Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 224 of 345
Found at i:65137558 original size:27 final size:27
Alignment explanation
Indices: 65137527--65137584 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
65137517 ACAATCATAC
*
65137527 ATCACATAGGGGCATAACAGTCATTTT
1 ATCACAAAGGGGCATAACAGTCATTTT
*
65137554 ATCACAAAGGGGCATAATAGTCATTTT
1 ATCACAAAGGGGCATAACAGTCATTTT
65137581 ATCA
1 ATCA
65137585 ATTAAGGGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.29
Consensus pattern (27 bp):
ATCACAAAGGGGCATAACAGTCATTTT
Found at i:65139909 original size:52 final size:52
Alignment explanation
Indices: 65139831--65139935 Score: 201
Period size: 52 Copynumber: 2.0 Consensus size: 52
65139821 CAACATGCAT
*
65139831 ACTCATATTCACAATCATAACAATTTATGCAATATCAATTCAATCACAAATC
1 ACTCATATTCACAATCATAACAATTTATGCAATATCAATTCAATCAAAAATC
65139883 ACTCATATTCACAATCATAACAATTTATGCAATATCAATTCAATCAAAAATC
1 ACTCATATTCACAATCATAACAATTTATGCAATATCAATTCAATCAAAAATC
65139935 A
1 A
65139936 TAACAATATA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.46, C:0.22, G:0.02, T:0.30
Consensus pattern (52 bp):
ACTCATATTCACAATCATAACAATTTATGCAATATCAATTCAATCAAAAATC
Found at i:65146427 original size:19 final size:19
Alignment explanation
Indices: 65146403--65146439 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
65146393 AAGCTCTTAA
65146403 AATCAGTAAAGATATGACT
1 AATCAGTAAAGATATGACT
65146422 AATCAGTAAAGATATGAC
1 AATCAGTAAAGATATGAC
65146440 ATTTTTCACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.11, G:0.16, T:0.24
Consensus pattern (19 bp):
AATCAGTAAAGATATGACT
Found at i:65153271 original size:16 final size:16
Alignment explanation
Indices: 65153250--65153300 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
65153240 TTCTGGATTA
65153250 CCAGTCCAGGCTAAAT
1 CCAGTCCAGGCTAAAT
*
65153266 CCAGT-CA-GCTAGGATT
1 CCAGTCCAGGCTA--AAT
65153282 ACCAGTCCAGGCTAAAT
1 -CCAGTCCAGGCTAAAT
65153299 CC
1 CC
65153301 TAATTGAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 10
0.70 0.05 0.25
Matches are distributed among these distances:
14 4 0.14
15 2 0.07
16 9 0.32
17 7 0.25
18 2 0.07
19 4 0.14
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (16 bp):
CCAGTCCAGGCTAAAT
Found at i:65153697 original size:21 final size:21
Alignment explanation
Indices: 65153671--65153722 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
65153661 TAGGGCACAT
65153671 GCCCGTGTGGAAGGGCAACGC
1 GCCCGTGTGGAAGGGCAACGC
*
65153692 GCCCGTGTGGAAGGGCAATGC
1 GCCCGTGTGGAAGGGCAACGC
65153713 GCCCGTGTGG
1 GCCCGTGTGG
65153723 TCATTATAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.15, C:0.27, G:0.44, T:0.13
Consensus pattern (21 bp):
GCCCGTGTGGAAGGGCAACGC
Found at i:65155126 original size:46 final size:49
Alignment explanation
Indices: 65154875--65155199 Score: 232
Period size: 46 Copynumber: 6.8 Consensus size: 49
65154865 ATAGGGTGTA
* *
65154875 ATGCCGATGCCATGTCCCAGACATGGTCTTACACGGGCTCATCCA--TC-
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TACATCTCG
* * * * * * * * *
65154922 AAGTCGATGCCATGTTCTACACATGGTTTTACACTGACTACCGAAAT-T-G
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT--CTACATCTCG
* * ** *
65154971 AGGCTGACACCATGTCCCAGACATGGTCTTACACTAGCTCTCACATCTCCG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-ACATCT-CG
* * *
65155022 -TGCCAATGCCATGTCCCAGACATGGTCTTACACT-G-AC-ACATC-CC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCG
*
65155066 ATAGCCGAT-ACATGTCCCAGACAT-GTCTTACACTGGCT-TACATCTCG
1 AT-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCG
* * * * *
65155113 AGGCCGATG-CATGTCCCAGACAT-GTCTTGCACTAGCTCT-CGTCTCA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCG
* * *
65155159 ATGTCGAAGCCATGTCCTAGACATGGTCTTACACTGGCTCT
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT
65155200 CATAATGTGG
Statistics
Matches: 214, Mismatches: 46, Indels: 35
0.73 0.16 0.12
Matches are distributed among these distances:
44 11 0.05
45 16 0.07
46 58 0.27
47 48 0.22
48 19 0.09
49 32 0.15
50 29 0.14
51 1 0.00
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (49 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCG
Found at i:65155964 original size:13 final size:13
Alignment explanation
Indices: 65155946--65155970 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65155936 CTAAAAGTGA
65155946 AAAAATCATCAAG
1 AAAAATCATCAAG
65155959 AAAAATCATCAA
1 AAAAATCATCAA
65155971 AATCACTTAC
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:0.64, C:0.16, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAAATCATCAAG
Found at i:65158643 original size:54 final size:53
Alignment explanation
Indices: 65158577--65158918 Score: 252
Period size: 54 Copynumber: 6.3 Consensus size: 53
65158567 TGTAGGGTAG
** *
65158577 AATTACTGAAATACCCTTAGTTTACAAAATTA-CGAAAATACCCTCGATTAGTAA
1 AATTA-TGAAATACCCTTAGTTTGTAAAATTATCGAAAATACCCT-GATTTGTAA
* * *
65158631 AATTACTAAAATACCCCTAGTTTGTAAAATTATCG-AAATACCACTAATTTGTAA
1 AATTA-TGAAATACCCTTAGTTTGTAAAATTATCGAAAATACC-CTGATTTGTAA
* * * * *
65158685 AATTATCAAAATACCCTT-GTAGTGTAGAATTACCG-AAATACCCTCAATTTGTAA
1 AATTAT-GAAATACCCTTAGT-TTGTAAAATTATCGAAAATACCCT-GATTTGTAA
** * ** *
65158739 AATTATTGAAATATCCCCGA-TTTGTTAAATT-TTTAAAATACCCTTG-TATTGTAG
1 AATTA-TGAAATA-CCCTTAGTTTGTAAAATTATCGAAAATACCC-TGAT-TTGTAA
* * *
65158793 AATTATCGAAATACCCCTAATTTGTAAAATTA-CTAAAATACCCTAGATTTGTAA
1 AATTAT-GAAATACCCTTAGTTTGTAAAATTATCGAAAATACCCT-GATTTGTAA
* * * *
65158847 AATTATCGAAATACCCTCAATTTGTAAAATTATC-AAAATACCCTTATAGTGTAA
1 AATTAT-GAAATACCCTTAGTTTGTAAAATTATCGAAAATACCCTGAT-TTGTAA
*
65158901 AATTACTAAAATACCCTT
1 AATTA-TGAAATACCCTT
65158919 GTAGTATAAA
Statistics
Matches: 238, Mismatches: 31, Indels: 38
0.78 0.10 0.12
Matches are distributed among these distances:
53 15 0.06
54 210 0.88
55 13 0.05
ACGTcount: A:0.41, C:0.17, G:0.08, T:0.34
Consensus pattern (53 bp):
AATTATGAAATACCCTTAGTTTGTAAAATTATCGAAAATACCCTGATTTGTAA
Found at i:65158696 original size:81 final size:80
Alignment explanation
Indices: 65158584--65158889 Score: 291
Period size: 81 Copynumber: 3.8 Consensus size: 80
65158574 TAGAATTACT
* **
65158584 GAAATACCCTTAGTTTACAAAATTA-CGAAAATACCCTCG-ATTAGTAAAATTA-CTAAAATACC
1 GAAATACCC-TAATTTGTAAAATTATC-AAAATACCCTCGTATT-GTAAAATTATC-AAAATACC
*
65158646 CCTAGTTTGTAAAATTATC
62 CCTAATTTGTAAAATTATC
* * * * *
65158665 GAAATACCACTAATTTGTAAAATTATCAAAATACCCTTGTAGTGTAGAATTACCGAAATA-CCCT
1 GAAATACC-CTAATTTGTAAAATTATCAAAATACCCTCGTATTGTAAAATTATCAAAATACCCCT
*
65158729 CAATTTGTAAAATTATT
65 -AATTTGTAAAATTATC
** * * * * * *
65158746 GAAATATCCCCGATTTGTTAAATTTTTAAAATACCCTTGTATTGTAGAATTATCGAAATACCCCT
1 GAAATA-CCCTAATTTGTAAAATTATCAAAATACCCTCGTATTGTAAAATTATCAAAATACCCCT
65158811 AATTTGTAAAATTA-C
65 AATTTGTAAAATTATC
* * *
65158826 TAAAATACCCTAGATTTGTAAAATTATCGAAATACCCTC-AATTTGTAAAATTATCAAAATACCC
1 -GAAATACCCTA-ATTTGTAAAATTATCAAAATACCCTCGTA-TTGTAAAATTATCAAAATACCC
65158890 TTATAGTGTA
Statistics
Matches: 187, Mismatches: 28, Indels: 20
0.80 0.12 0.09
Matches are distributed among these distances:
80 8 0.04
81 168 0.90
82 11 0.06
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.33
Consensus pattern (80 bp):
GAAATACCCTAATTTGTAAAATTATCAAAATACCCTCGTATTGTAAAATTATCAAAATACCCCTA
ATTTGTAAAATTATC
Found at i:65158900 original size:81 final size:81
Alignment explanation
Indices: 65158558--65158917 Score: 283
Period size: 81 Copynumber: 4.4 Consensus size: 81
65158548 AGTATTATTG
* ** * **
65158558 AAATACCCTTGTAGGGTAGAATTACTGAAATACCCTTAG-TTTACAAAATTA-CGAAAATACCCT
1 AAATACCCTTATATTGTAAAATTACTGAAATACCC-TAGATTTGTAAAATTATC-AAAATACCCT
* *
65158621 CGAT-TAGTAAAATTA-CTA
64 -TATATTGTAAAATTATC-A
*
65158639 AAATACCCCTAGT-TTGTAAAATTA-TCGAAATACCACTA-ATTTGTAAAATTATCAAAATACCC
1 AAATACCCTTA-TATTGTAAAATTACT-GAAATACC-CTAGATTTGTAAAATTATCAAAATACCC
* * * * *
65158701 TTGTAGTGTAGAATTACCG
63 TTATATTGTAAAATTATCA
* * * * * *
65158720 AAATACCCTCA-ATTTGTAAAATTATTGAAATATCCC-CGATTTGTTAAATTTTTAAAATACCCT
1 AAATACCCTTATA-TTGTAAAATTACTGAAATA-CCCTAGATTTGTAAAATTATCAAAATACCCT
* * *
65158783 TGTATTGTAGAATTATCG
64 TATATTGTAAAATTATCA
* * * *
65158801 AAATACCCCTA-ATTTGTAAAATTACTAAAATACCCTAGATTTGTAAAATTATCGAAATACCCTC
1 AAATACCCTTATA-TTGTAAAATTACTGAAATACCCTAGATTTGTAAAATTATCAAAATACCCTT
65158865 A-ATTTGTAAAATTATCA
65 ATA-TTGTAAAATTATCA
* *
65158882 AAATACCCTTATAGTGTAAAATTACTAAAATACCCT
1 AAATACCCTTATATTGTAAAATTACTGAAATACCCT
65158918 TGTAGTATAA
Statistics
Matches: 228, Mismatches: 36, Indels: 30
0.78 0.12 0.10
Matches are distributed among these distances:
80 6 0.03
81 214 0.94
82 8 0.04
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.33
Consensus pattern (81 bp):
AAATACCCTTATATTGTAAAATTACTGAAATACCCTAGATTTGTAAAATTATCAAAATACCCTTA
TATTGTAAAATTATCA
Found at i:65158918 original size:27 final size:27
Alignment explanation
Indices: 65158558--65158918 Score: 192
Period size: 27 Copynumber: 13.4 Consensus size: 27
65158548 AGTATTATTG
* ** * *
65158558 AAATACCCTTGTAGGGTAGAATTACTG
1 AAATACCCTTATATTGTAAAATTACTA
** *
65158585 AAATACCCTTAGT-TTACAAAATTACGA
1 AAATACCCTTA-TATTGTAAAATTACTA
* *
65158612 AAATACCCTCGAT-TAGTAAAATTACTA
1 AAATACCCT-TATATTGTAAAATTACTA
* *
65158639 AAATACCCCTAGT-TTGTAAAATTA-TCG
1 AAATACCCTTA-TATTGTAAAATTACT-A
*
65158666 AAATACCACTAAT-TTGTAAAATTA-TCA
1 AAATACC-CTTATATTGTAAAATTACT-A
* * * **
65158693 AAATACCCTTGTAGTGTAGAATTACCG
1 AAATACCCTTATATTGTAAAATTACTA
* * *
65158720 AAATACCCTCA-ATTTGTAAAATTATTG
1 AAATACCCTTATA-TTGTAAAATTACTA
** * **
65158747 AAATATCCCCGAT-TTGTTAAATTTTTA
1 AAATA-CCCTTATATTGTAAAATTACTA
* * *
65158774 AAATACCCTTGTATTGTAGAATTA-TCG
1 AAATACCCTTATATTGTAAAATTACT-A
*
65158801 AAATACCCCTA-ATTTGTAAAATTACTA
1 AAATACCCTTATA-TTGTAAAATTACTA
* *
65158828 AAATACCC-TAGATTTGTAAAATTA-TCG
1 AAATACCCTTATA-TTGTAAAATTACT-A
*
65158855 AAATACCCTCA-ATTTGTAAAATTA-TCA
1 AAATACCCTTATA-TTGTAAAATTACT-A
*
65158882 AAATACCCTTATAGTGTAAAATTACTA
1 AAATACCCTTATATTGTAAAATTACTA
65158909 AAATACCCTT
1 AAATACCCTT
65158919 GTAGTATAAA
Statistics
Matches: 262, Mismatches: 53, Indels: 38
0.74 0.15 0.11
Matches are distributed among these distances:
26 15 0.06
27 235 0.90
28 12 0.05
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (27 bp):
AAATACCCTTATATTGTAAAATTACTA
Found at i:65159239 original size:41 final size:41
Alignment explanation
Indices: 65159194--65159355 Score: 252
Period size: 41 Copynumber: 4.0 Consensus size: 41
65159184 AGGAAGTATA
* * *
65159194 TGAGGATCGCATGGTTGCTTAACAACCATGGATCCACCGAT
1 TGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGAT
*
65159235 TGAGGATCGCATGGTTGCTTGACGATCGTGGATCCACCGAT
1 TGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGAT
*
65159276 TGAGGATAGCATGGTTGCTTGACGACCGTGGATCCACCGAT
1 TGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGAT
* * *
65159317 TAAGGATCGCATGCTTGCTTGACGATCGTGGATCCACCG
1 TGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
65159356 GTGGCTTTTA
Statistics
Matches: 111, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 111 1.00
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.25
Consensus pattern (41 bp):
TGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGAT
Found at i:65159528 original size:22 final size:21
Alignment explanation
Indices: 65159503--65159561 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
65159493 TATTCTAATC
65159503 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCT-TGTGCCAACCTAAAT
* * *
65159525 ATGGCTTTGTGCCATCTTAACT
1 ATGGC-TTGTGCCAACCTAAAT
65159547 ATGGCTTCGTGCCAA
1 ATGGCTT-GTGCCAA
65159562 ATGTATTTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 2 0.06
22 28 0.90
23 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.32
Consensus pattern (21 bp):
ATGGCTTGTGCCAACCTAAAT
Found at i:65162625 original size:54 final size:54
Alignment explanation
Indices: 65162446--65162805 Score: 274
Period size: 54 Copynumber: 6.7 Consensus size: 54
65162436 TAGAATTACT
** * * * * *
65162446 GAAATACCCTTGGT-TTCCAAAATTACCAAAATACCCTCGATTAGAAAAAGTACC
1 GAAATACCCTT-GTATTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATC
* * * * *
65162500 AAAATACCCCTAGT-TTACT-AAATTACTG-AATATCCC-CGATTTGCAAAATTATC
1 GAAATA-CCCTTGTATT-GTAAAATTACCGAAATA-CCCTCGATTTGTAAAATTATC
*** *** *
65162553 GAAATACCC-CCAATTTGTAAAATTATAAAAATATCCCT-GATTTATAAAATTATC
1 GAAATACCCTTGTA-TTGTAAAATTACCGAAATA-CCCTCGATTTGTAAAATTATC
* *
65162607 GAAATACCATTGTATTGTAGAATTACCGAAATACCCTCGATTTGTAAAATTA-C
1 GAAATACCCTTGTATTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATC
* * *
65162660 TGAAATACCCCT-AATT-TATAACATTACCGAAATACCCTCGATTGGTAAAATTATC
1 -GAAATACCCTTGTATTGTA-AA-ATTACCGAAATACCCTCGATTTGTAAAATTATC
* * * * * *
65162715 AAAATACCCTTGTAGTGTAGAATTACTGAAAGACCC-CTAATTTGTAAAATTATC
1 GAAATACCCTTGTATTGTAAAATTACCGAAATACCCTC-GATTTGTAAAATTATC
*
65162769 GAAATACCCTTGTAGTGTAAAATTACCGAAATACCCT
1 GAAATACCCTTGTATTGTAAAATTACCGAAATACCCT
65162806 TGTAGTGTAA
Statistics
Matches: 242, Mismatches: 46, Indels: 35
0.75 0.14 0.11
Matches are distributed among these distances:
52 6 0.02
53 40 0.17
54 184 0.76
55 10 0.04
56 2 0.01
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.30
Consensus pattern (54 bp):
GAAATACCCTTGTATTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATC
Found at i:65162650 original size:81 final size:81
Alignment explanation
Indices: 65162446--65162805 Score: 315
Period size: 81 Copynumber: 4.5 Consensus size: 81
65162436 TAGAATTACT
** * * * * **
65162446 GAAATACCCTTGGT-TTCCAAAATTACCAAAATACCCTCGATTAGAAAAAGTACCAAAATACCCC
1 GAAATACCCTT-GTATTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAATACCCC
*
65162510 TAGTTTACT-AAATTA-C
65 TAATTTA-TAAAATTATC
* * * * * * *
65162526 TG-AATATCCC-CG-ATTTGCAAAATTATCGAAATACCCCCAATTTGTAAAATTA-TAAAAATAT
1 -GAAATA-CCCTTGTA-TTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACT-GAAATAC
*
65162587 CCCTGATTTATAAAATTATC
62 CCCTAATTTATAAAATTATC
* *
65162607 GAAATACCATTGTATTGTAGAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAATACCCCT
1 GAAATACCCTTGTATTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAATACCCCT
* *
65162672 AATTTATAACATTACC
66 AATTTATAAAATTATC
* * * * * * *
65162688 GAAATACCCTCG-ATTGGTAAAATTATCAAAATACCCTTG-TAGTGTAGAATTACTGAAAGACCC
1 GAAATACCCTTGTATT-GTAAAATTACCGAAATACCCTCGAT-TTGTAAAATTACTGAAATACCC
*
65162751 CTAATTTGTAAAATTATC
64 CTAATTTATAAAATTATC
*
65162769 GAAATACCCTTGTAGTGTAAAATTACCGAAATACCCT
1 GAAATACCCTTGTATTGTAAAATTACCGAAATACCCT
65162806 TGTAGTGTAA
Statistics
Matches: 225, Mismatches: 41, Indels: 26
0.77 0.14 0.09
Matches are distributed among these distances:
79 2 0.01
80 61 0.27
81 158 0.70
82 4 0.02
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.30
Consensus pattern (81 bp):
GAAATACCCTTGTATTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAATACCCCT
AATTTATAAAATTATC
Found at i:65162721 original size:27 final size:27
Alignment explanation
Indices: 65162439--65162805 Score: 214
Period size: 27 Copynumber: 13.6 Consensus size: 27
65162429 TGTAGGGTAG
* * * **
65162439 AATTACTGAAATACCCTTGGTTTCCAA
1 AATTACCGAAATACCCTCGATTTGTAA
* * *
65162466 AATTACCAAAATACCCTCGATTAGAAA
1 AATTACCGAAATACCCTCGATTTGTAA
* * * *
65162493 AAGTACCAAAATACCC-CTAGTT-TACTA
1 AATTACCGAAATACCCTCGATTTGTA--A
* *
65162520 AATTACTG-AATATCCC-CGATTTGCAA
1 AATTACCGAAATA-CCCTCGATTTGTAA
* * *
65162546 AATTATCGAAATACCCCCAATTTGTAA
1 AATTACCGAAATACCCTCGATTTGTAA
*** *
65162573 AATTATAAAAATATCCCT-GATTTATAA
1 AATTACCGAAATA-CCCTCGATTTGTAA
* * * *
65162600 AATTATCGAAATACCATTG-TATTGTAG
1 AATTACCGAAATACCCTCGAT-TTGTAA
65162627 AATTACCGAAATACCCTCGATTTGTAA
1 AATTACCGAAATACCCTCGATTTGTAA
* * *
65162654 AATTACTGAAATACCC-CTAATTTATAA
1 AATTACCGAAATACCCTC-GATTTGTAA
* *
65162681 CATTACCGAAATACCCTCGATTGGTAA
1 AATTACCGAAATACCCTCGATTTGTAA
* * * * *
65162708 AATTATCAAAATACCCTTG-TAGTGTAG
1 AATTACCGAAATACCCTCGAT-TTGTAA
* * *
65162735 AATTACTGAAAGACCC-CTAATTTGTAA
1 AATTACCGAAATACCCTC-GATTTGTAA
* * *
65162762 AATTATCGAAATACCCTTG-TAGTGTAA
1 AATTACCGAAATACCCTCGAT-TTGTAA
65162789 AATTACCGAAATACCCT
1 AATTACCGAAATACCCT
65162806 TGTAGTGTAA
Statistics
Matches: 257, Mismatches: 66, Indels: 34
0.72 0.18 0.10
Matches are distributed among these distances:
25 1 0.00
26 24 0.09
27 225 0.88
28 7 0.03
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
AATTACCGAAATACCCTCGATTTGTAA
Found at i:65162829 original size:27 final size:27
Alignment explanation
Indices: 65162597--65162847 Score: 111
Period size: 27 Copynumber: 9.3 Consensus size: 27
65162587 CCCTGATTTA
* * * *
65162597 TAAAATTATCGAAATACCATTGTATTG
1 TAAAATGACCGAAATACCCTTGTAGTG
* * * *
65162624 TAGAATTACCGAAATACCCTCG-ATTTG
1 TAAAATGACCGAAATACCCTTGTA-GTG
* * * * *
65162651 TAAAATTACTGAAATACCC--CTAATT
1 TAAAATGACCGAAATACCCTTGTAGTG
* * *
65162676 TATAACATTACCGAAATACCCTCG-ATTGG
1 TA-AA-ATGACCGAAATACCCTTGTAGT-G
* * *
65162705 TAAAATTATCAAAATACCCTTGTAGTG
1 TAAAATGACCGAAATACCCTTGTAGTG
* * * * * * *
65162732 TAGAATTACTGAAAGACCCCT-AATTTG
1 TAAAATGACCGAAATACCCTTGTA-GTG
* *
65162759 TAAAATTATCGAAATACCCTTGTAGTG
1 TAAAATGACCGAAATACCCTTGTAGTG
*
65162786 TAAAATTACCGAAATACCCTTGTAGTG
1 TAAAATGACCGAAATACCCTTGTAGTG
* *
65162813 TAAAATGA-C-AAGCATACCCCTGTAGGG
1 TAAAATGACCGAA--ATACCCTTGTAGTG
65162840 TAAAATGA
1 TAAAATGA
65162848 TTGTTTTGCC
Statistics
Matches: 176, Mismatches: 36, Indels: 24
0.75 0.15 0.10
Matches are distributed among these distances:
25 5 0.03
26 6 0.03
27 156 0.89
28 7 0.04
29 2 0.01
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.30
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCTTGTAGTG
Found at i:65162830 original size:54 final size:52
Alignment explanation
Indices: 65162597--65162845 Score: 207
Period size: 54 Copynumber: 4.6 Consensus size: 52
65162587 CCCTGATTTA
* * * *
65162597 TAAAATTATCGAAATACCATTGTATTGTAGAATTACCGAAATACCCTCGATTTG
1 TAAAATTATC-AAATACCCTTGTAGTGTAAAATTACCGAAATACCCTTGA-TTG
* * * * *
65162651 TAAAATTACTGAAATACCC--CTAATTTATAACATTACCGAAATACCCTCGATTGG
1 TAAAATTA-TCAAATACCCTTGTAGTGTA-AA-ATTACCGAAATACCCTTGATT-G
* * * * *
65162705 TAAAATTATCAAAATACCCTTGTAGTGTAGAATTACTGAAAGACCCCTAATTTG
1 TAAAATTATC-AAATACCCTTGTAGTGTAAAATTACCGAAATACCCTTGA-TTG
*
65162759 TAAAATTATCGAAATACCCTTGTAGTGTAAAATTACCGAAATACCCTTGTAGTG
1 TAAAATTATC-AAATACCCTTGTAGTGTAAAATTACCGAAATACCCTTG-ATTG
* * *
65162813 TAAAATGA-CAAGCATACCCCTGTAGGGTAAAAT
1 TAAAATTATCAA--ATACCCTTGTAGTGTAAAAT
65162846 GATTGTTTTG
Statistics
Matches: 158, Mismatches: 26, Indels: 22
0.77 0.13 0.11
Matches are distributed among these distances:
52 7 0.04
53 5 0.03
54 136 0.86
55 5 0.03
56 5 0.03
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.30
Consensus pattern (52 bp):
TAAAATTATCAAATACCCTTGTAGTGTAAAATTACCGAAATACCCTTGATTG
Found at i:65163128 original size:41 final size:41
Alignment explanation
Indices: 65163082--65163197 Score: 178
Period size: 41 Copynumber: 2.8 Consensus size: 41
65163072 AGGAAGTTTA
65163082 TGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGAT
1 TGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGAT
* *
65163123 TGAGGATCTCATGGTTGCTTGACGATCGTGGATCCACCGAT
1 TGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGAT
* * * *
65163164 TAAGGATCGCATGCTTACATGACGACCGTGGATC
1 TGAGGATCGCATGGTTGCTTGACGACCGTGGATC
65163198 AACCAGTGGC
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 67 1.00
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (41 bp):
TGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGAT
Found at i:65163529 original size:32 final size:32
Alignment explanation
Indices: 65163493--65163553 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 32
65163483 GTGCCGGTTA
* **
65163493 TATTACCGTCACTTATGGCTATGTGCCAAACT
1 TATTACAGTCACCGATGGCTATGTGCCAAACT
* *
65163525 TATTACAGTTACCGATGGCTTTGTGCCAA
1 TATTACAGTCACCGATGGCTATGTGCCAA
65163554 TTATAATACC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 24 1.00
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (32 bp):
TATTACAGTCACCGATGGCTATGTGCCAAACT
Found at i:65166307 original size:27 final size:27
Alignment explanation
Indices: 65166268--65166321 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
65166258 CTCATATCTA
* *
65166268 TAGGCTAGTATTACTAAAATGCCCTTG
1 TAGGCTAGAATTACTAAAATACCCTTG
* *
65166295 TAGGGTAGAATTACTGAAATACCCTTG
1 TAGGCTAGAATTACTAAAATACCCTTG
65166322 GTTTACAAAA
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:0.31, C:0.17, G:0.20, T:0.31
Consensus pattern (27 bp):
TAGGCTAGAATTACTAAAATACCCTTG
Found at i:65166441 original size:27 final size:27
Alignment explanation
Indices: 65166310--65166720 Score: 334
Period size: 27 Copynumber: 15.3 Consensus size: 27
65166300 TAGAATTACT
* * ** *
65166310 GAAATACCCTTGGTTTACAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTATC
* * * *
65166337 AAAATACCCTCGATTAGCAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTATC
* * *
65166364 AAAATACCC-CTAGTTTGCAAAATTA-C
1 GAAATACCCTCGA-TTTGTAAAATTATC
* * * * *
65166390 TAAAATACCCCCTATTTATAAAATTATT
1 -GAAATACCCTCGATTTGTAAAATTATC
* * * *
65166418 GAAATACCCTTG-TAGTGTAGAATTACC
1 GAAATACCCTCGAT-TTGTAAAATTATC
* * *
65166445 GAAATACCCCCAATTTGTAAAATTATA
1 GAAATACCCTCGATTTGTAAAATTATC
65166472 GAAATATCCC-CGATTTGTAAAATTATC
1 GAAATA-CCCTCGATTTGTAAAATTATC
* * *
65166499 GAAATACCCTTG-TAGTGTATAATTATC
1 GAAATACCCTCGAT-TTGTAAAATTATC
**
65166526 GAAATACCCTCGATTTAAAAAATTATC
1 GAAATACCCTCGATTTGTAAAATTATC
* *
65166553 AAAATACCCT-GATTTATAAAATTATC
1 GAAATACCCTCGATTTGTAAAATTATC
*
65166579 GAAATACCCTCGATTTGTAAAATTATA
1 GAAATACCCTCGATTTGTAAAATTATC
* * *
65166606 GAAATACCCTTG-TGGTGTAGAATTATC
1 GAAATACCCTCGAT-TTGTAAAATTATC
*
65166633 GAAATACCCTCGATTTTTAAAATTATC
1 GAAATACCCTCGATTTGTAAAATTATC
* *
65166660 GAAATACCCCCAATTTGTAAAATTATC
1 GAAATACCCTCGATTTGTAAAATTATC
* * *
65166687 AAAATACCCT-TATTGTGTAAAATTACC
1 GAAATACCCTCGATT-TGTAAAATTATC
65166714 GAAATAC
1 GAAATAC
65166721 TCTTGTAGTG
Statistics
Matches: 313, Mismatches: 57, Indels: 28
0.79 0.14 0.07
Matches are distributed among these distances:
26 36 0.12
27 268 0.86
28 9 0.03
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.32
Consensus pattern (27 bp):
GAAATACCCTCGATTTGTAAAATTATC
Found at i:65166611 original size:107 final size:108
Alignment explanation
Indices: 65166446--65166732 Score: 409
Period size: 107 Copynumber: 2.7 Consensus size: 108
65166436 AGAATTACCG
*
65166446 AAATACCCCCAATTTGTAAAATTATAGAAATATCCC-CGATTTGTAAAATTATCGAAATACCCTT
1 AAATACCCCCAATTTGTAAAATTATCGAAATA-CCCTCGATTTGTAAAATTATCGAAATACCCTT
*
65166510 GTAGTGTATAATTATCGAAATACCCTCGATTTAAAAAATTATCA
65 GTAGTGTAGAATTATCGAAATACCCTCGATTTAAAAAATTATCA
** * *
65166554 AAATA-CCCTGATTTATAAAATTATCGAAATACCCTCGATTTGTAAAATTATAGAAATACCCTTG
1 AAATACCCCCAATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTTG
* ** *
65166618 TGGTGTAGAATTATCGAAATACCCTCGATTTTTAAAATTATCG
66 TAGTGTAGAATTATCGAAATACCCTCGATTTAAAAAATTATCA
* * * *
65166661 AAATACCCCCAATTTGTAAAATTATCAAAATACCCT-TATTGTGTAAAATTACCGAAATACTCTT
1 AAATACCCCCAATTTGTAAAATTATCGAAATACCCTCGATT-TGTAAAATTATCGAAATACCCTT
65166725 GTAGTGTA
65 GTAGTGTA
65166733 AAATGATTGG
Statistics
Matches: 157, Mismatches: 19, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
106 3 0.02
107 96 0.61
108 58 0.37
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.33
Consensus pattern (108 bp):
AAATACCCCCAATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTTG
TAGTGTAGAATTATCGAAATACCCTCGATTTAAAAAATTATCA
Found at i:65167157 original size:82 final size:82
Alignment explanation
Indices: 65167000--65167161 Score: 234
Period size: 82 Copynumber: 2.0 Consensus size: 82
65166990 AGAAAGTATA
* * *
65167000 TGAGGATCGCATGGTTGCTGGACGACCGTGGATCCACTGATTGAGGATCGCATGGTTTCTTGACA
1 TGAGGATCGCATGGTTGCTGGACGACCGTGGATCCACCGATTAAGGATCGCATGGTTGCTTGACA
* *
65167065 ACCGTGGATCCACCGAT
66 ACCATAGATCCACCGAT
* * **
65167082 TGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGATTAAGGATTGCATGGTTGCTTGATG
1 TGAGGATCGCATGGTTGCTGGACGACCGTGGATCCACCGATTAAGGATCGCATGGTTGCTTGACA
*
65167147 ACTATAGATCCACCG
66 ACCATAGATCCACCG
65167162 GTGGTTTTTA
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
82 70 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.27
Consensus pattern (82 bp):
TGAGGATCGCATGGTTGCTGGACGACCGTGGATCCACCGATTAAGGATCGCATGGTTGCTTGACA
ACCATAGATCCACCGAT
Found at i:65167161 original size:41 final size:41
Alignment explanation
Indices: 65167000--65167144 Score: 236
Period size: 41 Copynumber: 3.5 Consensus size: 41
65166990 AGAAAGTATA
* *
65167000 TGAGGATCGCATGGTTGCTGGACGACCGTGGATCCACTGAT
1 TGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGAT
* *
65167041 TGAGGATCGCATGGTTTCTTGACAACCGTGGATCCACCGAT
1 TGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGAT
65167082 TGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGAT
1 TGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGAT
* *
65167123 TAAGGATTGCATGGTTGCTTGA
1 TGAGGATCGCATGGTTGCTTGA
65167145 TGACTATAGA
Statistics
Matches: 96, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 96 1.00
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.27
Consensus pattern (41 bp):
TGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGAT
Found at i:65167796 original size:26 final size:27
Alignment explanation
Indices: 65167767--65167826 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
65167757 TAAGGCTAAG
* *
65167767 ATGGGCT-AGACCCAATTGAT-TCTGTT
1 ATGGGCTGAGACCCAAATGATAT-TGTA
*
65167793 ATGGGCTGTGACCCAAATGATATTGTA
1 ATGGGCTGAGACCCAAATGATATTGTA
65167820 ATGGGCT
1 ATGGGCT
65167827 TTGGCCCACG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 7 0.24
27 21 0.72
28 1 0.03
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.32
Consensus pattern (27 bp):
ATGGGCTGAGACCCAAATGATATTGTA
Found at i:65170606 original size:28 final size:28
Alignment explanation
Indices: 65170566--65170630 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
65170556 ATGTACTATT
*
65170566 ATACCCCTATGTATGCAAAATTACCATA
1 ATACCCCTATGTATGCAAAATGACCATA
* *
65170594 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATA
65170622 ATACCCCTA
1 ATACCCCTA
65170631 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.35, C:0.28, G:0.08, T:0.29
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATA
Found at i:65170778 original size:28 final size:27
Alignment explanation
Indices: 65170737--65170826 Score: 110
Period size: 28 Copynumber: 3.2 Consensus size: 27
65170727 AGGAAGCGTC
*
65170737 CTGGTGGCTA-TGCCATAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
65170765 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
65170792 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
65170821 CTGGTG
1 CTGGTG
65170827 ACTCCGTCAC
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
27 23 0.43
28 24 0.44
29 7 0.13
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.33
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:65170795 original size:27 final size:28
Alignment explanation
Indices: 65170737--65170826 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
65170727 AGGAAGCGTC
* *
65170737 CTGGTGGCTA-TGCCATAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* *
65170765 CTGGTGGCCCTGCCAC-ATATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
65170792 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
65170821 CTGGTG
1 CTGGTG
65170827 ACTCCGTCAC
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
27 24 0.45
28 22 0.42
29 7 0.13
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.33
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:65170837 original size:29 final size:28
Alignment explanation
Indices: 65170748--65170837 Score: 76
Period size: 27 Copynumber: 3.2 Consensus size: 28
65170738 TGGTGGCTAT
* * *
65170748 GCCATAAATTATCTGTTCTGGTGGC-CC
1 GCCACAAAATATCTGTTCTGGTGACACC
* * *
65170775 TGCCAC-ATATATCTGTTCTGGTGGCACT
1 -GCCACAAAATATCTGTTCTGGTGACACC
*
65170803 GCCACAAAATATCTGTATCTGGTGACTCC
1 GCCACAAAATATCTGT-TCTGGTGACACC
*
65170832 GTCACA
1 GCCACA
65170838 TTTTCTGTAT
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
27 22 0.44
28 14 0.28
29 14 0.28
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (28 bp):
GCCACAAAATATCTGTTCTGGTGACACC
Found at i:65170845 original size:55 final size:56
Alignment explanation
Indices: 65170737--65170851 Score: 130
Period size: 55 Copynumber: 2.1 Consensus size: 56
65170727 AGGAAGCGTC
* * *
65170737 CTGGTGGCTATGCCATAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* *
65170792 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCC-GTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGAC-CCTGCCACATATATCTGTAT
65170848 CTGG
1 CTGG
65170852 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
54 1 0.02
55 29 0.57
56 19 0.37
57 2 0.04
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:65182225 original size:10 final size:10
Alignment explanation
Indices: 65182210--65182235 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
65182200 GTGATGAATG
65182210 AAATATGGTC
1 AAATATGGTC
65182220 AAATATGGTC
1 AAATATGGTC
65182230 AAATAT
1 AAATAT
65182236 ACATATGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (10 bp):
AAATATGGTC
Found at i:65192328 original size:19 final size:19
Alignment explanation
Indices: 65192300--65192338 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
65192290 CAAGGTAGGC
65192300 AAGAACAAAATTAATTCTA
1 AAGAACAAAATTAATTCTA
*
65192319 AAGAATAAAATTAATTCTA
1 AAGAACAAAATTAATTCTA
65192338 A
1 A
65192339 CCTAAGCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.59, C:0.08, G:0.05, T:0.28
Consensus pattern (19 bp):
AAGAACAAAATTAATTCTA
Found at i:65197051 original size:48 final size:48
Alignment explanation
Indices: 65196954--65197073 Score: 125
Period size: 48 Copynumber: 2.5 Consensus size: 48
65196944 TTTGCCTGTG
* * * * **
65196954 TAAGACCATGTCTAGGACATGGCATTGGCGATGATATGTGTGCTAGTA
1 TAAGACCATGTCTGGGACATGGCATCGGCGATGACATGAGACCTAGTA
* *
65197002 TAAGATCATGTCTGGGACATGGCATCGGC-ACTGACATGAGACCTTGTA
1 TAAGACCATGTCTGGGACATGGCATCGGCGA-TGACATGAGACCTAGTA
* * *
65197050 TAAGACCATATTTGGGATATGGCA
1 TAAGACCATGTCTGGGACATGGCA
65197074 ACGATATGTG
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
47 1 0.02
48 58 0.98
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGGCATCGGCGATGACATGAGACCTAGTA
Found at i:65199225 original size:46 final size:46
Alignment explanation
Indices: 65199150--65199245 Score: 149
Period size: 46 Copynumber: 2.1 Consensus size: 46
65199140 ATTCGGTAAT
* * *
65199150 GCCTCGTACCCTGTTCTGGCCTCGGATACGGGTAAGGGGTGTTACA
1 GCCTCGTACCCTATTCTGGCCTCGAATACGGGTAAGGGGTGGTACA
*
65199196 GCCTCGTACCCTATTCTGGCGTCGAATACGGGTAAGGGGTGGTACA
1 GCCTCGTACCCTATTCTGGCCTCGAATACGGGTAAGGGGTGGTACA
65199242 -CCTC
1 GCCTC
65199246 CACTCGCCAA
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
45 4 0.09
46 42 0.91
ACGTcount: A:0.17, C:0.27, G:0.31, T:0.25
Consensus pattern (46 bp):
GCCTCGTACCCTATTCTGGCCTCGAATACGGGTAAGGGGTGGTACA
Found at i:65205175 original size:27 final size:27
Alignment explanation
Indices: 65205136--65205195 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
65205126 TTTAGATTCT
65205136 TATTTTTATTTTTAAAATTAATTTATA
1 TATTTTTATTTTTAAAATTAATTTATA
**
65205163 TATTATTTA-TTTTAAAATTGTTTTATA
1 TATT-TTTATTTTTAAAATTAATTTATA
65205190 TATTTT
1 TATTTT
65205196 ATGTTAAGCT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 2 0.07
27 24 0.80
28 4 0.13
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (27 bp):
TATTTTTATTTTTAAAATTAATTTATA
Found at i:65205202 original size:25 final size:27
Alignment explanation
Indices: 65205147--65205202 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
65205137 ATTTTTATTT
*
65205147 TTAAAATTAATTTATATATTATTTATT
1 TTAAAATTAATTTATATATTATTTATG
**
65205174 TTAAAATTGTTTTATATA-T-TTTATG
1 TTAAAATTAATTTATATATTATTTATG
65205199 TTAA
1 TTAA
65205203 GCTCTTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 9 0.35
26 1 0.04
27 16 0.62
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.59
Consensus pattern (27 bp):
TTAAAATTAATTTATATATTATTTATG
Found at i:65207152 original size:14 final size:15
Alignment explanation
Indices: 65207130--65207162 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
65207120 AATTTCAGAT
65207130 TTTTATTTCTTT-TC
1 TTTTATTTCTTTCTC
*
65207144 TTTTCTTTCTTTCTC
1 TTTTATTTCTTTCTC
65207159 TTTT
1 TTTT
65207163 GTTGCTCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTATTTCTTTCTC
Found at i:65209573 original size:13 final size:13
Alignment explanation
Indices: 65209555--65209579 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65209545 TGAAGTGGGT
65209555 TTCAAATTTGGAG
1 TTCAAATTTGGAG
65209568 TTCAAATTTGGA
1 TTCAAATTTGGA
65209580 AGATATAATA
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:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (13 bp):
TTCAAATTTGGAG
Found at i:65213146 original size:33 final size:35
Alignment explanation
Indices: 65213109--65213206 Score: 82
Period size: 33 Copynumber: 2.9 Consensus size: 35
65213099 ATGGTTATAT
65213109 TTAAATATTTAAAATATAATTTATATATT-C-TAA
1 TTAAATATTTAAAATATAATTTATATATTACTTAA
* * *
65213142 TTAAA-GTTTATAA-ATAATTAATATTTATTACTTAA
1 TTAAATATTTAAAATATAATT--TATATATTACTTAA
*
65213177 --AAATATTTAAAATTTATATTTCATATATTA
1 TTAAATATTTAAAATATA-ATTT-ATATATTA
65213207 AAATATTAAC
Statistics
Matches: 50, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
31 6 0.12
32 6 0.12
33 15 0.30
34 8 0.16
35 12 0.24
36 3 0.06
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (35 bp):
TTAAATATTTAAAATATAATTTATATATTACTTAA
Found at i:65213196 original size:30 final size:30
Alignment explanation
Indices: 65213157--65213213 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
65213147 GTTTATAAAT
65213157 AATTAATATTT-AT-TACTTAAAAATATTTAA
1 AATTAATATTTCATATA-TT-AAAATATTTAA
*
65213187 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
65213214 AACAACAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 4 0.17
32 2 0.08
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTAA
Found at i:65213415 original size:21 final size:20
Alignment explanation
Indices: 65213364--65213407 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
65213354 CAGTAATGCT
65213364 AAACACTCAAATTTTAAACC
1 AAACACTCAAATTTTAAACC
65213384 AAACACTCAAATTTTAAACC
1 AAACACTCAAATTTTAAACC
65213404 AAAC
1 AAAC
65213408 TTCTCAAAAG
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:0.52, C:0.25, G:0.00, T:0.23
Consensus pattern (20 bp):
AAACACTCAAATTTTAAACC
Found at i:65213424 original size:13 final size:13
Alignment explanation
Indices: 65213406--65213430 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65213396 TTTAAACCAA
65213406 ACTTCTCAAAAGC
1 ACTTCTCAAAAGC
65213419 ACTTCTCAAAAG
1 ACTTCTCAAAAG
65213431 TATTTTTCAA
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:0.40, C:0.28, G:0.08, T:0.24
Consensus pattern (13 bp):
ACTTCTCAAAAGC
Found at i:65218299 original size:27 final size:23
Alignment explanation
Indices: 65218245--65218292 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
65218235 GGGAAAAAAG
*
65218245 AATGATGAAATTGTTTGTGCCAT
1 AATGATGAAATTATTTGTGCCAT
65218268 AATGATGAAATTATTTGTGCCAT
1 AATGATGAAATTATTTGTGCCAT
65218291 AA
1 AA
65218293 AATATGAACG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (23 bp):
AATGATGAAATTATTTGTGCCAT
Found at i:65227742 original size:31 final size:31
Alignment explanation
Indices: 65227684--65227742 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
65227674 AAACCATAAG
* * *
65227684 TAAATAAATAAATAAAAACTATTAAAAAGTT
1 TAAATAAATAAAAAAAAAATATAAAAAAGTT
65227715 TAAATAAATAAAAAATAAAATA-AAAAAA
1 TAAATAAATAAAAAA-AAAATATAAAAAA
65227743 TGAAATAGGC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 19 0.79
32 5 0.21
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.24
Consensus pattern (31 bp):
TAAATAAATAAAAAAAAAATATAAAAAAGTT
Found at i:65227806 original size:3 final size:3
Alignment explanation
Indices: 65227798--65228051 Score: 85
Period size: 3 Copynumber: 83.3 Consensus size: 3
65227788 CAAAATAAGA
* *
65227798 AAT AAT AAT AAT AAT AAT AAT AAAT AATT AATT AAT GAT AAT AAA AAT
1 AAT AAT AAT AAT AAT AAT AAT -AAT AA-T AA-T AAT AAT AAT AAT AAT
** * * * *
65227846 AAT TGT AA- AGAA AAT AA- AGAT AA- AATT AAT AAT GAT ACT AACG AAT
1 AAT AAT AAT A-AT AAT AAT A-AT AAT AA-T AAT AAT AAT AAT AA-T AAT
* * ** * *
65227892 -AT AAGT AAT AAT AGT AA- AAA AAT AAT GGT AAT AAA AAT AAA AAT
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
65227936 AAA AAT AA- AAGT AGT AAT AAT AAC ACGTT AAGT TAT AAT AGT AA- AAT
1 AAT AAT AAT AA-T AAT AAT AAT AAT A--AT AA-T AAT AAT AAT AAT AAT
** * * * *
65227983 AAT AAT AAT AGC GAT AAC AAT AAT -AT ATT AGAT AAT AAT AGT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT
*
65228027 AAT AAT AAT AAT AGT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
65228052 TATTAAATTA
Statistics
Matches: 178, Mismatches: 52, Indels: 42
0.65 0.19 0.15
Matches are distributed among these distances:
2 16 0.09
3 137 0.77
4 24 0.13
5 1 0.01
ACGTcount: A:0.61, C:0.02, G:0.08, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:65227808 original size:36 final size:33
Alignment explanation
Indices: 65227720--65227813 Score: 82
Period size: 35 Copynumber: 2.7 Consensus size: 33
65227710 AAGTTTAAAT
* *
65227720 AAATAAAAAATAAAATAAAAAAATGAAATAGGCA
1 AAAT-AAAAATAAAATAAAAATATGAAATAAGCA
*
65227754 AAA-AAAAATAAGGAAATAAAAATATTAAATGAAGCA
1 AAATAAAAAT-A--AAATAAAAATATGAAAT-AAGCA
*
65227790 AAATAAGAAATAATAATAATAATA
1 AAATAA-AAATAA-AATAAAAATA
65227814 ATAATAAATA
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
32 6 0.12
33 1 0.02
34 3 0.06
35 16 0.33
36 16 0.33
37 3 0.06
38 4 0.08
ACGTcount: A:0.71, C:0.02, G:0.09, T:0.18
Consensus pattern (33 bp):
AAATAAAAATAAAATAAAAATATGAAATAAGCA
Found at i:65227876 original size:69 final size:68
Alignment explanation
Indices: 65227789--65227988 Score: 172
Period size: 69 Copynumber: 2.8 Consensus size: 68
65227779 TAAATGAAGC
* *
65227789 AAAATAAGAAATAATAATAATAATAATAATAAATAATTAATTAAT-GATAATAAAAATAATTGTA
1 AAAATAA-AAATAATAATAATAATAATAAT--ATAAGTAA-TAATAG-TAA-AAAAATAATGGTA
65227853 A-AGAAAATA
60 ATA-AAAATA
* * * * *
65227862 AAGATAAAATTAATAATGATACTAACGAATATAAGTAATAATAGTAAAAAAATAATGGTAATAAA
1 AAAATAAAAATAATAATAATAATAA-TAATATAAGTAATAATAGTAAAAAAATAATGGTAATAAA
65227927 AATA
65 AATA
* * * *
65227931 AAAATAAAAATAA-AAGTAGTAATAATAACACGTTAAGTTATAATAGTAAAATAATAAT
1 AAAATAAAAATAATAA-TAATAATAATAATA---TAAGTAATAATAGTAAAAAAATAAT
65227989 AATAGCGATA
Statistics
Matches: 104, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
68 5 0.05
69 36 0.35
70 8 0.08
71 31 0.30
72 15 0.14
73 9 0.09
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.28
Consensus pattern (68 bp):
AAAATAAAAATAATAATAATAATAATAATATAAGTAATAATAGTAAAAAAATAATGGTAATAAAA
ATA
Found at i:65227987 original size:44 final size:44
Alignment explanation
Indices: 65227939--65228049 Score: 118
Period size: 47 Copynumber: 2.5 Consensus size: 44
65227929 TAAAAATAAA
* *
65227939 AATAA-AAGTAGTAATAATAACACGTTA-AGTTATAATAGTAAAAT
1 AATAATAA-TAGTAATAATAACACATTAGA-TAATAATAGTAAAAT
* * *
65227983 AATAATAATAGCGATAACAATAATATATTAGATAATAATAGTAAAAT
1 AATAATAATA--G-TAATAATAACACATTAGATAATAATAGTAAAAT
65228030 AATAATAATAGTAATAATAA
1 AATAATAATAGTAATAATAA
65228050 TATATTAAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
44 15 0.27
45 3 0.05
46 1 0.02
47 36 0.64
48 1 0.02
ACGTcount: A:0.58, C:0.04, G:0.09, T:0.30
Consensus pattern (44 bp):
AATAATAATAGTAATAATAACACATTAGATAATAATAGTAAAAT
Found at i:65228030 original size:23 final size:23
Alignment explanation
Indices: 65227996--65228057 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 23
65227986 AATAATAGCG
*
65227996 ATAACAATAATATATTAGATAATA
1 ATAATAATAATATATTA-ATAATA
*
65228020 ATAGTAA-AATA-A-TAATAATA
1 ATAATAATAATATATTAATAATA
*
65228040 GTAATAATAATATATTAA
1 ATAATAATAATATATTAA
65228058 ATTAGTTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
20 11 0.35
21 6 0.19
22 2 0.06
23 7 0.23
24 5 0.16
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.34
Consensus pattern (23 bp):
ATAATAATAATATATTAATAATA
Found at i:65228050 original size:44 final size:46
Alignment explanation
Indices: 65227970--65228056 Score: 142
Period size: 47 Copynumber: 1.9 Consensus size: 46
65227960 ACGTTAAGTT
65227970 ATAATAGTAAAATAATAATAATAGCGATAACAATAATATATTAGATA
1 ATAATAGTAAAATAATAATAATA-CGATAACAATAATATATTAGATA
*
65228017 ATAATAGTAAAATAATAATAATA-G-TAATAATAATATATTA
1 ATAATAGTAAAATAATAATAATACGATAACAATAATATATTA
65228057 AATTAGTTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
44 15 0.38
45 1 0.03
47 23 0.59
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.32
Consensus pattern (46 bp):
ATAATAGTAAAATAATAATAATACGATAACAATAATATATTAGATA
Found at i:65229096 original size:18 final size:15
Alignment explanation
Indices: 65229073--65229111 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 15
65229063 TAAAAAGTTG
65229073 TGGGCTAGGGTTTGTGTT
1 TGGGCTA-GGTTT-T-TT
65229091 TGGGCTAGGTTTTTT
1 TGGGCTAGGTTTTTT
65229106 TGGGCT
1 TGGGCT
65229112 TGATTTTGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 8 0.38
16 1 0.05
17 5 0.24
18 7 0.33
ACGTcount: A:0.05, C:0.08, G:0.41, T:0.46
Consensus pattern (15 bp):
TGGGCTAGGTTTTTT
Found at i:65231032 original size:60 final size:59
Alignment explanation
Indices: 65230912--65231048 Score: 143
Period size: 60 Copynumber: 2.3 Consensus size: 59
65230902 CAGTGTTAAC
* * *
65230912 TGGGCCTCAGCCCATATTAATATTAATATGGGCCATAGCCCCTTACAGTATCAGAGTATAT
1 TGGGCCT-AGCCCATATCAATATTAATATAGGCCATAGCCCATTACAG-ATCAGAGTATAT
* * *
65230973 TGGGCCTAGCCCATATCAGTATTAATCTAGGCCGTAGCCCTATTACA-AGTC-GAGATATAT
1 TGGGCCTAGCCCATATCAATATTAATATAGGCCATAGCCC-ATTACAGA-TCAGAG-TATAT
* *
65231033 TGGGCCTTGGCCATAT
1 TGGGCCTAGCCCATAT
65231049 TAACACAGTT
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
59 4 0.06
60 49 0.75
61 12 0.18
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (59 bp):
TGGGCCTAGCCCATATCAATATTAATATAGGCCATAGCCCATTACAGATCAGAGTATAT
Found at i:65235012 original size:89 final size:88
Alignment explanation
Indices: 65234728--65235193 Score: 326
Period size: 89 Copynumber: 5.2 Consensus size: 88
65234718 TCTTAATCTA
* * * *
65234728 CTCCACTACAACTTCAGGGAGATAGGATTAGCTGTCTTCAGTCTGCTCCACTGTAACTTTAGGGA
1 CTCCACTGCAACTTCAGGGAGATAGGATTAGCTTTCTTCAGTCTGCTCCACTGCAACTTCAGGGA
**
65234793 GATAAGACTTGTAGA-TTAATTTG
66 GATAAGACTTGTA-ATTTAACCTG
* * * *
65234816 CTCCACTGCAACTTCAGGGAGATAAGATTTACCATGGTAGAT-TTGA-TCTGAC-CTACTGCAAC
1 CTCCACTGCAACTTCAGGGAGATAGGA-TTAGC-T--T---TCTTCAGTCTG-CTCCACTGCAAC
* * * * *
65234878 TTCAGAGG-TATAGGACTCGTCATTTTAATCTG
58 TTCAG-GGAGATAAGACTTGT-AATTTAACCTG
* *
65234910 CTCCACTGCAACTTCAGGGAGATAGGATTAGCTTTCTTCAGTCTGCTCCGCTGCAACTTTAGGGA
1 CTCCACTGCAACTTCAGGGAGATAGGATTAGCTTTCTTCAGTCTGCTCCACTGCAACTTCAGGGA
65234975 GATAAGACTTGTAATTTCAACCTG
66 GATAAGACTTGTAATTT-AACCTG
* * * * * * *
65234999 CTCCACTGCAACTTCAGAGAGATAAGG--T---TTTCTATGA-TCTGTTCTATTGCAAATTCAGA
1 CTCCACTGCAACTTCAGGGAGAT-AGGATTAGCTTTCT-TCAGTCTGCTCCACTGCAACTTCAGG
65235058 GAGATAAGA-TCTGTAATTTATAGCTTCAATTTG
64 GAGATAAGACT-TGTAATTTA-A-C--C----TG
* * * * * * * *
65235091 TTCCACTGCAACTTTAGGAAAATAAGATTCGCTATCTTCAGTCTGGTCCACTGCAACTTCAGGGA
1 CTCCACTGCAACTTCAGGGAGATAGGATTAGCTTTCTTCAGTCTGCTCCACTGCAACTTCAGGGA
*
65235156 GATAAGACTTGTAATTACAACCTG
66 GATAAGACTTGTAATT-TAACCTG
*
65235180 CTCCACTACAACTT
1 CTCCACTGCAACTT
65235194 TGGAGAGATA
Statistics
Matches: 294, Mismatches: 49, Indels: 69
0.71 0.12 0.17
Matches are distributed among these distances:
84 2 0.01
85 38 0.13
86 3 0.01
87 1 0.00
88 37 0.13
89 70 0.24
90 5 0.02
91 2 0.01
92 21 0.07
93 31 0.11
94 40 0.14
95 4 0.01
96 38 0.13
97 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (88 bp):
CTCCACTGCAACTTCAGGGAGATAGGATTAGCTTTCTTCAGTCTGCTCCACTGCAACTTCAGGGA
GATAAGACTTGTAATTTAACCTG
Found at i:65235023 original size:44 final size:43
Alignment explanation
Indices: 65234769--65235258 Score: 189
Period size: 44 Copynumber: 11.0 Consensus size: 43
65234759 CTGTCTTCAG
* * *
65234769 TCTGCTCCACTGTAACTTTAGGGAGATAAGACTTGTAGA-TTAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTA-ATTTAA
* * * *
65234812 TTTGCTCCACTGCAACTTCAGGGAGATAAGATTTACCATGGTAGATTTGA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAG----A-C-TTGTA-ATTTAA
* * * *
65234862 TCTGAC-CTACTGCAACTTCAGAG-GTATAGGACTCGTCATTTTAA
1 TCTG-CTCCACTGCAACTTCAGAGAG-ATAAGACTTGT-AATTTAA
* * * *
65234906 TCTGCTCCACTGCAACTTCAGGGAGATAGGA-TTAGCT-TTCTTCAG
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACTT-G-TAAT-TT-AA
* * *
65234951 TCTGCTCCGCTGCAACTTTAGGGAGATAAGACTTGTAATTTCAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTAATTT-AA
* * ** * *
65234995 CCTGCTCCACTGCAACTTCAGAGAGATAAG-GTT-TTCTATGA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTAATTTAA
* * * *
65235036 TCTGTTCTATTGCAAATTCAGAGAGATAAGA-TCTGTAATTTATA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACT-TGTAATTTA-A
* * * *
65235080 GCTTCAATTTGTTCCACTGCAACTTTAG-GAAAATAAGA-TTCGCT-ATCTTCAG
1 ---TC----TGCTCCACTGCAACTTCAGAG-AGATAAGACTT-G-TAAT-TT-AA
* * *
65235132 TCTGGTCCACTGCAACTTCAGGGAGATAAGACTTGTAATTACAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTAATT-TAA
* * ** ** *
65235176 CCTGCTCCACTACAACTTTGGAGAGATAAGGTTTGT--TTTGA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTAATTTAA
** *
65235217 TCTGCTTTACTGCGACTTCAGAGAGATAAGA-TCTGTAATTTA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACT-TGTAATTTA
65235259 TAGCTTCAAT
Statistics
Matches: 337, Mismatches: 69, Indels: 82
0.69 0.14 0.17
Matches are distributed among these distances:
40 1 0.00
41 54 0.16
42 6 0.02
43 39 0.12
44 98 0.29
45 62 0.18
46 6 0.02
47 3 0.01
48 1 0.00
49 9 0.03
50 27 0.08
51 27 0.08
52 3 0.01
53 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.33
Consensus pattern (43 bp):
TCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTAATTTAA
Found at i:65235075 original size:85 final size:85
Alignment explanation
Indices: 65234858--65235257 Score: 249
Period size: 89 Copynumber: 4.5 Consensus size: 85
65234848 CATGGTAGAT
** * * * * *
65234858 TTGATCTGACCTACTGCAACTTCAGAG-GTATAGGACTCGTCATTTTAATCTGCTCCACTGCAAC
1 TTGATCTGTTCTACTGCAACTTCAGAGAG-ATAAGACTTGTAATTTCAACCTGCTCCACTGCAAC
* * *
65234922 TTCAGGGAGAT-AGGATTAGCTTTC
65 TTTAGAGAGATAAGG-TT---TATC
* * ** * *
65234946 TTCAGTCTGCTCCGCTGCAACTTTAGGGAGATAAGACTTGTAATTTCAACCTGCTCCACTGCAAC
1 TTGA-TCTGTTCTACTGCAACTTCAGAGAGATAAGACTTGTAATTTCAACCTGCTCCACTGCAAC
*
65235011 TTCAGAGAGATAAGGTTT-TC
65 TTTAGAGAGATAAGGTTTATC
* * *
65235031 TATGATCTGTTCTATTGCAAATTCAGAGAGATAAGA-TCTGTAATTT-ATAGCTTCAATTTGTTC
1 T-TGATCTGTTCTACTGCAACTTCAGAGAGATAAGACT-TGTAATTTCA-A-C--C----TGCTC
* *
65235094 CACTGCAACTTTAG-GAAAATAAGATTCGCTATC
56 CACTGCAACTTTAGAG-AGATAAGGTT---TATC
* * * * * *
65235127 TTCAGTCTGGTCCACTGCAACTTCAGGGAGATAAGACTTGTAATTACAACCTGCTCCACTACAAC
1 TTGA-TCTGTTCTACTGCAACTTCAGAGAGATAAGACTTGTAATTTCAACCTGCTCCACTGCAAC
* * *
65235192 TTTGGAGAGATAAGGTTTGTT
65 TTTAGAGAGATAAGGTTTATC
*
65235213 TTGATCTGCTT-TACTGCGACTTCAGAGAGATAAGA-TCTGTAATTT
1 TTGATCTG-TTCTACTGCAACTTCAGAGAGATAAGACT-TGTAATTT
65235258 ATAGCTTCAA
Statistics
Matches: 243, Mismatches: 45, Indels: 51
0.72 0.13 0.15
Matches are distributed among these distances:
84 3 0.01
85 68 0.28
86 10 0.04
88 4 0.02
89 83 0.34
90 5 0.02
91 1 0.00
92 25 0.10
93 1 0.00
95 4 0.02
96 37 0.15
97 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (85 bp):
TTGATCTGTTCTACTGCAACTTCAGAGAGATAAGACTTGTAATTTCAACCTGCTCCACTGCAACT
TTAGAGAGATAAGGTTTATC
Found at i:65235147 original size:181 final size:181
Alignment explanation
Indices: 65234729--65235340 Score: 622
Period size: 181 Copynumber: 3.4 Consensus size: 181
65234719 CTTAATCTAC
* * * * * *
65234729 TCCACTACAACTTCAGGGAGATAGGATTAGCTGTCTTCAGTCTGCTCCACTGTAACTTTAGGGAG
1 TCCACTGCAACTTCAGGGAAATAAGATTAGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
** * * *
65234794 ATAAGACTTGTAGATT--AATTTGCTCCACTGCAACTTCAGGGAGATAAGATTTACCATGGTAGA
66 ATAAGACTTGTA-ATTACAACCTGCTCCACTACAACTTCAGAGAGATAAG-GTT----T-GT---
* * * * * *
65234857 TTTGATCTGAC-CTACTGCAACTTCAGAG-GTATAGGA-CTCGTCA--T-T---TT-AATCTGC
121 TATGATCTG-CTTTACTGCAAATTCAGAGAG-ATAAGATCT-GTAATTTATAGCTTCAATCTGT
* * * * *
65234911 TCCACTGCAACTTCAGGGAGATAGGATTAGCTTTCTTCAGTCTGCTCCGCTGCAACTTTAGGGAG
1 TCCACTGCAACTTCAGGGAAATAAGATTAGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
* *
65234976 ATAAGACTTGTAATTTCAACCTGCTCCACTGCAACTTCAGAGAGATAAGGTTT-TCTATGATCTG
66 ATAAGACTTGTAATTACAACCTGCTCCACTACAACTTCAGAGAGATAAGGTTTGT-TATGATCTG
* *
65235040 -TTCTATTGCAAATTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATTTGT
130 CTT-TACTGCAAATTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTGT
* * * *
65235092 TCCACTGCAACTTTAGGAAAATAAGATTCGCTATCTTCAGTCTGGTCCACTGCAACTTCAGGGAG
1 TCCACTGCAACTTCAGGGAAATAAGATTAGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
** *
65235157 ATAAGACTTGTAATTACAACCTGCTCCACTACAACTTTGGAGAGATAAGGTTTGTTTTGATCTGC
66 ATAAGACTTGTAATTACAACCTGCTCCACTACAACTTCAGAGAGATAAGGTTTGTTATGATCTGC
* *
65235222 TTTACTGCGACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTGT
131 TTTACTGCAAATTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTGT
* * * * **
65235273 TCCACTGTAACTTCAGGGAAATAAGATTTGCTATCTTCAATCTGTTTTACTGCAACTTCAGGGAG
1 TCCACTGCAACTTCAGGGAAATAAGATTAGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
65235338 ATA
66 ATA
65235341 GGATCTACAA
Statistics
Matches: 372, Mismatches: 43, Indels: 31
0.83 0.10 0.07
Matches are distributed among these distances:
174 30 0.08
175 3 0.01
176 2 0.01
177 1 0.00
178 1 0.00
180 2 0.01
181 226 0.61
182 78 0.21
183 29 0.08
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (181 bp):
TCCACTGCAACTTCAGGGAAATAAGATTAGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
ATAAGACTTGTAATTACAACCTGCTCCACTACAACTTCAGAGAGATAAGGTTTGTTATGATCTGC
TTTACTGCAAATTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTGT
Found at i:65235161 original size:45 final size:44
Alignment explanation
Indices: 65234718--65235340 Score: 242
Period size: 45 Copynumber: 13.8 Consensus size: 44
65234708 ACACTTTTCG
* * * * *
65234718 TCTT-AATCTACTCCACTACAACTTCAGGGAGATAGGATTAGCTG
1 TCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCG-TA
* * *
65234762 TCTTCAGTCTGCTCCACTGTAACTTTAGGGAGATAAGACTT-GTA
1 TCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTCGTA
** *
65234806 GATT-AATTTGCTCCACTGCAACTTCAGGGAGATAAGATTTACCATGGTA
1 TCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TT--C---GTA
** ** * * * *
65234855 GATTTGATCTGAC-CTACTGCAACTTCAGAGG-TATAGGACTCGTCA
1 TCTTCAATCTG-CTCCACTGCAACTTCAG-GGAGATAAGATTCGT-A
* * * *
65234900 T-TTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTAGCTT
1 TCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCG-TA
* * *
65234944 TCTTCAGTCTGCTCCGCTGCAACTTTAGGGAGATAAGACTT-GTAA
1 TCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTCGT-A
* * *
65234989 T-TTCAACCTGCTCCACTGCAACTTCAGAGAGATAAGGTT--T-
1 TCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGTA
* * * * * *
65235029 TCTAT-GATCTGTTCTATTGCAAATTCAGAGAGATAAGA-TCTGTAATTTA
1 TCT-TCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTC-G-----TA
* * * * *
65235078 TAGCTTCAATTTGTTCCACTGCAACTTTAGGAAAATAAGATTCGCTA
1 T--CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCG-TA
* *
65235125 TCTTCAGTCTGGTCCACTGCAACTTCAGGGAGATAAGACTT-GTAA
1 TCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTCGT-A
* * * * * *
65235170 T-TACAACCTGCTCCACTACAACTT-TGGAGAGATAAGGTTTGT-
1 TCTTCAATCTGCTCCACTGCAACTTCAGG-GAGATAAGATTCGTA
* ** * *
65235212 T-TT-GATCTGCTTTACTGCGACTTCAGAGAGATAAGA-TCTGTAATTTA
1 TCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTC-G-----TA
* * * *
65235259 TAGCTTCAATCTGTTCCACTGTAACTTCAGGGAAATAAGATTTGCTA
1 T--CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCG-TA
* **
65235306 TCTTCAATCTGTTTTACTGCAACTTCAGGGAGATA
1 TCTTCAATCTGCTCCACTGCAACTTCAGGGAGATA
65235341 GGATCTACAA
Statistics
Matches: 435, Mismatches: 94, Indels: 99
0.69 0.15 0.16
Matches are distributed among these distances:
40 3 0.01
41 50 0.11
42 5 0.01
43 40 0.09
44 100 0.23
45 127 0.29
46 7 0.02
47 8 0.02
48 1 0.00
49 9 0.02
50 26 0.06
51 56 0.13
52 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (44 bp):
TCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGTA
Found at i:65235169 original size:96 final size:95
Alignment explanation
Indices: 65235046--65235346 Score: 302
Period size: 96 Copynumber: 3.3 Consensus size: 95
65235036 TCTGTTCTAT
* *
65235046 TGCAAATTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATTTGTTCCACTGCAACTTTAGGAA
1 TGCAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTGCAACTTTAGGAA
* * **
65235111 AATAAGATTCGCTATCTTCAGTCTGGTCCAC
66 AATAAGATTTGCTATCTTCA-TCTGCTTTAC
* * * *
65235142 TGCAACTTCAGGGAGATAAGA-CTTGTAA--T-TA----CAACCTGCTCCACTACAACTTT-GGA
1 TGCAACTTCAGAGAGATAAGATC-TGTAATTTATAGCTTCAATCTGTTCCACTGCAACTTTAGGA
* * *
65235198 GAGATAAGGTTTG-T-T-TTGATCTGCTTTAC
65 -AAATAAGATTTGCTATCTTCATCTGCTTTAC
* * * *
65235227 TGCGACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTGTAACTTCAGGGA
1 TGCAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTGCAACTTTAGGAA
*
65235292 AATAAGATTTGCTATCTTCAATCTGTTTTAC
66 AATAAGATTTGCTATCTTC-ATCTGCTTTAC
* *
65235323 TGCAACTTCAGGGAGATAGGATCT
1 TGCAACTTCAGAGAGATAAGATCT
65235347 ACAATTTTTA
Statistics
Matches: 162, Mismatches: 28, Indels: 30
0.74 0.13 0.14
Matches are distributed among these distances:
85 31 0.19
86 4 0.02
87 2 0.01
88 6 0.04
89 27 0.17
92 27 0.17
93 5 0.03
94 2 0.01
95 3 0.02
96 55 0.34
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.34
Consensus pattern (95 bp):
TGCAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTGCAACTTTAGGAA
AATAAGATTTGCTATCTTCATCTGCTTTAC
Found at i:65235387 original size:44 final size:44
Alignment explanation
Indices: 65235332--65235518 Score: 141
Period size: 44 Copynumber: 4.3 Consensus size: 44
65235322 CTGCAACTTC
65235332 AGGGAGATAGGATCTACAATTTTTAGCCTACTCCACTACTGCTT
1 AGGGAGATAGGATCTACAATTTTTAGCCTACTCCACTACTGCTT
* * * ** *
65235376 AGGGAGATAGGATGGTGGC----TTAAATCTGCTCCACTACTGCTT
1 AGGGAGATAGGAT-CT-ACAATTTTTAGCCTACTCCACTACTGCTT
* * * * * * * * *
65235418 AGGGAGACAAGATTTTCCATCTTCTA-TCTGCTCCACTACTGCCT
1 AGGGAGATAGGATCTACAAT-TTTTAGCCTACTCCACTACTGCTT
* * * *
65235462 AGGGAGACAAGATCTACAATTTTCAGCTTACTCCACTACTGCTT
1 AGGGAGATAGGATCTACAATTTTTAGCCTACTCCACTACTGCTT
65235506 AGGGAGATAGGAT
1 AGGGAGATAGGAT
65235519 GGTGGCTTAA
Statistics
Matches: 111, Mismatches: 24, Indels: 16
0.74 0.16 0.11
Matches are distributed among these distances:
40 1 0.01
41 1 0.01
42 30 0.27
43 3 0.03
44 72 0.65
45 3 0.03
46 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (44 bp):
AGGGAGATAGGATCTACAATTTTTAGCCTACTCCACTACTGCTT
Found at i:65235501 original size:130 final size:130
Alignment explanation
Indices: 65235332--65235738 Score: 519
Period size: 130 Copynumber: 3.1 Consensus size: 130
65235322 CTGCAACTTC
* * * *
65235332 AGGGAGATAGGATCTACAATTTTTAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTT
1 AGGGAGACAAGATCTACAATTTTCAGCTTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTT
* *
65235397 AAATCTGCTCCACTACTGCTTAGGGAGACAAGATTTTCCATCTTCTATCTGCTCCACTACTGCCT
66 AAATCTGCTCCACTACTGCTTAGGGAGACAAGATTTGCCATCTTCTATCTGCTCCACTACTGCTT
65235462 AGGGAGACAAGATCTACAATTTTCAGCTTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTT
1 AGGGAGACAAGATCTACAATTTTCAGCTTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTT
* *
65235527 AAATCTGCTCCACTACTGCTTAGGGAGACAAGATTTGCCATCTTCGATCTGCTCCACTACTGTTT
66 AAATCTGCTCCACTACTGCTTAGGGAGACAAGATTTGCCATCTTCTATCTGCTCCACTACTGCTT
* * * * * * ** * *
65235592 AGGGAGACAATATCTACAATATCCAGCTTGCTCCACTGCTGCTCAATGAGATAAGACTAGTGGCT
1 AGGGAGACAAGATCTACAATTTTCAGCTTACTCCACTACTGCTTAGGGAGATAGGA-TGGTGGCT
* * * * * * * * *
65235657 TAAATCTGCTTCTCTACTACCTCAGGAAGATAAGATTCGCCGTCTT-TGATCTGTTCCACTACTG
65 TAAATCTGCTCCACTACT-GCTTAGGGAGACAAGATTTGCCATCTTCT-ATCTGCTCCACTACTG
65235721 CTT
128 CTT
* *
65235724 ATGGAGATAAGATCT
1 AGGGAGACAAGATCT
65235739 GTGAATTCAC
Statistics
Matches: 242, Mismatches: 32, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
130 169 0.70
131 23 0.10
132 50 0.21
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.30
Consensus pattern (130 bp):
AGGGAGACAAGATCTACAATTTTCAGCTTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTT
AAATCTGCTCCACTACTGCTTAGGGAGACAAGATTTGCCATCTTCTATCTGCTCCACTACTGCTT
Found at i:65235594 original size:44 final size:43
Alignment explanation
Indices: 65235399--65235601 Score: 221
Period size: 44 Copynumber: 4.7 Consensus size: 43
65235389 GGTGGCTTAA
*
65235399 ATCTGCTCCACTACTGCTTAGGGAGACAAGATTTTCCATCTTC
1 ATCTGCTCCACTACTGCTTAGGGAGACAAGATTTGCCATCTTC
* * * * *
65235442 TATCTGCTCCACTACTGCCTAGGGAGACAAGATCTACAATTTTC
1 -ATCTGCTCCACTACTGCTTAGGGAGACAAGATTTGCCATCTTC
* * * * * * **
65235486 AGCTTACTCCACTACTGCTTAGGGAGATAGGATGGTGGC-T-TAA
1 ATC-TGCTCCACTACTGCTTAGGGAGACAAGAT-TTGCCATCTTC
65235529 ATCTGCTCCACTACTGCTTAGGGAGACAAGATTTGCCATCTTC
1 ATCTGCTCCACTACTGCTTAGGGAGACAAGATTTGCCATCTTC
*
65235572 GATCTGCTCCACTACTGTTTAGGGAGACAA
1 -ATCTGCTCCACTACTGCTTAGGGAGACAA
65235602 TATCTACAAT
Statistics
Matches: 129, Mismatches: 25, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
41 3 0.02
42 27 0.21
43 6 0.05
44 92 0.71
45 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (43 bp):
ATCTGCTCCACTACTGCTTAGGGAGACAAGATTTGCCATCTTC
Found at i:65235624 original size:44 final size:44
Alignment explanation
Indices: 65235399--65235634 Score: 160
Period size: 44 Copynumber: 5.4 Consensus size: 44
65235389 GGTGGCTTAA
* * * * * *
65235399 ATCTGCTCCACTACTGCTTAGGGAGACAAGATTTTCCATCTTCT
1 ATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATATCCG
* * *
65235443 ATCTGCTCCACTACTGCCTAGGGAGACAAGATCTACAATTTTC-
1 ATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATATCCG
* * * * * * **
65235486 AGCTTACTCCACTACTGCTTAGGGAGATAGGATGGTGGC--T-T-AA
1 ATC-TGCTCCACTACTGCTTAGGGAGACAAGAT-CT-ACAATATCCG
* * * * *
65235529 ATCTGCTCCACTACTGCTTAGGGAGACAAGATTTGCCATCTTCG
1 ATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATATCCG
* *
65235573 ATCTGCTCCACTACTGTTTAGGGAGACAATATCTACAATATCC-
1 ATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATATCCG
* *
65235616 AGCTTGCTCCACTGCTGCT
1 ATC-TGCTCCACTACTGCT
65235635 CAATGAGATA
Statistics
Matches: 153, Mismatches: 30, Indels: 18
0.76 0.15 0.09
Matches are distributed among these distances:
40 2 0.01
41 1 0.01
42 27 0.18
43 8 0.05
44 113 0.74
45 1 0.01
46 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (44 bp):
ATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATATCCG
Found at i:65242734 original size:31 final size:31
Alignment explanation
Indices: 65242676--65242734 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
65242666 AAACCATAAG
* * *
65242676 TAAATAAATAAATAAAAACTATTAAAAAGTT
1 TAAATAAATAAAAAAAAAATATAAAAAAGTT
65242707 TAAATAAATAAAAAATAAAATA-AAAAAA
1 TAAATAAATAAAAAA-AAAATATAAAAAA
65242735 TGAAATAGGC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 19 0.79
32 5 0.21
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.24
Consensus pattern (31 bp):
TAAATAAATAAAAAAAAAATATAAAAAAGTT
Found at i:65242798 original size:3 final size:3
Alignment explanation
Indices: 65242790--65242946 Score: 78
Period size: 3 Copynumber: 52.3 Consensus size: 3
65242780 CAAAATAAGA
* * * *
65242790 AAT AAT AAT AAT AAT AAAT ACTT AAT GAT AAT AAA AAT AAT AGT AA-
1 AAT AAT AAT AAT AAT -AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
65242836 AGAA AAT AA- AGAT AA- AATT AAT AAT GAT ACT AACG AAT -AT AAGT
1 A-AT AAT AAT A-AT AAT AA-T AAT AAT AAT AAT AA-T AAT AAT AA-T
* * *
65242880 AAT AAT AGT AA- AA- AAT AAT AAT -AT ATT AGAT AAT AAT ATT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT
*
65242922 AAT AAT AAT AAT AGT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
65242947 TATTAAATTA
Statistics
Matches: 116, Mismatches: 23, Indels: 30
0.69 0.14 0.18
Matches are distributed among these distances:
2 14 0.12
3 86 0.74
4 16 0.14
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:65242925 original size:23 final size:23
Alignment explanation
Indices: 65242893--65242952 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 23
65242883 AATAGTAAAA
65242893 AATAATAATATATTAGATAATAAT
1 AATAATAATATATTA-ATAATAAT
* *
65242917 ATTAA-AATA-A-TAATAATAGT
1 AATAATAATATATTAATAATAAT
65242937 AATAATAATATATTAA
1 AATAATAATATATTAA
65242953 ATTAGTTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
20 11 0.37
21 6 0.20
22 2 0.07
23 7 0.23
24 4 0.13
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (23 bp):
AATAATAATATATTAATAATAAT
Found at i:65246452 original size:2 final size:2
Alignment explanation
Indices: 65246445--65246470 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
65246435 TTTTCTTAAG
65246445 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
65246471 GTCGATCACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:65248650 original size:19 final size:19
Alignment explanation
Indices: 65248628--65248671 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
65248618 AAAATTTTAC
65248628 TTTT-TCTGAAAAATATAAT
1 TTTTATCTGAAAAATAT-AT
* *
65248647 TTTTATTTGAAAATTATAT
1 TTTTATCTGAAAAATATAT
65248666 TTTTAT
1 TTTTAT
65248672 TGTTAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (19 bp):
TTTTATCTGAAAAATATAT
Found at i:65248672 original size:19 final size:20
Alignment explanation
Indices: 65248634--65248672 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
65248624 TTACTTTTTC
65248634 TGAAAAATATAATTTTTATT
1 TGAAAAATATAATTTTTATT
*
65248654 TGAAAATTAT-ATTTTTATT
1 TGAAAAATATAATTTTTATT
65248673 GTTAAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (20 bp):
TGAAAAATATAATTTTTATT
Found at i:65251029 original size:2 final size:2
Alignment explanation
Indices: 65251024--65251071 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
65251014 TTTTTATAAC
65251024 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
65251066 TA TA TA
1 TA TA TA
65251072 AGAGTAAAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:65251674 original size:3 final size:3
Alignment explanation
Indices: 65251666--65251700 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
65251656 AGTAAAATTA
65251666 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
65251701 ATTTTCTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:65251829 original size:33 final size:30
Alignment explanation
Indices: 65251763--65251832 Score: 79
Period size: 33 Copynumber: 2.2 Consensus size: 30
65251753 TTATTACCAC
* *
65251763 TATTATTTTCTATTTTATTTAATTATTGGT
1 TATTATTTTCTATTTTAATTAATTATTGAT
65251793 TATTATTTTCATATTATTAGATTAATT-TTGTAT
1 TATTATTTTC-TATT-TTA-ATTAATTATTG-AT
65251826 TATTATT
1 TATTATT
65251833 ACTATTATTG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
30 10 0.29
31 4 0.12
32 6 0.18
33 14 0.41
ACGTcount: A:0.27, C:0.03, G:0.06, T:0.64
Consensus pattern (30 bp):
TATTATTTTCTATTTTAATTAATTATTGAT
Found at i:65262705 original size:37 final size:37
Alignment explanation
Indices: 65262652--65262773 Score: 226
Period size: 37 Copynumber: 3.3 Consensus size: 37
65262642 TTATTACGAA
*
65262652 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
65262689 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
65262726 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
*
65262763 GTCTCACCCGG
1 GTCTTACCCGG
65262774 AACATTTTCC
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 83 1.00
ACGTcount: A:0.21, C:0.34, G:0.20, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
Found at i:65262930 original size:49 final size:49
Alignment explanation
Indices: 65262875--65263093 Score: 363
Period size: 49 Copynumber: 4.5 Consensus size: 49
65262865 TTTTACATTA
65262875 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
*
65262924 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
*
65262973 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATC-
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
* *
65263021 GCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATTG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
* *
65263068 GCCATTCGGCCTTATCACACATATAT
1 GCCATTAGGCCTTATCACATATATAT
65263094 GTATATCATA
Statistics
Matches: 162, Mismatches: 5, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
46 25 0.15
47 17 0.10
48 18 0.11
49 102 0.63
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.31
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
Found at i:65267253 original size:46 final size:46
Alignment explanation
Indices: 65267203--65267378 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
65267193 TGGTTGAGCA
65267203 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
65267249 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
65267294 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
65267342 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
65267379 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 64 0.59
47 28 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:65267359 original size:93 final size:93
Alignment explanation
Indices: 65267200--65267371 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
65267190 GGATGGTTGA
* *
65267200 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
65267265 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
65267293 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
65267358 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
65267372 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:65271524 original size:40 final size:40
Alignment explanation
Indices: 65271441--65271630 Score: 217
Period size: 40 Copynumber: 4.8 Consensus size: 40
65271431 ACCCAAGTAT
** * *
65271441 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
65271479 CTTCGGCTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
65271519 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
65271559 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAAGGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* *
65271599 CTTCGGATCTTAGTCCGGATATAGTCACTAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGC
65271631 CTTCGGGACT
Statistics
Matches: 128, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
37 1 0.01
38 10 0.08
39 16 0.12
40 100 0.78
41 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:65274161 original size:44 final size:46
Alignment explanation
Indices: 65274098--65274214 Score: 141
Period size: 44 Copynumber: 2.6 Consensus size: 46
65274088 CATCATGGCG
* * * * *
65274098 AGTCTTATCTCTCTAAAGTTGCAGTGGAGTAGATTAAAGCCA-C-A
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGACAGCGA
*
65274142 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCGA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGACAGCGA
* *
65274188 A-TCTCATTTCCCTGAAGTTGCAGTGGA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGA
65274215 ACAAGATTAA
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
44 36 0.57
45 25 0.40
46 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (46 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGACAGCGA
Found at i:65274371 original size:44 final size:44
Alignment explanation
Indices: 65274286--65274396 Score: 132
Period size: 44 Copynumber: 2.5 Consensus size: 44
65274276 ATCTACCATA
* ** * *
65274286 ACAAGTCTTATCTCCCTGAAGTTGTAGTGAAGCAGACTAAAATT
1 ACAAGTCTTATCTCCCTAAAGTTACAGCGAAGCAGACTAAAACT
* * * *
65274330 ACAAATCTTATATCCCTAAAGTTACAGCGAAGTAGATTAAAACT
1 ACAAGTCTTATCTCCCTAAAGTTACAGCGAAGCAGACTAAAACT
*
65274374 ACAAGTCTTATCTCTCTAAAGTT
1 ACAAGTCTTATCTCCCTAAAGTT
65274397 GCAGTGGAGT
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
44 55 1.00
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.31
Consensus pattern (44 bp):
ACAAGTCTTATCTCCCTAAAGTTACAGCGAAGCAGACTAAAACT
Found at i:65275748 original size:3 final size:3
Alignment explanation
Indices: 65275740--65275832 Score: 73
Period size: 3 Copynumber: 30.7 Consensus size: 3
65275730 TAATTAATTA
** * *
65275740 ATT ATT ATT A-T ATT AAC A-T ATC ATT ATT ATT CTT ATT AATGT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -AT-T ATT
* * **
65275785 ATT ATT ACT ATTT ATT TTT ATT ACC ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
65275831 AT
1 AT
65275833 ATTTTCTTTT
Statistics
Matches: 70, Mismatches: 15, Indels: 10
0.74 0.16 0.11
Matches are distributed among these distances:
2 3 0.04
3 60 0.86
4 6 0.09
5 1 0.01
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:65275936 original size:72 final size:71
Alignment explanation
Indices: 65275815--65275947 Score: 187
Period size: 72 Copynumber: 1.9 Consensus size: 71
65275805 TTACCATTAT
* * *
65275815 TATTATTATTATTATTATATTTTCTTTTTGTATTTATTTATACGTTATTATTATT-ATATTAACT
1 TATTATTATTATGACTATATTTTCTTTTTGTATTTACTTATACGTTATTATT-TTCATATTAACT
65275879 AATTTAA
65 AATTTAA
* **
65275886 TATTATTATTATGACTATTATTTTCTTTTTTTATTTACTTATTGGTTATTATTTTCATATTA
1 TATTATTATTATGACTA-TATTTTCTTTTTGTATTTACTTATACGTTATTATTTTCATATTA
65275948 TTAGATTAAT
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
71 17 0.31
72 37 0.69
ACGTcount: A:0.28, C:0.05, G:0.04, T:0.63
Consensus pattern (71 bp):
TATTATTATTATGACTATATTTTCTTTTTGTATTTACTTATACGTTATTATTTTCATATTAACTA
ATTTAA
Found at i:65280846 original size:52 final size:52
Alignment explanation
Indices: 65280758--65280916 Score: 273
Period size: 52 Copynumber: 3.1 Consensus size: 52
65280748 GAACCCAATT
65280758 ACATGTATCGCATCCATTATGAACTTGGACAAACTCAACGAGCTCGGATGCC
1 ACATGTATCGCATCCATTATGAACTTGGACAAACTCAACGAGCTCGGATGCC
* **
65280810 ACATGTATCGCATCCATTATGAACTTAGACCGACTCAACGAGCTCGGATGCC
1 ACATGTATCGCATCCATTATGAACTTGGACAAACTCAACGAGCTCGGATGCC
* *
65280862 ACATGTATCGCATCCATTATGAACTCGGACTAACTCAACGAGCTCGGATGCC
1 ACATGTATCGCATCCATTATGAACTTGGACAAACTCAACGAGCTCGGATGCC
65280914 ACA
1 ACA
65280917 AACAATCATG
Statistics
Matches: 100, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 100 1.00
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (52 bp):
ACATGTATCGCATCCATTATGAACTTGGACAAACTCAACGAGCTCGGATGCC
Found at i:65281315 original size:24 final size:24
Alignment explanation
Indices: 65281282--65281327 Score: 60
Period size: 23 Copynumber: 1.9 Consensus size: 24
65281272 TCATGTTTTT
65281282 CTTGATTTA-TAATGCCAAAATTTAA
1 CTTGATTTATTAAT--CAAAATTTAA
65281307 CTTG-TTTATTAATCAAAATTT
1 CTTGATTTATTAATCAAAATTT
65281328 TCAAGTCAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 8 0.40
24 4 0.20
25 8 0.40
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.46
Consensus pattern (24 bp):
CTTGATTTATTAATCAAAATTTAA
Found at i:65287215 original size:2 final size:2
Alignment explanation
Indices: 65287208--65287237 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
65287198 AAAAGATTCT
65287208 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
65287238 CATGTACAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:65293291 original size:24 final size:24
Alignment explanation
Indices: 65293240--65293427 Score: 287
Period size: 24 Copynumber: 8.0 Consensus size: 24
65293230 GCTTTATCAT
*
65293240 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
65293265 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
65293289 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
65293312 ATAACTGGGGCATAAGCCC-TTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
65293334 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
65293358 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
65293382 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
65293405 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
65293428 GCACTTCCTC
Statistics
Matches: 155, Mismatches: 4, Indels: 9
0.92 0.02 0.05
Matches are distributed among these distances:
22 19 0.12
23 51 0.33
24 73 0.47
25 12 0.08
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:65293365 original size:93 final size:94
Alignment explanation
Indices: 65293239--65293426 Score: 317
Period size: 93 Copynumber: 2.0 Consensus size: 94
65293229 TGCTTTATCA
*
65293239 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAA
65293304 GCCCTTTAATAACTGGGGCATAAGCCCTT
66 GCCCTTTAATAACTGGGGCATAAGCCCTT
* * *
65293333 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATA
65293396 AGCCCTTTAATAACTGGGGCATAAGCCCTT
65 AGCCCTTTAATAACTGGGGCATAAGCCCTT
65293426 T
1 T
65293427 TGCACTTCCT
Statistics
Matches: 89, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
93 76 0.85
94 13 0.15
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (94 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAA
GCCCTTTAATAACTGGGGCATAAGCCCTT
Found at i:65293499 original size:9 final size:9
Alignment explanation
Indices: 65293485--65293541 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
65293475 ATCTCATGTG
65293485 CATATCATA
1 CATATCATA
*
65293494 CATATCATGTG
1 CATATCA--TA
65293505 CATATCATA
1 CATATCATA
* *
65293514 CATGTCATGTG
1 CATATCA--TA
65293525 CATATCATA
1 CATATCATA
65293534 CATATCAT
1 CATATCAT
65293542 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:65293501 original size:20 final size:20
Alignment explanation
Indices: 65293473--65293543 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
65293463 GCATTTATGA
*
65293473 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
65293493 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
65293513 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
65293533 ACATATCATGT
1 ACATATCATGT
65293544 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:65293508 original size:11 final size:11
Alignment explanation
Indices: 65293478--65293532 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
65293468 TATGAACATC
65293478 TCATGTGCATA
1 TCATGTGCATA
*
65293489 TCA--TACATA
1 TCATGTGCATA
65293498 TCATGTGCATA
1 TCATGTGCATA
* *
65293509 TCA--TACATG
1 TCATGTGCATA
65293518 TCATGTGCATA
1 TCATGTGCATA
65293529 TCAT
1 TCAT
65293533 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:65298507 original size:40 final size:40
Alignment explanation
Indices: 65298462--65298591 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
65298452 CGGAATACAA
65298462 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
65298502 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
65298542 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
65298582 CCGGATATAA
1 CCGGATATAA
65298592 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:65298606 original size:40 final size:40
Alignment explanation
Indices: 65298462--65298625 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
65298452 CGGAATACAA
* **
65298462 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
65298502 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
65298542 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
65298582 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
65298622 CCGG
1 CCGG
65298626 TATCATTCAA
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:65304677 original size:24 final size:24
Alignment explanation
Indices: 65304626--65304812 Score: 278
Period size: 24 Copynumber: 8.0 Consensus size: 24
65304616 GCTTTATCAT
*
65304626 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
65304651 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
65304675 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
65304698 ATAACTGGGGCATAAGCCC-TTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
65304720 ATAACT-GGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
65304743 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
65304767 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
65304790 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
65304813 GCACTTCCTC
Statistics
Matches: 153, Mismatches: 4, Indels: 11
0.91 0.02 0.07
Matches are distributed among these distances:
21 12 0.08
22 9 0.06
23 54 0.35
24 66 0.43
25 12 0.08
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:65304802 original size:92 final size:93
Alignment explanation
Indices: 65304640--65304811 Score: 310
Period size: 92 Copynumber: 1.9 Consensus size: 93
65304630 CTGGAGGCCT
65304640 AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTG
1 AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTG
65304705 GGGCATAAGCCCTTTATAACTGGGCATA
66 GGGCATAAGCCCTTTATAACTGGGCATA
* * *
65304733 AGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTG
1 AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTG
65304797 GGGCATAAGCCCTTT
66 GGGCATAAGCCCTTT
65304812 TGCACTTCCT
Statistics
Matches: 76, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 72 0.95
93 4 0.05
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (93 bp):
AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTG
GGGCATAAGCCCTTTATAACTGGGCATA
Found at i:65304884 original size:9 final size:9
Alignment explanation
Indices: 65304870--65304926 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
65304860 ATCTCATGTG
65304870 CATATCATA
1 CATATCATA
*
65304879 CATATCATGTG
1 CATATCA--TA
65304890 CATATCATA
1 CATATCATA
* *
65304899 CATGTCATGTG
1 CATATCA--TA
65304910 CATATCATA
1 CATATCATA
65304919 CATATCAT
1 CATATCAT
65304927 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:65304886 original size:20 final size:20
Alignment explanation
Indices: 65304858--65304928 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
65304848 GCATTTATGA
*
65304858 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
65304878 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
65304898 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
65304918 ACATATCATGT
1 ACATATCATGT
65304929 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:65304893 original size:11 final size:11
Alignment explanation
Indices: 65304863--65304917 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
65304853 TATGAACATC
65304863 TCATGTGCATA
1 TCATGTGCATA
*
65304874 TCA--TACATA
1 TCATGTGCATA
65304883 TCATGTGCATA
1 TCATGTGCATA
* *
65304894 TCA--TACATG
1 TCATGTGCATA
65304903 TCATGTGCATA
1 TCATGTGCATA
65304914 TCAT
1 TCAT
65304918 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:65320343 original size:40 final size:40
Alignment explanation
Indices: 65320279--65320462 Score: 264
Period size: 40 Copynumber: 4.6 Consensus size: 40
65320269 CTGCTCGCTC
* *
65320279 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
* *
65320319 AATGCCTTCGAGACTTAGCTCGGATATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
*
65320359 AATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
* *
65320399 AATGCCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGTGCA-A
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACA
65320440 AATGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
65320463 TTATCATCCA
Statistics
Matches: 131, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 1 0.01
40 103 0.79
41 24 0.18
42 3 0.02
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.22
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
Found at i:65326904 original size:2 final size:2
Alignment explanation
Indices: 65326899--65326927 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
65326889 ATATACAGGA
65326899 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
65326928 AACCTTTACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:65333135 original size:143 final size:143
Alignment explanation
Indices: 65332927--65333221 Score: 581
Period size: 143 Copynumber: 2.1 Consensus size: 143
65332917 TGAGTTAAAT
*
65332927 TTCGGCCATGCATGTTGTTTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
1 TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
65332992 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
66 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
65333057 GTGTGCATGAGTA
131 GTGTGCATGAGTA
65333070 TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
1 TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
65333135 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
66 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
65333200 GTGTGCATGAGTA
131 GTGTGCATGAGTA
65333213 TTCGGCCAT
1 TTCGGCCAT
65333222 ATGGGGTATA
Statistics
Matches: 151, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
143 151 1.00
ACGTcount: A:0.21, C:0.10, G:0.29, T:0.39
Consensus pattern (143 bp):
TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
GTGTGCATGAGTA
Found at i:65333737 original size:29 final size:29
Alignment explanation
Indices: 65333704--65333814 Score: 152
Period size: 29 Copynumber: 3.9 Consensus size: 29
65333694 GTGACGAGAT
*
65333704 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
65333733 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* *
65333762 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* * *
65333791 T-ACACTATGTGTGCAAGCTGGAAA
1 TGGCACTAAGTGTGCATGCTGGAAA
65333815 AATACGCACT
Statistics
Matches: 75, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
28 20 0.27
29 55 0.73
ACGTcount: A:0.32, C:0.14, G:0.29, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:65333830 original size:28 final size:28
Alignment explanation
Indices: 65333765--65333837 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 28
65333755 AAATATAAGG
* * *
65333765 CACTAAGTGTGCATGCTGGAAAAATATA
1 CACTAGGTGTGCAAGCTGGAAAAATACA
* *
65333793 CACTATGTGTGCAAGCTGGAAAAATACG
1 CACTAGGTGTGCAAGCTGGAAAAATACA
* *
65333821 CACTGGGTGTGCGAGCT
1 CACTAGGTGTGCAAGCT
65333838 CGAAGGGTAT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.23
Consensus pattern (28 bp):
CACTAGGTGTGCAAGCTGGAAAAATACA
Found at i:65341517 original size:29 final size:29
Alignment explanation
Indices: 65341484--65341614 Score: 165
Period size: 29 Copynumber: 4.6 Consensus size: 29
65341474 GTGACGAGAT
*
65341484 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
65341513 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* *
65341542 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* * **
65341571 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* *
65341600 CGGCACT-GGTGTGCG
1 TGGCACTAAGTGTGCG
65341615 AGCTCGAAGG
Statistics
Matches: 91, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
28 6 0.07
29 85 0.93
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:65343758 original size:39 final size:39
Alignment explanation
Indices: 65343704--65343856 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
65343694 GAATGTTCGA
*
65343704 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
65343743 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
65343782 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
65343821 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
65343857 GGTTACCATA
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:65343872 original size:40 final size:39
Alignment explanation
Indices: 65343705--65343886 Score: 247
Period size: 39 Copynumber: 4.6 Consensus size: 39
65343695 AATGTTCGAG
* *
65343705 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
65343744 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
65343783 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
65343822 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
65343862 CCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGG
65343887 TGTTTTGAAC
Statistics
Matches: 128, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 88 0.69
40 40 0.31
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:65351654 original size:140 final size:137
Alignment explanation
Indices: 65351471--65351756 Score: 461
Period size: 140 Copynumber: 2.1 Consensus size: 137
65351461 TGAGTTAAAT
*
65351471 TTCGGCCATGCATGTTGTTTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGC-ATGGAGA
1 TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCTATGGAGA
*
65351535 TGAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTGTTATGTGTGT
66 TGAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTG-CATT--GTTCTTGT-TAATGTGTGT
65351600 -GTGCATGAGTA
127 GGTG-ATGAGTA
*
65351611 TTCGGCCATGCATGTTGTCTTCCTTGTTGA-TGTTTTGAATGTTGTTGTGATGAAAGCTATGGAG
1 TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTG-ATGTTGTTGTGATGAAAGCTATGGAG
*
65351675 ATGAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCATTGTTGTTGTTAATGTGTGTGGT
65 ATGAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCATTGTTCTTGTTAATGTGTGTGGT
65351740 GATGAGTA
130 GATGAGTA
65351748 TTCGGCCAT
1 TTCGGCCAT
65351757 ATGGGGTATA
Statistics
Matches: 139, Mismatches: 4, Indels: 9
0.91 0.03 0.06
Matches are distributed among these distances:
137 25 0.18
138 10 0.07
139 7 0.05
140 51 0.37
141 46 0.33
ACGTcount: A:0.22, C:0.09, G:0.29, T:0.40
Consensus pattern (137 bp):
TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCTATGGAGA
TGAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCATTGTTCTTGTTAATGTGTGTGGTG
ATGAGTA
Found at i:65352271 original size:29 final size:29
Alignment explanation
Indices: 65352238--65352367 Score: 156
Period size: 29 Copynumber: 4.6 Consensus size: 29
65352228 GTGACGAGAT
*
65352238 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
65352267 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* *
65352296 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* * **
65352325 T-ACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* *
65352353 CGGCACT-GGTGTGCG
1 TGGCACTAAGTGTGCG
65352368 AGCTCGAAGG
Statistics
Matches: 89, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
28 30 0.34
29 59 0.66
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:65352309 original size:58 final size:57
Alignment explanation
Indices: 65352239--65352367 Score: 161
Period size: 57 Copynumber: 2.3 Consensus size: 57
65352229 TGACGAGATT
* * ** *
65352239 GGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT-ACACTAAGTGTGCAAGCTGGAAAAATAA
* * *
65352297 GGCACTAAGTGTGCATGCTGGAAAAATATACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAAAATATACACTAAGTGTGCAAGCTGGAAAAATAA
*
65352354 GGCACT-GGTGTGCG
1 GGCACTAAGTGTGCG
65352368 AGCTCGAAGG
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
56 6 0.10
57 28 0.46
58 27 0.44
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.24
Consensus pattern (57 bp):
GGCACTAAGTGTGCGTGCTGGAAAAATATACACTAAGTGTGCAAGCTGGAAAAATAA
Found at i:65353249 original size:16 final size:19
Alignment explanation
Indices: 65353213--65353250 Score: 55
Period size: 16 Copynumber: 2.2 Consensus size: 19
65353203 AAAAATCCAA
65353213 AAATAGTAGAAGTAGAATT
1 AAATAGTAGAAGTAGAATT
65353232 AAATAGT-G-AGTA-AATT
1 AAATAGTAGAAGTAGAATT
65353248 AAA
1 AAA
65353251 ATTGAACCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.37
17 4 0.21
18 1 0.05
19 7 0.37
ACGTcount: A:0.55, C:0.00, G:0.18, T:0.26
Consensus pattern (19 bp):
AAATAGTAGAAGTAGAATT
Found at i:65354506 original size:39 final size:39
Alignment explanation
Indices: 65354452--65354604 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
65354442 GAATGTTCGA
*
65354452 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
65354491 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
65354530 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
65354569 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
65354605 GGTTACCATA
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:65354620 original size:40 final size:39
Alignment explanation
Indices: 65354453--65354634 Score: 247
Period size: 39 Copynumber: 4.6 Consensus size: 39
65354443 AATGTTCGAG
* *
65354453 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
65354492 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
65354531 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
65354570 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
65354610 CCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGG
65354635 TGTTTTGAAC
Statistics
Matches: 128, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 88 0.69
40 40 0.31
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:65363327 original size:39 final size:39
Alignment explanation
Indices: 65363273--65363425 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
65363263 GAATGTTCGA
*
65363273 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
65363312 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
65363351 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
65363390 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
65363426 GGTTACCATA
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:65363441 original size:40 final size:39
Alignment explanation
Indices: 65363274--65363455 Score: 247
Period size: 39 Copynumber: 4.6 Consensus size: 39
65363264 AATGTTCGAG
* *
65363274 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
65363313 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
65363352 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
65363391 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
65363431 CCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGG
65363456 TGTTTTGAAC
Statistics
Matches: 128, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 88 0.69
40 40 0.31
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:65371447 original size:77 final size:79
Alignment explanation
Indices: 65371352--65371502 Score: 261
Period size: 77 Copynumber: 1.9 Consensus size: 79
65371342 AATGTTCGAG
65371352 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATAT-CGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGTCCCGAAGGC
65371415 AATTGTGCGAGCTA
66 AATTGTGCGAGCTA
* *
65371429 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGTCCCGAAGGC
*
65371494 ATTTGTGCG
66 AATTGTGCG
65371503 GGTTACCATA
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
77 44 0.64
78 8 0.12
79 17 0.25
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGCTA
Found at i:65371451 original size:39 final size:39
Alignment explanation
Indices: 65371351--65371502 Score: 243
Period size: 39 Copynumber: 3.9 Consensus size: 39
65371341 GAATGTTCGA
*
65371351 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
65371390 GTGATAT-CGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
65371428 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
65371467 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
65371503 GGTTACCATA
Statistics
Matches: 104, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
38 35 0.34
39 52 0.50
40 17 0.16
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:65371518 original size:40 final size:39
Alignment explanation
Indices: 65371352--65371532 Score: 238
Period size: 39 Copynumber: 4.6 Consensus size: 39
65371342 AATGTTCGAG
* *
65371352 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
65371391 TGATAT-CGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
65371429 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
65371468 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
65371508 CCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGG
65371533 TGTTTTGAAC
Statistics
Matches: 126, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
38 35 0.28
39 51 0.40
40 40 0.32
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:65380362 original size:25 final size:25
Alignment explanation
Indices: 65380332--65380380 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
65380322 ATTTTCTTCA
* *
65380332 AAATTTTAATTTTATTTAATTATTT
1 AAATTTTAAATTTATTGAATTATTT
65380357 AAATTTTAAATTTATTGAATTATT
1 AAATTTTAAATTTATTGAATTATT
65380381 AATAGTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (25 bp):
AAATTTTAAATTTATTGAATTATTT
Found at i:65380389 original size:25 final size:25
Alignment explanation
Indices: 65380336--65380389 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
65380326 TCTTCAAAAT
* * *
65380336 TTTAATTTTATTTAATTATTTAAAT
1 TTTAAATTTATTGAATTATTTAAAG
65380361 TTTAAATTTATTGAATTA-TTAATAG
1 TTTAAATTTATTGAATTATTTAA-AG
65380386 TTTA
1 TTTA
65380390 TATTAATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 4 0.16
25 21 0.84
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (25 bp):
TTTAAATTTATTGAATTATTTAAAG
Found at i:65383734 original size:46 final size:46
Alignment explanation
Indices: 65383666--65383933 Score: 226
Period size: 46 Copynumber: 5.8 Consensus size: 46
65383656 TGTAACCCGC
* *
65383666 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGTGTTCGCAT
* * * * *
65383712 CCATAAGTGAACTCGGATTCAACTCAACGAGTTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGTG-TTCGCAT
* * * ** * *
65383758 ACATTTCA-TGAACTCGGACTCAACTCAACGAGTTCAGACGTGCGTAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGTGTTCGCAT
*
65383805 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G--T-GTTCGCAT
* * * *
65383855 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTC-AGTCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGT-GTTCGCAT
*
65383898 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
65383934 ATGCCCAAAT
Statistics
Matches: 173, Mismatches: 34, Indels: 29
0.73 0.14 0.12
Matches are distributed among these distances:
42 3 0.02
43 3 0.02
44 2 0.01
45 4 0.02
46 92 0.53
47 60 0.35
48 4 0.02
49 1 0.01
50 2 0.01
51 2 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGTGTTCGCAT
Found at i:65383781 original size:47 final size:46
Alignment explanation
Indices: 65383719--65383885 Score: 214
Period size: 47 Copynumber: 3.6 Consensus size: 46
65383709 CATCCATAAG
*
65383719 TGAACTCGGATTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCA
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACA-TTCA
* * * *
65383766 TGAACTCGGACTCAACTCAACGAGTTCAGACGTGCGTA--TCCA-TAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA--TGCCTAGTTACATTCA
65383811 GTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCA
1 -TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-TCA
*
65383859 CGAACTCGGACTCAACTCAACGAGTTC
1 TGAACTCGGACTCAACTCAACGAGTTC
65383886 AGTCATTCGC
Statistics
Matches: 103, Mismatches: 10, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
44 5 0.05
45 2 0.02
46 32 0.31
47 57 0.55
48 2 0.02
49 5 0.05
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.25
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTCA
Found at i:65383786 original size:93 final size:92
Alignment explanation
Indices: 65383673--65383938 Score: 406
Period size: 93 Copynumber: 2.9 Consensus size: 92
65383663 CGCCCATAAG
* *
65383673 CGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGATTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTC-GGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
65383738 ACGAGTTCGGATGCCTAGTTACATTTCA
65 ACGAGTTCGGATGCCTAGTTACATCTCA
* ** * *
65383766 TGAACTCGGACTCAACTCAACGAGTTCAGACGTGCGTATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTC-GGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
65383831 ACGAGTTCGGATGCCTAGTTACATCTCA
65 ACGAGTTCGGATGCCTAGTTACATCTCA
* * *
65383859 CGAACTCGGACTCAACTCAACGAGTTCAGTCATTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGT-GTTCGCATCCATAAGTGAACTCGGACTCAACTCA
65383924 ACGAGTTCGGATGCC
65 ACGAGTTCGGATGCC
65383939 CAAATATCCG
Statistics
Matches: 155, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
93 155 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCA
Done.