Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 271 of 318
Found at i:86733568 original size:26 final size:26
Alignment explanation
Indices: 86733523--86733620 Score: 171
Period size: 26 Copynumber: 3.8 Consensus size: 26
86733513 CCTCTTTAAT
86733523 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
**
86733548 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
86733574 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
86733600 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
86733621 GCACTTCCTC
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
25 10 0.15
26 58 0.85
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:86734454 original size:27 final size:27
Alignment explanation
Indices: 86734424--86734515 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
86734414 GGGCATATTC
* *
86734424 GTCATTTTACCATACAAGGG-TATTACA
1 GTCATTTTACCCTACAAGGGCT-TTACG
* *
86734451 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCCTACAAGGGCTTTACG
* *
86734478 GTCAGTTTACCCTATAAGGGCTTTACG
1 GTCATTTTACCCTACAAGGGCTTTACG
*
86734505 GTCTTTTTACC
1 GTCATTTTACC
86734516 TAATAGGGGT
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
27 54 0.98
28 1 0.02
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCCTACAAGGGCTTTACG
Found at i:86734603 original size:27 final size:27
Alignment explanation
Indices: 86734577--86734798 Score: 164
Period size: 27 Copynumber: 8.1 Consensus size: 27
86734567 ACAAACCAAT
* *
86734577 GGTATTTTAGTAATTTTGTAAATCAAT
1 GGTATTTTAGTAATTTTATAAATCAAG
*
86734604 GGTATTTCTA-TAATTTTTAGAAAGTCAAG
1 GGTATTT-TAGTAA-TTTTATAAA-TCAAG
* * *
86734633 GGTATTTTTGTAACTTTGTAAAT-AAG
1 GGTATTTTAGTAATTTTATAAATCAAG
* * **
86734659 GAGTATTTTGGTAATTTTACAAATTGAG
1 G-GTATTTTAGTAATTTTATAAATCAAG
* * * * *
86734687 GGTATTTTGGTAATTTCACAAACCAAA
1 GGTATTTTAGTAATTTTATAAATCAAG
* * *
86734714 GGTATTTTGGTAATTTTACAAA-CTAGG
1 GGTATTTTAGTAATTTTATAAATC-AAG
* *
86734741 GGTATTTTGGTAATTTTACAAA-CTAAG
1 GGTATTTTAGTAATTTTATAAATC-AAG
* *
86734768 GGTATTTTAGTAATTTTGTAAATCGAG
1 GGTATTTTAGTAATTTTATAAATCAAG
86734795 GGTA
1 GGTA
86734799 AAACAGTAAT
Statistics
Matches: 162, Mismatches: 25, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
26 5 0.03
27 123 0.76
28 20 0.12
29 14 0.09
ACGTcount: A:0.32, C:0.06, G:0.19, T:0.42
Consensus pattern (27 bp):
GGTATTTTAGTAATTTTATAAATCAAG
Found at i:86734719 original size:54 final size:54
Alignment explanation
Indices: 86734661--86734798 Score: 188
Period size: 54 Copynumber: 2.6 Consensus size: 54
86734651 TAAATAAGGA
86734661 GTATTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTTCACAAACCAAAG
1 GTATTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTTCACAAACCAAAG
* * * *
86734715 GTATTTTGGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTTACAAACTAAGG
1 GTATTTTGGTAATTTTACAAATTGA-GGGTATTTTGGTAATTTCACAAACCAAAG
* ** *
86734769 GTATTTTAGTAATTTTGTAAATCGAGGGTA
1 GTATTTTGGTAATTTTACAAATTGAGGGTA
86734799 AAACAGTAAT
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
53 1 0.01
54 71 0.97
55 1 0.01
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.41
Consensus pattern (54 bp):
GTATTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTTCACAAACCAAAG
Found at i:86734806 original size:27 final size:27
Alignment explanation
Indices: 86734776--86735068 Score: 320
Period size: 27 Copynumber: 10.9 Consensus size: 27
86734766 AGGGTATTTT
*
86734776 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
86734803 AGTAATTCTGTAAATCAATGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
** *
86734830 AACAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
86734857 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * * *
86734884 GGTAATTCTGTAAGTCAAGGGAAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
86734911 AATAATTATGTAAATCGGGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
86734938 GGTAATTATGTAAATC-AGGAGTAAAAC
1 AGTAATTCTGTAAATCGAGG-GTAAAAC
* * *
86734965 GGTAATTCTGTAAGTCGAGGATAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
86734992 -GATAATTATGTAAATCAAGGGTAAAAC
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* *
86735019 AGTAATTATGTAAATCGGGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
86735046 GGTAATTCTGTAAATCGGGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
86735069 CTTTGGTAAT
Statistics
Matches: 226, Mismatches: 36, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
26 3 0.01
27 219 0.97
28 4 0.02
ACGTcount: A:0.42, C:0.10, G:0.23, T:0.26
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:86734852 original size:81 final size:80
Alignment explanation
Indices: 86734776--86735061 Score: 376
Period size: 81 Copynumber: 3.5 Consensus size: 80
86734766 AGGGTATTTT
* * * * *
86734776 AGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAATGGTAAAACAACAATTCTAT
1 AGTAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAA-GGTAAAACAATAATTATGT
86734841 AAATCGAGGGTAAAAC
65 AAATCGAGGGTAAAAC
* * * * *
86734857 GGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAGTCAAGGGAAAAACAATAATTATGT
1 AGTAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAA-GGTAAAACAATAATTATGT
*
86734922 AAATCGGGGGTAAAAC
65 AAATCGAGGGTAAAAC
* * * *
86734938 GGTAATTATGTAAATC-AGGAGTAAAACGGTAATTCTGTAAGTCGAGGATAAAACGATAATTATG
1 AGTAATTATGTAAATCGAGG-GTAAAACGGTAATTCTGTAAATCAAGG-TAAAACAATAATTATG
*
86735002 TAAATCAAGGGTAAAAC
64 TAAATCGAGGGTAAAAC
*
86735019 AGTAATTATGTAAATCGGGGGTAAAACGGTAATTCTGTAAATC
1 AGTAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATC
86735062 GGGGGTACTT
Statistics
Matches: 181, Mismatches: 21, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
80 5 0.03
81 174 0.96
82 2 0.01
ACGTcount: A:0.42, C:0.10, G:0.21, T:0.27
Consensus pattern (80 bp):
AGTAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGTAAAACAATAATTATGTA
AATCGAGGGTAAAAC
Found at i:86735164 original size:28 final size:27
Alignment explanation
Indices: 86735092--86735166 Score: 89
Period size: 27 Copynumber: 2.7 Consensus size: 27
86735082 ACAAGTCGAA
*
86735092 TCAGTAATTTTACAAA-TCGAGGGTATT
1 TCAGTAATTTTACAAACT-AAGGGTATT
*
86735119 TCAGTATTTTTACAAACTAAGGGTATT
1 TCAGTAATTTTACAAACTAAGGGTATT
* *
86735146 TCGGTAATTTTAGTAAACTAA
1 TCAGTAATTTTA-CAAACTAA
86735167 AGTATTCTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
27 33 0.80
28 8 0.20
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.39
Consensus pattern (27 bp):
TCAGTAATTTTACAAACTAAGGGTATT
Found at i:86737751 original size:48 final size:48
Alignment explanation
Indices: 86737680--86737775 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
86737670 CTATCTACAA
86737680 GACACATGTCTTCATTGATTTTGGGTCTATCGAAATTTTGTTGAATAT
1 GACACATGTCTTCATTGATTTTGGGTCTATCGAAATTTTGTTGAATAT
86737728 GACACATGTCTTCATTGATTTTGGGTCTATCGAAATTTTGTTGAATAT
1 GACACATGTCTTCATTGATTTTGGGTCTATCGAAATTTTGTTGAATAT
86737776 TCATATTTTC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (48 bp):
GACACATGTCTTCATTGATTTTGGGTCTATCGAAATTTTGTTGAATAT
Found at i:86740349 original size:18 final size:18
Alignment explanation
Indices: 86740328--86740365 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
86740318 TGCTTTTCTC
86740328 AGGGCTCCCGCTTGGGCT
1 AGGGCTCCCGCTTGGGCT
*
86740346 AGGGCTCTCGCTTGGGCT
1 AGGGCTCCCGCTTGGGCT
86740364 AG
1 AG
86740366 CGCTGATAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.08, C:0.29, G:0.39, T:0.24
Consensus pattern (18 bp):
AGGGCTCCCGCTTGGGCT
Found at i:86741257 original size:20 final size:20
Alignment explanation
Indices: 86741232--86741275 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
86741222 AACAAACAAA
86741232 CATATCTTGCAGTTGTTGGT
1 CATATCTTGCAGTTGTTGGT
86741252 CATATCTTGCAGTTGTTGGT
1 CATATCTTGCAGTTGTTGGT
86741272 CATA
1 CATA
86741276 CTTTTTTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.18, C:0.16, G:0.23, T:0.43
Consensus pattern (20 bp):
CATATCTTGCAGTTGTTGGT
Found at i:86744334 original size:17 final size:18
Alignment explanation
Indices: 86744312--86744350 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
86744302 TAGAGGAAGC
86744312 TCTCA-TTCTAAGGCTTG
1 TCTCATTTCTAAGGCTTG
*
86744329 TCTCATTTCTTAGGCTTG
1 TCTCATTTCTAAGGCTTG
86744347 TCTC
1 TCTC
86744351 GTTGCGTATC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.13, C:0.26, G:0.15, T:0.46
Consensus pattern (18 bp):
TCTCATTTCTAAGGCTTG
Found at i:86745001 original size:17 final size:17
Alignment explanation
Indices: 86744979--86745012 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
86744969 TTTTACTACT
86744979 TTACACTTGGTTTAAAA
1 TTACACTTGGTTTAAAA
86744996 TTACACTTGGTTTAAAA
1 TTACACTTGGTTTAAAA
86745013 CTTATAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (17 bp):
TTACACTTGGTTTAAAA
Found at i:86747710 original size:48 final size:48
Alignment explanation
Indices: 86747639--86747827 Score: 252
Period size: 48 Copynumber: 3.9 Consensus size: 48
86747629 ACTCGGGAGT
* * * * *
86747639 CTCGCACCCTAAGTGCCAATATCATGACACGAAGCCAAATCAATGTAA
1 CTCGCACCCGAAGTGCTAATATCATGGCCCGAAGCCAAATCAATGAAA
* *
86747687 CTCGCACCTGAAGTGCTAATATCATGGCCTGAAGCCAAATCAATGAAA
1 CTCGCACCCGAAGTGCTAATATCATGGCCCGAAGCCAAATCAATGAAA
** * *
86747735 CTCATACCCGAAGTGCTAATATCTTGGCCCGAAGCCAAATAAATGAAA
1 CTCGCACCCGAAGTGCTAATATCATGGCCCGAAGCCAAATCAATGAAA
* * *
86747783 CTCGTACCCGAAGTGCTGATATCTTGGCCCGAAGCCAAATCAATG
1 CTCGCACCCGAAGTGCTAATATCATGGCCCGAAGCCAAATCAATG
86747828 TATTCCCTAA
Statistics
Matches: 125, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 125 1.00
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (48 bp):
CTCGCACCCGAAGTGCTAATATCATGGCCCGAAGCCAAATCAATGAAA
Found at i:86750965 original size:28 final size:28
Alignment explanation
Indices: 86750934--86750989 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
86750924 TTTCTAATTA
* * *
86750934 AATTCAATTTTAATCCTTTTTATATTTT
1 AATTCAATTTAAATACTTTATATATTTT
* *
86750962 AATTTACTTTAAATACTTTATATATTTT
1 AATTCAATTTAAATACTTTATATATTTT
86750990 TATAAATATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.59
Consensus pattern (28 bp):
AATTCAATTTAAATACTTTATATATTTT
Found at i:86751046 original size:12 final size:12
Alignment explanation
Indices: 86751031--86751075 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
86751021 TCCAATACAT
86751031 TATTTTATCATA
1 TATTTTATCATA
86751043 TATTTTATCTATA
1 TATTTTATC-ATA
* * *
86751056 AATTATATTATA
1 TATTTTATCATA
86751068 TATTTTAT
1 TATTTTAT
86751076 ATTATATATT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
12 18 0.67
13 9 0.33
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (12 bp):
TATTTTATCATA
Found at i:86751075 original size:14 final size:14
Alignment explanation
Indices: 86751058--86751086 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
86751048 TATCTATAAA
86751058 TTATATTATATATT
1 TTATATTATATATT
86751072 TTATATTATATATT
1 TTATATTATATATT
86751086 T
1 T
86751087 CTTTGTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TTATATTATATATT
Found at i:86751291 original size:29 final size:30
Alignment explanation
Indices: 86751233--86751291 Score: 68
Period size: 30 Copynumber: 2.0 Consensus size: 30
86751223 TACACCTTTC
* *
86751233 TTTATTTATATATTTTATATATGTATATTA
1 TTTATTTATATATTTTATATATGAAAATTA
*
86751263 TTTATTT-TATAATTTTCT-TATGAAAATTA
1 TTTATTTATAT-ATTTTATATATGAAAATTA
86751292 CTCATATCCT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
29 12 0.48
30 13 0.52
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (30 bp):
TTTATTTATATATTTTATATATGAAAATTA
Found at i:86751443 original size:22 final size:22
Alignment explanation
Indices: 86751417--86751459 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
86751407 CTTTCTTATA
*
86751417 TTTTTATATATTATTTATTTTG
1 TTTTTATATACTATTTATTTTG
*
86751439 TTTTTTTATACTATTTATTTT
1 TTTTTATATACTATTTATTTT
86751460 ACTATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTTTATATACTATTTATTTTG
Found at i:86752904 original size:17 final size:17
Alignment explanation
Indices: 86752882--86752921 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
86752872 GCTTAAAGGA
*
86752882 GAACACTATCATAATGT
1 GAACACTATCATAATGC
86752899 GAACACTATCATAATGC
1 GAACACTATCATAATGC
86752916 GAACAC
1 GAACAC
86752922 ACTTCCAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.42, C:0.23, G:0.12, T:0.23
Consensus pattern (17 bp):
GAACACTATCATAATGC
Found at i:86753625 original size:15 final size:15
Alignment explanation
Indices: 86753605--86753709 Score: 138
Period size: 15 Copynumber: 7.0 Consensus size: 15
86753595 ATCATCACCT
86753605 TCGGGTCCTTCAGCA
1 TCGGGTCCTTCAGCA
* *
86753620 TCGGGTCCATCGGCA
1 TCGGGTCCTTCAGCA
86753635 TCGGGTCCTTCAGCA
1 TCGGGTCCTTCAGCA
* *
86753650 TCGGGTCCATCGGCA
1 TCGGGTCCTTCAGCA
*
86753665 TCGGGTCCTTCAGTA
1 TCGGGTCCTTCAGCA
* *
86753680 TCGGATCCTTCAGCC
1 TCGGGTCCTTCAGCA
*
86753695 TCGGATCCTTCAGCA
1 TCGGGTCCTTCAGCA
86753710 GAGGGGCCCT
Statistics
Matches: 77, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 77 1.00
ACGTcount: A:0.14, C:0.33, G:0.27, T:0.26
Consensus pattern (15 bp):
TCGGGTCCTTCAGCA
Found at i:86753639 original size:30 final size:30
Alignment explanation
Indices: 86753605--86753709 Score: 156
Period size: 30 Copynumber: 3.5 Consensus size: 30
86753595 ATCATCACCT
86753605 TCGGGTCCTTCAGCATCGGGTCCATCGGCA
1 TCGGGTCCTTCAGCATCGGGTCCATCGGCA
86753635 TCGGGTCCTTCAGCATCGGGTCCATCGGCA
1 TCGGGTCCTTCAGCATCGGGTCCATCGGCA
* * * * *
86753665 TCGGGTCCTTCAGTATCGGATCCTTCAGCC
1 TCGGGTCCTTCAGCATCGGGTCCATCGGCA
*
86753695 TCGGATCCTTCAGCA
1 TCGGGTCCTTCAGCA
86753710 GAGGGGCCCT
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 68 1.00
ACGTcount: A:0.14, C:0.33, G:0.27, T:0.26
Consensus pattern (30 bp):
TCGGGTCCTTCAGCATCGGGTCCATCGGCA
Found at i:86754583 original size:23 final size:22
Alignment explanation
Indices: 86754540--86754606 Score: 64
Period size: 23 Copynumber: 3.0 Consensus size: 22
86754530 AATATGTATA
*
86754540 AAATT-TAAATAAAAATTAATTT
1 AAATTATAAAT-AAAATAAATTT
86754562 AAATTATAAATAAAATGAAATTT
1 AAATTATAAATAAAAT-AAATTT
* * *
86754585 AAATAGATAAATATATTAAATT
1 AAAT-TATAAATAAAATAAATT
86754607 AAGAATATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
22 10 0.26
23 19 0.50
24 9 0.24
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (22 bp):
AAATTATAAATAAAATAAATTT
Found at i:86757507 original size:130 final size:130
Alignment explanation
Indices: 86757226--86757679 Score: 346
Period size: 131 Copynumber: 3.5 Consensus size: 130
86757216 TTCCGAAGAG
* * * * *
86757226 ATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAGCACGATAGGGTATTATTCCCCGAAT
1 ATATTCGATTGTTTTGAACAAA-GAGAAATCGCAACCCAGCACGATAGGGCATGATTCCAC-AAT
* * * * * *
86757291 TGCCAAACATCGAACATTTCTTTCGTTTTAAAGGGTTTTTAGAAAACGTGACTGAAATTCCGAAG
64 CGCCAAACATCAAACATTCCTTTCGTTTTAAAGGGTTTTTAGAAAACATGACTGAAATACCAAAG
*
86757356 GG
129 GA
* * * * * *
86757358 ATCTTCGATCGTTTAGAACAAATGAAAAAAGCGCAACCCAGCACGATAGGGCACGATTCTCAC-A
1 ATATTCGATTGTTTTGAACAAA-G-AGAAATCGCAACCCAGCACGATAGGGCATGATTC-CACAA
* *
86757422 TCGCCAAACATCAAACA-TCCTTT-GTTTTGAAA-GGTTTTTA-ATAACCATGAGTGAAA-ACCT
63 TCGCCAAACATCAAACATTCCTTTCGTTTT-AAAGGGTTTTTAGA-AAACATGACTGAAATACC-
86757482 AAAGGA
125 AAAGGA
* *
86757488 ATATTCGATTGTTTTGAACAAAGGAGAAATCACAACTCAGCACGATAGGGCATGATTCC-CGAAT
1 ATATTCGATTGTTTTGAACAAA-GAGAAATCGCAACCCAGCACGATAGGGCATGATTCCAC-AAT
* * * * * * * * * * ****
86757552 TGTCAAACACCGAGCATTGCTTTCGTTTTAAAGGATTTTTAGAAGACACGAGTGAAATTTTGAAG
64 CGCCAAACATCAAACATTCCTTTCGTTTTAAAGGGTTTTTAGAAAACATGACTGAAATACCAAAG
*
86757617 GG
129 GA
** ** * * * * *
86757619 ACCTTCGATTACTTTGAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCCAC
1 ATATTCGATTGTTTTGAACAAA-GAGAAATCGCAACCCAGCACGATAGGGCATGATTCCAC
86757680 GAATTGTCAA
Statistics
Matches: 252, Mismatches: 57, Indels: 26
0.75 0.17 0.08
Matches are distributed among these distances:
127 1 0.00
128 1 0.00
129 45 0.18
130 56 0.22
131 82 0.33
132 37 0.15
133 28 0.11
134 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (130 bp):
ATATTCGATTGTTTTGAACAAAGAGAAATCGCAACCCAGCACGATAGGGCATGATTCCACAATCG
CCAAACATCAAACATTCCTTTCGTTTTAAAGGGTTTTTAGAAAACATGACTGAAATACCAAAGGA
Found at i:86757628 original size:131 final size:129
Alignment explanation
Indices: 86757206--86757715 Score: 458
Period size: 132 Copynumber: 3.9 Consensus size: 129
86757196 CTTAAAAAAT
* *
86757206 ACGAGTGAAATTCCGAAGAGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAGCACGA
1 ACGAGTGAAATTCCGAAGGGATATTCGATTATTTTGAACAAACGAGAAATCGCAACCCAGCACGA
* ** *
86757271 TAGGGTATTATTCCCCGAATTGCCAAACATCGAACATTTCTTTCGTTTTAAAGGGTTTTTAGAAA
66 TAGGGCACGATT-CCCGAATTGCCAAACATCGAACATTCCTTTCGTTTTAAA-GGTTTTTAGAAA
86757336 -
129 C
* * ** * * * *
86757336 ACGTGACTGAAATTCCGAAGGGATCTTCGATCGTTTAGAACAAATGAAAAAAGCGCAACCCAGCA
1 AC--GAGTGAAATTCCGAAGGGATATTCGATTATTTTGAACAAACG-AGAAATCGCAACCCAGCA
* * *
86757401 CGATAGGGCACGATTCTC-ACATCGCCAAACATCAAACA-TCCTTT-GTTTTGAAAGGTTTTTA-
63 CGATAGGGCACGATTCCCGA-ATTGCCAAACATCGAACATTCCTTTCGTTTT-AAAGGTTTTTAG
86757462 ATAACC
126 A-AA-C
* * * * * * * *
86757468 ATGAGTGAAA-ACCTAAAGGAATATTCGATTGTTTTGAACAAAGGAGAAATCACAACTCAGCACG
1 ACGAGTGAAATTCC-GAAGGGATATTCGATTATTTTGAACAAACGAGAAATCGCAACCCAGCACG
* * * * *
86757532 ATAGGGCATGATTCCCGAATTGTCAAACACCGAGCATTGCTTTCGTTTTAAAGGATTTTTAGAAG
65 ATAGGGCACGATTCCCGAATTGCCAAACATCGAACATTCCTTTCGTTTTAAAGG-TTTTTAGAA-
86757597 AC
128 AC
** ** * * * * *
86757599 ACGAGTGAAATTTTGAAGGGACCTTCGATTACTTTGAGCAAACGAGAAATTGCAACCCAACACGT
1 ACGAGTGAAATTCCGAAGGGATATTCGATTATTTTGAACAAACGAGAAATCGCAACCCAGCACGA
* * * *
86757664 TAGGGCACGATTCCACGAATTGTCAAATATCGAATA-TCGCCTTCGTTTTAAA
66 TAGGGCACGATTCC-CGAATTGCCAAACATCGAACATTC-CTTTCGTTTTAAA
86757716 TAATTGTGAA
Statistics
Matches: 300, Mismatches: 62, Indels: 34
0.76 0.16 0.09
Matches are distributed among these distances:
129 46 0.15
130 59 0.20
131 83 0.28
132 85 0.28
133 27 0.09
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (129 bp):
ACGAGTGAAATTCCGAAGGGATATTCGATTATTTTGAACAAACGAGAAATCGCAACCCAGCACGA
TAGGGCACGATTCCCGAATTGCCAAACATCGAACATTCCTTTCGTTTTAAAGGTTTTTAGAAAC
Found at i:86772584 original size:130 final size:131
Alignment explanation
Indices: 86772347--86772698 Score: 347
Period size: 130 Copynumber: 2.7 Consensus size: 131
86772337 CGAGAAATTG
* * **
86772347 CAACCCAACACGATAGGGTACTATTCCCCAAATTGCCAAACATCAAACATTTTTTTCGTTTTAAA
1 CAACCCAACACGATAGGGCACGATT-CCCAAATTGCCAAACATCAAACATTCCTTTCGTTTTAAA
* * * * * *
86772412 GGGTTTTTAGAAAACGTGAGTGAAATTCCGAAGGGATCTTTGATCGTTTAGAACAAATGAAAAAA
65 GGGTTTTTAGAAAACATGAGTGAAATACCAAAGGAATATTTGATCGTTTAGAACAAACG-AAAAA
*
86772477 GCG
129 GCA
* * * * *
86772480 TAACCCAGCACGATAGGGCACGATTCTCACATTGCCAAACATTAAACA-TCCTTT-GTTTTGAAA
1 CAACCCAACACGATAGGGCACGATTCCCAAATTGCCAAACATCAAACATTCCTTTCGTTTT-AAA
* * * *
86772543 -GGTTTTTA-ATAACCATGAGTGAAA-ACCTAAAGGAATATTTGATTGTTTTGAACAAACGAGAA
65 GGGTTTTTAGA-AAACATGAGTGAAATACC-AAAGGAATATTTGATCGTTTAGAACAAACGAAAA
*
86772605 ATCA
128 AGCA
* * * * * *
86772609 CAACCCAACACGATAGGGCATGATTCCCGAATTGTCAAACACCGAGCATTACC-TTCGTTTTAAA
1 CAACCCAACACGATAGGGCACGATTCCCAAATTGCCAAACATCAAACATT-CCTTTCGTTTTAAA
* *
86772673 GGATTTTTAGAAGACATGAGTGAAAT
65 GGGTTTTTAGAAAACATGAGTGAAAT
86772699 TTTGAAGGGA
Statistics
Matches: 175, Mismatches: 35, Indels: 19
0.76 0.15 0.08
Matches are distributed among these distances:
129 45 0.26
130 55 0.31
131 33 0.19
132 21 0.12
133 21 0.12
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.28
Consensus pattern (131 bp):
CAACCCAACACGATAGGGCACGATTCCCAAATTGCCAAACATCAAACATTCCTTTCGTTTTAAAG
GGTTTTTAGAAAACATGAGTGAAATACCAAAGGAATATTTGATCGTTTAGAACAAACGAAAAAGC
A
Found at i:86776429 original size:18 final size:20
Alignment explanation
Indices: 86776400--86776452 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
86776390 ACTTCGAACT
*
86776400 TTAATTATTTAATTATAAAAAA
1 TTAATTAATT-ATTA-AAAAAA
*
86776422 TTAATTAATAATTCAAAAAAA
1 TTAATTAATTATT-AAAAAAA
86776443 TTAATTAATT
1 TTAATTAATT
86776453 TCCAAGCCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 18 0.67
22 9 0.33
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
TTAATTAATTATTAAAAAAA
Found at i:86778013 original size:25 final size:25
Alignment explanation
Indices: 86777985--86778034 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
86777975 GTGAATGGAA
86777985 CAATACAACACATGTATTTTCTCAT
1 CAATACAACACATGTATTTTCTCAT
86778010 CAATACAACACATGTATTTTCTCAT
1 CAATACAACACATGTATTTTCTCAT
86778035 TATCACATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.24, G:0.04, T:0.36
Consensus pattern (25 bp):
CAATACAACACATGTATTTTCTCAT
Found at i:86787481 original size:50 final size:50
Alignment explanation
Indices: 86787369--86787601 Score: 308
Period size: 49 Copynumber: 4.7 Consensus size: 50
86787359 CTGGTATGCA
* *
86787369 TAGTAGCCTGCACTTAGTACTACACATGCGA-CTAATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCTGGTACACG
** *
86787418 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCTGGTACACG
* * * * *
86787468 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-TTATCTGGTACACG
* * * *
86787519 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCTGGTACACG
*
86787568 TAGTAGCCTGCACTTAGTACTACACGCGTGACCT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
86787602 CACAATAGGT
Statistics
Matches: 158, Mismatches: 23, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
49 69 0.44
50 51 0.32
51 38 0.24
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCTGGTACACG
Found at i:86787868 original size:27 final size:27
Alignment explanation
Indices: 86787828--86787881 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
86787818 AGGTACAACC
* *
86787828 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
86787855 CATGTAACAATAATTTGTCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
86787882 TCATATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:86792292 original size:15 final size:15
Alignment explanation
Indices: 86792272--86792304 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
86792262 GAAAATTCAC
86792272 AACACTATCCGCAAG
1 AACACTATCCGCAAG
86792287 AACACTATCCGCAAG
1 AACACTATCCGCAAG
86792302 AAC
1 AAC
86792305 TCTCCTTACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.42, C:0.33, G:0.12, T:0.12
Consensus pattern (15 bp):
AACACTATCCGCAAG
Found at i:86796503 original size:24 final size:25
Alignment explanation
Indices: 86796450--86796505 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
86796440 TTTTTAATAT
* * *
86796450 ATGGCTATTCGGAGCTTTCCGATTA
1 ATGGCTCTTCGGAGCTTACCCATTA
86796475 ATGGCTCTTCGGAGC-TACCCATTA
1 ATGGCTCTTCGGAGCTTACCCATTA
*
86796499 TTGGCTC
1 ATGGCTC
86796506 GCATGAGCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 13 0.48
25 14 0.52
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (25 bp):
ATGGCTCTTCGGAGCTTACCCATTA
Found at i:86802341 original size:25 final size:25
Alignment explanation
Indices: 86802313--86802386 Score: 71
Period size: 25 Copynumber: 3.0 Consensus size: 25
86802303 ATGCTCATAC
* *
86802313 GAGCATGTAAACGAGAAGCTCTTTT
1 GAGCATGTAAACGGGAAGCTCTTGT
* *
86802338 GAGCCATAT-AACGGGAAGCTCATGT
1 GAG-CATGTAAACGGGAAGCTCTTGT
*
86802363 GAGC-TGTATAATGGGAAGCTCTTG
1 GAGCATGTA-AACGGGAAGCTCTTG
86802387 CTATTTATTT
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
23 2 0.05
24 1 0.03
25 32 0.82
26 4 0.10
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (25 bp):
GAGCATGTAAACGGGAAGCTCTTGT
Found at i:86805901 original size:16 final size:17
Alignment explanation
Indices: 86805869--86805901 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
86805859 TACTGTGTTC
86805869 TTATTTTAATCCTTAAT
1 TTATTTTAATCCTTAAT
*
86805886 TTATTTTTAT-CTTAAT
1 TTATTTTAATCCTTAAT
86805902 CAAGACTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (17 bp):
TTATTTTAATCCTTAAT
Found at i:86808163 original size:13 final size:13
Alignment explanation
Indices: 86808127--86808163 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
86808117 TGATAGTTTG
*
86808127 GTATGAATTTATAT
1 GTATG-ATTTGTAT
86808141 GTATGATTTGTAT
1 GTATGATTTGTAT
86808154 GTATGATTTG
1 GTATGATTTG
86808164 CTAATTATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 17 0.77
14 5 0.23
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (13 bp):
GTATGATTTGTAT
Found at i:86808672 original size:20 final size:20
Alignment explanation
Indices: 86808647--86808704 Score: 82
Period size: 20 Copynumber: 2.9 Consensus size: 20
86808637 TGCCTATGGG
*
86808647 CAGGTCACACGGGCGTG-CTC
1 CAGGTCACACGGGCATGTC-C
86808667 CAGGTCACACGGGCATGTCC
1 CAGGTCACACGGGCATGTCC
*
86808687 CAGGCCACACGGGCATGT
1 CAGGTCACACGGGCATGT
86808705 GCCCCTATCT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
20 34 0.97
21 1 0.03
ACGTcount: A:0.19, C:0.34, G:0.33, T:0.14
Consensus pattern (20 bp):
CAGGTCACACGGGCATGTCC
Found at i:86809526 original size:112 final size:107
Alignment explanation
Indices: 86809261--86809579 Score: 381
Period size: 109 Copynumber: 2.9 Consensus size: 107
86809251 TAAAAAAAAC
* ** * * *
86809261 ATTTTTTTTTGTTCTGGCCTTCTAATAGTTGGCACCAGGGACTTTTTTCGTGTCCTAATGCAATT
1 ATTTTTTTTTGTTCTGGCCTTCTAATGGCCGGCACCAAGGACTTTTTTTGTGTCCCAATGCAATT
* *
86809326 TTTTTTA-TTGTTCTACACTGATGGTCAGCACCAGACCAGTAA
66 TTTTTTACTT-TTCTACACTGATGGTCGGCACTAGACCAGTAA
****** * * *
86809368 AAAAAAATTAGTTTTGGCCTTCTAATGGCCGGCACCAAGGATTTTTTTTGTGTCCCAATGCAATT
1 ATTTTTTTTTGTTCTGGCCTTCTAATGGCCGGCACCAAGGACTTTTTTTGTGTCCCAATGCAA--
*
86809433 TTTTTTTTACTTTTCTACATTGATGGTCGGCACTAGACCAGTAA
64 TTTTTTTTACTTTTCTACACTGATGGTCGGCACTAGACCAGTAA
*
86809477 ATTTTTTTTTTTGGTTCTGGCCTTCTAATGGCCGGCACCAAGGAC-TTTTTTGTGCCCCAATGCA
1 A--TTTTTTTTT-GTTCTGGCCTTCTAATGGCCGGCACCAAGGACTTTTTTTGTGTCCCAATGCA
* *
86809541 AATTATTTTACTTTTCTACACTGATGGTCGGCACTAGAC
63 ATTTTTTTTACTTTTCTACACTGATGGTCGGCACTAGAC
86809580 TAGCAATTAA
Statistics
Matches: 175, Mismatches: 31, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
107 48 0.27
109 74 0.42
110 2 0.01
111 21 0.12
112 30 0.17
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.40
Consensus pattern (107 bp):
ATTTTTTTTTGTTCTGGCCTTCTAATGGCCGGCACCAAGGACTTTTTTTGTGTCCCAATGCAATT
TTTTTTACTTTTCTACACTGATGGTCGGCACTAGACCAGTAA
Found at i:86809894 original size:27 final size:27
Alignment explanation
Indices: 86809857--86809919 Score: 92
Period size: 27 Copynumber: 2.3 Consensus size: 27
86809847 ATCATGAAAT
*
86809857 GAGTTTGTTTGTAGTGGATTGTATG-TGG
1 GAGTTT-TTTGTAGTGGATTGTA-GATGA
86809885 GAGTTTTTTGTAGTGGATTGTAGATGA
1 GAGTTTTTTGTAGTGGATTGTAGATGA
86809912 GAGTTTTT
1 GAGTTTTT
86809920 CATAGTGTAC
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 1 0.03
27 26 0.79
28 6 0.18
ACGTcount: A:0.17, C:0.00, G:0.35, T:0.48
Consensus pattern (27 bp):
GAGTTTTTTGTAGTGGATTGTAGATGA
Found at i:86809925 original size:27 final size:27
Alignment explanation
Indices: 86809868--86809926 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
86809858 AGTTTGTTTG
* **
86809868 TAGTGGATTGTATGTGGGAGTTTTTTG
1 TAGTGGATTGTATGTGAGAGTTTTTCA
86809895 TAGTGGATTGTA-GATGAGAGTTTTTCA
1 TAGTGGATTGTATG-TGAGAGTTTTTCA
86809922 TAGTG
1 TAGTG
86809927 TACAACCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 27 0.96
ACGTcount: A:0.20, C:0.02, G:0.34, T:0.44
Consensus pattern (27 bp):
TAGTGGATTGTATGTGAGAGTTTTTCA
Found at i:86810636 original size:20 final size:20
Alignment explanation
Indices: 86810599--86810637 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
86810589 GTGCGTATTA
*
86810599 TTTTTGTTTGAATCTTTTAT
1 TTTTTGTTTGAATATTTTAT
86810619 TTTTTGTATT-AATATTTTA
1 TTTTTGT-TTGAATATTTTA
86810638 GAATGTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.21, C:0.03, G:0.08, T:0.69
Consensus pattern (20 bp):
TTTTTGTTTGAATATTTTAT
Found at i:86813163 original size:21 final size:22
Alignment explanation
Indices: 86813117--86813164 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
86813107 GATTTCCATT
86813117 TCATTTAAATTATCTATCTTTC
1 TCATTTAAATTATCTATCTTTC
*
86813139 -CATTTAAATTTAT-T-TTTTTC
1 TCATTTAAA-TTATCTATCTTTC
86813159 TCATTT
1 TCATTT
86813165 CAAAGTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 5 0.22
21 14 0.61
22 4 0.17
ACGTcount: A:0.25, C:0.15, G:0.00, T:0.60
Consensus pattern (22 bp):
TCATTTAAATTATCTATCTTTC
Found at i:86813255 original size:5 final size:5
Alignment explanation
Indices: 86813225--86813347 Score: 52
Period size: 5 Copynumber: 22.6 Consensus size: 5
86813215 TTTTTAAAAA
* * * *
86813225 ATTTC ATTCC ATTTC ATAATC A--TC ATTTC ATTTT ATATTC ATGTAAC
1 ATTTC ATTTC ATTTC AT-TTC ATTTC ATTTC ATTTC AT-TTC AT-T-TC
* * * *
86813272 ATTTC ATTTA ATTTC ATATTC ATTAC AAATTAC ATTTC TTTTC ATATTC
1 ATTTC ATTTC ATTTC AT-TTC ATTTC --ATTTC ATTTC ATTTC AT-TTC
86813321 ATATTTC ATTTAAC ATTTC ATTTC ATT
1 --ATTTC ATTT--C ATTTC ATTTC ATT
86813348 AATTTTTTTT
Statistics
Matches: 91, Mismatches: 14, Indels: 26
0.69 0.11 0.20
Matches are distributed among these distances:
3 3 0.03
5 53 0.58
6 17 0.19
7 16 0.18
8 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.01, T:0.52
Consensus pattern (5 bp):
ATTTC
Found at i:86813279 original size:28 final size:28
Alignment explanation
Indices: 86813247--86813322 Score: 84
Period size: 28 Copynumber: 2.7 Consensus size: 28
86813237 TTCATAATCA
*
86813247 TCATTTCATTTTATATTCATGTA-ACATT
1 TCATTTCATTTTATATTCAT-TACAAATT
* *
86813275 TCATTTAATTTCATATTCATTACAAATT
1 TCATTTCATTTTATATTCATTACAAATT
*
86813303 ACATTTC-TTTTCATATTCAT
1 TCATTTCATTTT-ATATTCAT
86813323 ATTTCATTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
27 5 0.12
28 35 0.88
ACGTcount: A:0.30, C:0.16, G:0.01, T:0.53
Consensus pattern (28 bp):
TCATTTCATTTTATATTCATTACAAATT
Found at i:86813728 original size:16 final size:16
Alignment explanation
Indices: 86813709--86813753 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
86813699 TCACTTTTTT
86813709 TTTCATTTCATTTTCA
1 TTTCATTTCATTTTCA
*
86813725 TTTCATTTC-GTTTCA
1 TTTCATTTCATTTTCA
86813740 TTTCCATTCTCATT
1 TTT-CATT-TCATT
86813754 CCTATTTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 8 0.33
16 13 0.54
17 2 0.08
18 1 0.04
ACGTcount: A:0.16, C:0.22, G:0.02, T:0.60
Consensus pattern (16 bp):
TTTCATTTCATTTTCA
Found at i:86813738 original size:10 final size:10
Alignment explanation
Indices: 86813709--86813765 Score: 60
Period size: 11 Copynumber: 5.3 Consensus size: 10
86813699 TCACTTTTTT
86813709 TTTCATTTCA
1 TTTCATTTCA
86813719 TTTTCATTTCA
1 -TTTCATTTCA
*
86813730 TTTCGTTTCA
1 TTTCATTTCA
86813740 TTTCCATTCTCA
1 TTT-CATT-TCA
*
86813752 TTCCTATTTCA
1 TTTC-ATTTCA
86813763 TTT
1 TTT
86813766 AAATTATATT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
10 12 0.31
11 19 0.49
12 8 0.21
ACGTcount: A:0.16, C:0.23, G:0.02, T:0.60
Consensus pattern (10 bp):
TTTCATTTCA
Found at i:86813738 original size:21 final size:22
Alignment explanation
Indices: 86813709--86813765 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
86813699 TCACTTTTTT
*
86813709 TTTCATTTCATTTTCATT-TCA
1 TTTCATTTCATTTCCATTCTCA
*
86813730 TTTCGTTTCATTTCCATTCTCA
1 TTTCATTTCATTTCCATTCTCA
*
86813752 TTCCTATTTCATTT
1 TTTC-ATTTCATTT
86813766 AAATTATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 16 0.53
22 6 0.20
23 8 0.27
ACGTcount: A:0.16, C:0.23, G:0.02, T:0.60
Consensus pattern (22 bp):
TTTCATTTCATTTCCATTCTCA
Found at i:86813754 original size:6 final size:5
Alignment explanation
Indices: 86813709--86813765 Score: 60
Period size: 5 Copynumber: 10.6 Consensus size: 5
86813699 TCACTTTTTT
* *
86813709 TTTCA TTTCA TTTTCA TTTCA TTTCG TTTCA TTTCCA TTCTCA TTCCTA
1 TTTCA TTTCA -TTTCA TTTCA TTTCA TTTCA TTT-CA TT-TCA TTTC-A
86813758 TTTCA TTT
1 TTTCA TTT
86813766 AAATTATATT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
5 26 0.59
6 17 0.39
7 1 0.02
ACGTcount: A:0.16, C:0.23, G:0.02, T:0.60
Consensus pattern (5 bp):
TTTCA
Found at i:86813835 original size:49 final size:49
Alignment explanation
Indices: 86813782--86813911 Score: 210
Period size: 49 Copynumber: 2.7 Consensus size: 49
86813772 TATTTTTTTC
* *
86813782 AATTTAATTTTTTTTCTCATTTCATTTATATTATCTATTTTTCCATGCA
1 AATTTAATTTTTTTTCTCATTTCATTTAAATTATCTATCTTTCCATGCA
*
86813831 AATTTAATTTTTTTTCTCATTTCATTTAAATCATCTATCTTTCCATGCA
1 AATTTAATTTTTTTTCTCATTTCATTTAAATTATCTATCTTTCCATGCA
86813880 AA-TTAATTTTTTTTCTCAATTT-ATTTAAATTA
1 AATTTAATTTTTTTTCTC-ATTTCATTTAAATTA
86813912 AATTTTTTTC
Statistics
Matches: 76, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
48 24 0.32
49 52 0.68
ACGTcount: A:0.28, C:0.14, G:0.02, T:0.57
Consensus pattern (49 bp):
AATTTAATTTTTTTTCTCATTTCATTTAAATTATCTATCTTTCCATGCA
Found at i:86813909 original size:27 final size:28
Alignment explanation
Indices: 86813879--86814239 Score: 152
Period size: 27 Copynumber: 14.2 Consensus size: 28
86813869 CTTTCCATGC
86813879 AAATTAATTTTTTTTCTCAATTT-ATTT
1 AAATTAATTTTTTTTCTCAATTTCATTT
*
86813906 AAATTAAATTTTTTTCTC-ATTTCATTT
1 AAATTAATTTTTTTTCTCAATTTCATTT
* * *
86813933 AAATTTATCTTTCTT-TCAA--T--TTT
1 AAATTAATTTTTTTTCTCAATTTCATTT
* *
86813956 AATTTAA--TTTTTTCTC-ATTTCTTTT
1 AAATTAATTTTTTTTCTCAATTTCATTT
* * *
86813981 GAATTAATTTTTTTCCTC-ATTTCAATT
1 AAATTAATTTTTTTTCTCAATTTCATTT
* * *
86814008 AAATTTATCTTTCTT-TCAA--T--TTT
1 AAATTAATTTTTTTTCTCAATTTCATTT
*
86814031 -AATATAA--TTTTTTCTCAGTTT-ATTT
1 AAAT-TAATTTTTTTTCTCAATTTCATTT
*
86814056 AAATTAATTTTTTTCCTC-ATTTCATTT
1 AAATTAATTTTTTTTCTCAATTTCATTT
* * * * * *
86814083 CAATTTATCTTTCTT-TCAATTTTAATT
1 AAATTAATTTTTTTTCTCAATTTCATTT
*
86814110 ---TTAA--TTTTTTCTC-ATTTCTTTT
1 AAATTAATTTTTTTTCTCAATTTCATTT
**
86814132 AAATTAA-AATTTTTCTTC-ATTTCATTT
1 AAATTAATTTTTTTTC-TCAATTTCATTT
* * *
86814159 AAATTTATCTTTCTT-TCAA--T--TTT
1 AAATTAATTTTTTTTCTCAATTTCATTT
* * *
86814182 -AATTCAA-ATTTTGTCTC-ATTTCTTTT
1 AAATT-AATTTTTTTTCTCAATTTCATTT
*
86814208 AAATTAATTTTTTTCCTC-ATTTCATTT
1 AAATTAATTTTTTTTCTCAATTTCATTT
86814235 AAATT
1 AAATT
86814240 TTTCTTTCTT
Statistics
Matches: 248, Mismatches: 50, Indels: 72
0.67 0.14 0.19
Matches are distributed among these distances:
21 11 0.04
22 28 0.11
23 21 0.08
24 5 0.02
25 21 0.08
26 29 0.12
27 129 0.52
28 4 0.02
ACGTcount: A:0.26, C:0.12, G:0.01, T:0.60
Consensus pattern (28 bp):
AAATTAATTTTTTTTCTCAATTTCATTT
Found at i:86813918 original size:76 final size:74
Alignment explanation
Indices: 86813834--86814323 Score: 530
Period size: 75 Copynumber: 6.6 Consensus size: 74
86813824 CCATGCAAAT
* * * **
86813834 TTAATTTTTTTTCTCATTTCATTTAAA-TCATCTATCTTTCCATGCAAATTAATTTTTTTTCTCA
1 TTAATTTTTTTTCTCATTTCATTTAAATTTATCTTTCTTTCAATTTAAATTAA--TTTTTTCTC-
86813898 ATTT-ATTTAAA
63 ATTTCATTTAAA
* *
86813909 TTAAATTTTTTTCTCATTTCATTTAAATTTATCTTTCTTTCAATTTTAATTTAATTTTTTCTCAT
1 TTAATTTTTTTTCTCATTTCATTTAAATTTATCTTTCTTTCAA-TTTAAATTAATTTTTTCTCAT
* *
86813974 TTCTTTTGAA
65 TTCATTTAAA
* * *
86813984 TTAATTTTTTTCCTCATTTCAATTAAATTTATCTTTCTTTCAATTTTAATATAATTTTTTCTCAG
1 TTAATTTTTTTTCTCATTTCATTTAAATTTATCTTTCTTTCAATTTAAAT-TAATTTTTTCTCA-
86814049 TTT-ATTTAAA
64 TTTCATTTAAA
* * *
86814059 TTAATTTTTTTCCTCATTTCATTTCAATTTATCTTTCTTTCAATTTTAATTTTAATTTTTTCTCA
1 TTAATTTTTTTTCTCATTTCATTTAAATTTATCTTTCTTTCAA-TTTAA-ATTAATTTTTTCTCA
*
86814124 TTTCTTTTAAA
64 TTTCATTTAAA
** * *
86814135 TTAA-AATTTTTCTTCATTTCATTTAAATTTATCTTTCTTTCAATTTTAATTCAAATTTTGTCTC
1 TTAATTTTTTTTC-TCATTTCATTTAAATTTATCTTTCTTTCAATTTAAATT--AATTTTTTCTC
*
86814199 ATTTCTTTTAAA
63 ATTTCATTTAAA
* * * *
86814211 TTAATTTTTTTCCTCATTTCATTTAAATTTTTCTTTCTTTC-CTTGTAAATTTAAATTTTTCCTC
1 TTAATTTTTTTTCTCATTTCATTTAAATTTATCTTTCTTTCAATT-TAAA-TT-AATTTTTTCTC
* * *
86814275 AATTCACTTATA
63 ATTTCATTTAAA
*
86814287 TT-A-TTTTTTT-TCATTTCATTTAAA-TTATCTATCTTTC
1 TTAATTTTTTTTCTCATTTCATTTAAATTTATCTTTCTTTC
86814324 CATGTAATTT
Statistics
Matches: 358, Mismatches: 43, Indels: 31
0.83 0.10 0.07
Matches are distributed among these distances:
72 11 0.03
73 14 0.04
74 17 0.05
75 154 0.43
76 147 0.41
77 15 0.04
ACGTcount: A:0.25, C:0.14, G:0.01, T:0.60
Consensus pattern (74 bp):
TTAATTTTTTTTCTCATTTCATTTAAATTTATCTTTCTTTCAATTTAAATTAATTTTTTCTCATT
TCATTTAAA
Found at i:86813967 original size:75 final size:74
Alignment explanation
Indices: 86813834--86814323 Score: 573
Period size: 76 Copynumber: 6.5 Consensus size: 74
86813824 CCATGCAAAT
* * * ** *
86813834 TTAATTTTTTTTCTCATTTCATTTAAA-TCATCTATCTTTCCA-TGCAAATTAATTTTTTTTCTC
1 TTAA-TTTTTTTCTCATTTCATTTAAATTTATCTTTCTTTCAATTTTAATTTAA--TTTTTTCTC
86813897 AATTT-ATTTAAA
63 -ATTTCATTTAAA
86813909 TTAAATTTTTTTCTCATTTCATTTAAATTTATCTTTCTTTCAATTTTAATTTAATTTTTTCTCAT
1 TT-AATTTTTTTCTCATTTCATTTAAATTTATCTTTCTTTCAATTTTAATTTAATTTTTTCTCAT
* *
86813974 TTCTTTTGAA
65 TTCATTTAAA
* *
86813984 TTAATTTTTTTCCTCATTTCAATTAAATTTATCTTTCTTTCAATTTTAATATAATTTTTTCTCAG
1 TTAATTTTTTT-CTCATTTCATTTAAATTTATCTTTCTTTCAATTTTAATTTAATTTTTTCTCA-
86814049 TTT-ATTTAAA
64 TTTCATTTAAA
*
86814059 TTAATTTTTTTCCTCATTTCATTTCAATTTATCTTTCTTTCAATTTTAATTTTAATTTTTTCTCA
1 TTAATTTTTTT-CTCATTTCATTTAAATTTATCTTTCTTTCAATTTTAA-TTTAATTTTTTCTCA
*
86814124 TTTCTTTTAAA
64 TTTCATTTAAA
** * *
86814135 TTAAAATTTTTCTTCATTTCATTTAAATTTATCTTTCTTTCAATTTTAATTCAAATTTTGTCTCA
1 TTAATTTTTTTC-TCATTTCATTTAAATTTATCTTTCTTTCAATTTTAATT-TAATTTTTTCTCA
*
86814200 TTTCTTTTAAA
64 TTTCATTTAAA
* * * *
86814211 TTAATTTTTTTCCTCATTTCATTTAAATTTTTCTTTCTTTC-CTTGTAAATTTAAATTTTTCCTC
1 TTAATTTTTTT-CTCATTTCATTTAAATTTATCTTTCTTTCAATT-TTAATTT-AATTTTTTCTC
* * *
86814275 AATTCACTTATA
63 ATTTCATTTAAA
*
86814287 TT-ATTTTTTT-TCATTTCATTTAAA-TTATCTATCTTTC
1 TTAATTTTTTTCTCATTTCATTTAAATTTATCTTTCTTTC
86814324 CATGTAATTT
Statistics
Matches: 367, Mismatches: 35, Indels: 29
0.85 0.08 0.07
Matches are distributed among these distances:
72 11 0.03
73 14 0.04
74 13 0.04
75 158 0.43
76 163 0.44
77 8 0.02
ACGTcount: A:0.25, C:0.14, G:0.01, T:0.60
Consensus pattern (74 bp):
TTAATTTTTTTCTCATTTCATTTAAATTTATCTTTCTTTCAATTTTAATTTAATTTTTTCTCATT
TCATTTAAA
Found at i:86814175 original size:21 final size:22
Alignment explanation
Indices: 86814133--86814185 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
86814123 ATTTCTTTTA
* *
86814133 AATTAAAATTTTTCTTCATTTC
1 AATTTAAATTTATCTTCATTTC
86814155 -ATTTAAATTTATCTTTC-TTTC
1 AATTTAAATTTATC-TTCATTTC
*
86814176 AATTTTAATT
1 AATTTAAATT
86814186 CAAATTTTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 15 0.58
22 11 0.42
ACGTcount: A:0.30, C:0.11, G:0.00, T:0.58
Consensus pattern (22 bp):
AATTTAAATTTATCTTCATTTC
Found at i:86814180 original size:22 final size:23
Alignment explanation
Indices: 86814124--86814185 Score: 58
Period size: 22 Copynumber: 2.8 Consensus size: 23
86814114 TTTTTTCTCA
* * * *
86814124 TTTCTTTTAAATTAAAATTTTTC
1 TTTCATTTCAATTTAAATTTATC
86814147 -TTCATTTC-ATTTAAATTTATC
1 TTTCATTTCAATTTAAATTTATC
*
86814168 TTTC-TTTCAATTTTAATT
1 TTTCATTTCAATTTAAATT
86814186 CAAATTTTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
21 15 0.47
22 17 0.53
ACGTcount: A:0.27, C:0.11, G:0.00, T:0.61
Consensus pattern (23 bp):
TTTCATTTCAATTTAAATTTATC
Found at i:86814260 original size:49 final size:50
Alignment explanation
Indices: 86813903--86814313 Score: 197
Period size: 49 Copynumber: 8.2 Consensus size: 50
86813893 TCTCAATTTA
*
86813903 TTTAAATTAAATTTTTTT-CTCATTTCATTTAAATTTATCTTTC-TTTCAAT
1 TTTAAATT-AATTTTTTTCCTCATTTCATTTAAATTTTTCTTTCATTTC-AT
* *
86813953 TTTAATTTAA-TTTTTT-CTCATTTCTTTTGAATTAATTTTT-TTCCTCATTTCA-
1 TTTAAATTAATTTTTTTCCTCATTTCATTT--A--AATTTTTCTT--TCATTTCAT
* * * * * *
86814005 ATTAAATTTATCTTTCTTT-C-AATTTTA-ATATAATTTTT-TCTCAGTTT-A-
1 TTTAAATTAAT-TTT-TTTCCTCATTTCATTTA-AATTTTTCTTTCA-TTTCAT
* *
86814053 TTTAAATTAATTTTTTTCCTCATTTCATTTCAATTTATCTTTC-TTTCAAT
1 TTTAAATTAATTTTTTTCCTCATTTCATTTAAATTTTTCTTTCATTTC-AT
* * *
86814103 TTTAATTTTAA-TTTTTT-CTCATTTCTTTTAAATTAAAATTTTTCTTCATTTCA-
1 TTTAA-ATTAATTTTTTTCCTCATTTCATTTAAATT----TTTCT-TTCATTTCAT
* * * *
86814156 TTTAAATTTATCTTTCTTT-C-AATTTTAATTCAAATTTTGTC--TCATTTC-T
1 TTTAAATTAAT-TTT-TTTCCTCA-TTTCATTTAAATTTT-TCTTTCATTTCAT
*
86814205 TTTAAATTAATTTTTTTCCTCATTTCATTTAAATTTTTCTTTC-TTTCCT
1 TTTAAATTAATTTTTTTCCTCATTTCATTTAAATTTTTCTTTCATTTCAT
* * * *
86814254 TGTAAATTTAA-ATTTTTCCTCAATTCACTTATATTATTTTT-TTTCATTTCA-
1 TTTAAA-TTAATTTTTTTCCTCATTTCA-TT-TA-AATTTTTCTTTCATTTCAT
86814305 TTTAAATTA
1 TTTAAATTA
86814314 TCTATCTTTC
Statistics
Matches: 279, Mismatches: 41, Indels: 82
0.69 0.10 0.20
Matches are distributed among these distances:
46 3 0.01
47 12 0.04
48 62 0.22
49 65 0.23
50 37 0.13
51 20 0.07
52 27 0.10
53 12 0.04
54 19 0.07
55 22 0.08
ACGTcount: A:0.26, C:0.13, G:0.01, T:0.60
Consensus pattern (50 bp):
TTTAAATTAATTTTTTTCCTCATTTCATTTAAATTTTTCTTTCATTTCAT
Found at i:86817464 original size:109 final size:108
Alignment explanation
Indices: 86817333--86817933 Score: 672
Period size: 109 Copynumber: 5.4 Consensus size: 108
86817323 AGAATGAAAA
* *
86817333 ATTGGAACACGAAAAAATTCCCTAGTGCCGGCCATTAGAAGGCCAGAACCAAAATTTTTTTTTAC
1 ATTGGGACACGAAAAAAGTCCCTAGTGCCGGCCATTAGAAGGCCAGAACC-AAATTTTTTTTTAC
* * **
86817398 TGGTCTGGTGCCGGCAATCAGTGTAGAAAAGTAAAAAAATTTAA
65 TGGTCTGGTGCTGGCCATCAGTGTAGAAAAGTAAAAAAATTTGC
* * *
86817442 ATTGGGACACGAAAAAAGTCCCTGGTGCCGGCCATTAGAAGGCCAAAACCAATTTTTTTTTGAAA
1 ATTGGGACACGAAAAAAGTCCCTAGTGCCGGCCATTAGAAGGCCAGAACCAA-ATTTTTTT----
* *
86817507 AATTACTGGTCTAGTGCTGGCCATCAGTGTAGAAAAGTAAAAAAAAATTGC
61 --TTACTGGTCTGGTGCTGGCCATCAGTGTAGAAAAGT-AAAAAAATTTGC
* * * * *
86817558 ATTGGGAGACGAAAAAAGTCCCTAGTGCCGACCATTAAAAGGCCAAGAACGAATTTTTTTTAAAA
1 ATTGGGACACGAAAAAAGTCCCTAGTGCCGGCCATTAGAAGGCC-AGAACCAAATTTTTTT----
* * *
86817623 TTATTGGTTTGGTGCTGACCATCAGTGTAGAAAAGTAAAAAAAAATTTGC
61 TTACTGGTCTGGTGCTGGCCATCAGTGTAGAAAAGT--AAAAAAATTTGC
* * * * *
86817673 ATTGGGACACGAAAAAAGTCCTTGGTGCCGGCCATTAAAAGGCTAGAACCAAA-TTTTTTTTATT
1 ATTGGGACACGAAAAAAGTCCCTAGTGCCGGCCATTAGAAGGCCAGAACCAAATTTTTTTTTACT
* *
86817737 GGTTTGGTG-TCGGCCATTAGTGTAGAAAAGTAAAAATAATTTGC
66 GGTCTGGTGCT-GGCCATCAGTGTAGAAAAGTAAAAA-AATTTGC
* * * * *
86817781 ATTGGGAAACAAAAAAAGTCCCTGGTGCCAGCCATTAGAAGGCTAGAA-CAAA-TTTTTTTTA-T
1 ATTGGGACACGAAAAAAGTCCCTAGTGCCGGCCATTAGAAGGCCAGAACCAAATTTTTTTTTACT
* * * *
86817843 GGTCTGGTGTTGGCCTTTAGTGTAGAAAAGTAAAAAATTTTGC
66 GGTCTGGTGCTGGCCATCAGTGTAGAAAAGTAAAAAAATTTGC
* *
86817886 ATTGGGACACGAAAAAAGTCCCTAGTGCCGACCATTAGAAGGCTAGAA
1 ATTGGGACACGAAAAAAGTCCCTAGTGCCGGCCATTAGAAGGCCAGAA
86817934 TAAAAAAAAT
Statistics
Matches: 435, Mismatches: 44, Indels: 30
0.85 0.09 0.06
Matches are distributed among these distances:
105 49 0.11
106 33 0.08
107 19 0.04
108 53 0.12
109 85 0.20
113 6 0.01
114 43 0.10
115 84 0.19
116 57 0.13
117 6 0.01
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.27
Consensus pattern (108 bp):
ATTGGGACACGAAAAAAGTCCCTAGTGCCGGCCATTAGAAGGCCAGAACCAAATTTTTTTTTACT
GGTCTGGTGCTGGCCATCAGTGTAGAAAAGTAAAAAAATTTGC
Found at i:86817573 original size:115 final size:109
Alignment explanation
Indices: 86817333--86817933 Score: 662
Period size: 115 Copynumber: 5.4 Consensus size: 109
86817323 AGAATGAAAA
* * *
86817333 ATTGGAACACGAAAAAATTCCCTAGTGCCGGCCATTAGAAGGCCAGAACCAAAATTTTTTT-TTA
1 ATTGGGACACGAAAAAAGTCCCTAGTGCCGGCCATTAGAAGGCCAGAACC-AATTTTTTTTATTA
* * **
86817397 CTGGTCTGGTGCCGGCAATCAGTGTAGAAAAGT-AAAAAAATTTAA
65 -TGGTCTGGTGCTGGCCATCAGTGTAGAAAAGTAAAAAAAATTTGC
* *
86817442 ATTGGGACACGAAAAAAGTCCCTGGTGCCGGCCATTAGAAGGCCAAAACCAATTTTTTTTTGAAA
1 ATTGGGACACGAAAAAAGTCCCTAGTGCCGGCCATTAGAAGGCCAGAACCAA-TTTTTTTT----
* *
86817507 AATTACTGGTCTAGTGCTGGCCATCAGTGTAGAAAAGTAAAAAAAAATTGC
61 -ATTA-TGGTCTGGTGCTGGCCATCAGTGTAGAAAAGTAAAAAAAATTTGC
* * * *
86817558 ATTGGGAGACGAAAAAAGTCCCTAGTGCCGACCATTAAAAGGCCAAGAACGAATTTTTTTTAAAA
1 ATTGGGACACGAAAAAAGTCCCTAGTGCCGGCCATTAGAAGGCC-AGAACCAATTTTTTTT---A
* *
86817623 TTATTGGTTTGGTGCTGACCATCAGTGTAGAAAAGTAAAAAAAAATTTGC
62 TTA-TGGTCTGGTGCTGGCCATCAGTGTAGAAAAGT-AAAAAAAATTTGC
* * * *
86817673 ATTGGGACACGAAAAAAGTCCTTGGTGCCGGCCATTAAAAGGCTAGAACCAAATTTTTTTTA-T-
1 ATTGGGACACGAAAAAAGTCCCTAGTGCCGGCCATTAGAAGGCCAGAACC-AATTTTTTTTATTA
* * *
86817736 TGGTTTGGTG-TCGGCCATTAGTGTAGAAAAGTAAAAATAATTTGC
65 TGGTCTGGTGCT-GGCCATCAGTGTAGAAAAGTAAAAAAAATTTGC
* * * * * *
86817781 ATTGGGAAACAAAAAAAGTCCCTGGTGCCAGCCATTAGAAGGCTAGAA-CAA-ATTTTTT-TTAT
1 ATTGGGACACGAAAAAAGTCCCTAGTGCCGGCCATTAGAAGGCCAGAACCAATTTTTTTTATTAT
* * * *
86817843 GGTCTGGTGTTGGCCTTTAGTGTAGAAAAGT-AAAAAATTTTGC
66 GGTCTGGTGCTGGCCATCAGTGTAGAAAAGTAAAAAAAATTTGC
* *
86817886 ATTGGGACACGAAAAAAGTCCCTAGTGCCGACCATTAGAAGGCTAGAA
1 ATTGGGACACGAAAAAAGTCCCTAGTGCCGGCCATTAGAAGGCCAGAA
86817934 TAAAAAAAAT
Statistics
Matches: 431, Mismatches: 46, Indels: 34
0.84 0.09 0.07
Matches are distributed among these distances:
105 60 0.14
106 30 0.07
107 2 0.00
108 58 0.13
109 81 0.19
111 1 0.00
112 1 0.00
114 41 0.10
115 94 0.22
116 57 0.13
117 6 0.01
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.27
Consensus pattern (109 bp):
ATTGGGACACGAAAAAAGTCCCTAGTGCCGGCCATTAGAAGGCCAGAACCAATTTTTTTTATTAT
GGTCTGGTGCTGGCCATCAGTGTAGAAAAGTAAAAAAAATTTGC
Found at i:86818293 original size:25 final size:25
Alignment explanation
Indices: 86818259--86818309 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
86818249 TTTTTTAACC
86818259 TAAGTAATTTTTGTAAATATAAATT
1 TAAGTAATTTTTGTAAATATAAATT
86818284 TAAGTAATTTTTGTAAATATAAATT
1 TAAGTAATTTTTGTAAATATAAATT
86818309 T
1 T
86818310 TTATAGGTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (25 bp):
TAAGTAATTTTTGTAAATATAAATT
Found at i:86826474 original size:23 final size:24
Alignment explanation
Indices: 86826433--86826486 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
86826423 AAAAAAAAAT
*
86826433 CTATTGTTTTGTTATTGTTTTGCTG
1 CTATT-TTTTGTTACTGTTTTGCTG
*
86826458 CTATTTTTT-TTACTGTTTTGTTG
1 CTATTTTTTGTTACTGTTTTGCTG
*
86826481 TTATTT
1 CTATTT
86826487 CACAATTATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 17 0.65
24 4 0.15
25 5 0.19
ACGTcount: A:0.09, C:0.07, G:0.15, T:0.69
Consensus pattern (24 bp):
CTATTTTTTGTTACTGTTTTGCTG
Found at i:86827314 original size:23 final size:22
Alignment explanation
Indices: 86827287--86827329 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
86827277 AATTCTTATG
86827287 AATTTTAAACTTTAGATTTTTTT
1 AATTTTAAA-TTTAGATTTTTTT
* *
86827310 AATTTTTAATTTATATTTTT
1 AATTTTAAATTTAGATTTTT
86827330 AAAAATTAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (22 bp):
AATTTTAAATTTAGATTTTTTT
Found at i:86835510 original size:19 final size:21
Alignment explanation
Indices: 86835476--86835516 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
86835466 ATTGGATGGA
86835476 TCAGCTCTTACGAGCTTCTGT
1 TCAGCTCTTACGAGCTTCTGT
*
86835497 TCAGCT-TT-CGAGCTTTTGT
1 TCAGCTCTTACGAGCTTCTGT
86835516 T
1 T
86835517 GGCATATTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 11 0.58
20 2 0.11
21 6 0.32
ACGTcount: A:0.12, C:0.24, G:0.20, T:0.44
Consensus pattern (21 bp):
TCAGCTCTTACGAGCTTCTGT
Found at i:86845881 original size:31 final size:31
Alignment explanation
Indices: 86845841--86845910 Score: 131
Period size: 31 Copynumber: 2.3 Consensus size: 31
86845831 GATGATGCTT
*
86845841 TAATAAGTAAGACAAAAAATGATTTAGACTC
1 TAATGAGTAAGACAAAAAATGATTTAGACTC
86845872 TAATGAGTAAGACAAAAAATGATTTAGACTC
1 TAATGAGTAAGACAAAAAATGATTTAGACTC
86845903 TAATGAGT
1 TAATGAGT
86845911 CTTCACTGAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.49, C:0.09, G:0.16, T:0.27
Consensus pattern (31 bp):
TAATGAGTAAGACAAAAAATGATTTAGACTC
Found at i:86845900 original size:16 final size:16
Alignment explanation
Indices: 86845850--86845900 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
86845840 TTAATAAGTA
86845850 AGACAAAAAATGATTT
1 AGACAAAAAATGATTT
*** * *
86845866 AGAC-TCTAATGAGTA
1 AGACAAAAAATGATTT
86845881 AGACAAAAAATGATTT
1 AGACAAAAAATGATTT
86845897 AGAC
1 AGAC
86845901 TCTAATGAGT
Statistics
Matches: 24, Mismatches: 10, Indels: 2
0.67 0.28 0.06
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.51, C:0.10, G:0.16, T:0.24
Consensus pattern (16 bp):
AGACAAAAAATGATTT
Found at i:86848717 original size:13 final size:13
Alignment explanation
Indices: 86848699--86848726 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
86848689 CAAGTCAAAG
86848699 AGTTACACGGGCA
1 AGTTACACGGGCA
86848712 AGTTACACGGGCA
1 AGTTACACGGGCA
86848725 AG
1 AG
86848727 GCACACGACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.21, G:0.32, T:0.14
Consensus pattern (13 bp):
AGTTACACGGGCA
Found at i:86849506 original size:5 final size:5
Alignment explanation
Indices: 86849496--86849567 Score: 51
Period size: 5 Copynumber: 13.8 Consensus size: 5
86849486 CCCTTTCCAT
* *
86849496 TTTTA TTTTA TTTTA TTTTA TCCTTA TTATTA TTTT- TCTTTC TTTCT-
1 TTTTA TTTTA TTTTA TTTTA T-TTTA TT-TTA TTTTA T-TTTA TTT-TA
86849543 TTATT- TTTTA TTTTA TTATTA TTTT
1 TT-TTA TTTTA TTTTA TT-TTA TTTT
86849568 TTTATTGTAA
Statistics
Matches: 57, Mismatches: 2, Indels: 16
0.76 0.03 0.21
Matches are distributed among these distances:
4 3 0.05
5 37 0.65
6 17 0.30
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:86852115 original size:45 final size:44
Alignment explanation
Indices: 86852038--86852155 Score: 164
Period size: 45 Copynumber: 2.6 Consensus size: 44
86852028 CCGGCATTTT
* * **
86852038 GCCTGCTAGGCTCGAGGCCCGAAAAATATCTCACTGGCATTATA
1 GCCTGCTAGGCTCAAGGCCCGAATAATATCTCACCAGCATTATA
* *
86852082 GCTTGCTAGGCTCAAAGGCCCGAATAATGTCTCACCAGCATTATA
1 GCCTGCTAGGCTC-AAGGCCCGAATAATATCTCACCAGCATTATA
86852127 GCCTGCTAGGCTCCAAGGCCCGAATAATA
1 GCCTGCTAGGCT-CAAGGCCCGAATAATA
86852156 CTGTACAACA
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
44 12 0.19
45 51 0.80
46 1 0.02
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (44 bp):
GCCTGCTAGGCTCAAGGCCCGAATAATATCTCACCAGCATTATA
Found at i:86858709 original size:44 final size:45
Alignment explanation
Indices: 86858655--86858740 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
86858645 CCGAATTTAT
* *
86858655 TCACCGGCATT-TTGCCTGCTAGGCTCAAAGGCCCGAATAATGTC
1 TCACCAGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATGTC
*
86858699 TCACCAGCATTATAGCCTGCTAGGCTCCAAGGCCCGAATAAT
1 TCACCAGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAAT
86858741 ACTGTACAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
44 10 0.26
45 28 0.74
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (45 bp):
TCACCAGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATGTC
Found at i:86868192 original size:47 final size:47
Alignment explanation
Indices: 86868121--86868212 Score: 175
Period size: 47 Copynumber: 2.0 Consensus size: 47
86868111 AACAAAAGAC
86868121 GTATGGCATCATCAGAAACACCATTGATTTTAAATGTATCGCATAAT
1 GTATGGCATCATCAGAAACACCATTGATTTTAAATGTATCGCATAAT
*
86868168 GTATGGCATCATCAGAAACGCCATTGATTTTAAATGTATCGCATA
1 GTATGGCATCATCAGAAACACCATTGATTTTAAATGTATCGCATA
86868213 GTTCCAAGAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (47 bp):
GTATGGCATCATCAGAAACACCATTGATTTTAAATGTATCGCATAAT
Found at i:86886973 original size:44 final size:45
Alignment explanation
Indices: 86886919--86887004 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
86886909 CCGAATTTAT
* *
86886919 TCACCGGCATT-TTGCCTGCTAGGCTCAAAGGCCCGAATAATGTC
1 TCACCAGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATGTC
*
86886963 TCACCAGCATTATAGCCTGCTAGGCTCCAAGGCCCGAATAAT
1 TCACCAGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAAT
86887005 ACTGTACAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
44 10 0.26
45 28 0.74
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (45 bp):
TCACCAGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATGTC
Found at i:86896465 original size:47 final size:47
Alignment explanation
Indices: 86896394--86896485 Score: 175
Period size: 47 Copynumber: 2.0 Consensus size: 47
86896384 AACAAAAGAC
86896394 GTATGGCATCATCAGAAACACCATTGATTTTAAATGTATCGCATAAT
1 GTATGGCATCATCAGAAACACCATTGATTTTAAATGTATCGCATAAT
*
86896441 GTATGGCATCATCAGAAACGCCATTGATTTTAAATGTATCGCATA
1 GTATGGCATCATCAGAAACACCATTGATTTTAAATGTATCGCATA
86896486 GTTCCAAGAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (47 bp):
GTATGGCATCATCAGAAACACCATTGATTTTAAATGTATCGCATAAT
Found at i:86905338 original size:41 final size:41
Alignment explanation
Indices: 86905266--86905450 Score: 123
Period size: 41 Copynumber: 4.5 Consensus size: 41
86905256 AATACTCGAT
* * *
86905266 ATCTCGTACACTAAGTGCCAAAACATATCGAAGGTAT-TATA
1 ATCTCGCACACTAAGTGCCAAAACATATCGAAGCTATCT-CA
***
86905307 ATCTCGCACACTAAGTGCC-TTTCATAGTCGAAGCTATCTCA
1 ATCTCGCACACTAAGTGCCAAAACATA-TCGAAGCTATCTCA
* * *
86905348 ATCTCGCACACTAAGTGCC-ATATATATCCGAAGTTAT-TCCA
1 ATCTCGCACACTAAGTGCCAAAACATAT-CGAAGCTATCT-CA
* * * * *
86905389 ATAT-GCACACTAAGTGCTATATATATAGCTGAAGCTATCTCGA
1 ATCTCGCACACTAAGTGCCA-AAACATATC-GAAGCTATCTC-A
*
86905432 A--ACGCACACTAAGTGCCAA
1 ATCTCGCACACTAAGTGCCAA
86905451 TCATAGTTGA
Statistics
Matches: 118, Mismatches: 16, Indels: 20
0.77 0.10 0.13
Matches are distributed among these distances:
40 19 0.16
41 66 0.56
42 30 0.25
43 3 0.03
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (41 bp):
ATCTCGCACACTAAGTGCCAAAACATATCGAAGCTATCTCA
Found at i:86905439 original size:42 final size:40
Alignment explanation
Indices: 86905311--86905449 Score: 124
Period size: 41 Copynumber: 3.4 Consensus size: 40
86905301 ATTATAATCT
* *
86905311 CGCACACTAAGTGCC-TTTCATAGT-CGAAGCTA-TCTCAATCT
1 CGCACACTAAGTGCCATAT-ATA-TCCGAAGCTATTC-CAAT-A
*
86905352 CGCACACTAAGTGCCATATATATCCGAAGTTATTCCAATA
1 CGCACACTAAGTGCCATATATATCCGAAGCTATTCCAATA
* * * *
86905392 TGCACACTAAGTGCTATATATATAGCTGAAGCTATCTCGAA-A
1 CGCACACTAAGTGCCATATATAT--CCGAAGCTAT-TCCAATA
86905434 CGCACACTAAGTGCCA
1 CGCACACTAAGTGCCA
86905450 ATCATAGTTG
Statistics
Matches: 82, Mismatches: 10, Indels: 11
0.80 0.10 0.11
Matches are distributed among these distances:
40 22 0.27
41 29 0.35
42 27 0.33
43 4 0.05
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (40 bp):
CGCACACTAAGTGCCATATATATCCGAAGCTATTCCAATA
Found at i:86907839 original size:68 final size:68
Alignment explanation
Indices: 86907730--86907865 Score: 272
Period size: 68 Copynumber: 2.0 Consensus size: 68
86907720 AAATTTAATG
86907730 ACATTCAAGATTTTATAACTCAATTACTATTCACTAATAGTTAGGTTACATGAAAATGTAACATC
1 ACATTCAAGATTTTATAACTCAATTACTATTCACTAATAGTTAGGTTACATGAAAATGTAACATC
86907795 TAT
66 TAT
86907798 ACATTCAAGATTTTATAACTCAATTACTATTCACTAATAGTTAGGTTACATGAAAATGTAACATC
1 ACATTCAAGATTTTATAACTCAATTACTATTCACTAATAGTTAGGTTACATGAAAATGTAACATC
86907863 TAT
66 TAT
86907866 CGGTTGCGGT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.37
Consensus pattern (68 bp):
ACATTCAAGATTTTATAACTCAATTACTATTCACTAATAGTTAGGTTACATGAAAATGTAACATC
TAT
Found at i:86908509 original size:35 final size:35
Alignment explanation
Indices: 86908470--86908540 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
86908460 AAAATGAATG
86908470 TTGTAAAAATCTTAGTTTTGAGGTTTTTGAATCTT
1 TTGTAAAAATCTTAGTTTTGAGGTTTTTGAATCTT
* *
86908505 TTGTAAAAATCTTGGTTTTGAGGTTTTTGTATCTT
1 TTGTAAAAATCTTAGTTTTGAGGTTTTTGAATCTT
86908540 T
1 T
86908541 CATAGAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.23, C:0.06, G:0.18, T:0.54
Consensus pattern (35 bp):
TTGTAAAAATCTTAGTTTTGAGGTTTTTGAATCTT
Found at i:86914777 original size:30 final size:30
Alignment explanation
Indices: 86914742--86914877 Score: 166
Period size: 30 Copynumber: 4.5 Consensus size: 30
86914732 ACACCCATGA
*
86914742 GCTGACCAACACCAGGATTGCTGATGTGTT
1 GCTGACCAACACCAGGATAGCTGATGTGTT
* * *
86914772 GCTGACCAACTCCGGGATAGCTAAT-TAGTT
1 GCTGACCAACACCAGGATAGCTGATGT-GTT
* *
86914802 GCTGACCAACACCAGGATTGTTGATGTGTT
1 GCTGACCAACACCAGGATAGCTGATGTGTT
* * *
86914832 GCTGACCAACTCCGGGATAGCTGATGAGTT
1 GCTGACCAACACCAGGATAGCTGATGTGTT
*
86914862 GCTGACCAACCCCAGG
1 GCTGACCAACACCAGG
86914878 GTTATTGAGG
Statistics
Matches: 88, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
29 1 0.01
30 86 0.98
31 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.24
Consensus pattern (30 bp):
GCTGACCAACACCAGGATAGCTGATGTGTT
Found at i:86914813 original size:60 final size:60
Alignment explanation
Indices: 86914742--86914877 Score: 236
Period size: 60 Copynumber: 2.3 Consensus size: 60
86914732 ACACCCATGA
*
86914742 GCTGACCAACACCAGGATTGCTGATGTGTTGCTGACCAACTCCGGGATAGCTAATTAGTT
1 GCTGACCAACACCAGGATTGCTGATGTGTTGCTGACCAACTCCGGGATAGCTAATGAGTT
* *
86914802 GCTGACCAACACCAGGATTGTTGATGTGTTGCTGACCAACTCCGGGATAGCTGATGAGTT
1 GCTGACCAACACCAGGATTGCTGATGTGTTGCTGACCAACTCCGGGATAGCTAATGAGTT
*
86914862 GCTGACCAACCCCAGG
1 GCTGACCAACACCAGG
86914878 GTTATTGAGG
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 72 1.00
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.24
Consensus pattern (60 bp):
GCTGACCAACACCAGGATTGCTGATGTGTTGCTGACCAACTCCGGGATAGCTAATGAGTT
Found at i:86919449 original size:29 final size:31
Alignment explanation
Indices: 86919400--86919458 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 31
86919390 AATGTGTATC
* *
86919400 TATTTATTTGATGGATGAAAT-T-GAGATAG
1 TATTTATTTAATAGATGAAATGTGGAGATAG
86919429 TATTTATTCTAATAGAT-AAATGTGGAGATA
1 TATTTATT-TAATAGATGAAATGTGGAGATA
86919459 TTAAATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
29 12 0.48
30 7 0.28
31 6 0.24
ACGTcount: A:0.37, C:0.02, G:0.20, T:0.41
Consensus pattern (31 bp):
TATTTATTTAATAGATGAAATGTGGAGATAG
Found at i:86931174 original size:27 final size:26
Alignment explanation
Indices: 86931126--86931177 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
86931116 GCGAGGATGC
*
86931126 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
86931152 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
86931178 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:86938639 original size:27 final size:26
Alignment explanation
Indices: 86938591--86938642 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
86938581 GCGAGGCTGC
*
86938591 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
86938617 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
86938643 TTACAGTGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:86942220 original size:14 final size:14
Alignment explanation
Indices: 86942203--86942233 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
86942193 CTGTTATTTA
*
86942203 TTATTTTTATGTTT
1 TTATTTTTATCTTT
86942217 TTATTTTTATCTTT
1 TTATTTTTATCTTT
86942231 TTA
1 TTA
86942234 AAACTACTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.77
Consensus pattern (14 bp):
TTATTTTTATCTTT
Found at i:86944232 original size:13 final size:13
Alignment explanation
Indices: 86944214--86944245 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
86944204 CCCGTGTCCA
86944214 TTCACACAGGTAG
1 TTCACACAGGTAG
86944227 TTCACACAGGTAG
1 TTCACACAGGTAG
86944240 TTCACA
1 TTCACA
86944246 TGTTGGATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (13 bp):
TTCACACAGGTAG
Found at i:86948363 original size:40 final size:40
Alignment explanation
Indices: 86948294--86948379 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
86948284 GAATTATGAG
** *
86948294 TACTGAATATTGTTTTGAATACCGAATTGAACTGTGAAAT
1 TACTGAATATTGTTACGAATACCGAATTGAACTGTAAAAT
* * * *
86948334 TACTGAATATTGTTACGTATACTGCATTGAATTGTAAAAT
1 TACTGAATATTGTTACGAATACCGAATTGAACTGTAAAAT
*
86948374 TTCTGA
1 TACTGA
86948380 TGAAACTAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.40
Consensus pattern (40 bp):
TACTGAATATTGTTACGAATACCGAATTGAACTGTAAAAT
Found at i:86948637 original size:45 final size:45
Alignment explanation
Indices: 86948587--86948697 Score: 143
Period size: 45 Copynumber: 2.5 Consensus size: 45
86948577 CGACTACTAT
* *
86948587 TACTATTACTATTACTGTTACCGATTC-GACACTTTGTGTGTTGAA
1 TACTATTACTGTTACTGTTACAGATTCAG-CACTTTGTGTGTTGAA
* * * *
86948632 TACTATTACCGTTACTATTATAGATTCAGTACTTTGTGTGTTGAA
1 TACTATTACTGTTACTGTTACAGATTCAGCACTTTGTGTGTTGAA
*
86948677 TACTGTTACTGTTACTGTTAC
1 TACTATTACTGTTACTGTTAC
86948698 TGCTACCGTT
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
45 54 0.98
46 1 0.02
ACGTcount: A:0.24, C:0.16, G:0.15, T:0.44
Consensus pattern (45 bp):
TACTATTACTGTTACTGTTACAGATTCAGCACTTTGTGTGTTGAA
Found at i:86948647 original size:51 final size:50
Alignment explanation
Indices: 86948564--86948705 Score: 136
Period size: 45 Copynumber: 2.9 Consensus size: 50
86948554 TTACTGATCA
* * * *
86948564 AGCAC-TTATGTGTCGACTACTATTACTATTACTATTACTGTTACCGATTC
1 AGCACTTTGTGTGTTGAATACTATTACTGTTACTATTACTG-TACCGATTC
*
86948614 -GACACTTTGTGTGTTGAATACTATTACCGTTACTATTA---TA--GATTC
1 AG-CACTTTGTGTGTTGAATACTATTACTGTTACTATTACTGTACCGATTC
* * *
86948659 AGTACTTTGTGTGTTGAATACTGTTACTGTTACTGTTACTGCTACCG
1 AGCACTTTGTGTGTTGAATACTATTACTGTTACTATTACTG-TACCG
86948706 TTACTAATTA
Statistics
Matches: 74, Mismatches: 9, Indels: 17
0.74 0.09 0.17
Matches are distributed among these distances:
45 37 0.50
46 1 0.01
47 2 0.03
49 3 0.04
50 3 0.04
51 28 0.38
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.42
Consensus pattern (50 bp):
AGCACTTTGTGTGTTGAATACTATTACTGTTACTATTACTGTACCGATTC
Found at i:86948688 original size:6 final size:6
Alignment explanation
Indices: 86948677--86948710 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
86948667 GTGTGTTGAA
* *
86948677 TACTGT TACTGT TACTGT TACTGC TACCGT TACT
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACT
86948711 AATTACTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.18, C:0.24, G:0.15, T:0.44
Consensus pattern (6 bp):
TACTGT
Found at i:86955441 original size:49 final size:49
Alignment explanation
Indices: 86955189--86955543 Score: 222
Period size: 48 Copynumber: 7.5 Consensus size: 49
86955179 TATGTGTGCT
* * * * * *
86955189 AGTGTAAGACATGTTTGGGACAT-GCATCGGCCAC-AT-TATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATAGCATCGACCTCGATAGATGAAAGCC
* * * * *
86955235 AGTGTAAGACATGTCTAGGATAT-GCATCTG-CCTCGAGATAT-ACAAGCC
1 AGTGTAAGACCTGTCTGGGACATAGCATC-GACCTCGATAGATGA-AAGCC
* * * * * *
86955283 AGTGTAAGACATGTCTAGGACAT-GCATCGGCCTCGAGATAT-ATAAGCT
1 AGTGTAAGACCTGTCTGGGACATAGCATCGACCTCGATAGATGA-AAGCC
* * * * * * *
86955331 AGTGTAAGACCTGTCTGGGACATGGCGTC-AGCTTG-TTG-TG--TGTC
1 AGTGTAAGACCTGTCTGGGACATAGCATCGACCTCGATAGATGAAAGCC
86955375 AGTGTAAGACCTGTCTGGGACAT-GACATCGACAC-CGATAGATGAAAGCC
1 AGTGTAAGACCTGTCTGGGACATAG-CATCGAC-CTCGATAGATGAAAGCC
* * * * * *
86955424 AGTGTAAAACCTATCTGGGACACAGCATCGGCCTCGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATAGCATCGACCTCGATAGATGAAAGCC
* * * **
86955473 AGTGTAAGACCTGCCTGGGACATAGCATCGACTTTGAT-G-TGCTAGCC
1 AGTGTAAGACCTGTCTGGGACATAGCATCGACCTCGATAGATGAAAGCC
86955520 AGTGTAAGACCATGTCTGGGACAT
1 AGTGTAAGACC-TGTCTGGGACAT
86955544 GGCGTCGGTA
Statistics
Matches: 247, Mismatches: 45, Indels: 32
0.76 0.14 0.10
Matches are distributed among these distances:
43 1 0.00
44 27 0.11
45 2 0.01
46 32 0.13
47 22 0.09
48 86 0.35
49 76 0.31
50 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.25
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATAGCATCGACCTCGATAGATGAAAGCC
Found at i:86955452 original size:142 final size:145
Alignment explanation
Indices: 86955278--86955544 Score: 350
Period size: 142 Copynumber: 1.9 Consensus size: 145
86955268 CGAGATATAC
* * *
86955278 AAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATAT-ATAAG-CTAGTGTAAGAC
1 AAGCCAGTGTAAAACATATCTAGGACAAGCATCGGCCTCGAGATATGA-AAGTC-AGTGTAAGAC
* * * * *
86955341 CTGTCTGGGACATGGCGTC-AGC-TTGTTGTG-T-GTCAGTGTAAGACC-TGTCTGGGACATGAC
64 CTGCCTGGGACATAGCATCGA-CTTTGATGTGCTAGCCAGTGTAAGACCATGTCTGGGACATGAC
86955401 ATCGACACCGATAGATGA
128 ATCGACACCGATAGATGA
* * *
86955419 AAGCCAGTGTAAAACCTATCTGGGACACAGCATCGGCCTCGATATATGAAAGTCAGTGTAAGACC
1 AAGCCAGTGTAAAACATATCTAGGACA-AGCATCGGCCTCGAGATATGAAAGTCAGTGTAAGACC
86955484 TGCCTGGGACATAGCATCGACTTTGATGTGCTAGCCAGTGTAAGACCATGTCTGGGACATG
65 TGCCTGGGACATAGCATCGACTTTGATGTGCTAGCCAGTGTAAGACCATGTCTGGGACATG
86955545 GCGTCGGTAT
Statistics
Matches: 107, Mismatches: 11, Indels: 11
0.83 0.09 0.09
Matches are distributed among these distances:
141 23 0.21
142 47 0.44
143 10 0.09
144 1 0.01
145 13 0.12
146 13 0.12
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (145 bp):
AAGCCAGTGTAAAACATATCTAGGACAAGCATCGGCCTCGAGATATGAAAGTCAGTGTAAGACCT
GCCTGGGACATAGCATCGACTTTGATGTGCTAGCCAGTGTAAGACCATGTCTGGGACATGACATC
GACACCGATAGATGA
Found at i:86957558 original size:40 final size:39
Alignment explanation
Indices: 86957405--86957590 Score: 214
Period size: 40 Copynumber: 4.6 Consensus size: 39
86957395 TTGAATGATG
* * * *
86957405 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGA-GTTACTAAA
* *
86957445 TCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
86957485 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
86957525 TCCGGGTTAAGTCCAGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCC-GAAGGCATTTGTGCGAGTTACTA-AA
*
86957566 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
86957591 AACGAGTAGC
Statistics
Matches: 130, Mismatches: 11, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
39 3 0.02
40 115 0.88
41 12 0.09
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:86957597 original size:80 final size:79
Alignment explanation
Indices: 86957452--86957623 Score: 201
Period size: 80 Copynumber: 2.2 Consensus size: 79
86957442 ATATCCGGAC
**
86957452 TAAGATCCGAAGGCATTTGTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAG
1 TAAGATCCGAAGGCATTTGTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAG
86957517 TTA-CTAAATCCGGGT
66 -TAGCTAAATCC-GGT
* * *
86957532 TAAG-TCCAGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTGAAC
1 TAAGATCC-GAAGGCATTTGTACGAGTTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAAC
*
86957594 GAGTAGCTATATCCGGT
63 GAGTAGCTAAATCCGGT
86957611 TAA-ATTCCGAAGG
1 TAAGA-TCCGAAGG
86957624 TACGTGATTT
Statistics
Matches: 80, Mismatches: 6, Indels: 13
0.81 0.06 0.13
Matches are distributed among these distances:
79 17 0.21
80 61 0.76
81 2 0.03
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (79 bp):
TAAGATCCGAAGGCATTTGTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAG
TAGCTAAATCCGGT
Found at i:86961585 original size:46 final size:45
Alignment explanation
Indices: 86961535--86961706 Score: 197
Period size: 46 Copynumber: 3.7 Consensus size: 45
86961525 GGTTGAGCAT
*
86961535 CCGAACTCGTTGAGTTGAGTACGAGTTCACTTATGGATGCGAATGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATGC
* * *
86961581 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--GC
* *
86961626 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGTGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATGC
*
86961674 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
86961707 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 4 0.04
46 58 0.54
47 28 0.26
48 4 0.04
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATGC
Found at i:86961690 original size:93 final size:93
Alignment explanation
Indices: 86961531--86961701 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
86961521 GGATGGTTGA
*
86961531 GCATCCGAACTCGTTGAGTTGAGTACGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTACGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
86961596 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
86961624 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGTGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTACGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
86961689 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
86961702 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTACGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:86961968 original size:19 final size:20
Alignment explanation
Indices: 86961931--86961968 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
86961921 ATAAGGTGGT
86961931 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
86961951 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
86961969 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:86963259 original size:28 final size:28
Alignment explanation
Indices: 86963227--86963309 Score: 123
Period size: 28 Copynumber: 3.0 Consensus size: 28
86963217 GTCACTAGAT
*
86963227 ACAGATATTTTGTGGCAGTGCCACCAGA
1 ACAGATAATTTGTGGCAGTGCCACCAGA
*
86963255 ACAGATAATTTGTGGCAGGGCCACCAGA
1 ACAGATAATTTGTGGCAGTGCCACCAGA
*
86963283 ATAGATAATTTGTGGCA-TAGCCACCAG
1 ACAGATAATTTGTGGCAGT-GCCACCAG
86963310 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 50 1.00
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.23
Consensus pattern (28 bp):
ACAGATAATTTGTGGCAGTGCCACCAGA
Found at i:86964538 original size:12 final size:13
Alignment explanation
Indices: 86964519--86964551 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
86964509 GGGTTCGGCT
86964519 ATGGAGAAGGAAG
1 ATGGAGAAGGAAG
*
86964532 A-GGAGAAGGTAG
1 ATGGAGAAGGAAG
86964544 ATGGAGAA
1 ATGGAGAA
86964552 AAAGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.09
Consensus pattern (13 bp):
ATGGAGAAGGAAG
Found at i:86978651 original size:20 final size:20
Alignment explanation
Indices: 86978623--86978663 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
86978613 TTTTTGAAAC
*
86978623 AGGGCACACACCCGTGTGGA
1 AGGGAACACACCCGTGTGGA
*
86978643 AGGGAACACGCCCGTGTGGA
1 AGGGAACACACCCGTGTGGA
86978663 A
1 A
86978664 TTAATTCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.37, T:0.10
Consensus pattern (20 bp):
AGGGAACACACCCGTGTGGA
Found at i:86979907 original size:46 final size:46
Alignment explanation
Indices: 86979781--86979907 Score: 129
Period size: 46 Copynumber: 2.8 Consensus size: 46
86979771 ATGCCATTGC
* * * *
86979781 CATGTCCCAGACATGGTCTTTCACTA--ACACATCTCGTAGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCACTCGTCTCGTAGCCGAAG
*
86979826 CATGTCCCAGACATGTCTTACACTGGCTTA-T-GTCTCG-AGGCCGAAG
1 CATGTCCCAGACATGTCTTACACTAGC--ACTCGTCTCGTA-GCCGAAG
*
86979872 CTTGTCCCAGACATGTCTTACACTAGCACTCGTCTC
1 CATGTCCCAGACATGTCTTACACTAGCACTCGTCTC
86979908 AATGCCGATG
Statistics
Matches: 68, Mismatches: 7, Indels: 13
0.77 0.08 0.15
Matches are distributed among these distances:
44 10 0.15
45 16 0.24
46 41 0.60
48 1 0.01
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCACTCGTCTCGTAGCCGAAG
Found at i:86979915 original size:46 final size:45
Alignment explanation
Indices: 86979819--86979947 Score: 127
Period size: 46 Copynumber: 2.8 Consensus size: 45
86979809 ACATCTCGTA
* * *
86979819 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTATGTCTCGAG
1 GCCGATGCTTGTCCCAGACATGTCTTACACTAGC-TATGTCTCAAG
* *
86979865 GCCGAAGCTTGTCCCAGACATGTCTTACACTAGC-ACTCGTCTCAAT
1 GCCGATGCTTGTCCCAGACATGTCTTACACTAGCTA-T-GTCTCAAG
* *
86979911 GCCGATG-TCGTGCCTCAAACATGGTCTTACACTAGCT
1 GCCGATGCTTGT-CC-CAGACAT-GTCTTACACTAGCT
86979948 CTCAAAATGT
Statistics
Matches: 69, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
44 1 0.01
45 4 0.06
46 45 0.65
47 6 0.09
48 13 0.19
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (45 bp):
GCCGATGCTTGTCCCAGACATGTCTTACACTAGCTATGTCTCAAG
Found at i:86990338 original size:13 final size:14
Alignment explanation
Indices: 86990317--86990349 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
86990307 TTTATTAATG
86990317 AAATATATTAAA-AT
1 AAAT-TATTAAATAT
86990331 AAATTATTAAATAT
1 AAATTATTAAATAT
86990345 AAATT
1 AAATT
86990350 TATATTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AAATTATTAAATAT
Found at i:87004346 original size:40 final size:40
Alignment explanation
Indices: 87004291--87004368 Score: 147
Period size: 40 Copynumber: 1.9 Consensus size: 40
87004281 CGTGAATATA
*
87004291 TTGTTTCTAATGTCATTCAACCTTCTATTGTTCATGGATG
1 TTGTTTCCAATGTCATTCAACCTTCTATTGTTCATGGATG
87004331 TTGTTTCCAATGTCATTCAACCTTCTATTGTTCATGGA
1 TTGTTTCCAATGTCATTCAACCTTCTATTGTTCATGGA
87004369 CTTGTCAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.21, C:0.19, G:0.14, T:0.46
Consensus pattern (40 bp):
TTGTTTCCAATGTCATTCAACCTTCTATTGTTCATGGATG
Found at i:87004820 original size:30 final size:30
Alignment explanation
Indices: 87004786--87004846 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
87004776 AAGTTTATAG
*
87004786 TAATAGTGCGAACTATGATAATAGTAATAA
1 TAATAGTGAGAACTATGATAATAGTAATAA
*
87004816 TAATAGTGAGAACTATGATAATAGTGATAA
1 TAATAGTGAGAACTATGATAATAGTAATAA
87004846 T
1 T
87004847 GAACTTTGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.46, C:0.05, G:0.18, T:0.31
Consensus pattern (30 bp):
TAATAGTGAGAACTATGATAATAGTAATAA
Found at i:87004842 original size:18 final size:18
Alignment explanation
Indices: 87004786--87004842 Score: 63
Period size: 18 Copynumber: 3.5 Consensus size: 18
87004776 AAGTTTATAG
*
87004786 TAATAGTGCGAACTATGA
1 TAATAGTGAGAACTATGA
87004804 TAATAGT---AA-TA--A
1 TAATAGTGAGAACTATGA
87004816 TAATAGTGAGAACTATGA
1 TAATAGTGAGAACTATGA
87004834 TAATAGTGA
1 TAATAGTGA
87004843 TAATGAACTT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
12 8 0.24
14 2 0.06
15 4 0.12
16 2 0.06
18 17 0.52
ACGTcount: A:0.46, C:0.05, G:0.19, T:0.30
Consensus pattern (18 bp):
TAATAGTGAGAACTATGA
Found at i:87013108 original size:65 final size:66
Alignment explanation
Indices: 87012951--87013127 Score: 293
Period size: 65 Copynumber: 2.7 Consensus size: 66
87012941 ATTTTCCAAT
* *
87012951 CTTGTTCTTCACCAGTGCTTGAAGTATTTGGCACTAGTCTATAGCATTGTTCATTTTTTTTTCTG
1 CTTGTTCTTCACCAGTGCTTGAAGTAGTTGGCACTAGTCTATAGCATTGTTCATTTATTTTTCTG
87013016 C
66 C
* *
87013017 CTTGTTCTTCACTAGTGCTTGAAGTAGTTGGCACTAGTCTATAGCATTGTTTA-TTATTTTTCTG
1 CTTGTTCTTCACCAGTGCTTGAAGTAGTTGGCACTAGTCTATAGCATTGTTCATTTATTTTTCTG
87013081 C
66 C
* *
87013082 CTTGTTCTTCACCGGTGCTTGAAGTAGTTGGCACTAATCTATAGCA
1 CTTGTTCTTCACCAGTGCTTGAAGTAGTTGGCACTAGTCTATAGCA
87013128 CTGCTTGTTT
Statistics
Matches: 104, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
65 54 0.52
66 50 0.48
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.44
Consensus pattern (66 bp):
CTTGTTCTTCACCAGTGCTTGAAGTAGTTGGCACTAGTCTATAGCATTGTTCATTTATTTTTCTG
C
Found at i:87020576 original size:46 final size:48
Alignment explanation
Indices: 87020504--87020606 Score: 147
Period size: 46 Copynumber: 2.2 Consensus size: 48
87020494 GACAGGACAG
* * * *
87020504 GACAGAAATGAGCCATGTAAGTCCATATCA-GT-TATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
*
87020550 GACAGGAATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
87020598 GACAGGAAT
1 GACAGGAAT
87020607 AATTCATGTA
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
46 27 0.54
47 1 0.02
48 22 0.44
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (48 bp):
GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
Found at i:87022091 original size:39 final size:41
Alignment explanation
Indices: 87022039--87022127 Score: 119
Period size: 39 Copynumber: 2.2 Consensus size: 41
87022029 AAAATTTATA
* * * *
87022039 TTTAATACAATAAAATATTTATTATATCTAT-TTA-TGTTT
1 TTTAATATAATAAAACATTTATTATATCTATGGTAGTATTT
*
87022078 TTTAATATAATAAAACATTTATTATATTTATGGTAGTATTT
1 TTTAATATAATAAAACATTTATTATATCTATGGTAGTATTT
87022119 TTTAATATA
1 TTTAATATA
87022128 CATACTTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
39 28 0.65
40 2 0.05
41 13 0.30
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.53
Consensus pattern (41 bp):
TTTAATATAATAAAACATTTATTATATCTATGGTAGTATTT
Found at i:87022226 original size:16 final size:17
Alignment explanation
Indices: 87022205--87022238 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
87022195 TGTATTATAT
87022205 TTTTAAA-AAAAATTAA
1 TTTTAAATAAAAATTAA
87022221 TTTTAAATAAAAATTAA
1 TTTTAAATAAAAATTAA
87022238 T
1 T
87022239 ATAAAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TTTTAAATAAAAATTAA
Found at i:87022243 original size:16 final size:16
Alignment explanation
Indices: 87022208--87022245 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
87022198 ATTATATTTT
*
87022208 TAAAAAAAATTAATTT
1 TAAAAAAAATTAATTA
87022224 TAAATAAAAATTAA-TA
1 TAAA-AAAAATTAATTA
87022240 TAAAAA
1 TAAAAA
87022246 TTAAATATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 2 0.10
16 9 0.45
17 9 0.45
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
TAAAAAAAATTAATTA
Found at i:87022244 original size:12 final size:11
Alignment explanation
Indices: 87022223--87022252 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
87022213 AAAATTAATT
87022223 TTAAATAAAAA
1 TTAAATAAAAA
87022234 TTAATATAAAAA
1 TTAA-ATAAAAA
87022246 TTAAATA
1 TTAAATA
87022253 TGGGCGAGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
TTAAATAAAAA
Found at i:87023508 original size:11 final size:11
Alignment explanation
Indices: 87023492--87023525 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
87023482 CGCATCTAGT
87023492 TTTGTTCTTGA
1 TTTGTTCTTGA
87023503 TTTGTTCTTGA
1 TTTGTTCTTGA
*
87023514 TTTATTCTTGA
1 TTTGTTCTTGA
87023525 T
1 T
87023526 GATTTGACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.12, C:0.09, G:0.15, T:0.65
Consensus pattern (11 bp):
TTTGTTCTTGA
Found at i:87025654 original size:23 final size:23
Alignment explanation
Indices: 87025602--87025647 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
87025592 GAAAAATTCA
87025602 GCATCATTGTGGCATAGGCGCTT
1 GCATCATTGTGGCATAGGCGCTT
87025625 GCATCATTGTGGCATAGGCGCTT
1 GCATCATTGTGGCATAGGCGCTT
87025648 AGGTCATATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.17, C:0.22, G:0.30, T:0.30
Consensus pattern (23 bp):
GCATCATTGTGGCATAGGCGCTT
Found at i:87028294 original size:18 final size:18
Alignment explanation
Indices: 87028273--87028332 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
87028263 AATCGGTTAA
*
87028273 TCAGTAATATTCATTTAT
1 TCAGTAATAGTCATTTAT
*
87028291 TCAGT-ATCAGTCGTTTAT
1 TCAGTAAT-AGTCATTTAT
* * *
87028309 TCTGTAACAGTCAATTAT
1 TCAGTAATAGTCATTTAT
87028327 TCAGTA
1 TCAGTA
87028333 GTAGACAGCC
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
17 2 0.06
18 30 0.91
19 1 0.03
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.43
Consensus pattern (18 bp):
TCAGTAATAGTCATTTAT
Found at i:87028887 original size:3 final size:3
Alignment explanation
Indices: 87028879--87028905 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
87028869 AATCAATACC
87028879 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
87028906 CTTGTTATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:87029541 original size:19 final size:19
Alignment explanation
Indices: 87029514--87029557 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
87029504 AATCCGTAGC
87029514 TTTCCCTTTTTCTT-TTTCT
1 TTTCCCTTTTT-TTCTTTCT
*
87029533 TTTCTCTTTTTTTCTTTC-
1 TTTCCCTTTTTTTCTTTCT
87029551 TTTCCCT
1 TTTCCCT
87029558 GCTAACCGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTCCCTTTTTTTCTTTCT
Found at i:87029603 original size:13 final size:13
Alignment explanation
Indices: 87029585--87029609 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
87029575 TTCTTTCCTT
87029585 TTTCTTTATTTCA
1 TTTCTTTATTTCA
87029598 TTTCTTTATTTC
1 TTTCTTTATTTC
87029610 TTTTATTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTCTTTATTTCA
Found at i:87035712 original size:16 final size:16
Alignment explanation
Indices: 87035678--87035711 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
87035668 CAAAAATATT
87035678 AAATAATTTTTTGAGA
1 AAATAATTTTTTGAGA
*
87035694 AAAT-ATTTTTTGGGA
1 AAATAATTTTTTGAGA
87035709 AAA
1 AAA
87035712 AAATAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (16 bp):
AAATAATTTTTTGAGA
Found at i:87035916 original size:23 final size:23
Alignment explanation
Indices: 87035888--87035937 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
87035878 TAAAAATAAT
**
87035888 TTTAAATTC-TTGTTATTTATTAA
1 TTTAAATTCATT-TTACATATTAA
87035911 TTTAAATTCATTTTACATATTAA
1 TTTAAATTCATTTTACATATTAA
87035934 TTTA
1 TTTA
87035938 TTTTTTCTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 22 0.92
24 2 0.08
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (23 bp):
TTTAAATTCATTTTACATATTAA
Found at i:87036299 original size:5 final size:6
Alignment explanation
Indices: 87036274--87036298 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
87036264 CTAAACGTTG
87036274 AAGAAA AAGAAA AAGAAA AAGAAA A
1 AAGAAA AAGAAA AAGAAA AAGAAA A
87036299 GGATGTCTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:87037931 original size:27 final size:27
Alignment explanation
Indices: 87037901--87038041 Score: 173
Period size: 27 Copynumber: 5.2 Consensus size: 27
87037891 GTGACGAATT
87037901 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
87037928 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
* * * *
87037955 CATCAGAT-CAGATAATCGTGGCATAAC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
87037982 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
87038009 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
87038036 CACCAG
1 CACCAG
87038042 GACGCTTCCT
Statistics
Matches: 98, Mismatches: 9, Indels: 14
0.81 0.07 0.12
Matches are distributed among these distances:
26 10 0.10
27 84 0.86
28 4 0.04
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:87037985 original size:54 final size:54
Alignment explanation
Indices: 87037901--87038041 Score: 230
Period size: 54 Copynumber: 2.6 Consensus size: 54
87037891 GTGACGAATT
*
87037901 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* * *
87037955 CATCAGATCAGATAATCGTGGCATAACCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
87038009 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
87038042 GACGCTTCCT
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
53 5 0.06
54 74 0.94
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:87039696 original size:26 final size:26
Alignment explanation
Indices: 87039661--87039768 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
87039651 TGAAATTCCC
* *
87039661 ATCATAGAACATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
87039687 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
87039713 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
87039739 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
87039765 ATCA
1 ATCA
87039769 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:87045077 original size:27 final size:27
Alignment explanation
Indices: 87045029--87045133 Score: 108
Period size: 27 Copynumber: 3.9 Consensus size: 27
87045019 GCGAGGCTGC
* *
87045029 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
87045056 CAGATATTGTAGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
87045082 CAGATATATGTGGCAGAGCCACCAAAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
87045109 CAGATAATCGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
87045134 GACGCTTCCT
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
26 8 0.12
27 55 0.83
28 3 0.05
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:87046789 original size:26 final size:26
Alignment explanation
Indices: 87046753--87046860 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
87046743 TGAAATTCCA
*
87046753 ATCATGGAACATTTATCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
87046779 ATCATGGAACATTTACTTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
87046805 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
87046831 ATCATAGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
87046857 ATCA
1 ATCA
87046861 ATTTGTATCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:87048160 original size:23 final size:23
Alignment explanation
Indices: 87048128--87048177 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
87048118 GTATATATAT
*
87048128 ATATATATATATTTGTGAATTTTAA
1 ATATATATATA-TT-TGAATTTGAA
87048153 ATATATATATATTTGAATTTGAA
1 ATATATATATATTTGAATTTGAA
87048176 AT
1 AT
87048178 TCATGTTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 11 0.46
24 2 0.08
25 11 0.46
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (23 bp):
ATATATATATATTTGAATTTGAA
Done.