATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA-
1 TGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAG
* * *
64624119 AG-AGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAGG
1 TGTA-TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA-G
64624168 TGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA-
1 TGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAG
* *
64624215 AG-AGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAG
1 TGTA-TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAG
* * * * * * *
64624263 -GTGTGTATATGTGGTAAAGCCGAAGGGCTAATGTGA
1 TGTATATATATGTGATAAGGCCTAATGGCCAATGTGA
64624299 AATATATGTG
Statistics
Matches: 466, Mismatches: 34, Indels: 36
0.87 0.06 0.07
Matches are distributed among these distances:
46 4 0.01
47 194 0.42
48 6 0.01
49 255 0.55
50 7 0.02
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (48 bp):
TGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAG
Found at i:64624272 original size:96 final size:96
Alignment explanation
Indices: 64623737--64624271 Score: 876
Period size: 96 Copynumber: 5.6 Consensus size: 96
64623727 AGGAGATGTA
* *
64623737 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTATATATACATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAGGTGTATATACATGTGATAAGG
64623802 CCTAATGGCCAATGTGATGAATGTGAAAGAG
66 CCTAATGGCCAATGTGATGAATGTGAAAGAG
*
64623833 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTATATACATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAGGTGTATATACATGTGATAAGG
* *
64623898 CCGAATGGCCAATGTGATGAATGTGAAAGTG
66 CCTAATGGCCAATGTGATGAATGTGAAAGAG
* *
64623929 TATATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAGTATAT--ATGTGATAA
1 TATAT--ATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAGGTGTATATACATGTGATAA
* * *
64623992 GGCCTAATGGCCGATGTGATGAATGTGAAGGTG
64 GGCCTAATGGCCAATGTGATGAATGTGAAAGAG
*
64624025 TATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATAA
1 --TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAGGTGTATATACATGTGATAA
64624090 GGCCTAATGGCCAATGTGATGAATGTGAAAGAG
64 GGCCTAATGGCCAATGTGATGAATGTGAAAGAG
* * *
64624123 TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTATATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAGGTGTATATACATGTGATAAGG
64624188 CCTAATGGCCAATGTGATGAATGTGAAAGAG
66 CCTAATGGCCAATGTGATGAATGTGAAAGAG
* *
64624219 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTGTATA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAGGTGTATATA
64624272 TGTGGTAAAG
Statistics
Matches: 412, Mismatches: 21, Indels: 12
0.93 0.05 0.03
Matches are distributed among these distances:
96 324 0.79
98 88 0.21
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.29
Consensus pattern (96 bp):
TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAGGTGTATATACATGTGATAAGG
CCTAATGGCCAATGTGATGAATGTGAAAGAG
Found at i:64624322 original size:48 final size:48
Alignment explanation
Indices: 64624266--64624395 Score: 233
Period size: 48 Copynumber: 2.7 Consensus size: 48
64624256 TGTGAAGGTG
*
64624266 TGTATATGTGGTAAAGCCGAAGGGCTAATGTGAAATATATGTGTGATA
1 TGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATA
*
64624314 TGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATG
1 TGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATA
*
64624362 TGTATGTGTGGTAAAGCCGAATGGCTAATGTGAA
1 TGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
64624396 TGTTGTAACA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 79 1.00
ACGTcount: A:0.32, C:0.07, G:0.30, T:0.32
Consensus pattern (48 bp):
TGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATA
Found at i:64624489 original size:37 final size:37
Alignment explanation
Indices: 64624435--64624525 Score: 164
Period size: 37 Copynumber: 2.4 Consensus size: 37
64624425 AACTTGGAAA
*
64624435 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
64624473 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
64624510 TATGTCCGGGTAAGAC
1 TATGTCCGGGTAAGAC
64624526 TTCGTAATAA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 48 0.92
38 4 0.08
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:64631766 original size:39 final size:40
Alignment explanation
Indices: 64631708--64631808 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
64631698 AAATTGAATG
* *
64631708 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
64631747 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
64631787 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
64631809 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:64631801 original size:40 final size:40
Alignment explanation
Indices: 64631708--64631890 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
64631698 AAATTGAATG
* * * * *
64631708 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
64631747 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
64631787 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
64631827 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
64631867 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
64631891 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 32 0.26
40 87 0.72
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:64633566 original size:40 final size:40
Alignment explanation
Indices: 64633521--64633820 Score: 324
Period size: 40 Copynumber: 7.5 Consensus size: 40
64633511 GAATGATACT
** *
64633521 CGGGCTAAGTCCCGAAG-GCATTTATGCTAGTGAATATATC
1 CGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG-ATGTATC
* * * * *
64633561 CGGGCTAAGACCCGAAG-GCATTTGTG-TGAGTTGTTATACC
1 CGGGCTAAGTCCCGAAGAGCATTCGTGCT-AG-TGATGTATC
* * * * *
64633601 CGGGTTAAGACCCGAAG-GCAATT-GTGCTTGTGGTTATATC
1 CGGGCTAAGTCCCGAAGAGC-ATTCGTGCTAGT-GATGTATC
*
64633641 C-GGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATC
1 CGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATC
* *
64633680 CGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATC
1 CGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATC
* *
64633720 CGGGCTAAATTCCGAAGAGCATTCGTGCTAGTGATGTATC
1 CGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATC
* *
64633760 CGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATC
1 CGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATC
*
64633800 CGGGCTAGGTCCCGAAGAGCA
1 CGGGCTAAGTCCCGAAGAGCA
64633821 ATCATGCTGG
Statistics
Matches: 231, Mismatches: 21, Indels: 16
0.86 0.08 0.06
Matches are distributed among these distances:
39 24 0.10
40 201 0.87
41 6 0.03
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATC
Found at i:64637458 original size:40 final size:39
Alignment explanation
Indices: 64637365--64637539 Score: 158
Period size: 39 Copynumber: 4.5 Consensus size: 39
64637355 AAATTGAATG
* * * *
64637365 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAG-CAATTGTGCTAGTAGTT
* *
64637404 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAA-GCAATTGTGCTAGTAGTT
* *
64637444 ATATCCGGGCTAAGACCCGAAGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGCAATT-GTGCTAGTAGTT
* * * * * *
64637483 AAATCCGGGCT-AGACCCGAAGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGCAATTGTGCTAGTAGTT
* *
64637521 ATATCCGGGTTAAGTCCCG
1 ATATCCGGGCTAAGACCCG
64637540 TAGGCCTTGG
Statistics
Matches: 113, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
38 32 0.28
39 57 0.50
40 24 0.21
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGCAATTGTGCTAGTAGTT
Found at i:64645481 original size:39 final size:40
Alignment explanation
Indices: 64645423--64645523 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
64645413 AAATTGAATG
* *
64645423 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
64645462 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
64645502 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
64645524 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:64645516 original size:40 final size:40
Alignment explanation
Indices: 64645423--64645605 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
64645413 AAATTGAATG
* * * * *
64645423 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
64645462 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
64645502 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
64645542 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
64645582 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
64645606 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 32 0.26
40 87 0.72
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:64645630 original size:80 final size:80
Alignment explanation
Indices: 64645464--64645650 Score: 189
Period size: 80 Copynumber: 2.3 Consensus size: 80
64645454 CTGAAATTAT
* * *
64645464 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTATATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCATT
* *
64645529 CGTGCAAGTTGTTAA
66 CGTGCAAGTTATCAA
* * * * * *
64645544 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGCCT
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCT-ATATCCGGGCTAAGACCCGAAGGCAT
* **
64645608 TGGTGCGGGTTATCATA
65 TCGTGCAAGTTATCA-A
* * *
64645625 A-CCGGGCTATGTCCCGAAGGCGATTG
1 ATCCGGGCTAAGACCCGAAGGCAATTG
64645651 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 18, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
79 1 0.01
80 84 0.97
81 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.24
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCATT
CGTGCAAGTTATCAA
Found at i:64648691 original size:15 final size:15
Alignment explanation
Indices: 64648671--64648739 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
64648661 GTATCTTGGG
64648671 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
64648686 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
64648701 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
64648716 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
64648731 TTTCTTTAT
1 TTTCTTTAT
64648740 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:64648740 original size:30 final size:30
Alignment explanation
Indices: 64648662--64648749 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
64648652 CATAGTATCG
* * * *
64648662 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
64648692 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
64648722 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
64648750 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:64651166 original size:46 final size:45
Alignment explanation
Indices: 64651113--64651288 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 45
64651103 TATTTGGGCA
64651113 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
*** * *
64651159 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GGAATG
* *
64651206 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGTGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* *
64651252 -CTCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
64651289 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 65 0.60
47 32 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:64651268 original size:93 final size:93
Alignment explanation
Indices: 64651109--64651280 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
64651099 AGGATATTTG
64651109 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
64651174 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * * *
64651202 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGTGAATG-CTCGAGCTTGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC-CGAACTCGTTGA
64651266 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
64651281 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 1 0.01
93 72 0.99
ACGTcount: A:0.20, C:0.19, G:0.31, T:0.30
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:64654270 original size:15 final size:15
Alignment explanation
Indices: 64654250--64654318 Score: 75
Period size: 15 Copynumber: 4.6 Consensus size: 15
64654240 GTATCTTAGG
64654250 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* * *
64654265 TCTCTTTATTCTAGA
1 TTTCTTTATCCTGGA
* *
64654280 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
64654295 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
64654310 TTTCTTTAT
1 TTTCTTTAT
64654319 TCGGTTTTCT
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 43 1.00
ACGTcount: A:0.13, C:0.17, G:0.12, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:64654329 original size:14 final size:14
Alignment explanation
Indices: 64654250--64654329 Score: 61
Period size: 15 Copynumber: 5.4 Consensus size: 14
64654240 GTATCTTAGG
*
64654250 TTTCTTTATCCTGGA
1 TTTCTTTATTC-GGA
* *
64654265 TCTCTTTATTCTAGA
1 TTTCTTTATTC-GGA
*
64654280 TTTCTTTATTCTGGG
1 TTTCTTTATTC-GGA
* *
64654295 TTTCTCTATCTTGGA
1 TTTCTTTAT-TCGGA
*
64654310 TTTCTTTATTCGGT
1 TTTCTTTATTCGGA
64654324 TTTCTT
1 TTTCTT
64654330 GTTATCTTTG
Statistics
Matches: 52, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
14 9 0.17
15 42 0.81
16 1 0.02
ACGTcount: A:0.11, C:0.17, G:0.12, T:0.59
Consensus pattern (14 bp):
TTTCTTTATTCGGA
Found at i:64656764 original size:46 final size:44
Alignment explanation
Indices: 64656708--64656883 Score: 165
Period size: 46 Copynumber: 3.8 Consensus size: 44
64656698 TATTTGGGCA
64656708 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAA-G
* *** * *
64656754 TCTGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGCAACTAGGCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GGAAG
* *
64656801 TCCGAGCTCGTTGGGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAA-G
* * * *
64656847 CCCGAGCTCATTTAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
64656884 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 65 0.62
47 30 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (44 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAAG
Found at i:64656864 original size:93 final size:93
Alignment explanation
Indices: 64656704--64656875 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
64656694 AGGATATTTG
* * * * *
64656704 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTCTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
64656769 TTGAGTCCGAGTTCGAGAGATGCAACTA
66 TTGAGTCCGAGTTCGAGAGATGCAACTA
* * * *
64656797 GGCATCCGAGCTCGTTGGGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTTAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
64656862 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
64656876 ACTTATGGGC
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGAGAGATGCAACTA
Found at i:64670591 original size:29 final size:29
Alignment explanation
Indices: 64670559--64670617 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
64670549 GGCAAAAAGG
64670559 TAAGATTCTAAAGGCTTTAGGGGCATGGT
1 TAAGATTCTAAAGGCTTTAGGGGCATGGT
64670588 TAAGATTCTAAAGGCTTTAGGGGCATGGT
1 TAAGATTCTAAAGGCTTTAGGGGCATGGT
64670617 T
1 T
64670618 CGAATATGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.27, C:0.10, G:0.31, T:0.32
Consensus pattern (29 bp):
TAAGATTCTAAAGGCTTTAGGGGCATGGT
Found at i:64674098 original size:16 final size:16
Alignment explanation
Indices: 64674061--64674101 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 16
64674051 CTTCTTCCTC
*
64674061 TCTTTTTCCTCCATTT
1 TCTTTTTCTTCCATTT
*
64674077 TC--TTTCTTCCTTTT
1 TCTTTTTCTTCCATTT
64674091 TCTTTTTCTTC
1 TCTTTTTCTTC
64674102 TAGCTGAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
14 12 0.57
16 9 0.43
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.68
Consensus pattern (16 bp):
TCTTTTTCTTCCATTT
Found at i:64676991 original size:33 final size:32
Alignment explanation
Indices: 64676954--64677015 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 32
64676944 TTATGGGCGA
64676954 TACTGT-TATCTGAAAAGGGGCTAAGGCCCAATT
1 TACTGTAT-TCTGAAAAGGGG-TAAGGCCCAATT
* *
64676987 TACTGTATTTTGAAAAGGGGTACGGCCCA
1 TACTGTATTCTGAAAAGGGGTAAGGCCCA
64677016 GTACCCGCTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
32 8 0.31
33 17 0.65
34 1 0.04
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (32 bp):
TACTGTATTCTGAAAAGGGGTAAGGCCCAATT
Found at i:64681464 original size:21 final size:24
Alignment explanation
Indices: 64681422--64681464 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
64681412 TAACGTATAT
64681422 ATAATAATAATAATAAATGAAACC
1 ATAATAATAATAATAAATGAAACC
64681446 ATAATAA-AATAA-AAA-GAAA
1 ATAATAATAATAATAAATGAAA
64681465 TGAGTGTGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.21
22 3 0.16
23 5 0.26
24 7 0.37
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.21
Consensus pattern (24 bp):
ATAATAATAATAATAAATGAAACC
Found at i:64681789 original size:40 final size:40
Alignment explanation
Indices: 64681745--64681838 Score: 161
Period size: 40 Copynumber: 2.4 Consensus size: 40
64681735 GAAAATGGAA
*
64681745 AAGGACTAAATTGTAGAATAAATTATTGGTTTTGAGCAAT
1 AAGGACTAAATTGTAGAATAAATTATTGATTTTGAGCAAT
* *
64681785 AAGGACTAAATTGTAGAATAAATTGTTGATTTTGAGTAAT
1 AAGGACTAAATTGTAGAATAAATTATTGATTTTGAGCAAT
64681825 AAGGACTAAATTGT
1 AAGGACTAAATTGT
64681839 GAAAATTTTA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.40, C:0.04, G:0.20, T:0.35
Consensus pattern (40 bp):
AAGGACTAAATTGTAGAATAAATTATTGATTTTGAGCAAT
Found at i:64690721 original size:49 final size:49
Alignment explanation
Indices: 64690668--64690987 Score: 492
Period size: 49 Copynumber: 6.7 Consensus size: 49
64690658 GATTCTACGC
* *
64690668 GATGAATGTGAAAGCGTATACATATATGATAAGGCCTAATGGCTGATGT
1 GATGAATGTGAAAGCGTATACATATGTGATAAGGCCTAATGGCCGATGT
64690717 GATGAATGTGAAAGCGTATACATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGCGTATACATATGTGATAAGGCCTAATGGCCGATGT
*
64690766 GATGAATGTGAAAGCGTATACATATATGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGCGTATACATATGTGATAAGGCCTAATGGCCGATGT
64690815 GATGAATGTGAAAGCGTATACATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGCGTATACATATGTGATAAGGCCTAATGGCCGATGT
64690864 GATGAATGTGAAAGCGTAT--ATATGTGATAAGGCCTAATGGCC-ATGT
1 GATGAATGTGAAAGCGTATACATATGTGATAAGGCCTAATGGCCGATGT
* * * * * *
64690910 GATGAATGTGAAAGTGTAT--ATATGTGATAGGGCCGAGTGGCCAACGT
1 GATGAATGTGAAAGCGTATACATATGTGATAAGGCCTAATGGCCGATGT
* *
64690957 GATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 GATGAATGTGAAAGCGTATACATATGTGATAAG
64690988 TCCCGAAGGG
Statistics
Matches: 258, Mismatches: 11, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
46 42 0.16
47 53 0.21
48 1 0.00
49 162 0.63
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.27
Consensus pattern (49 bp):
GATGAATGTGAAAGCGTATACATATGTGATAAGGCCTAATGGCCGATGT
Found at i:64693156 original size:40 final size:40
Alignment explanation
Indices: 64693112--64693228 Score: 189
Period size: 40 Copynumber: 2.9 Consensus size: 40
64693102 GAGAATTGAG
64693112 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCATGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCATGCT
*
64693152 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCATGCT
* * * *
64693192 AGTGATGTATCCGGGCTAGGTCCCGAAGAGCAATCAT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCAT
64693229 ACTGGTGACG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 71 1.00
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCATGCT
Found at i:64696902 original size:22 final size:22
Alignment explanation
Indices: 64696832--64696902 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
64696822 GTATAATATA
64696832 TGATAAGGCCTAATGGCCGATG
1 TGATAAGGCCTAATGGCCGATG
* * ** *
64696854 TGATGAATG--TGAAAGCGCATATA
1 TGAT-AAGGCCT-AATG-GCCGATG
64696877 TGATAAGGCCTAATGGCCGATG
1 TGATAAGGCCTAATGGCCGATG
64696899 TGAT
1 TGAT
64696903 GAATGTGAAA
Statistics
Matches: 34, Mismatches: 10, Indels: 10
0.63 0.19 0.19
Matches are distributed among these distances:
21 1 0.03
22 18 0.53
23 14 0.41
24 1 0.03
ACGTcount: A:0.31, C:0.14, G:0.30, T:0.25
Consensus pattern (22 bp):
TGATAAGGCCTAATGGCCGATG
Found at i:64696949 original size:49 final size:49
Alignment explanation
Indices: 64696807--64697120 Score: 447
Period size: 49 Copynumber: 6.7 Consensus size: 49
64696797 GATTCTACGC
*
64696807 GATGAATGTGAAAGCGTATA-ATATATGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGCGTATATATATGTGATAAGGCCTAATGGCCGATGT
*
64696855 GATGAATGTGAAAGCG--CATATA--TGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGCGTATATATATGTGATAAGGCCTAATGGCCGATGT
64696900 GATGAATGTGAAAGCGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGCGTATATATATGTGATAAGGCCTAATGGCCGATGT
*
64696949 GATGAATGTGAAAGCGTATACATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGCGTATATATATGTGATAAGGCCTAATGGCCGATGT
*
64696998 GATGAATGTGAAA--GTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGCGTATATATATGTGATAAGGCCTAATGGCCGATGT
* * * *
64697045 GATGAATGTGAAA--GT-TATATATGTGAT-AGGCCGAGTGGCCAACGT
1 GATGAATGTGAAAGCGTATATATATGTGATAAGGCCTAATGGCCGATGT
* *
64697090 GATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 GATGAATGTGAAAGCGTATATATATGTGATAAG
64697121 TCCCGAAGGG
Statistics
Matches: 247, Mismatches: 10, Indels: 19
0.89 0.04 0.07
Matches are distributed among these distances:
45 65 0.26
46 20 0.08
47 60 0.24
48 18 0.07
49 84 0.34
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.27
Consensus pattern (49 bp):
GATGAATGTGAAAGCGTATATATATGTGATAAGGCCTAATGGCCGATGT
Found at i:64699081 original size:40 final size:40
Alignment explanation
Indices: 64698916--64699107 Score: 169
Period size: 40 Copynumber: 4.8 Consensus size: 40
64698906 TTCGAATGTG
* *
64698916 TCCGGGCTAAGTCCCGAAGAC-TTTGTGCTGAG-TGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGCT-ACCAAA
* * *
64698956 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGCTACCAAA
** * *
64698996 TCCGAACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGCTACCAAA
* **
64699036 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACCA-AA
* * *
64699077 -CCGGGCTATGTCCCGAAGGCTTTTGAGCGAG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
64699108 TCGCTATATC
Statistics
Matches: 131, Mismatches: 16, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
39 1 0.01
40 119 0.91
41 11 0.08
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACCAAA
Found at i:64701465 original size:49 final size:49
Alignment explanation
Indices: 64701384--64701477 Score: 145
Period size: 49 Copynumber: 1.9 Consensus size: 49
64701374 TCAAGAAGGG
* *
64701384 ATAAATAATGATAAGAGTGTAGATAGTAGAAGACTAAGTTTAGCAATGT
1 ATAAATAATGATAAGAGTGTAGACAGTAGAAGACCAAGTTTAGCAATGT
*
64701433 ATAAATAGTGATAAGAGTGTAGACAG-AGGAAGACCAAGTTTAGCA
1 ATAAATAATGATAAGAGTGTAGACAGTA-GAAGACCAAGTTTAGCA
64701478 TTGCATAGCA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
48 1 0.02
49 40 0.98
ACGTcount: A:0.45, C:0.06, G:0.24, T:0.24
Consensus pattern (49 bp):
ATAAATAATGATAAGAGTGTAGACAGTAGAAGACCAAGTTTAGCAATGT
Found at i:64702264 original size:20 final size:20
Alignment explanation
Indices: 64702226--64702271 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
64702216 GTGACCTGAA
*
64702226 AGAAAGAAACCAAAAAAAATT
1 AGAAA-AAAACAAAAAAAATT
*
64702247 AGAAAAAAACAAAGAAAATT
1 AGAAAAAAACAAAAAAAATT
64702267 A-AAAA
1 AGAAAA
64702272 TAAAGAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 4 0.17
20 14 0.61
21 5 0.22
ACGTcount: A:0.76, C:0.07, G:0.09, T:0.09
Consensus pattern (20 bp):
AGAAAAAAACAAAAAAAATT
Found at i:64703242 original size:17 final size:18
Alignment explanation
Indices: 64703200--64703248 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
64703190 AGTTGAAAAG
64703200 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
64703219 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
64703236 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
64703249 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:64704136 original size:40 final size:40
Alignment explanation
Indices: 64704070--64704236 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
64704060 AAATTGAATG
* * *
64704070 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
64704109 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
64704149 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
64704189 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
64704229 ATATCCGG
1 ATATCCGG
64704237 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:64708900 original size:2 final size:2
Alignment explanation
Indices: 64708893--64708925 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
64708883 GTTAATGCTG
64708893 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
64708926 TAACGATTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:64710090 original size:50 final size:50
Alignment explanation
Indices: 64710015--64710120 Score: 203
Period size: 50 Copynumber: 2.1 Consensus size: 50
64710005 GATAATACGT
64710015 ATGAGAAATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGG
1 ATGAGAAATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGG
*
64710065 ATGAGAAATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGT
1 ATGAGAAATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGG
64710115 ATGAGA
1 ATGAGA
64710121 TAAAGCCGAA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 55 1.00
ACGTcount: A:0.39, C:0.06, G:0.27, T:0.28
Consensus pattern (50 bp):
ATGAGAAATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGG
Found at i:64710126 original size:35 final size:35
Alignment explanation
Indices: 64710086--64710157 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
64710076 ATATATGTGG
64710086 TAAAGCCGAATGGCTAATGTGAAATATGTATGAGA
1 TAAAGCCGAATGGCTAATGTGAAATATGTATGAGA
64710121 TAAAGCCGAATGGCTAATGTGAAATATGTATGAGA
1 TAAAGCCGAATGGCTAATGTGAAATATGTATGAGA
64710156 TA
1 TA
64710158 TGTATATGTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.40, C:0.08, G:0.25, T:0.26
Consensus pattern (35 bp):
TAAAGCCGAATGGCTAATGTGAAATATGTATGAGA
Found at i:64710178 original size:48 final size:48
Alignment explanation
Indices: 64710121--64710252 Score: 246
Period size: 48 Copynumber: 2.8 Consensus size: 48
64710111 ATGTATGAGA
64710121 TAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGG
1 TAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGG
64710169 TAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGG
1 TAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGG
* *
64710217 TAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
1 TAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
64710253 GTGTGTATTT
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 82 1.00
ACGTcount: A:0.36, C:0.07, G:0.28, T:0.30
Consensus pattern (48 bp):
TAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGG
Found at i:64710201 original size:83 final size:84
Alignment explanation
Indices: 64710036--64710205 Score: 306
Period size: 83 Copynumber: 2.0 Consensus size: 84
64710026 ATATATGTGG
64710036 TAAAGCCGAATGGCTAATGTGAAATATGGATGAGAAATGTATATATGTGGTAAAGCCGAATGGCT
1 TAAAGCCGAATGGCTAATGTGAAATATGGATGAGAAATG-ATATATGTGGTAAAGCCGAATGGCT
64710101 AATGTGAAATATGTATGAGA
65 AATGTGAAATATGTATGAGA
* *
64710121 TAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG-TATATGTGGTAAAGCCGAATGGCTA
1 TAAAGCCGAATGGCTAATGTGAAATATGGATGAGAAATGATATATGTGGTAAAGCCGAATGGCTA
64710185 ATGTGAAATATGTATGAGA
66 ATGTGAAATATGTATGAGA
64710204 TA
1 TA
64710206 TGTATATGTG
Statistics
Matches: 83, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
83 46 0.55
85 37 0.45
ACGTcount: A:0.38, C:0.07, G:0.26, T:0.28
Consensus pattern (84 bp):
TAAAGCCGAATGGCTAATGTGAAATATGGATGAGAAATGATATATGTGGTAAAGCCGAATGGCTA
ATGTGAAATATGTATGAGA
Found at i:64711949 original size:78 final size:80
Alignment explanation
Indices: 64711748--64712030 Score: 438
Period size: 78 Copynumber: 3.6 Consensus size: 80
64711738 AGTTATATAG
* * *
64711748 CCGGGCTAAGTCCCGAAGAGCATTCGTGCT-GATGTTATATCCGGGCTAAGTCCCGAAGAGCATT
1 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAG-TGATATATCCGGGCTAAGTTCCGAAGAGCATT
64711812 CGTGCT-G--ATGTTAT
65 CGTGCTAGTAATG-TAT
*
64711826 CCGGGCTAAGTT-CGAAGAGCATTCGTGCTAGT-ATGTATCCGGGCTAAGTTCCGAAGAGCATTC
1 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCGAAGAGCATTC
64711889 GTGCTAGTAATGTAT
66 GTGCTAGTAATGTAT
*
64711904 CC-GGCTAAGTTCCGAAGAGCATT-GTGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTC
1 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCGAAGAGCATTC
64711967 GTGCTAGTAATGTAT
66 GTGCTAGTAATGTAT
*
64711982 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCAGGCTAA
1 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAA
64712031 ACCTCGAAGG
Statistics
Matches: 191, Mismatches: 6, Indels: 14
0.91 0.03 0.07
Matches are distributed among these distances:
76 33 0.17
77 36 0.19
78 76 0.40
79 24 0.13
80 22 0.12
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCGAAGAGCATTC
GTGCTAGTAATGTAT
Found at i:64712039 original size:40 final size:40
Alignment explanation
Indices: 64711748--64712030 Score: 420
Period size: 40 Copynumber: 7.2 Consensus size: 40
64711738 AGTTATATAG
* * *
64711748 CCGGGCTAAGTCCCGAAGAGCATTCGTGCT-GATGTTATAT
1 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAG-TGATGTAT
*
64711788 CCGGGCTAAGTCCCGAAGAGCATTCGTGC---TGATGTTAT
1 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG-TAT
64711826 CCGGGCTAAGTT-CGAAGAGCATTCGTGCTAGT-ATGTAT
1 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT
*
64711864 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATGTAT
1 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT
64711904 CC-GGCTAAGTTCCGAAGAGCATT-GTGCTAGTGATGTAT
1 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT
*
64711942 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATGTAT
1 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT
*
64711982 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATAT
1 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT
*
64712022 CCAGGCTAA
1 CCGGGCTAA
64712031 ACCTCGAAGG
Statistics
Matches: 227, Mismatches: 8, Indels: 16
0.90 0.03 0.06
Matches are distributed among these distances:
37 19 0.08
38 45 0.20
39 65 0.29
40 98 0.43
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT
Found at i:64712143 original size:29 final size:28
Alignment explanation
Indices: 64712062--64712161 Score: 94
Period size: 28 Copynumber: 3.5 Consensus size: 28
64712052 GAGTTATGAG
* * * *
64712062 GCACTGTGTGTGCAAGTTCTTCAACTGA
1 GCACTATGTGTGCGAGTTCTTTAATTGA
**
64712090 GCACTATGTGTGCGAGATT-GGTAATTGA
1 GCACTATGTGTGCGAG-TTCTTTAATTGA
* *
64712118 GGCACTATGTTTGCGAGTTCTTTAATCGA
1 -GCACTATGTGTGCGAGTTCTTTAATTGA
*
64712147 GCGCTATGTGTGCGA
1 GCACTATGTGTGCGA
64712162 AATCAGTCAG
Statistics
Matches: 57, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
28 34 0.60
29 23 0.40
ACGTcount: A:0.21, C:0.17, G:0.29, T:0.33
Consensus pattern (28 bp):
GCACTATGTGTGCGAGTTCTTTAATTGA
Found at i:64714367 original size:2 final size:2
Alignment explanation
Indices: 64714360--64714390 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
64714350 GTTAATGCTG
64714360 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
64714391 TAACGATTAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:64715552 original size:50 final size:50
Alignment explanation
Indices: 64715485--64715590 Score: 203
Period size: 50 Copynumber: 2.1 Consensus size: 50
64715475 ATAAATACGT
64715485 ATGAGAAATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGG
1 ATGAGAAATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGG
*
64715535 ATGAGAAATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGT
1 ATGAGAAATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGG
64715585 ATGAGA
1 ATGAGA
64715591 TAAAGCCGAA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 55 1.00
ACGTcount: A:0.39, C:0.06, G:0.27, T:0.28
Consensus pattern (50 bp):
ATGAGAAATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGG
Found at i:64715596 original size:35 final size:35
Alignment explanation
Indices: 64715556--64715627 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
64715546 ATATATGTGG
64715556 TAAAGCCGAATGGCTAATGTGAAATATGTATGAGA
1 TAAAGCCGAATGGCTAATGTGAAATATGTATGAGA
64715591 TAAAGCCGAATGGCTAATGTGAAATATGTATGAGA
1 TAAAGCCGAATGGCTAATGTGAAATATGTATGAGA
64715626 TA
1 TA
64715628 TGTATATGTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.40, C:0.08, G:0.25, T:0.26
Consensus pattern (35 bp):
TAAAGCCGAATGGCTAATGTGAAATATGTATGAGA
Found at i:64715648 original size:48 final size:48
Alignment explanation
Indices: 64715591--64715722 Score: 246
Period size: 48 Copynumber: 2.8 Consensus size: 48
64715581 ATGTATGAGA
64715591 TAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGG
1 TAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGG
64715639 TAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGG
1 TAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGG
* *
64715687 TAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
1 TAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
64715723 GTGTGTATAT
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 82 1.00
ACGTcount: A:0.36, C:0.07, G:0.28, T:0.30
Consensus pattern (48 bp):
TAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGG
Found at i:64715671 original size:83 final size:84
Alignment explanation
Indices: 64715506--64715675 Score: 306
Period size: 83 Copynumber: 2.0 Consensus size: 84
64715496 ATATATGTGG
64715506 TAAAGCCGAATGGCTAATGTGAAATATGGATGAGAAATGTATATATGTGGTAAAGCCGAATGGCT
1 TAAAGCCGAATGGCTAATGTGAAATATGGATGAGAAATG-ATATATGTGGTAAAGCCGAATGGCT
64715571 AATGTGAAATATGTATGAGA
65 AATGTGAAATATGTATGAGA
* *
64715591 TAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG-TATATGTGGTAAAGCCGAATGGCTA
1 TAAAGCCGAATGGCTAATGTGAAATATGGATGAGAAATGATATATGTGGTAAAGCCGAATGGCTA
64715655 ATGTGAAATATGTATGAGA
66 ATGTGAAATATGTATGAGA
64715674 TA
1 TA
64715676 TGTATATGTG
Statistics
Matches: 83, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
83 46 0.55
85 37 0.45
ACGTcount: A:0.38, C:0.07, G:0.26, T:0.28
Consensus pattern (84 bp):
TAAAGCCGAATGGCTAATGTGAAATATGGATGAGAAATGATATATGTGGTAAAGCCGAATGGCTA
ATGTGAAATATGTATGAGA
Found at i:64718887 original size:14 final size:14
Alignment explanation
Indices: 64718870--64718905 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
64718860 TACAAAATAG
64718870 TATATATTATTTTT
1 TATATATTATTTTT
64718884 TATATATTA-TTTT
1 TATATATTATTTTT
64718897 TAT-TATTAT
1 TATATATTAT
64718906 ACATTTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.24
13 7 0.33
14 9 0.43
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TATATATTATTTTT
Found at i:64718918 original size:13 final size:12
Alignment explanation
Indices: 64718899--64718935 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
64718889 ATTATTTTTA
64718899 TTATTATACATT
1 TTATTATACATT
*
64718911 TTATTTATAAATT
1 TTA-TTATACATT
64718924 TTATTATACATT
1 TTATTATACATT
64718936 ATATATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.59
Consensus pattern (12 bp):
TTATTATACATT
Found at i:64718937 original size:19 final size:19
Alignment explanation
Indices: 64718915--64718956 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
64718905 TACATTTTAT
*
64718915 TTATAAATTTTATTATACA
1 TTATAAATTTTACTATACA
* *
64718934 TTATATATTTTACTATATA
1 TTATAAATTTTACTATACA
64718953 TTAT
1 TTAT
64718957 TCCTTGCATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (19 bp):
TTATAAATTTTACTATACA
Found at i:64719113 original size:10 final size:10
Alignment explanation
Indices: 64719098--64719147 Score: 50
Period size: 10 Copynumber: 5.2 Consensus size: 10
64719088 ATGATAGTAT
*
64719098 TTATATTTCA
1 TTATATTTTA
64719108 TTATATTTTA
1 TTATATTTTA
*
64719118 TT-TA-TGTA
1 TTATATTTTA
*
64719126 TTTTATTTTA
1 TTATATTTTA
*
64719136 TTATATATTA
1 TTATATTTTA
64719146 TT
1 TT
64719148 CCTTAAAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
8 5 0.15
9 4 0.12
10 24 0.73
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (10 bp):
TTATATTTTA
Found at i:64719177 original size:2 final size:2
Alignment explanation
Indices: 64719170--64719200 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
64719160 TTCCTTTTAT
64719170 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
64719201 TTCATTATCT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:64719723 original size:60 final size:59
Alignment explanation
Indices: 64719609--64719725 Score: 146
Period size: 60 Copynumber: 1.9 Consensus size: 59
64719599 ATTGTTATAC
* *
64719609 ATTATGTAATTTATATTGCTAGATTCATTGCTTTCTATGTTATATTATGTATGAAATATT
1 ATTATGTAATCTATATTGCTAGATTCATTGCTTTCTATGTTATA-TATGCATGAAATATT
* ** *
64719669 ATTATGTAATCTATATTGTTATTTTCATTGTTTTCTATGATTATA-ACTGCATGAAAT
1 ATTATGTAATCTATATTGCTAGATTCATTGCTTTCTATG-TTATATA-TGCATGAAAT
64719726 GATAACGTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
59 1 0.02
60 43 0.88
61 5 0.10
ACGTcount: A:0.30, C:0.08, G:0.11, T:0.51
Consensus pattern (59 bp):
ATTATGTAATCTATATTGCTAGATTCATTGCTTTCTATGTTATATATGCATGAAATATT
Done.