Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, whole genome shotgun sequence
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: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 49 of 125
Found at i:9791761 original size:681 final size:664
Alignment explanation
Indices: 9790423--9791795 Score: 1708
Period size: 693 Copynumber: 2.0 Consensus size: 664
9790413 AAAAAAACTA
* * *
9790423 AATTGATTATATTTATGGTTTTATTATTGATTTTAAATCACTCTCAATTCAAGTCATATTAAAAT
1 AATTGACTATATTTATAGTTTTATTATTGACTTTAAATCACTCTCAATTCAAGTCATATTAAAAT
**
9790488 TTTAAAATTTTAAAAATTTCTCAATTTGACAAATTAAATCAATCAATATATAATTAATAAATTAA
66 AGTAAAATTTTAAAAATTTCTCAATTTGACAAATTAAATCAATCAATATATAATTAATAAATTAA
* * * *
9790553 TAAATACTATAATTACAATTATAAAATAGTTGATTCTTTAATTAATTATTTGATACATTTATATT
131 TAAATACTACAATTACAATTATAAAATAATTGATTCTCTAATCAATTATTTGATACATTTATATT
* * *
9790618 TGATTAGATATAGTATCCATTTGAGTAATTGATGTATTTCATGATGTATGTAAATATATAAAGCT
196 TGATTAAATATAGTATCCAATTGAGTAATTGATGTATTTCA--ATG-ATGTAAATATAAAAAGCT
* **
9790683 AATATATGAAACTAATTCTCCATAATTAAATTAATGGAATAAAATATTTTATAAATTTATATTTG
258 AATATATCAAACTAATTCTCCATAATTAAATTAATAAAATAAAATATTTTATAAATTTATATTTG
*
9790748 ATTGATACATTTATATTTCATTAAATATGATTTCATTTGATAAAATATTAATCCATGTTGATTTC
323 ATTGATACATTTATATTTCATTAAATATGATTTCATTTGATAAAATACTAATCCATGTTGATTTC
* * ** **
9790813 ATTTGTAACATTTTATAATTTTATTATTTAATATTAATGTAAGTTGATTTAATTAAAATTTAATT
388 ATTTGTAAAATTTAATAATTGGATTATTTAATATTAATGTAAGTT-ATTTAATTAAAATCGAATT
* * * *
9790878 TGTTTTATTGTCATTATTAAATATAATAAATTTAATTTGTTTTATTGTCCTTATTAAATATAATA
452 AG--TTAATGTCATCATTAAATATAATAAATTTAATTTGTTTTATTGTCCTTATTAAATACAATA
* *
9790943 AATTTAATTTGTTTTATTATTCTAAATTAAGATCTCTAAATGTTAATAGCAGAATAAAATATTTC
515 AATTTAATTTGTTTTATTATTCTAAATTAAGATCTCTAAATATCAATAGCAGAATAAAATATTTC
* * * * * *
9791008 AATGTCAATCAACTTGCTATTGTTATACCATTATTGACTCATAATTTTTATTATTTCAATTTTAA
580 AATATCAATCAACTTGCCATTGTTAGACAATTATTCACTCACAA-TTTTATTATTT-AA--TT--
9791073 ATTTCATAATTTAAAATAATCTTATT
639 ATTTCATAATTTAAAATAATCTTATT
* * *
9791099 AATTGACTATATTTTTATTTTTATTATTGACTTTAAATCACTCTCAATTCAATTCATATTAAAAG
1 AATTGACTATATTTATAGTTTTATTATTGACTTTAAATCACTCTCAATTCAAGTCATATTAAAA-
*
9791164 TAGTAAAATTTTAAAAATTTCTTAATTTGACAAATTAAATCAATCAATATATAATTAATTAATAA
65 TAGTAAAATTTTAAAAATTTCTCAATTTGACAAATTAAATCAATCAATATATAATTAA-T-A-AA
9791229 TTTAATAAATACTACAATTACAATTATAAAATAATTGATTCTCTAATCAATTATTTGATACATTT
127 -TTAATAAATACTACAATTACAATTATAAAATAATTGATTCTCTAATCAATTATTTGATACATTT
9791294 ATATTTGATTAAATATAGTATCCAATTGAGTAATTGATGTATTTC-ATG-TGTAAATATAAAAAG
191 ATATTTGATTAAATATAGTATCCAATTGAGTAATTGATGTATTTCAATGATGTAAATATAAAAAG
* *
9791357 -TAAATATATCAAATTAATTCTCCATAATT-AATTAATAAAATAAAATATTTTATTAATTTATAT
256 CT-AATATATCAAACTAATTCTCCATAATTAAATTAATAAAATAAAATATTTTATAAATTTATAT
*
9791420 TTGATTGATAGATTTATATTTCATTAAATATGATTTCATTTGATTTCATTAGGTAAAATACTAAT
320 TTGATTGATACATTTATATTTCATTAAATATGATTTCATTTG--------A--TAAAATACTAAT
* * * * *
9791485 GCATGTTTGGTTTCATTTGATAAAATATTAATGCACTTGGATTTCATTTGAT-TTCATTTGTAAT
375 CCATG-TTGATTTCATTTG-TAAAAT-TTAAT--AATTGGA-TT-ATTTAATATT-A-ATGTAA-
*
9791549 GTT-TTATAATTTTAAAATCGAGA-TAG-TAATG-CA-CATT-AATTTAATTAGAATTTAATTTG
430 GTTATT-TAA--TTAAAATCGA-ATTAGTTAATGTCATCATTAAATATAA-TA-AATTTAATTTG
* * *
9791608 TTTTATTG-CCATTATTAGATACAATAAATTTAATTTGTTTTATTATTTTTAATTAAAGGATCTC
489 TTTTATTGTCC-TTATTAAATACAATAAATTTAATTTGTTTTATTATTCTAAATT-AA-GATCTC
* *
9791672 TAAATATCAATAGTAGAATAAAATATTTCAATATCAATTAACTTGCCATTGTTAGACAATTATTC
551 TAAATATCAATAGCAGAATAAAATATTTCAATATCAATCAACTTGCCATTGTTAGACAATTATTC
*
9791737 ACTCACAATTTTTATTATTTTCATATTAACTTTCATAATTTAAAATTATCTTATT
616 ACTCACAA-TTTTATTA-TTT-A-ATT-A-TTTCATAATTTAAAATAATCTTATT
9791792 AATT
1 AATT
9791796 AACCTACAAC
Statistics
Matches: 606, Mismatches: 53, Indels: 59
0.84 0.07 0.08
Matches are distributed among these distances:
675 73 0.12
676 97 0.16
677 55 0.09
678 4 0.01
679 1 0.00
680 2 0.00
681 103 0.17
683 1 0.00
685 15 0.02
686 12 0.02
687 5 0.01
688 4 0.01
689 6 0.01
690 11 0.02
691 64 0.11
692 17 0.03
693 116 0.19
694 8 0.01
695 11 0.02
696 1 0.00
ACGTcount: A:0.39, C:0.08, G:0.07, T:0.46
Consensus pattern (664 bp):
AATTGACTATATTTATAGTTTTATTATTGACTTTAAATCACTCTCAATTCAAGTCATATTAAAAT
AGTAAAATTTTAAAAATTTCTCAATTTGACAAATTAAATCAATCAATATATAATTAATAAATTAA
TAAATACTACAATTACAATTATAAAATAATTGATTCTCTAATCAATTATTTGATACATTTATATT
TGATTAAATATAGTATCCAATTGAGTAATTGATGTATTTCAATGATGTAAATATAAAAAGCTAAT
ATATCAAACTAATTCTCCATAATTAAATTAATAAAATAAAATATTTTATAAATTTATATTTGATT
GATACATTTATATTTCATTAAATATGATTTCATTTGATAAAATACTAATCCATGTTGATTTCATT
TGTAAAATTTAATAATTGGATTATTTAATATTAATGTAAGTTATTTAATTAAAATCGAATTAGTT
AATGTCATCATTAAATATAATAAATTTAATTTGTTTTATTGTCCTTATTAAATACAATAAATTTA
ATTTGTTTTATTATTCTAAATTAAGATCTCTAAATATCAATAGCAGAATAAAATATTTCAATATC
AATCAACTTGCCATTGTTAGACAATTATTCACTCACAATTTTATTATTTAATTATTTCATAATTT
AAAATAATCTTATT
Found at i:9793608 original size:15 final size:14
Alignment explanation
Indices: 9793588--9793631 Score: 61
Period size: 15 Copynumber: 3.0 Consensus size: 14
9793578 ATAATATTAA
9793588 AATTTATTTATTTAT
1 AATTTA-TTATTTAT
*
9793603 AATTTATTATATACT
1 AATTTATTATTTA-T
9793618 AATTTATTATTTAT
1 AATTTATTATTTAT
9793632 TAGTCTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
14 7 0.27
15 19 0.73
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (14 bp):
AATTTATTATTTAT
Found at i:9793622 original size:30 final size:31
Alignment explanation
Indices: 9793585--9793666 Score: 98
Period size: 30 Copynumber: 2.7 Consensus size: 31
9793575 TATATAATAT
*
9793585 TAAAATTTATTTATTTA-TAATTTATTATA-
1 TAAAATTTATTTATTTATTAATCTATTATAG
* *
9793614 TACTAATTTA-TTATTTATTAGTCTATTATAG
1 TA-AAATTTATTTATTTATTAATCTATTATAG
9793645 TAAAATTTATTTATTATATTAA
1 TAAAATTTATTTATT-TATTAA
9793667 ATTAAATAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
29 9 0.21
30 22 0.51
31 7 0.16
32 5 0.12
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.56
Consensus pattern (31 bp):
TAAAATTTATTTATTTATTAATCTATTATAG
Found at i:9793698 original size:31 final size:29
Alignment explanation
Indices: 9793645--9793711 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 29
9793635 TCTATTATAG
* *
9793645 TAAAATTTATTTATTATATTAAATTAAATAA
1 TAAAA-TTATTTATTATATTAAA-CAAAAAA
* *
9793676 TAAAATTATTTCTTAATTTTAAACAAAAAA
1 TAAAATTATTTATT-ATATTAAACAAAAAA
9793706 TAAAAT
1 TAAAAT
9793712 AAAATAATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
30 19 0.61
31 12 0.39
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (29 bp):
TAAAATTATTTATTATATTAAACAAAAAA
Found at i:9795642 original size:7 final size:7
Alignment explanation
Indices: 9795615--9795653 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
9795605 AGCAAATTAG
9795615 AATTTATA
1 AATTTA-A
*
9795623 AAGTTAA
1 AATTTAA
*
9795630 ATTTTAA
1 AATTTAA
9795637 AATTTAA
1 AATTTAA
9795644 AATTTAA
1 AATTTAA
9795651 AAT
1 AAT
9795654 CTACATTTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
7 22 0.81
8 5 0.19
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (7 bp):
AATTTAA
Found at i:9797795 original size:61 final size:60
Alignment explanation
Indices: 9797699--9797967 Score: 310
Period size: 61 Copynumber: 4.5 Consensus size: 60
9797689 TGCTTTTATA
* *
9797699 CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATACCCCTTTTTGAAATTTTTATTTT
1 CAAG-AAAATTGATACTTTCAACTTTTCCTCAAAAATACTCCTTTTTGAAATTTTTATTTT
* * ** *
9797760 CAAGAAAAGTTGATACTTTCAACTTTTCCTTAAAAATTCTTTTTTTTGAAAATTTTATTTT
1 CAAGAAAA-TTGATACTTTCAACTTTTCCTCAAAAATACTCCTTTTTGAAATTTTTATTTT
* * * *
9797821 CAAGGAAAATTGATACTTTCAATTTTTTCTCAAAAAT-TTCCTTTTTAAAATTTTTATTTT
1 CAA-GAAAATTGATACTTTCAACTTTTCCTCAAAAATACTCCTTTTTGAAATTTTTATTTT
* * *
9797881 CAAGAAAAATTGATACTTTCAACTTCTCCTCGAAAATA--CCTTTTTGAAATCTTTATTTTT
1 CAAG-AAAATTGATACTTTCAACTTTTCCTCAAAAATACTCCTTTTTGAAATTTTTA-TTTT
* * * *
9797941 TAGGAAAATTGATACTTTTAATTTTTC
1 CAAGAAAATTGATACTTTCAACTTTTC
9797968 TTTAAACTAT
Statistics
Matches: 177, Mismatches: 26, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
59 36 0.20
60 59 0.33
61 77 0.44
62 5 0.03
ACGTcount: A:0.33, C:0.14, G:0.06, T:0.46
Consensus pattern (60 bp):
CAAGAAAATTGATACTTTCAACTTTTCCTCAAAAATACTCCTTTTTGAAATTTTTATTTT
Found at i:9797925 original size:121 final size:120
Alignment explanation
Indices: 9797699--9797966 Score: 369
Period size: 121 Copynumber: 2.2 Consensus size: 120
9797689 TGCTTTTATA
* * *
9797699 CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATACCCCTTTTTGAAATTTTTATTTTCAAG
1 CAAGGAAAATTGATACTTTCAATTTTTTCTCAAAAATACCCCTTTTTAAAATTTTTATTTTCAAG
* * * * *
9797764 AAAAGTTGATACTTTCAACTTTTCCTTAAAAATTCTTTTTTTTGAAAAT-TTTATTTT
66 AAAAATTGATACTTTCAACTTCTCCTCAAAAATAC--CTTTTTG-AAATCTTTATTTT
**
9797821 CAAGGAAAATTGATACTTTCAATTTTTTCTCAAAAAT-TTCCTTTTTAAAATTTTTATTTTCAAG
1 CAAGGAAAATTGATACTTTCAATTTTTTCTCAAAAATACCCCTTTTTAAAATTTTTATTTTCAAG
*
9797885 AAAAATTGATACTTTCAACTTCTCCTCGAAAATACCTTTTTGAAATCTTTATTTT
66 AAAAATTGATACTTTCAACTTCTCCTCAAAAATACCTTTTTGAAATCTTTATTTT
** *
9797940 TTAGGAAAATTGATACTTTTAATTTTT
1 CAAGGAAAATTGATACTTTCAATTTTT
9797967 CTTTAAACTA
Statistics
Matches: 131, Mismatches: 14, Indels: 5
0.87 0.09 0.03
Matches are distributed among these distances:
118 4 0.03
119 38 0.29
121 54 0.41
122 35 0.27
ACGTcount: A:0.34, C:0.13, G:0.06, T:0.47
Consensus pattern (120 bp):
CAAGGAAAATTGATACTTTCAATTTTTTCTCAAAAATACCCCTTTTTAAAATTTTTATTTTCAAG
AAAAATTGATACTTTCAACTTCTCCTCAAAAATACCTTTTTGAAATCTTTATTTT
Found at i:9800371 original size:85 final size:86
Alignment explanation
Indices: 9800219--9800491 Score: 313
Period size: 85 Copynumber: 3.2 Consensus size: 86
9800209 AGAAGTTTGA
** * * * *
9800219 AAAACAAAATGATTTAGACTGATCCG-AAGTTTGAAATGAATAACTTGGACTAAGAT-AAAAAAG
1 AAAACAAAATGACCTAGACTAAACCGAAAGTTTGAAATGAATAACTTGGACTAAGCTGAAGAAA-
9800282 GATTTGACAGAAGTCGAAATCT
65 GATTTGACAGAAGTCGAAATCT
* * *
9800304 AAAACAAAATAACCTAGACTAAACC-AAAGTCTGAAATGAATAACTTAGACTAAGCTGAAGAAAG
1 AAAACAAAATGACCTAGACTAAACCGAAAGTTTGAAATGAATAACTTGGACTAAGCTGAAGAAAG
* * *
9800368 ATTTGGA-AAAAGTTGAAATCC
66 ATTT-GACAGAAGTCGAAATCT
* * * * * *
9800389 AAAACAAAATGACTTGGATTGAACCGAAA-TTTGAAATGAATAACTTGGACTAAGCCGAAGAAGG
1 AAAACAAAATGACCTAGACTAAACCGAAAGTTTGAAATGAATAACTTGGACTAAGCTGAAGAAAG
* *
9800453 ATTTAACAGAAGTCAAAATCT
66 ATTTGACAGAAGTCGAAATCT
9800474 AAAACAAAATGACCTAGA
1 AAAACAAAATGACCTAGA
9800492 TGGAATCAAA
Statistics
Matches: 155, Mismatches: 28, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
84 1 0.01
85 144 0.93
86 10 0.06
ACGTcount: A:0.48, C:0.13, G:0.17, T:0.22
Consensus pattern (86 bp):
AAAACAAAATGACCTAGACTAAACCGAAAGTTTGAAATGAATAACTTGGACTAAGCTGAAGAAAG
ATTTGACAGAAGTCGAAATCT
Found at i:9800810 original size:17 final size:17
Alignment explanation
Indices: 9800790--9800864 Score: 53
Period size: 17 Copynumber: 4.4 Consensus size: 17
9800780 GTTTCACAAA
*
9800790 ATTTGGAGATTTGTAAG
1 ATTTGGAGATTTATAAG
** *
9800807 ATTTTCATATTTATAAG
1 ATTTGGAGATTTATAAG
* * *
9800824 AATTAGAGATTTACAAG
1 ATTTGGAGATTTATAAG
* *
9800841 ACTTTTG-GATTTGTAAG
1 A-TTTGGAGATTTATAAG
9800858 ATTTGGA
1 ATTTGGA
9800865 TTGAAAATTC
Statistics
Matches: 42, Mismatches: 14, Indels: 4
0.70 0.23 0.07
Matches are distributed among these distances:
16 4 0.10
17 35 0.83
18 3 0.07
ACGTcount: A:0.33, C:0.04, G:0.20, T:0.43
Consensus pattern (17 bp):
ATTTGGAGATTTATAAG
Found at i:9800814 original size:51 final size:51
Alignment explanation
Indices: 9800759--9800861 Score: 120
Period size: 51 Copynumber: 2.0 Consensus size: 51
9800749 TCACAAAATC
* *
9800759 TTCATATTCGCAAGATTTAGAG-TTTCACAA-AATTTGGAGATTTGTAAGATT
1 TTCATATTCACAAGAATTAGAGATTT-ACAAGAATTTGG-GATTTGTAAGATT
* * * *
9800810 TTCATATTTATAAGAATTAGAGATTTACAAGACTTTTGGATTTGTAAGATT
1 TTCATATTCACAAGAATTAGAGATTTACAAGAATTTGGGATTTGTAAGATT
9800861 T
1 T
9800862 GGATTGAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
51 36 0.82
52 8 0.18
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.42
Consensus pattern (51 bp):
TTCATATTCACAAGAATTAGAGATTTACAAGAATTTGGGATTTGTAAGATT
Found at i:9800942 original size:17 final size:17
Alignment explanation
Indices: 9800931--9800963 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
9800921 TATTCGCAAG
9800931 AATTAGAGATTCACAAA
1 AATTAGAGATTCACAAA
9800948 AATTAGAGATTCACAA
1 AATTAGAGATTCACAA
9800964 TATTTTTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.24
Consensus pattern (17 bp):
AATTAGAGATTCACAAA
Found at i:9802224 original size:20 final size:20
Alignment explanation
Indices: 9802199--9802236 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
9802189 AATTTGAGTT
*
9802199 TTCTTTTTCCTCTTTTTTTA
1 TTCTTTTTCCACTTTTTTTA
*
9802219 TTCTTTTTTCACTTTTTT
1 TTCTTTTTCCACTTTTTT
9802237 AATTTTTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.76
Consensus pattern (20 bp):
TTCTTTTTCCACTTTTTTTA
Found at i:9806433 original size:58 final size:59
Alignment explanation
Indices: 9806252--9806569 Score: 337
Period size: 59 Copynumber: 5.4 Consensus size: 59
9806242 TTATATAAGG
* * * *
9806252 AAAATTGATACTTTCAACTTTTTGT--TAAA-GC-ATTTTGACACTTTTTATTTTCAAGA
1 AAAATTGATACTTTCAACTTTTTCTCAAAAATGCTTTTTTGA-AATTTTTATTTTCAAGA
* *
9806308 AAAATTTATACTTTCAACTTTTACTCAAAAATGCTTTTTTGAAATTTTTATTTTCAAGA
1 AAAATTGATACTTTCAACTTTTTCTCAAAAATGCTTTTTTGAAATTTTTATTTTCAAGA
* * ***
9806367 AAAGTTGATACTTTCAACTTTTTCTGAAAAATGCTTTTTTTTTA-TTTTATTTTCAAGA
1 AAAATTGATACTTTCAACTTTTTCTCAAAAATGCTTTTTTGAAATTTTTATTTTCAAGA
* *
9806425 AAAATTGATACTTTCAACTTTTTATCAAAAATACCCTTTTTTGAAATTTTTATTCTT-AAGA
1 AAAATTGATACTTTCAACTTTTTCTCAAAAAT--GCTTTTTTGAAATTTTTATT-TTCAAGA
* * * * * * *
9806486 AAAATTGATACTTTCAACATCTCCT-AGAAAATACCTTTTTGGAATCTTTATTTTCAA-A
1 AAAATTGATACTTTCAACTTTTTCTCA-AAAATGCTTTTTTGAAATTTTTATTTTCAAGA
*
9806544 GAAAATTGATACTTTCAATTTTTTCT
1 -AAAATTGATACTTTCAACTTTTTCT
9806570 TAAAGTATAT
Statistics
Matches: 219, Mismatches: 32, Indels: 19
0.81 0.12 0.07
Matches are distributed among these distances:
56 22 0.10
58 49 0.22
59 94 0.43
60 15 0.07
61 37 0.17
62 2 0.01
ACGTcount: A:0.34, C:0.13, G:0.07, T:0.47
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTTCTCAAAAATGCTTTTTTGAAATTTTTATTTTCAAGA
Found at i:9806584 original size:59 final size:58
Alignment explanation
Indices: 9806252--9806615 Score: 316
Period size: 59 Copynumber: 6.2 Consensus size: 58
9806242 TTATATAAGG
* * * *
9806252 AAAATTGATACTTTCAACTTTTTGTT--AAAGC-ATTTTGACACTTTTTATTTTCAAGA
1 AAAATTGATACTTTCAACTTTTTCTTAAAAATCTTTTTTGA-AATTTTTATTTTCAAGA
* * *
9806308 AAAATTTATACTTTCAACTTTTACTCAAAAATGCTTTTTTGAAATTTTTATTTTCAAGA
1 AAAATTGATACTTTCAACTTTTTCTTAAAAAT-CTTTTTTGAAATTTTTATTTTCAAGA
* * ***
9806367 AAAGTTGATACTTTCAACTTTTTCTGAAAAATGCTTTTTTTTTA-TTTTATTTTCAAGA
1 AAAATTGATACTTTCAACTTTTTCTTAAAAAT-CTTTTTTGAAATTTTTATTTTCAAGA
* *
9806425 AAAATTGATACTTTCAACTTTTTATCAAAAATACCCTTTTTTGAAATTTTTATTCTT-AAGA
1 AAAATTGATACTTTCAACTTTTTCTTAAAAAT---CTTTTTTGAAATTTTTATT-TTCAAGA
* * * * * *
9806486 AAAATTGATACTTTCAAC-ATCTCCTAGAAAATACCTTTTTGGAATCTTTATTTTCAA-A
1 AAAATTGATACTTTCAACTTTTTCTTA-AAAAT-CTTTTTTGAAATTTTTATTTTCAAGA
* * * * *
9806544 GAAAATTGATACTTTCAATTTTTTCTTAAAGTATATTTTTT-AAA-TTTAATCTTTC-AGG
1 -AAAATTGATACTTTCAACTTTTTCTTAAA-AATCTTTTTTGAAATTTTTAT-TTTCAAGA
*
9806602 AAAATTGATCCTTT
1 AAAATTGATACTTT
9806616 AGCCTTTTTT
Statistics
Matches: 251, Mismatches: 42, Indels: 29
0.78 0.13 0.09
Matches are distributed among these distances:
56 22 0.09
57 18 0.07
58 55 0.22
59 96 0.38
60 24 0.10
61 34 0.14
62 2 0.01
ACGTcount: A:0.34, C:0.12, G:0.07, T:0.47
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTTCTTAAAAATCTTTTTTGAAATTTTTATTTTCAAGA
Found at i:9806702 original size:19 final size:19
Alignment explanation
Indices: 9806678--9806715 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
9806668 GATTGTTCAA
* *
9806678 GAAAAATAAATAGCAAAGT
1 GAAAAAAAAATACCAAAGT
9806697 GAAAAAAAAATACCAAAGT
1 GAAAAAAAAATACCAAAGT
9806716 TTGCGTAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.66, C:0.08, G:0.13, T:0.13
Consensus pattern (19 bp):
GAAAAAAAAATACCAAAGT
Found at i:9814858 original size:22 final size:22
Alignment explanation
Indices: 9814816--9814857 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
9814806 ATAAATAAAA
9814816 AAATTATATATAAAAAATTTTT
1 AAATTATATATAAAAAATTTTT
*
9814838 AAATTA-ATA-ATAAAATTTTT
1 AAATTATATATAAAAAATTTTT
9814858 TATTTTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 3 0.16
22 6 0.32
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AAATTATATATAAAAAATTTTT
Found at i:9815337 original size:13 final size:13
Alignment explanation
Indices: 9815319--9815343 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9815309 TAGGTGAAAT
9815319 TTTTTATTTTTTG
1 TTTTTATTTTTTG
9815332 TTTTTATTTTTT
1 TTTTTATTTTTT
9815344 AATTTTTGTT
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:0.08, C:0.00, G:0.04, T:0.88
Consensus pattern (13 bp):
TTTTTATTTTTTG
Found at i:9817383 original size:18 final size:17
Alignment explanation
Indices: 9817347--9817386 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
9817337 GATTGTTTTG
**
9817347 TTTATTTATTTTTTCTA
1 TTTATTTATTTTTAATA
9817364 TTTATTTATATTTTAATA
1 TTTATTTAT-TTTTAATA
9817382 TTTAT
1 TTTAT
9817387 GTAATTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTATTTATTTTTAATA
Found at i:9830022 original size:17 final size:16
Alignment explanation
Indices: 9829987--9830025 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
9829977 CTTTTCCTCA
**
9829987 AAAATTTATTTTTTTG
1 AAAATTTATTTTTAGG
9830003 AAAATTTATTTTTAAGG
1 AAAATTTATTTTT-AGG
9830020 AAAATT
1 AAAATT
9830026 GATACTTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (16 bp):
AAAATTTATTTTTAGG
Found at i:9830080 original size:119 final size:115
Alignment explanation
Indices: 9829899--9830406 Score: 777
Period size: 119 Copynumber: 4.3 Consensus size: 115
9829889 TCTAGTGCAG
*
9829899 GGAAAATTGATACTTTCAACTTTTCCCAAAAAAATATTCTTTT-GAAACTTTAATTTCGAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCC--AAAAATATT-TTTTGGAAACTTTAATTTCAAGGAAA
*
9829963 ATTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTTTGAAAATTTATTTTTAA
63 ATTGATACTTTCAACTTTTCCTCAAAAA--CATTTTTTTGAAAATTTATTTTTAA
*
9830018 GGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGGAAACTTTGATTTTCAAGGAAAA
1 GGAAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTGGAAACTTT-AATTTCAAGGAAAA
*
9830083 TTGATACTTTCAACTTTTCCTCAAAAAAAACTTTTTTTGAAAATTTATTTTTAA
64 TTGATACTTTCAACTTTTCCTC-AAAAACA-TTTTTTTGAAAATTTATTTTTAA
* *
9830137 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAACCTTAATTTCGAGGAAAAT
1 GGAAAATTGATACTTTCAACTTTTCC-CAAAAATATTTTTTGGAAACTTTAATTTCAAGGAAAAT
* **
9830202 TGATACTTTCAA-TTTTCCTCAAAAACCTTTTTTAAAAAATTTATTTTTAA
65 TGATACTTTCAACTTTTCCTCAAAAACATTTTTTTGAAAATTTATTTTTAA
*
9830252 GGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGGAAACTTTGATTTTCAAGGAAAA
1 GGAAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTGGAAACTTT-AATTTCAAGGAAAA
* *
9830317 TTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTGAAATTTTATTTTTAA
64 TTGATACTTTCAACTTTTCCTCAAAAACATTTTTTTGAAAATTTATTTTTAA
9830369 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTT
1 GGAAAATTGATACTTTCAACTTTTCC-CAAAAATATTT
9830407 CTTTTTGAAA
Statistics
Matches: 363, Mismatches: 16, Indels: 22
0.91 0.04 0.05
Matches are distributed among these distances:
115 63 0.17
116 42 0.12
117 78 0.21
118 49 0.13
119 119 0.33
120 12 0.03
ACGTcount: A:0.36, C:0.13, G:0.08, T:0.43
Consensus pattern (115 bp):
GGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTGGAAACTTTAATTTCAAGGAAAATT
GATACTTTCAACTTTTCCTCAAAAACATTTTTTTGAAAATTTATTTTTAA
Found at i:9830101 original size:58 final size:58
Alignment explanation
Indices: 9829899--9830406 Score: 675
Period size: 58 Copynumber: 8.7 Consensus size: 58
9829889 TCTAGTGCAG
* *
9829899 GGAAAATTGATACTTTCAACTTTTCC-CAAAAAAATATTCTTTT-GAAACTTTAATTTCGA
1 GGAAAATTGATACTTTCAACTTTTCCTC--AAAAATATT-TTTTGGAAACTTTATTTTCAA
* * *
9829958 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA--TATTTTTTGGAAACTTTATTTTCAA
9830018 GGAAAATTGATACTTTCAACTTTTTCC-CAAAAATATTTTTTGGAAACTTTGATTTTCAA
1 GGAAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTGGAAACTTT-ATTTTCAA
* * * *
9830077 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAAAACTTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTC-AAAAATA-TTTTTTGGAAACTTTATTTTCAA
* * *
9830137 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAACCTTAATTTCGA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAACTTTATTTTCAA
** ** * *
9830195 GGAAAATTGATACTTTCAA-TTTTCCTCAAAAACCTTTTTTAAAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAACTTTATTTTCAA
9830252 GGAAAATTGATACTTTCAACTTTTTCC-CAAAAATATTTTTTGGAAACTTTGATTTTCAA
1 GGAAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTGGAAACTTT-ATTTTCAA
** * * *
9830311 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTGAAATTTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAACTTTATTTTCAA
9830369 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTT
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTT
9830407 CTTTTTGAAA
Statistics
Matches: 396, Mismatches: 40, Indels: 27
0.86 0.09 0.06
Matches are distributed among these distances:
57 48 0.12
58 129 0.33
59 116 0.29
60 84 0.21
61 19 0.05
ACGTcount: A:0.36, C:0.13, G:0.08, T:0.43
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAACTTTATTTTCAA
Found at i:9842687 original size:2 final size:2
Alignment explanation
Indices: 9842680--9842705 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9842670 GATTAATCAA
9842680 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
9842706 TGAAGAAGGT
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:9851644 original size:19 final size:19
Alignment explanation
Indices: 9851620--9851658 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
9851610 AAAAAAAAAG
9851620 TTAAATGAATTTCCAACCT
1 TTAAATGAATTTCCAACCT
9851639 TTAAATGAATTTCCAACCT
1 TTAAATGAATTTCCAACCT
9851658 T
1 T
9851659 ACCACTTCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.21, G:0.05, T:0.38
Consensus pattern (19 bp):
TTAAATGAATTTCCAACCT
Found at i:9853198 original size:17 final size:18
Alignment explanation
Indices: 9853165--9853222 Score: 75
Period size: 17 Copynumber: 3.2 Consensus size: 18
9853155 AGTTTGTGAA
9853165 TTTAATTAAATTTTTATAT
1 TTTAATTAAA-TTTTATAT
*
9853184 TTTAA-TATATTTTAT-T
1 TTTAATTAAATTTTATAT
9853200 TTTAATTAAATTTTATTAT
1 TTTAATTAAATTTTA-TAT
9853219 TTTA
1 TTTA
9853223 TCTTTATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
16 6 0.18
17 14 0.41
18 4 0.12
19 10 0.29
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTAATTAAATTTTATAT
Found at i:9853237 original size:25 final size:25
Alignment explanation
Indices: 9853178--9853241 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 25
9853168 AATTAAATTT
*
9853178 TTATATTTTAATATATTTTATTTTTAA
1 TTATATTTT-AT-TATTTTATCTTTAA
*
9853205 TTAAATTTTATTATTTTATCTTT-A
1 TTATATTTTATTATTTTATCTTTAA
9853229 -TATATATTTATTA
1 TTATAT-TTTATTA
9853242 ATTTGAACTA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
23 4 0.12
24 8 0.24
25 11 0.33
26 2 0.06
27 8 0.24
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (25 bp):
TTATATTTTATTATTTTATCTTTAA
Found at i:9854996 original size:19 final size:19
Alignment explanation
Indices: 9854972--9855046 Score: 141
Period size: 19 Copynumber: 3.9 Consensus size: 19
9854962 TGGTGCATAA
9854972 GTGCATGGGTGCACATGGT
1 GTGCATGGGTGCACATGGT
9854991 GTGCATGGGTGCACATGGT
1 GTGCATGGGTGCACATGGT
9855010 GTGCATGGGTGCACATGGT
1 GTGCATGGGTGCACATGGT
*
9855029 GTGTATGGGTGCACATGG
1 GTGCATGGGTGCACATGG
9855047 GTATGTGTTT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 55 1.00
ACGTcount: A:0.16, C:0.15, G:0.43, T:0.27
Consensus pattern (19 bp):
GTGCATGGGTGCACATGGT
Found at i:9855002 original size:8 final size:8
Alignment explanation
Indices: 9854955--9855041 Score: 57
Period size: 8 Copynumber: 9.8 Consensus size: 8
9854945 ACATAGATAT
*
9854955 GGTGCATT
1 GGTGCATG
*
9854963 GGTGCATA
1 GGTGCATG
*
9854971 AGTGCATG
1 GGTGCATG
9854979 GGTGCACATG
1 GGTG--CATG
9854989 GTGTGCATG
1 G-GTGCATG
9854998 GGTGCACATG
1 GGTG--CATG
9855008 GTGTGCATG
1 G-GTGCATG
9855017 GGTGCACATG
1 GGTG--CATG
*
9855027 GTGTGTATG
1 G-GTGCATG
9855036 GGTGCA
1 GGTGCA
9855042 CATGGGTATG
Statistics
Matches: 64, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
8 26 0.41
9 14 0.22
10 15 0.23
11 9 0.14
ACGTcount: A:0.17, C:0.14, G:0.41, T:0.28
Consensus pattern (8 bp):
GGTGCATG
Found at i:9855046 original size:10 final size:10
Alignment explanation
Indices: 9854975--9855048 Score: 70
Period size: 10 Copynumber: 7.7 Consensus size: 10
9854965 TGCATAAGTG
9854975 CATGGGTGCA
1 CATGGGTGCA
9854985 CATGGTGTG--
1 CATGG-GTGCA
9854994 CATGGGTGCA
1 CATGGGTGCA
9855004 CATGGTGTG--
1 CATGG-GTGCA
9855013 CATGGGTGCA
1 CATGGGTGCA
9855023 CATGGTGTG--
1 CATGG-GTGCA
*
9855032 TATGGGTGCA
1 CATGGGTGCA
9855042 CATGGGT
1 CATGGGT
9855049 ATGTGTTTGT
Statistics
Matches: 53, Mismatches: 2, Indels: 18
0.73 0.03 0.25
Matches are distributed among these distances:
8 9 0.17
9 14 0.26
10 21 0.40
11 9 0.17
ACGTcount: A:0.16, C:0.15, G:0.42, T:0.27
Consensus pattern (10 bp):
CATGGGTGCA
Found at i:9857887 original size:8 final size:8
Alignment explanation
Indices: 9857876--9857914 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
9857866 TTTTTATATC
9857876 TTTGTTTA
1 TTTGTTTA
9857884 TTTGTTTA
1 TTTGTTTA
9857892 --T-TTTA
1 TTTGTTTA
9857897 TTTGTTTA
1 TTTGTTTA
9857905 TTT-TTTA
1 TTTGTTTA
9857912 TTT
1 TTT
9857915 ATTAGATTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
5 4 0.14
6 1 0.04
7 8 0.29
8 15 0.54
ACGTcount: A:0.13, C:0.00, G:0.08, T:0.79
Consensus pattern (8 bp):
TTTGTTTA
Found at i:9857898 original size:13 final size:13
Alignment explanation
Indices: 9857880--9857908 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
9857870 TATATCTTTG
9857880 TTTATTTGTTTAT
1 TTTATTTGTTTAT
9857893 TTTATTTGTTTAT
1 TTTATTTGTTTAT
9857906 TTT
1 TTT
9857909 TTATTTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (13 bp):
TTTATTTGTTTAT
Found at i:9857901 original size:21 final size:20
Alignment explanation
Indices: 9857876--9857914 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
9857866 TTTTTATATC
9857876 TTTGTTTATTTGTTTATTTTA
1 TTTGTTTATTT-TTTATTTTA
9857897 TTTGTTTATTTTTTATTT
1 TTTGTTTATTTTTTATTT
9857915 ATTAGATTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.13, C:0.00, G:0.08, T:0.79
Consensus pattern (20 bp):
TTTGTTTATTTTTTATTTTA
Found at i:9858032 original size:27 final size:27
Alignment explanation
Indices: 9858002--9858090 Score: 67
Period size: 27 Copynumber: 3.2 Consensus size: 27
9857992 CTAAAAAAAT
*
9858002 ATTTTTAGGGAAAAGTTGAAAGTATCA
1 ATTTTTAGGGAAAAATTGAAAGTATCA
* * *
9858029 ATTTTCCTTA-AGAATAAATTTCCAAAATAT--
1 A-TTT--TTAGGGAA-AAA-TT-GAAAGTATCA
9858059 ATTTTTAGGGAAAAATTGAAAGTATCA
1 ATTTTTAGGGAAAAATTGAAAGTATCA
9858086 ATTTT
1 ATTTT
9858091 CCTTAGAAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 18
0.65 0.10 0.25
Matches are distributed among these distances:
25 6 0.13
26 2 0.04
27 12 0.26
28 6 0.13
29 6 0.13
30 6 0.13
31 2 0.04
32 6 0.13
ACGTcount: A:0.42, C:0.07, G:0.13, T:0.38
Consensus pattern (27 bp):
ATTTTTAGGGAAAAATTGAAAGTATCA
Found at i:9858147 original size:117 final size:118
Alignment explanation
Indices: 9857994--9858458 Score: 593
Period size: 117 Copynumber: 3.8 Consensus size: 118
9857984 AAAAAATTCT
*
9857994 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-AAGAAT-AAATTTCCAAAAT
1 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAA-AATCAAATTTCCAAAAA
*
9858057 ATATTTTTAGGGAAAAATTGAAAGTATCAATTTTCCTTAGAAATAAATTTCAAA
65 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCAAA
* *
9858111 AAAAAAAAATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-AAGAAT-AAATTTCTAAAAA
1 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAA-AATCAAATTTCCAAAAA
9858174 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCCAAA
65 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG--AAATAAATTT-CAAA
* * *
9858234 AAAAAAGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCAAAAAA
1 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATC-AAATTTC-----C
*
9858299 AAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAA
60 AAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA-TTTCAAA
**** * *
9858360 AAAGGGGT-TTTTGA-AGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCGAAATTTCCAAAAA
1 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATC-AAATTTCCAAAAA
9858423 ATATTTTT-GGAGAAAAGTTGAAAGTATCAATTTTCC
65 ATATTTTTAGG-GAAAAGTTGAAAGTATCAATTTTCC
9858459 CTAAAAAAAA
Statistics
Matches: 314, Mismatches: 17, Indels: 33
0.86 0.05 0.09
Matches are distributed among these distances:
117 99 0.32
118 33 0.11
119 5 0.02
120 2 0.01
122 10 0.03
123 48 0.15
124 43 0.14
125 11 0.04
126 16 0.05
127 3 0.01
128 2 0.01
130 5 0.02
131 37 0.12
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.34
Consensus pattern (118 bp):
AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAATTTCCAAAAAA
TATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCAAA
Found at i:9858207 original size:27 final size:27
Alignment explanation
Indices: 9858118--9858207 Score: 67
Period size: 27 Copynumber: 3.2 Consensus size: 27
9858108 AAAAAAAAAA
9858118 AATTTTTAGGGAAAAGTTGAAAGTATC
1 AATTTTTAGGGAAAAGTTGAAAGTATC
* * * * **
9858145 AATTTTCCTTAAGAATAAATTTCTAAAAAAT-
1 AA-TTT--TTAGGGA-AAAGTT-GAAAGTATC
9858176 -ATTTTTAGGGAAAAGTTGAAAGTATC
1 AATTTTTAGGGAAAAGTTGAAAGTATC
9858202 AATTTT
1 AATTTT
9858208 CCTTAAAAGA
Statistics
Matches: 44, Mismatches: 12, Indels: 14
0.63 0.17 0.20
Matches are distributed among these distances:
25 5 0.11
26 5 0.11
27 12 0.27
28 3 0.07
29 3 0.07
30 6 0.14
31 5 0.11
32 5 0.11
ACGTcount: A:0.42, C:0.06, G:0.14, T:0.38
Consensus pattern (27 bp):
AATTTTTAGGGAAAAGTTGAAAGTATC
Found at i:9858372 original size:59 final size:58
Alignment explanation
Indices: 9857994--9858458 Score: 491
Period size: 57 Copynumber: 7.7 Consensus size: 58
9857984 AAAAAATTCT
9857994 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTA-AGAATAAA-TTTC
1 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGA-AATAAATTTTC
* * *
9858051 CAAAATATATTTTTAGGGAAAAATTGAAAGTATCAATTTTCCTTAGAAATAAA-TTTC
1 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
*
9858108 AAAAAAAAAAAATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTA-AGAATAAA-TTTC
1 ---AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGA-AATAAATTTTC
* *
9858168 TAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCC
1 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG--AAATAAATTTTC
* *
9858231 AAAAAAAAAGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCAAAATTTC
1 --AAAAAAA-TATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT-AAATTTTC
*
9858293 AAAAAAAAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
1 -----AAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
*** *
9858357 AAAAAAGGGGTTTTT-GAAGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAAA-TTTC
1 AAAAAA-ATATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAATTTTC
*
9858417 CAAAAAATATTTTT-GGAGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAATATTTTTAGG-GAAAAGTTGAAAGTATCAATTTTCC
9858459 CTAAAAAAAA
Statistics
Matches: 357, Mismatches: 25, Indels: 50
0.83 0.06 0.12
Matches are distributed among these distances:
57 94 0.26
58 3 0.01
59 74 0.21
60 61 0.17
61 8 0.02
62 13 0.04
63 4 0.01
64 7 0.02
65 55 0.15
66 38 0.11
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.34
Consensus pattern (58 bp):
AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
Found at i:9861932 original size:7 final size:8
Alignment explanation
Indices: 9861915--9861953 Score: 53
Period size: 8 Copynumber: 4.8 Consensus size: 8
9861905 AAAAGGTCTC
9861915 AAAAATAA
1 AAAAATAA
9861923 AAAAATAAA
1 AAAAAT-AA
9861932 AAAAATAA
1 AAAAATAA
9861940 AAAAA-AGA
1 AAAAATA-A
9861948 AAAAAT
1 AAAAAT
9861954 GCCACACATG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
7 1 0.04
8 19 0.68
9 8 0.29
ACGTcount: A:0.87, C:0.00, G:0.03, T:0.10
Consensus pattern (8 bp):
AAAAATAA
Found at i:9861934 original size:10 final size:9
Alignment explanation
Indices: 9861915--9861952 Score: 60
Period size: 9 Copynumber: 4.3 Consensus size: 9
9861905 AAAAGGTCTC
9861915 AAAAAT-AA
1 AAAAATAAA
9861923 AAAAATAAA
1 AAAAATAAA
9861932 AAAAATAAA
1 AAAAATAAA
*
9861941 AAAAAGAAA
1 AAAAATAAA
9861950 AAA
1 AAA
9861953 TGCCACACAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
8 6 0.21
9 22 0.79
ACGTcount: A:0.89, C:0.00, G:0.03, T:0.08
Consensus pattern (9 bp):
AAAAATAAA
Found at i:9861935 original size:17 final size:16
Alignment explanation
Indices: 9861915--9861953 Score: 60
Period size: 17 Copynumber: 2.4 Consensus size: 16
9861905 AAAAGGTCTC
9861915 AAAAATAAAAAAATAAA
1 AAAAATAAAAAAA-AAA
*
9861932 AAAAATAAAAAAAAGA
1 AAAAATAAAAAAAAAA
9861948 AAAAAT
1 AAAAAT
9861954 GCCACACATG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.87, C:0.00, G:0.03, T:0.10
Consensus pattern (16 bp):
AAAAATAAAAAAAAAA
Found at i:9863635 original size:42 final size:42
Alignment explanation
Indices: 9863556--9864214 Score: 904
Period size: 41 Copynumber: 15.9 Consensus size: 42
9863546 GTCTAGGAGT
9863556 ATTTACTTTTC-AAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
*
9863596 ATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAAAGGAGCA
1 ATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* *
9863638 ATTTATTTTTTAAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
*
9863679 ATTTACTTTTTCAAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTAC-TTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
9863722 ATTTATTTTTCAAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
*
9863763 ATTTACTTTTTCAAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTAC-TTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
9863806 ATTTATTTTTCAAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
* *
9863847 ATTTAC-TTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
9863888 ATTTATTTTTCAAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
* *
9863929 ATTTAC-TTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
9863970 ATTTAC-TTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* * * *
9864011 ATTTACTTTTCCAAAGTCGTGTTACCTCTGTTGAGAGGAGCA
1 ATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
9864053 ATTTACTTTTC-AAAGTTCGT--TGCCTCTGTTGAGAGGAGCA
1 ATTTACTTTTCAAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
* * *
9864093 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCA
1 ATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
9864135 ATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
1 ATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* *
9864176 ATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGA
1 ATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGA
9864215 ACTTCGGCAA
Statistics
Matches: 564, Mismatches: 31, Indels: 46
0.88 0.05 0.07
Matches are distributed among these distances:
39 8 0.01
40 65 0.12
41 244 0.43
42 183 0.32
43 64 0.11
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.38
Consensus pattern (42 bp):
ATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
Found at i:9863913 original size:82 final size:83
Alignment explanation
Indices: 9863556--9864214 Score: 1046
Period size: 82 Copynumber: 8.0 Consensus size: 83
9863546 GTCTAGGAGT
* * *
9863556 ATTTACTTTTC-AAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTCGTGGTG
1 ATTTATTTTTCAAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTA
*
9863620 CCTCTGTTTAAAGGAGCA
66 CCTCTGTTTAGAGGAGCA
* *
9863638 ATTTATTTTTTAAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAAGTCGTGGT
1 ATTTATTTTTCAAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTAC-TTTTCCAAAGTCGTGGT
9863703 ACCTCTGTTTAGAGGAGCA
65 ACCTCTGTTTAGAGGAGCA
*
9863722 ATTTATTTTTCAAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAAGTCGTGGT
1 ATTTATTTTTCAAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTAC-TTTTCCAAAGTCGTGGT
9863787 ACCTCTGTTTAGAGGAGCA
65 ACCTCTGTTTAGAGGAGCA
9863806 ATTTATTTTTCAAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTAC-TTTCCAAAGTCGTGGTA
1 ATTTATTTTTCAAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTA
9863870 CCTCTGTTTAGAGGAGCA
66 CCTCTGTTTAGAGGAGCA
9863888 ATTTATTTTTCAAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTAC-TTTCCAAAGTCGTGGTA
1 ATTTATTTTTCAAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTA
9863952 CCTCTGTTTAGAGGAGCA
66 CCTCTGTTTAGAGGAGCA
* * *
9863970 ATTTA-CTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGT
1 ATTTATTTTTCAAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGG
*
9864033 TACCTCTGTTGAGAGGAGCA
64 TACCTCTGTTTAGAGGAGCA
* *
9864053 ATTTACTTTTC-AAAGTTCGTTGCCTCTGTTGAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTA
1 ATTTATTTTTCAAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTA
*
9864117 CCTCTGTTGAGAGGAGCA
66 CCTCTGTTTAGAGGAGCA
* * *
9864135 ATTTACTTTTC-AAAG-TCGTGGTGCCTCTGTTGAGAGGAGCAATTTATTTTTCCAAAGTCGTGG
1 ATTTATTTTTCAAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGG
*
9864198 TGCCTCTGTTTAGAGGA
64 TACCTCTGTTTAGAGGA
9864215 ACTTCGGCAA
Statistics
Matches: 552, Mismatches: 16, Indels: 17
0.94 0.03 0.03
Matches are distributed among these distances:
80 4 0.01
81 12 0.02
82 231 0.42
83 133 0.24
84 172 0.31
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.38
Consensus pattern (83 bp):
ATTTATTTTTCAAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTA
CCTCTGTTTAGAGGAGCA
Found at i:9864229 original size:1 final size:1
Alignment explanation
Indices: 9864223--9864319 Score: 68
Period size: 1 Copynumber: 97.0 Consensus size: 1
9864213 GAACTTCGGC
* * * * * * ** *
9864223 AAAAAAATAAAAATAAAAAAATAAAAAAAAAACAAAAAAAACACAAAAAAAAAACCAAAAAACAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
** ** *
9864288 AAATTAAAAAAAAAAAAATCAAAAAATAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
9864320 TGTTGAGTTG
Statistics
Matches: 73, Mismatches: 23, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 73 1.00
ACGTcount: A:0.86, C:0.07, G:0.00, T:0.07
Consensus pattern (1 bp):
A
Found at i:9864242 original size:14 final size:14
Alignment explanation
Indices: 9864223--9864320 Score: 92
Period size: 14 Copynumber: 7.0 Consensus size: 14
9864213 GAACTTCGGC
9864223 AAAAAAATAAAAAT
1 AAAAAAATAAAAAT
9864237 AAAAAAATAAAAA-
1 AAAAAAATAAAAAT
* *
9864250 AAAAACAAAAAAAAC
1 AAAAA-AATAAAAAT
* *
9864265 ACAAAAA-AAAAAC
1 AAAAAAATAAAAAT
* *
9864278 CAAAAAACAAAAATT
1 AAAAAAATAAAAA-T
*
9864293 AAAAAAAAAAAAAT
1 AAAAAAATAAAAAT
*
9864307 CAAAAAATAAAAAT
1 AAAAAAATAAAAAT
9864321 GTTGAGTTGA
Statistics
Matches: 71, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
13 16 0.23
14 40 0.56
15 15 0.21
ACGTcount: A:0.85, C:0.07, G:0.00, T:0.08
Consensus pattern (14 bp):
AAAAAAATAAAAAT
Found at i:9864282 original size:29 final size:29
Alignment explanation
Indices: 9864225--9864320 Score: 104
Period size: 29 Copynumber: 3.2 Consensus size: 29
9864215 ACTTCGGCAA
**
9864225 AAAAATAAAAATAAAAAAATAAAAAAAAAAC
1 AAAAATAAAAA-AAAAAAA-AACCAAAAAAC
9864256 AAAAA-AAACACAAAAAAAAAACCAAAAAAC
1 AAAAATAAA-A-AAAAAAAAAACCAAAAAAC
* * *
9864286 AAAAATTAAAAAAAAAAAAATCAAAAAAT
1 AAAAATAAAAAAAAAAAAAACCAAAAAAC
9864315 AAAAAT
1 AAAAAT
9864321 GTTGAGTTGA
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
29 23 0.40
30 18 0.32
31 15 0.26
32 1 0.02
ACGTcount: A:0.84, C:0.07, G:0.00, T:0.08
Consensus pattern (29 bp):
AAAAATAAAAAAAAAAAAAACCAAAAAAC
Found at i:9865219 original size:20 final size:20
Alignment explanation
Indices: 9865196--9865239 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
9865186 TGCCCAGTTT
*
9865196 CCGGCGAGGAATCCCAGAAA
1 CCGGCGAAGAATCCCAGAAA
* *
9865216 CCGGCGAATATTCCCAGAAA
1 CCGGCGAAGAATCCCAGAAA
9865236 CCGG
1 CCGG
9865240 TCGACTTCCG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.32, C:0.32, G:0.27, T:0.09
Consensus pattern (20 bp):
CCGGCGAAGAATCCCAGAAA
Found at i:9865664 original size:7 final size:7
Alignment explanation
Indices: 9865609--9865673 Score: 50
Period size: 6 Copynumber: 9.4 Consensus size: 7
9865599 CCGCTCCAGG
9865609 TTTTTT-
1 TTTTTTA
9865615 TTTTTT-
1 TTTTTTA
9865621 TTTTTT-
1 TTTTTTA
*
9865627 TTTTATATC
1 TTTT-T-TA
9865636 TTTGTTTA
1 TTT-TTTA
9865644 TTTGTTTA
1 TTT-TTTA
9865652 --TTTTA
1 TTTTTTA
9865657 TTTTTTA
1 TTTTTTA
9865664 TTTTTTA
1 TTTTTTA
9865671 TTT
1 TTT
9865674 ATTAGATTAG
Statistics
Matches: 52, Mismatches: 1, Indels: 11
0.81 0.02 0.17
Matches are distributed among these distances:
5 4 0.08
6 17 0.33
7 16 0.31
8 10 0.19
9 4 0.08
10 1 0.02
ACGTcount: A:0.11, C:0.02, G:0.03, T:0.85
Consensus pattern (7 bp):
TTTTTTA
Found at i:9865910 original size:27 final size:27
Alignment explanation
Indices: 9865823--9865911 Score: 67
Period size: 27 Copynumber: 3.2 Consensus size: 27
9865813 AAAAAAAAAT
*
9865823 ATTTTTAGGGAAAAGTTGAAAGTATCA
1 ATTTTTAGGGAAAAATTGAAAGTATCA
* * *
9865850 ATTTTCCTTA-AGAATAAATTTCCAAAATAT--
1 A-TTT--TTAGGGAA-AAA-TT-GAAAGTATCA
9865880 ATTTTTAGGGAAAAATTGAAAGTATCA
1 ATTTTTAGGGAAAAATTGAAAGTATCA
9865907 ATTTT
1 ATTTT
9865912 CCTTAGAAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 18
0.65 0.10 0.25
Matches are distributed among these distances:
25 6 0.13
26 2 0.04
27 12 0.26
28 6 0.13
29 6 0.13
30 6 0.13
31 2 0.04
32 6 0.13
ACGTcount: A:0.42, C:0.07, G:0.13, T:0.38
Consensus pattern (27 bp):
ATTTTTAGGGAAAAATTGAAAGTATCA
Found at i:9865988 original size:118 final size:119
Alignment explanation
Indices: 9865754--9866215 Score: 647
Period size: 118 Copynumber: 3.9 Consensus size: 119
9865744 AAAAATTCTA
**
9865754 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAATAAATCGCCAAAAAAA
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAATAAATTTCC-AAAAAA
9865818 AAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTCC
65 AAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTCC
* *
9865873 AAAATATATTTTTAGGGAAAAATTGAAAGTATCAATTTTCCTTAG-AAATAAATTTCCAAAAAAA
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAATAAATTTCCAAAAAAA
*
9865937 AAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTCT
66 AAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTCC
9865991 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCCAAA
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG-AAAATAAATTTCCAAA
* * *
9866056 AAAAAAGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAATAAATTTTC
62 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAG-AATAAATTTCC
** *
9866114 AAAAAAGGGGTTTTT-GAAGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAAATTTCC--
1 AAAAAA--TATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAAT--AAATTTCCAA
9866175 --AAAAAATATTTTT-GGAGAAAAGTTGAAAGTATCAATTTTCC
61 AAAAAAAATATTTTTAGG-GAAAAGTTGAAAGTATCAATTTTCC
9866216 CTAAAAAAAA
Statistics
Matches: 316, Mismatches: 15, Indels: 25
0.89 0.04 0.07
Matches are distributed among these distances:
117 2 0.01
118 138 0.44
119 53 0.17
120 5 0.02
121 3 0.01
122 10 0.03
123 72 0.23
124 1 0.00
125 32 0.10
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.33
Consensus pattern (119 bp):
AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAATAAATTTCCAAAAAAA
AAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTCC
Found at i:9866029 original size:27 final size:27
Alignment explanation
Indices: 9865941--9866029 Score: 65
Period size: 27 Copynumber: 3.2 Consensus size: 27
9865931 AAAAAAAAAT
9865941 ATTTTTAGGGAAAAGTTGAAAGTATCA
1 ATTTTTAGGGAAAAGTTGAAAGTATCA
* * * * **
9865968 ATTTTCCTTAAGAATAAATTTCTAAAAAAT--
1 A-TTT--TTAGGGA-AAAGTT-GAAAGTATCA
9865998 ATTTTTAGGGAAAAGTTGAAAGTATCA
1 ATTTTTAGGGAAAAGTTGAAAGTATCA
9866025 ATTTT
1 ATTTT
9866030 CCTTAAAAGA
Statistics
Matches: 43, Mismatches: 12, Indels: 14
0.62 0.17 0.20
Matches are distributed among these distances:
25 5 0.12
26 5 0.12
27 11 0.26
28 3 0.07
29 3 0.07
30 6 0.14
31 5 0.12
32 5 0.12
ACGTcount: A:0.42, C:0.06, G:0.15, T:0.38
Consensus pattern (27 bp):
ATTTTTAGGGAAAAGTTGAAAGTATCA
Found at i:9866173 original size:184 final size:180
Alignment explanation
Indices: 9865753--9866227 Score: 603
Period size: 184 Copynumber: 2.6 Consensus size: 180
9865743 AAAAAATTCT
* * **
9865753 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAATAAATCGCCAAAAAA
1 AAAAAAATATTTTGAGAGAAAAGTTGAAAGTATCAATTTTCCTTAAG-AATAAATTTCC-----A
9865817 AAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT--AAG---AATAAATTTCCAAAA
60 AAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCCAAAA
*
9865877 TATATTTTTAGGGAAAAATTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAA
125 AATATTTTTAGGGAAAAATTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAA
* * *
9865933 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTCTAAAAAAT
1 AAAAAAATATTTTGAGAGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTCCAAAAAAT
9865998 ATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCCAAAAAAAAAG
66 ATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCC---AAAAAA-
* * *
9866063 TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAA
127 TATTTTTAGGGAAAAATTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAA
****
9866117 AAAGGGGT-TTTTGA-AGAAAAGTTGAAAGTATCAATTTTCCTTGAA-AATCGAAATTTCCAAAA
1 AAAAAAATATTTTGAGAGAAAAGTTGAAAGTATCAATTTTCCTT-AAGAAT--AAATTTCCAAAA
*
9866179 AATATTTTT-GGAGAAAAGTTGAAAGTATCAATTTTCCCTAAAA-AAAAAT
63 AATATTTTTAGG-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAAT
9866228 CATTCTTTCC
Statistics
Matches: 266, Mismatches: 15, Indels: 25
0.87 0.05 0.08
Matches are distributed among these distances:
175 43 0.16
177 3 0.01
180 63 0.24
181 2 0.01
182 30 0.11
183 20 0.08
184 105 0.39
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (180 bp):
AAAAAAATATTTTGAGAGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTCCAAAAAAT
ATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCCAAAAAATATT
TTTAGGGAAAAATTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAA
Found at i:9866181 original size:241 final size:235
Alignment explanation
Indices: 9865749--9866215 Score: 651
Period size: 241 Copynumber: 1.9 Consensus size: 235
9865739 AATAAAAAAA
9865749 TTCTAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATCGCCAAA
1 TTCTAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATCGCCAAA
*
9865814 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTCCAAAATA
66 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTCCAAAAAA
* *
9865879 TATTTTTAGGGAAAAATTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAAAAAAATATT
131 GATTTTTAGAGAAAAATTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC---AAAAAAATATT
9865944 TTTAGG-GAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAAT
193 TTT-GGAGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAAT
**
9865987 TTCT-AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTT
1 TTCTAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG--AAATAAATCG
* * *
9866051 CC-AAAAAAAAAGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAATAAATTTTC
61 CCAAAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAG-AATAAATTTCC
* *
9866114 AAAAAAGGGGTTTTT-GAAGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAAATTTCC-A
125 AAAAAA--GATTTTTAG-AGAAAAATTGAAAGTATCAATTTTCCTTAG-AAAT--AAATTTCCAA
9866176 AAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCC
184 AAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCC
9866216 CTAAAAAAAA
Statistics
Matches: 206, Mismatches: 10, Indels: 23
0.86 0.04 0.10
Matches are distributed among these distances:
237 43 0.21
238 4 0.02
240 6 0.03
241 98 0.48
242 12 0.06
243 35 0.17
245 8 0.04
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (235 bp):
TTCTAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATCGCCAAA
AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTCCAAAAAA
GATTTTTAGAGAAAAATTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAAAATATTTTT
GGAGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAAT
Found at i:9870723 original size:20 final size:20
Alignment explanation
Indices: 9870698--9870750 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
9870688 GCTGAAATGA
*
9870698 AATAATTTTAAAATTTAAGT
1 AATAATTTTAAAATTTAAAT
* *
9870718 AATAATATTAAATTTTAAAT
1 AATAATTTTAAAATTTAAAT
*
9870738 AATTATTTTAAAA
1 AATAATTTTAAAA
9870751 ATTTGTTGTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
AATAATTTTAAAATTTAAAT
Found at i:9876541 original size:3 final size:3
Alignment explanation
Indices: 9876533--9876563 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
9876523 TAATTAAACC
9876533 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
9876564 CACAAGAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:9884837 original size:3 final size:3
Alignment explanation
Indices: 9884816--9884992 Score: 93
Period size: 3 Copynumber: 57.3 Consensus size: 3
9884806 TTTTCTTTTG
9884816 TAT T-T TAT GTAT T-T TAT TAT TAT TAT TAT TAT GTAT ATATT TATT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT -TAT -TA-T TA-T
* * *
9884861 TAT T-T TTT TAT TA- GAT TA- GAT T-T ATAT GTAT ATAGT TAT ATATT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT -TAT -TA-T TAT -TA-T
* * **
9884905 TAT TAT TAT TAT TAT TAT TAT TAT TAT TTT TAA TAT ATACT TGGG T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TA-T T-AT TAT
*
9884952 TA- TCT TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
9884993 TTTAATTATC
Statistics
Matches: 138, Mismatches: 17, Indels: 38
0.72 0.09 0.20
Matches are distributed among these distances:
2 13 0.09
3 91 0.66
4 30 0.22
5 4 0.03
ACGTcount: A:0.30, C:0.01, G:0.05, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:9885492 original size:31 final size:31
Alignment explanation
Indices: 9885435--9885493 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
9885425 ATTCCGACGA
* * **
9885435 AAATTCCGGCGACATTTGAATTTTCCGGCAC
1 AAATTCCGGCGAAACTTGAAGATTCCGGCAC
9885466 AAATTCCGGCGAAACTTGAAGATTCCGG
1 AAATTCCGGCGAAACTTGAAGATTCCGG
9885494 TGACCAACCC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (31 bp):
AAATTCCGGCGAAACTTGAAGATTCCGGCAC
Found at i:9885572 original size:19 final size:19
Alignment explanation
Indices: 9885548--9885594 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
9885538 TTCCGGCCAT
9885548 ATTCCGGCAAAATTTCCAG
1 ATTCCGGCAAAATTTCCAG
* *
9885567 ATTCCGGCGACATTTCCAG
1 ATTCCGGCAAAATTTCCAG
*
9885586 AATCCGGCA
1 ATTCCGGCA
9885595 CCGGTGTTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (19 bp):
ATTCCGGCAAAATTTCCAG
Found at i:9885960 original size:1 final size:1
Alignment explanation
Indices: 9885915--9885940 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
9885905 CCGCTCCAGG
9885915 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
9885941 GAATTTTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:9885965 original size:10 final size:10
Alignment explanation
Indices: 9885915--9885965 Score: 52
Period size: 9 Copynumber: 5.3 Consensus size: 10
9885905 CCGCTCCAGG
9885915 TTTTTTTTT-
1 TTTTTTTTTA
9885924 TTTTTTTTT-
1 TTTTTTTTTA
*
9885933 TTTTTTTTGA
1 TTTTTTTTTA
* **
9885943 ATTTTTTGAA
1 TTTTTTTTTA
9885953 TTTTTTTTTA
1 TTTTTTTTTA
9885963 TTT
1 TTT
9885966 GACTTTGATT
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
9 17 0.50
10 17 0.50
ACGTcount: A:0.10, C:0.00, G:0.04, T:0.86
Consensus pattern (10 bp):
TTTTTTTTTA
Found at i:9886378 original size:152 final size:151
Alignment explanation
Indices: 9885991--9886438 Score: 735
Period size: 152 Copynumber: 3.0 Consensus size: 151
9885981 CTTGATTTTT
* * *
9885991 TTTTCTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTGAAACAGTAGTTTTTCTTGG
1 TTTTGTTTTTTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTT-G
9886056 CATACCTCTTGAGGTGAGGGAATTTTCCTCAATTTTCTGCT-AAAGTATTAGAGTCAATTGAGAA
65 CATA-CTCTTGAGGTGAGGGAATTTT-CTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAA
9886120 TAATTTCC-AAATTAATTGGATGA
128 TAATTTCCAAAATTAATTGGATGA
*
9886143 TTTTG-TATTT-TTTAATAAAT-CGACGACGGAGCCTCTGCAAGTGAATACAGTAGTTTTTCTTG
1 TTTTGTTTTTTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAA-ACAGTAGTTTTTCTTG
*
9886205 CATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTTAATTGAGAATA
65 CATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATA
9886270 ATTTCCAATAATTAATTGGATGA
130 ATTTCCAA-AATTAATTGGATGA
*
9886293 TTTTGTTTTTTCTTTAATAAATCCGACGACGGAGCCCCTGCAAGTGAAACAGTAGTTTTTCTTGC
1 TTTTGTTTTTTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGC
*
9886358 ATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAA
66 ATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAA
*
9886423 TTTCCAACAACTAATT
131 TTTCCAA-AATTAATT
9886439 ACTTGGTAAA
Statistics
Matches: 278, Mismatches: 11, Indels: 14
0.92 0.04 0.05
Matches are distributed among these distances:
147 14 0.05
148 51 0.18
149 30 0.11
150 43 0.15
151 8 0.03
152 108 0.39
153 24 0.09
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (151 bp):
TTTTGTTTTTTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGC
ATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAA
TTTCCAAAATTAATTGGATGA
Found at i:9889701 original size:1 final size:1
Alignment explanation
Indices: 9889697--9889730 Score: 50
Period size: 1 Copynumber: 34.0 Consensus size: 1
9889687 GTAATTTTTG
* *
9889697 AAAAAAAAAAAAAAAAGAGAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
9889731 CACCACAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.94, C:0.00, G:0.06, T:0.00
Consensus pattern (1 bp):
A
Found at i:9890158 original size:19 final size:20
Alignment explanation
Indices: 9890106--9890175 Score: 74
Period size: 19 Copynumber: 3.6 Consensus size: 20
9890096 ACAATGGATG
9890106 AAAAATGAG-AAAAAAAGAA
1 AAAAATGAGAAAAAAAAGAA
* ** *
9890125 GATGATGA-AAGAAAAAGAA
1 AAAAATGAGAAAAAAAAGAA
*
9890144 AAAAAT-AGAAAAAAAAGGA
1 AAAAATGAGAAAAAAAAGAA
9890163 AAAAATGAGAAAA
1 AAAAATGAGAAAA
9890176 TGAAAAAAAG
Statistics
Matches: 39, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
18 1 0.03
19 32 0.82
20 6 0.15
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.07
Consensus pattern (20 bp):
AAAAATGAGAAAAAAAAGAA
Found at i:9891418 original size:41 final size:39
Alignment explanation
Indices: 9891362--9892090 Score: 891
Period size: 41 Copynumber: 18.0 Consensus size: 39
9891352 GTCTAGGAAT
* *
9891362 ATTTACTTTCCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTATTTTTCAAAG-TCGTTGCCTCTGTTTAGAGGAGCA
*
9891402 ATTTATTTTTTCAAAGTTCGTTGCCTCTATTTAGAGGAGCA
1 ATTTA-TTTTTCAAAG-TCGTTGCCTCTGTTTAGAGGAGCA
9891443 ATTTATTTTTCAAAGTTCCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTATTTTTCAAAG-T-CGTTGCCTCTGTTTAGAGGAGCA
*
9891484 ATTTACTTTTCAAAGTTC-TCTGCCTCTGTTTAGAGGAGCA
1 ATTTATTTTTCAAAG-TCGT-TGCCTCTGTTTAGAGGAGCA
9891524 ATTTATTTTTCAAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTATTTTTC-AAAG-TCGTTGCCTCTGTTTAGAGGAGCA
9891565 ATTTATTTTTCAAAGTCGTGTTGCCTCTGTTTAGAGGAGCA
1 ATTTATTTTTCAAAGTC--GTTGCCTCTGTTTAGAGGAGCA
*
9891606 ATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTATTTTTC-AAAGTCGT--TGCCTCTGTTTAGAGGAGCA
*
9891648 ATTTATTTTCCAAAGTCG-TGCCTCTGTTTAGAGGAGCA
1 ATTTATTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCA
*
9891686 ATTTACTTTTCAAAGTCGTCGGTGCCTCTGTTT--A-GAGCA
1 ATTTATTTTTCAAAGTCGT---TGCCTCTGTTTAGAGGAGCA
9891725 ATTTATTTTTCCAAAGTC---GCCTCTGTTTAGAGGAGCA
1 ATTTATTTTT-CAAAGTCGTTGCCTCTGTTTAGAGGAGCA
* *
9891762 ATTTACTTTTCCAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTATTTTTCAAAG-TCGTTGCCTCTGTTTAGAGGAGCA
*
9891802 ATTTATTTTTTTAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTA--TTTTTCAAAGTCGT--TGCCTCTGTTTAGAGGAGCA
*
9891845 ATTTATTTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAACA
1 ATTTA-TTTTTCAAAG-TCGTTGCCTCTGTTTAGAGGAGCA
*
9891886 ATTTATTTTTTTAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTA-TTTTTCAAAGTCGT--TGCCTCTGTTTAGAGGAGCA
* *
9891928 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
1 ATTTATTTTTCAAAGTCGT--TGCCTCTGTTTAGAGGAGCA
*
9891969 ATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
1 ATTTATTTTT-CAAAGTCGT--TGCCTCTGTTTAGAGGAGCA
* *
9892011 ATTTACTTTCCAAAGTCCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTATTTTTCAAAGT-CGTTGCCTCTGTTTAGAGGAGCA
* *
9892051 ATTTA-CTTTCAAAAGTCGTTGAGTCTCTGTTTAGAGGAGC
1 ATTTATTTTTC-AAAGTCGTT--GCCTCTGTTTAGAGGAGC
9892091 TTCGGCCAAA
Statistics
Matches: 624, Mismatches: 31, Indels: 67
0.86 0.04 0.09
Matches are distributed among these distances:
34 10 0.02
36 5 0.01
37 16 0.03
38 36 0.06
39 24 0.04
40 119 0.19
41 255 0.41
42 130 0.21
43 29 0.05
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.39
Consensus pattern (39 bp):
ATTTATTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCA
Found at i:9891519 original size:122 final size:118
Alignment explanation
Indices: 9891362--9892090 Score: 904
Period size: 122 Copynumber: 6.0 Consensus size: 118
9891352 GTCTAGGAAT
*
9891362 ATTTACTTTCCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAGTTCGTTGCC
1 ATTTACTTTTCAAAG-TCGTTGCCTCTGTTTAGAGGAGCAATTTA-TTTTTCAAAGTTCGTTGCC
*
9891427 TCTATTTAGAGGAGCAATTTATTTTTCAAAGTTCCGTTGCCTCTGTTTAGAGGAGCA
64 TCTGTTTAGAGGAGCAATTTATTTTTCAAAG-T-CGTTGCCTCTGTTTAGAGGAGCA
9891484 ATTTACTTTTCAAAGTTC-TCTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAAGTTCGTTGC
1 ATTTACTTTTCAAAG-TCGT-TGCCTCTGTTTAGAGGAGCAATTTATTTTTC-AAAGTTCGTTGC
9891548 CTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCGTGTTGCCTCTGTTTAGAGGAGCA
63 CTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTC--GTTGCCTCTGTTTAGAGGAGCA
*
9891606 ATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTCCAAAG-TCG-TGC
1 ATTTACTTTTC-AAAGTCGT--TGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTCGTTGC
*
9891669 CTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTCGGTGCCTCTGTTT--A-GAGCA
63 CTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCGT---TGCCTCTGTTTAGAGGAGCA
* * *
9891725 ATTTATTTTTCCAAAGTC---GCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAGTTCGTTGCCT
1 ATTTACTTTT-CAAAGTCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTCGTTGCCT
*
9891787 CTGTTTAGAGGAGCAATTTATTTTTTTAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
65 CTGTTTAGAGGAGCAATTTA--TTTTTCAAAGTCGT--TGCCTCTGTTTAGAGGAGCA
* * *
9891845 ATTTATTTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAACAATTTATTTTTTTAAAG-TCGTGGT
1 ATTTA-CTTTTCAAAG-TCGTTGCCTCTGTTTAGAGGAGCAATTTA-TTTTTCAAAGTTCGT--T
* *
9891909 GCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
61 GCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCGT--TGCCTCTGTTTAGAGGAGCA
* * * * *
9891969 ATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTCCGTTGC
1 ATTTACTTTT-CAAAGTCGT--TGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTCGTTGC
* *
9892034 CTCTGTTTAGAGGAGCAATTTA-CTTTCAAAAGTCGTTGAGTCTCTGTTTAGAGGAGC
63 CTCTGTTTAGAGGAGCAATTTATTTTTC-AAAGTCGTT--GCCTCTGTTTAGAGGAGC
9892091 TTCGGCCAAA
Statistics
Matches: 547, Mismatches: 27, Indels: 65
0.86 0.04 0.10
Matches are distributed among these distances:
114 31 0.06
115 3 0.01
116 25 0.05
117 13 0.02
118 12 0.02
119 23 0.04
120 18 0.03
121 52 0.10
122 138 0.25
123 67 0.12
124 107 0.20
125 33 0.06
126 25 0.05
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.39
Consensus pattern (118 bp):
ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTCGTTGCCTC
TGTTTAGAGGAGCAATTTATTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCA
Found at i:9891896 original size:83 final size:81
Alignment explanation
Indices: 9891362--9892090 Score: 963
Period size: 83 Copynumber: 9.0 Consensus size: 81
9891352 GTCTAGGAAT
*
9891362 ATTTACTTTCCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAGTTCGT-TGC
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAG-TCGTGTGC
*
9891426 CTCTATTTAGAGGAGCA
65 CTCTGTTTAGAGGAGCA
* * *
9891443 ATTTATTTTTCAAAGTTCCGTTGCCTCTGTTTAGAGGAGCAATTTA-CTTTTCAAAGTTC-TCTG
1 ATTTACTTTTCAAAGTT-CGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAG-TCGTGTG
9891506 CCTCTGTTTAGAGGAGCA
64 CCTCTGTTTAGAGGAGCA
*
9891524 ATTTATTTTTCAAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTA-TTTTTCAAAGTCGTGTTG
1 ATTTACTTTTC-AAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAGTCGTG-TG
9891588 CCTCTGTTTAGAGGAGCA
64 CCTCTGTTTAGAGGAGCA
*
9891606 ATTTACTTTTCAAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAATTTA-TTTTCCAAAGTC--GT
1 ATTTACTTTTC-AAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAGTCGTGT
9891667 GCCTCTGTTTAGAGGAGCA
63 GCCTCTGTTTAGAGGAGCA
* *
9891686 ATTTACTTTTCAAAGTCGTCGGTGCCTCTGTTT--A-GAGCAATTTATTTTTCCAAAGTC----G
1 ATTTACTTTTCAAAGT--TCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAGTCGTGTG
9891744 CCTCTGTTTAGAGGAGCA
64 CCTCTGTTTAGAGGAGCA
* *
9891762 ATTTACTTTTCCAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTTTAAAAGTCGTGGTG
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTA-TTTTTTCAAAGTCGT-GTG
9891827 CCTCTGTTTAGAGGAGCA
64 CCTCTGTTTAGAGGAGCA
* * *
9891845 ATTTATTTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAACAATTTATTTTTTTAAAGTCGTGGTG
1 ATTTA-CTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAGTCGT-GTG
9891910 CCTCTGTTTAGAGGAGCA
64 CCTCTGTTTAGAGGAGCA
* *
9891928 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTGAGAGGAGCAATTTATTTTTCCAAAGTCGTGGT
1 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAGTCGT-GT
*
9891992 GCCTCTGTTGAGAGGAGCA
63 GCCTCTGTTTAGAGGAGCA
* * * *
9892011 ATTTACTTTCCAAAGTCCGTTGCCTCTGTTTAGAGGAGCAATTTA--CTTTCAAAAGTCGTTGAG
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTTC-AAAGTCG-TGTG
*
9892074 TCTCTGTTTAGAGGAGC
64 CCTCTGTTTAGAGGAGC
9892091 TTCGGCCAAA
Statistics
Matches: 591, Mismatches: 31, Indels: 52
0.88 0.05 0.08
Matches are distributed among these distances:
74 14 0.02
76 35 0.06
77 20 0.03
78 24 0.04
79 4 0.01
80 48 0.08
81 128 0.22
82 106 0.18
83 172 0.29
84 40 0.07
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.39
Consensus pattern (81 bp):
ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAGTCGTGTGCC
TCTGTTTAGAGGAGCA
Found at i:9892121 original size:17 final size:16
Alignment explanation
Indices: 9892099--9892192 Score: 100
Period size: 17 Copynumber: 5.6 Consensus size: 16
9892089 GCTTCGGCCA
9892099 AAAAAAAAATAAAAAAC
1 AAAAAAAAA-AAAAAAC
*
9892116 AAAAAAAAATAAAAAC
1 AAAAAAAAAAAAAAAC
*
9892132 AAAAAAATCAAAAAAATC
1 AAAAAAA--AAAAAAAAC
9892150 -AAAAAAAAAAAAAAC
1 AAAAAAAAAAAAAAAC
* *
9892165 AAAAATTAAAAAAAATC
1 AAAAA-AAAAAAAAAAC
9892182 AAAAATAAAAA
1 AAAAA-AAAAA
9892193 TGTTGAGTTG
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
15 8 0.12
16 17 0.26
17 34 0.52
18 7 0.11
ACGTcount: A:0.85, C:0.06, G:0.00, T:0.09
Consensus pattern (16 bp):
AAAAAAAAAAAAAAAC
Found at i:9892175 original size:16 final size:15
Alignment explanation
Indices: 9892098--9892192 Score: 95
Period size: 16 Copynumber: 6.1 Consensus size: 15
9892088 AGCTTCGGCC
9892098 AAAAA-AAAAATAAAA
1 AAAAACAAAAAT-AAA
*
9892113 AACAAAAAAAAATAAA
1 AA-AAACAAAAATAAA
*
9892129 AACAA-AAAAATCAAA
1 AAAAACAAAAAT-AAA
* *
9892144 AAAATCAAAAAAAAA
1 AAAAACAAAAATAAA
9892159 AAAAACAAAAATTAAA
1 AAAAACAAAAA-TAAA
9892175 AAAAATCAAAAATAAA
1 AAAAA-CAAAAATAAA
9892191 AA
1 AA
9892193 TGTTGAGTTG
Statistics
Matches: 68, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
14 6 0.09
15 23 0.34
16 27 0.40
17 12 0.18
ACGTcount: A:0.85, C:0.06, G:0.00, T:0.08
Consensus pattern (15 bp):
AAAAACAAAAATAAA
Found at i:9892186 original size:9 final size:8
Alignment explanation
Indices: 9892099--9892169 Score: 83
Period size: 9 Copynumber: 8.6 Consensus size: 8
9892089 GCTTCGGCCA
*
9892099 AAAAAAAA
1 AAAAAAAC
9892107 ATAAAAAAC
1 A-AAAAAAC
9892116 AAAAAAA-
1 AAAAAAAC
9892123 AATAAAAAC
1 AA-AAAAAC
9892132 AAAAAAATC
1 AAAAAAA-C
9892141 AAAAAAATC
1 AAAAAAA-C
9892150 AAAAAAA-
1 AAAAAAAC
9892157 AAAAAAAC
1 AAAAAAAC
9892165 AAAAA
1 AAAAA
9892170 TTAAAAAAAA
Statistics
Matches: 57, Mismatches: 1, Indels: 10
0.84 0.01 0.15
Matches are distributed among these distances:
7 9 0.16
8 22 0.39
9 26 0.46
ACGTcount: A:0.87, C:0.07, G:0.00, T:0.06
Consensus pattern (8 bp):
AAAAAAAC
Found at i:9892192 original size:1 final size:1
Alignment explanation
Indices: 9892098--9892179 Score: 65
Period size: 1 Copynumber: 82.0 Consensus size: 1
9892088 AGCTTCGGCC
* * * * ** **
9892098 AAAAAAAAAATAAAAAACAAAAAAAAATAAAAACAAAAAAATCAAAAAAATCAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* **
9892163 ACAAAAATTAAAAAAAA
1 AAAAAAAAAAAAAAAAA
9892180 TCAAAAATAA
Statistics
Matches: 63, Mismatches: 18, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 63 1.00
ACGTcount: A:0.87, C:0.06, G:0.00, T:0.07
Consensus pattern (1 bp):
A
Found at i:9892192 original size:33 final size:33
Alignment explanation
Indices: 9892097--9892192 Score: 124
Period size: 32 Copynumber: 2.9 Consensus size: 33
9892087 GAGCTTCGGC
*
9892097 CAAAAAAA-AAATAAAAAACAAAAAAAAATAAAAA
1 CAAAAAAATAAA-AAAAATCAAAAAAAAA-AAAAA
*
9892131 CAAAAAAATCAAAAAAATCAAAAAAAAAAAAAA
1 CAAAAAAATAAAAAAAATCAAAAAAAAAAAAAA
* *
9892164 C-AAAAATTAAAAAAAATCAAAAATAAAAA
1 CAAAAAAATAAAAAAAATCAAAAAAAAAAA
9892193 TGTTGAGTTG
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
32 25 0.45
33 6 0.11
34 23 0.41
35 2 0.04
ACGTcount: A:0.84, C:0.07, G:0.00, T:0.08
Consensus pattern (33 bp):
CAAAAAAATAAAAAAAATCAAAAAAAAAAAAAA
Found at i:9892386 original size:3 final size:3
Alignment explanation
Indices: 9892365--9892538 Score: 87
Period size: 3 Copynumber: 56.3 Consensus size: 3
9892355 TTTTCTTTTG
9892365 TAT T-T TAT GTAT T-T TAT TAT TAT TAT TAT TAT GTAT ATATT TATT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT -TAT -TA-T TA-T
* * *
9892410 TAT T-T TTT TAT TA- GAT TA- GAT T-T ATAT GTAT ATAGT TAT ATATT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT -TAT -TA-T TAT -TA-T
* * **
9892454 TAT TAT TAT TAT TAT TAT TAT TAT TAT TTT TAA TAT ATACT TGGG T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TA-T T-AT TAT
*
9892501 TA- TCT TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
9892539 TTTAATTATC
Statistics
Matches: 135, Mismatches: 17, Indels: 38
0.71 0.09 0.20
Matches are distributed among these distances:
2 13 0.10
3 88 0.65
4 30 0.22
5 4 0.03
ACGTcount: A:0.30, C:0.01, G:0.05, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:9893038 original size:31 final size:31
Alignment explanation
Indices: 9892981--9893039 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
9892971 ATTCCGACGA
* * **
9892981 AAATTCCGGCGACATTTGAATTTTCCGGCAC
1 AAATTCCGGCGAAACTTGAAGATTCCGGCAC
9893012 AAATTCCGGCGAAACTTGAAGATTCCGG
1 AAATTCCGGCGAAACTTGAAGATTCCGG
9893040 TGACCAACCC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (31 bp):
AAATTCCGGCGAAACTTGAAGATTCCGGCAC
Found at i:9893118 original size:19 final size:19
Alignment explanation
Indices: 9893094--9893140 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
9893084 TTCCGGCCAT
9893094 ATTCCGGCAAAATTTCCAG
1 ATTCCGGCAAAATTTCCAG
* *
9893113 ATTCCGGCGACATTTCCAG
1 ATTCCGGCAAAATTTCCAG
*
9893132 AATCCGGCA
1 ATTCCGGCA
9893141 CCGGTGTTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (19 bp):
ATTCCGGCAAAATTTCCAG
Found at i:9893385 original size:14 final size:15
Alignment explanation
Indices: 9893366--9893407 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 15
9893356 CCCCTCCGAG
9893366 CCGAGCCGTTCTTC-
1 CCGAGCCGTTCTTCT
9893380 CCGAGCCG--CTTCT
1 CCGAGCCGTTCTTCT
9893393 CCGAGCCGTT-TTCT
1 CCGAGCCGTTCTTCT
9893407 C
1 C
9893408 TTCCTTGAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 4 0.16
13 8 0.32
14 13 0.52
ACGTcount: A:0.07, C:0.43, G:0.21, T:0.29
Consensus pattern (15 bp):
CCGAGCCGTTCTTCT
Found at i:9893398 original size:13 final size:14
Alignment explanation
Indices: 9893366--9893402 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
9893356 CCCCTCCGAG
9893366 CCGAGCCGTTCTTC
1 CCGAGCCGTTCTTC
9893380 CCGAGCCG--CTTC
1 CCGAGCCGTTCTTC
9893392 TCCGAGCCGTT
1 -CCGAGCCGTT
9893403 TTCTCTTCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
12 4 0.20
13 8 0.40
14 8 0.40
ACGTcount: A:0.08, C:0.43, G:0.24, T:0.24
Consensus pattern (14 bp):
CCGAGCCGTTCTTC
Found at i:9893485 original size:10 final size:10
Alignment explanation
Indices: 9893472--9893498 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
9893462 TTTTTTTTTT
9893472 TTTTTTTGAA
1 TTTTTTTGAA
9893482 TTTTTTTGAA
1 TTTTTTTGAA
9893492 TTTTTTT
1 TTTTTTT
9893499 TTATTTGACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (10 bp):
TTTTTTTGAA
Found at i:9893498 original size:1 final size:1
Alignment explanation
Indices: 9893454--9893478 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
9893444 CCGCTCCAGG
9893454 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
9893479 GAATTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:9893504 original size:10 final size:10
Alignment explanation
Indices: 9893454--9893504 Score: 52
Period size: 10 Copynumber: 5.3 Consensus size: 10
9893444 CCGCTCCAGG
9893454 TTTTTTTTT-
1 TTTTTTTTTA
9893463 TTTTTTTTT-
1 TTTTTTTTTA
**
9893472 TTTTTTTGAA
1 TTTTTTTTTA
**
9893482 TTTTTTTGAA
1 TTTTTTTTTA
9893492 TTTTTTTTTA
1 TTTTTTTTTA
9893502 TTT
1 TTT
9893505 GACTTTGATT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
9 16 0.43
10 21 0.57
ACGTcount: A:0.10, C:0.00, G:0.04, T:0.86
Consensus pattern (10 bp):
TTTTTTTTTA
Found at i:9893819 original size:152 final size:152
Alignment explanation
Indices: 9893531--9893980 Score: 812
Period size: 152 Copynumber: 3.0 Consensus size: 152
9893521 TTGATTTTTT
* * *
9893531 TTTTCTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTGAAACAGTAGTTTTTCTTGC
1 TTTTGTTTTTTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGC
9893596 ATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAA
66 ATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAA
9893661 TTTCCAATAATTAATTGGATGA
131 TTTCCAATAATTAATTGGATGA
9893683 TTTTGTATTTTT-TTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTG
1 TTTTGT-TTTTTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTG
*
9893747 CATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTTAATTGAGAATA
65 CATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATA
9893812 ATTTCCAATAATTAATTGGATGA
130 ATTTCCAATAATTAATTGGATGA
*
9893835 TTTTGTTTTTTCTTTAATAAATCCGACGACGGAGCCCCTGCAAGTGAAACAGTAGTTTTTCTTGC
1 TTTTGTTTTTTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGC
*
9893900 ATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAA
66 ATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAA
* *
9893965 TTTCCAACAACTAATT
131 TTTCCAATAATTAATT
9893981 ACTTGGTAAA
Statistics
Matches: 287, Mismatches: 9, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
151 5 0.02
152 277 0.97
153 5 0.02
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.38
Consensus pattern (152 bp):
TTTTGTTTTTTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGC
ATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAA
TTTCCAATAATTAATTGGATGA
Found at i:9902346 original size:15 final size:16
Alignment explanation
Indices: 9902326--9902358 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
9902316 TCAAACAAAA
9902326 TTTTTTTCTTCT-TTT
1 TTTTTTTCTTCTCTTT
*
9902341 TTTTTTTTTTCTCTTT
1 TTTTTTTCTTCTCTTT
9902357 TT
1 TT
9902359 GAGTTGAGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (16 bp):
TTTTTTTCTTCTCTTT
Found at i:9902524 original size:363 final size:357
Alignment explanation
Indices: 9901838--9902572 Score: 1206
Period size: 363 Copynumber: 2.0 Consensus size: 357
9901828 TTTCTCTTTC
*
9901838 TTTTTTATTTTAATTTTTTAGATGAAATGACAAACAAAGTGGAAACTAAAGAGAAAGAAAATATT
1 TTTTTTTTTTTAATTTTTTAGATGAAATGACAAACAAAGTGGAAACTAAAGAGAAAGAAAATATT
* *
9901903 GAAGAGTAGCTCTTTTTTTTTTTTTTTTAAGTTACAAGGAAAGAAATGTAGAATCAAACAAAATT
66 GAAGAGTAGCTCCTTTTTTTTTTTTTTGAAGTTACAAGGAAAGAAATGTAGAATCAAACAAAATT
*
9901968 CAACTTAAGTTTTTTTTTTTTTTTCTTTGAGTTGAAGGAAAAGCCAACAGAGTAGAAATCAACCT
131 CAACTT-ACTTTTTTTTTTTTTTTCTTTGAGTTGAAGGAAAAGCCAACAGAGTAGAAATCAACCT
* *
9902033 TAAAACTCTAGGCCAAAAGAAAAAAGAAATCAAGATGGCATTGAAATTATCAAAAAGCTTGGAAA
195 TAAAACTCTAGGCCAAAAGAAAAAAGAAATCAAGATGGCACTGAAATGATCAAAAAGCTTGGAAA
*
9902098 TTGAAAAGAGAACGTTCACTAATCTACCTGGAAAATTCGAACAAAAGAAATTAACAGAACAATCA
260 TTGAAAAGAGAACGTTCACTAATCTACCCGGAAAATTCGAACAAAAGAAATTAACAGAACAATCA
9902163 ACTTCTGATAGCAGAAATGGGC-TTTTGCTTTTT
325 ACTTCTGATAGCAGAAAT-GGCTTTTTGCTTTTT
* * *
9902196 TTTTTTTTTTGTATTTTTTTTGATGAAAATGACAAACAAAGTGGAAACTAAAGAGGAAGAAAATA
1 TTTTTTTTTT-TAATTTTTTAGATG-AAATGACAAACAAAGTGGAAACTAAAGAGAAAGAAAATA
9902261 TTGAAGAGTAGCTCCTTTTTTTTTTTTTTGAAGTTACAAGGAAAGAAATGTAGAATCAAACAAAA
64 TTGAAGAGTAGCTCCTTTTTTTTTTTTTTGAAGTTACAAGGAAAGAAATGTAGAATCAAACAAAA
*** *
9902326 TTTTTTTCTT-CTTTTTTTTTTTTTTCTCTTTTTGAGTTGAGGGAAAAGCCAACAGAGTAGAAAT
129 --TTCAACTTACTTTTTTTTTTTTTT-TC--TTTGAGTTGAAGGAAAAGCCAACAGAGTAGAAAT
9902390 CAACCTTAAAACTCT-GCGCCAAAAGAAAAAAGAAATCAAGATGGCACTGAAATGATCAAAAAGC
189 CAACCTTAAAACTCTAG-GCCAAAAGAAAAAAGAAATCAAGATGGCACTGAAATGATCAAAAAGC
* *
9902454 TTGGAAATTGAAACGAGAACGTTCACTTATCTACCCGGAAAATTCGAACAAAAGAAATTAACAGA
253 TTGGAAATTGAAAAGAGAACGTTCACTAATCTACCCGGAAAATTCGAACAAAAGAAATTAACAGA
9902519 ACAATCAACTTCTGATAGCAGAAATGGCTTTTTGCTTTTT
318 ACAATCAACTTCTGATAGCAGAAATGGCTTTTTGCTTTTT
9902559 TGTTTTTTTTTTAA
1 T-TTTTTTTTTTAA
9902573 GGTTTTATGG
Statistics
Matches: 350, Mismatches: 17, Indels: 15
0.92 0.04 0.04
Matches are distributed among these distances:
358 9 0.03
359 12 0.03
360 115 0.33
361 2 0.01
362 9 0.03
363 194 0.55
364 9 0.03
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (357 bp):
TTTTTTTTTTTAATTTTTTAGATGAAATGACAAACAAAGTGGAAACTAAAGAGAAAGAAAATATT
GAAGAGTAGCTCCTTTTTTTTTTTTTTGAAGTTACAAGGAAAGAAATGTAGAATCAAACAAAATT
CAACTTACTTTTTTTTTTTTTTTCTTTGAGTTGAAGGAAAAGCCAACAGAGTAGAAATCAACCTT
AAAACTCTAGGCCAAAAGAAAAAAGAAATCAAGATGGCACTGAAATGATCAAAAAGCTTGGAAAT
TGAAAAGAGAACGTTCACTAATCTACCCGGAAAATTCGAACAAAAGAAATTAACAGAACAATCAA
CTTCTGATAGCAGAAATGGCTTTTTGCTTTTT
Found at i:9902987 original size:19 final size:21
Alignment explanation
Indices: 9902940--9902987 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
9902930 TTATCCAAAA
*
9902940 TTATAATATATGTATATTTAGT
1 TTAT-ATATATGTATAATTAGT
*
9902962 TTATATATATGTATAATTATT
1 TTATATATATGTATAATTAGT
9902983 TTATA
1 TTATA
9902988 AAAATATACA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (21 bp):
TTATATATATGTATAATTAGT
Found at i:9903755 original size:9 final size:8
Alignment explanation
Indices: 9903728--9903757 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
9903718 ATTTAATCAA
9903728 ATTTTTAT
1 ATTTTTAT
9903736 ATTTTTAT
1 ATTTTTAT
9903744 ATTTTTATT
1 ATTTTTA-T
9903753 ATTTT
1 ATTTT
9903758 AATTAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 15 0.71
9 6 0.29
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
ATTTTTAT
Found at i:9904367 original size:31 final size:33
Alignment explanation
Indices: 9904331--9904391 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
9904321 TGACCCATCA
*
9904331 CTTCTTTTC-T-TCTAGGGTCTTATTTTTTATT
1 CTTCTTTTCTTATCTAAGGTCTTATTTTTTATT
*
9904362 CTTCTTTTCTTATCTAAGGTCTTCTTTTTT
1 CTTCTTTTCTTATCTAAGGTCTTATTTTTT
9904392 TTATTGGTCG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 9 0.35
32 1 0.04
33 16 0.62
ACGTcount: A:0.10, C:0.18, G:0.08, T:0.64
Consensus pattern (33 bp):
CTTCTTTTCTTATCTAAGGTCTTATTTTTTATT
Found at i:9906139 original size:11 final size:12
Alignment explanation
Indices: 9906123--9906151 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
9906113 AAATTTGATT
9906123 AAATTT-AAATC
1 AAATTTAAAATC
9906134 AAATTTAAAATC
1 AAATTTAAAATC
9906146 AAATTT
1 AAATTT
9906152 GTTTTTTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 6 0.35
12 11 0.65
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (12 bp):
AAATTTAAAATC
Found at i:9911170 original size:65 final size:65
Alignment explanation
Indices: 9911101--9911230 Score: 260
Period size: 65 Copynumber: 2.0 Consensus size: 65
9911091 ATAAATAAAA
9911101 TAGAAATTATAACTTTAAATTTAAGATTAAAGAGTTAAAATGTTAAATATATTGAAAATAATTAC
1 TAGAAATTATAACTTTAAATTTAAGATTAAAGAGTTAAAATGTTAAATATATTGAAAATAATTAC
9911166 TAGAAATTATAACTTTAAATTTAAGATTAAAGAGTTAAAATGTTAAATATATTGAAAATAATTAC
1 TAGAAATTATAACTTTAAATTTAAGATTAAAGAGTTAAAATGTTAAATATATTGAAAATAATTAC
9911231 CCATAAACTG
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.51, C:0.03, G:0.09, T:0.37
Consensus pattern (65 bp):
TAGAAATTATAACTTTAAATTTAAGATTAAAGAGTTAAAATGTTAAATATATTGAAAATAATTAC
Found at i:9913370 original size:223 final size:216
Alignment explanation
Indices: 9912962--9913614 Score: 629
Period size: 223 Copynumber: 3.0 Consensus size: 216
9912952 TCTCATAATT
* * * * * *** * **
9912962 AGTAATATGACAAATAAAAATTTAAAGAAGAAAGTGTAATAGAGGTATAAAAGGCACTCATATAA
1 AGTAATATGACAAATAAGAATTGAAAGAAAAAAATGTAAAAGAAACATGAAACACACTCATATAA
* * * * *
9913027 CCTCTCATCC-TAAAAAAAATATGAAAAGCCATAAGTCACAA-AAAAAAATCAAAAGGT-AAAAA
66 -CTCTCACCCTTAAAAAAGATA-GAAAA-TCATAAATCACAACAAAATAA--AAAA--TAAAAAA
* * * * **
9913089 TATAAATGTTATAAAACCAAAGATTTGATCAATAAATTTTAATAGATAATAATTTTAAAGAAAAT
124 TATAAATGTTACAAAA-CTAAGGTTTGATCAATAAATTTTAAAAG-TAATGGTTTTAAA-AAAAT
* *
9913154 GAATATAAGAAAATCAAAAGTTAATAATTCAA
186 GAATACAAGAAAATCAAAAGTAAATAA-TCAA
* *
9913186 A-TAATATGACAAATAAGAATTGGAAGAAAAAAATGTAAAAGAAACATGAGAACA-ACTCGTAT-
1 AGTAATATGACAAATAAGAATTGAAAGAAAAAAATGTAAAAGAAACATGA-AACACACTCATATA
* * *
9913248 TCTCTCACCCTTAAAAAAGATATAAAATCATAAATCACAAGAAAATTAAAATTAAGTAAAAAAAT
65 ACTCTCACCCTTAAAAAAGATAGAAAATCATAAATCACAACAAAA-TAAAA--AA-T-AAAAAAT
* * *
9913313 ATAAATGGTACAAAATCTAAGGTTTGATTAATAAATTTTAACAAGTAATGGTTTTAAATAAATTG
125 ATAAATGTTACAAAA-CTAAGGTTTGATCAATAAATTTTAA-AAGTAATGGTTTTAAA-AAAATG
*
9913378 AATACAAGAAAATTAAAAGTAAATAATCAA
187 AATACAAGAAAATCAAAAGTAAATAATCAA
* * * * *
9913408 AGTAATATGACAAATAATAATTGAAAGAAAAAAGTGTAATAGAGACATGAAAGACACTCATATAA
1 AGTAATATGACAAATAAGAATTGAAAGAAAAAAATGTAAAAGAAACATGAAACACACTCATATAA
* * * * *
9913473 CTCTCACCCTTCAAAGAGATAGAAGATCATAAGTCATAACAAAATAAAAAATAAAAAATATAAAT
66 CTCTCACCCTTAAAAAAGATAGAAAATCATAAATCACAACAAAATAAAAAATAAAAAATATAAAT
* * *
9913538 GTTACAAAACTAAAAGGTTT-ATGAATATATTTTAAAAATAATGGTTTTAGAAAAAA-GAATACA
131 GTTACAAAACT--AAGGTTTGATCAATAAATTTTAAAAGTAATGGTTTTA-AAAAAATGAATACA
9913601 AGAAAATCAAAAGT
193 AGAAAATCAAAAGT
9913615 CGACAATCTA
Statistics
Matches: 359, Mismatches: 55, Indels: 37
0.80 0.12 0.08
Matches are distributed among these distances:
217 20 0.06
218 18 0.05
219 36 0.10
220 21 0.06
221 20 0.06
222 22 0.06
223 180 0.50
224 42 0.12
ACGTcount: A:0.55, C:0.09, G:0.11, T:0.25
Consensus pattern (216 bp):
AGTAATATGACAAATAAGAATTGAAAGAAAAAAATGTAAAAGAAACATGAAACACACTCATATAA
CTCTCACCCTTAAAAAAGATAGAAAATCATAAATCACAACAAAATAAAAAATAAAAAATATAAAT
GTTACAAAACTAAGGTTTGATCAATAAATTTTAAAAGTAATGGTTTTAAAAAAATGAATACAAGA
AAATCAAAAGTAAATAATCAA
Found at i:9918595 original size:22 final size:22
Alignment explanation
Indices: 9918570--9918626 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
9918560 CAATTACCGA
9918570 TGGATTATC-AACGAAATATCGC
1 TGGATTA-CAAACGAAATATCGC
* *
9918592 TGGATTACAAACGGAATATCGA
1 TGGATTACAAACGAAATATCGC
*
9918614 TGAATTACCAAAC
1 TGGATTA-CAAAC
9918627 TATATCTTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 1 0.03
22 24 0.80
23 5 0.17
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.25
Consensus pattern (22 bp):
TGGATTACAAACGAAATATCGC
Found at i:9925461 original size:17 final size:18
Alignment explanation
Indices: 9925428--9925461 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9925418 TATAAGATTA
9925428 TGATAATATAGAATAAGT
1 TGATAATATAGAATAAGT
*
9925446 TGATATTATA-AATAAG
1 TGATAATATAGAATAAG
9925462 ATTAGCTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (18 bp):
TGATAATATAGAATAAGT
Found at i:9926561 original size:13 final size:13
Alignment explanation
Indices: 9926545--9926569 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9926535 AATTATTATT
9926545 TTTTATGAATTAA
1 TTTTATGAATTAA
9926558 TTTTATGAATTA
1 TTTTATGAATTA
9926570 TTGTATATTT
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:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (13 bp):
TTTTATGAATTAA
Found at i:9927385 original size:15 final size:16
Alignment explanation
Indices: 9927355--9927388 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
9927345 TTTTCCTAGC
9927355 TTTTTAACATAGTTTT
1 TTTTTAACATAGTTTT
9927371 TTTTTAAC-TA-TTTT
1 TTTTTAACATAGTTTT
9927385 TTTT
1 TTTT
9927389 GTTTTTTTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 2 0.11
16 8 0.44
ACGTcount: A:0.21, C:0.06, G:0.03, T:0.71
Consensus pattern (16 bp):
TTTTTAACATAGTTTT
Found at i:9934012 original size:3 final size:3
Alignment explanation
Indices: 9934004--9934053 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
9933994 TTCAAATCAA
*
9934004 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT GCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
9934052 TC
1 TC
9934054 AATTCTATTC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.00, C:0.34, G:0.02, T:0.64
Consensus pattern (3 bp):
TCT
Found at i:9943494 original size:15 final size:14
Alignment explanation
Indices: 9943474--9943512 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
9943464 ATTGTTTTAA
*
9943474 TTTTAATAATAATAT
1 TTTTAATAA-AAAAT
9943489 TTTTAATAAAAAAT
1 TTTTAATAAAAAAT
*
9943503 TATTAATAAA
1 TTTTAATAAA
9943513 TAAAAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
TTTTAATAAAAAAT
Found at i:9945708 original size:17 final size:18
Alignment explanation
Indices: 9945675--9945723 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
9945665 ATATATATAA
* *
9945675 TATTTTTTTTATCTTTTT
1 TATTTTATTTATCTTTTG
9945693 TATTTTATTTAT-TTTTG
1 TATTTTATTTATCTTTTG
*
9945710 TATTTTACTTATCT
1 TATTTTATTTATCT
9945724 AATTATATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 15 0.56
18 12 0.44
ACGTcount: A:0.16, C:0.06, G:0.02, T:0.76
Consensus pattern (18 bp):
TATTTTATTTATCTTTTG
Found at i:9946697 original size:23 final size:24
Alignment explanation
Indices: 9946667--9946734 Score: 68
Period size: 27 Copynumber: 2.8 Consensus size: 24
9946657 TTTTTTATTT
9946667 GTTTATTTATT-TTTTTATATTAG
1 GTTTATTTATTATTTTTATATTAG
* *
9946690 GTTTATTTAATATTCTTTTTATCTTAG
1 GTTTA-TT--TATTATTTTTATATTAG
*
9946717 TTTTATTT-TTATTTTTAT
1 GTTTATTTATTATTTTTAT
9946735 TTTTTTACTT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
23 14 0.37
24 3 0.08
26 6 0.16
27 15 0.39
ACGTcount: A:0.21, C:0.03, G:0.06, T:0.71
Consensus pattern (24 bp):
GTTTATTTATTATTTTTATATTAG
Found at i:9946729 original size:26 final size:25
Alignment explanation
Indices: 9946672--9946732 Score: 77
Period size: 27 Copynumber: 2.4 Consensus size: 25
9946662 TATTTGTTTA
9946672 TTTATTTTTTTATATTAGGTTTATT
1 TTTATTTTTTTATATTAGGTTTATT
* * *
9946697 TAATATTCTTTTTATCTTAGTTTTATT
1 T-TTATT-TTTTTATATTAGGTTTATT
9946724 TTTATTTTT
1 TTTATTTTT
9946733 ATTTTTTTAC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
25 4 0.13
26 8 0.27
27 18 0.60
ACGTcount: A:0.20, C:0.03, G:0.05, T:0.72
Consensus pattern (25 bp):
TTTATTTTTTTATATTAGGTTTATT
Found at i:9946746 original size:38 final size:38
Alignment explanation
Indices: 9946706--9946777 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 38
9946696 TTAATATTCT
*
9946706 TTTTATCTTA-GTTTTATT-TTTATTTTTATTTTTTTAC
1 TTTTAT-TTATGTTTTATTATTTATTTATATTTTTTTAC
* *
9946743 TTTTCTTTATTTTTTATTATTTATTTATATTTTTT
1 TTTTATTTATGTTTTATTATTTATTTATATTTTTT
9946778 ATTATTCTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
36 3 0.10
37 12 0.40
38 15 0.50
ACGTcount: A:0.17, C:0.04, G:0.01, T:0.78
Consensus pattern (38 bp):
TTTTATTTATGTTTTATTATTTATTTATATTTTTTTAC
Found at i:9946762 original size:10 final size:10
Alignment explanation
Indices: 9946722--9946783 Score: 56
Period size: 10 Copynumber: 6.1 Consensus size: 10
9946712 CTTAGTTTTA
*
9946722 TTTTTATTTT
1 TTTTTATTAT
*
9946732 TATTTTTTTACT
1 T-TTTTATTA-T
*
9946744 TTTCT-TTAT
1 TTTTTATTAT
9946753 TTTTTATTAT
1 TTTTTATTAT
9946763 TTATTTA-TAT
1 TT-TTTATTAT
9946773 TTTTTATTAT
1 TTTTTATTAT
9946783 T
1 T
9946784 CTATTTTCTT
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
9 9 0.21
10 19 0.44
11 13 0.30
12 2 0.05
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTTATTAT
Found at i:9946781 original size:20 final size:19
Alignment explanation
Indices: 9946717--9946790 Score: 75
Period size: 20 Copynumber: 3.8 Consensus size: 19
9946707 TTTATCTTAG
9946717 TTTTATT-TTTATTTT-TAT
1 TTTTATTATTTATTTTAT-T
9946735 TTTT-TTACTTT-TCTTTATT
1 TTTTATTA-TTTAT-TTTATT
9946754 TTTTATTATTTATTTATATT
1 TTTTATTATTTATTT-TATT
9946774 TTTTATTATTCTATTTT
1 TTTTATTATT-TATTTT
9946791 CTTCAAATAA
Statistics
Matches: 48, Mismatches: 0, Indels: 14
0.77 0.00 0.23
Matches are distributed among these distances:
17 2 0.04
18 5 0.10
19 16 0.33
20 20 0.42
21 5 0.10
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTATTATTTATTTTATT
Found at i:9946788 original size:28 final size:28
Alignment explanation
Indices: 9946731--9946788 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
9946721 ATTTTTATTT
* *
9946731 TTATTTTTTTACTTTTCTTTATTTTTTA
1 TTATTTATTTACTTTTCTTTATTTTCTA
9946759 TTATTTATTTA-TATTT-TTTATTATTCTA
1 TTATTTATTTACT-TTTCTTTATT-TTCTA
9946787 TT
1 TT
9946789 TTCTTCAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
27 7 0.27
28 19 0.73
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (28 bp):
TTATTTATTTACTTTTCTTTATTTTCTA
Found at i:9946954 original size:57 final size:58
Alignment explanation
Indices: 9946819--9947750 Score: 1165
Period size: 57 Copynumber: 15.7 Consensus size: 58
9946809 TTTTCCAAAA
9946819 AAAAAATATTTTTA-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCC
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT--AAG--AAATAAATTTCC
9946880 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAG-AATAAATTTCC
1 -AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAATAAATTTCC
*
9946938 AAAAAATATTTTTAGGGAAAAATTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCC
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT--AAG--AAATAAATTTCC
* * * *
9947000 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTC-TCAGAAATAAATTTCAA
1 --AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAATAAATTTC-C
*
9947060 AAAAATATATTTTTAGGGAAAAGTTGAAAGTGTCAATTTTCCTTAAG-AATAAATTTCC
1 AAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAATAAATTTCC
9947118 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAATAAATTTCC
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAATAAATTTCC
* * * * *
9947175 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATTAATTTTCC-TCATAAATAAATTTCAAA
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAATAAATTTC--C
* *
9947234 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAAG-AATAAATTTTC
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAATAAATTTCC
*
9947291 AAAAAATATTTTTAGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCC
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT--AAG--AAATAAATTTCC
9947353 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAATAAATTTCC
1 --AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAATAAATTTCC
* * *
9947412 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC-TCAGAAATAAATTTCAAAAA
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAATAAATTTC----C
* *
9947473 AAAAAATATTTTTAGGGAGAAGTTGAAAGTATCAATTTTCCTT-AGAAATAAATTTTC
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAATAAATTTCC
** ** *
9947530 AAAAAAGGGGTTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTCGA-AAATAAAAGTTTTC
1 AAAAAA--TATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAAT-AAA-TTTCC
* *
9947591 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAATAAATTTTCA
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAATAAA-TTTCC
* * *
9947649 AAAAAAAAGGTTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTTGA-AAATCGAAATTTTC
1 AAAAAATA--TTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAAT--AAATTTCC
*
9947710 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
9947751 CTACAAAAAA
Statistics
Matches: 779, Mismatches: 47, Indels: 91
0.85 0.05 0.10
Matches are distributed among these distances:
56 4 0.01
57 241 0.31
58 36 0.05
59 222 0.28
60 48 0.06
61 80 0.10
62 39 0.05
63 29 0.04
64 80 0.10
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (58 bp):
AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAATAAATTTCC
Found at i:9947185 original size:237 final size:233
Alignment explanation
Indices: 9946818--9947748 Score: 1262
Period size: 237 Copynumber: 3.9 Consensus size: 233
9946808 ATTTTCCAAA
9946818 AAAAAAATATTTTTA-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCCAA
1 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAG--AAATAAATTTCCAA
9946882 AAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTA-AGAATAAATTTCCAAAAAATA
63 AAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGA-AATAAATTTCCAAAAAATA
* * *
9946946 TTTTTAGGGAAAAATTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCCAAAAAAAATAT
127 TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC-T----G-AAAATAAATTTCAAAAAAAAATAT
* *
9947011 TTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTCAGAAATAAA-TTTC
186 TTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAGAAATAAATTTTC
*
9947058 AAAAAAATATATTTTTAGGGAAAAGTTGAAAGTGTCAATTTTCCTT-AAG-AATAAATTTCC-AA
1 -AAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAGAAATAAATTTCCAAA
9947120 AAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAAATATT
64 AAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAAATATT
* *
9947185 TTTGGGGAAAAGTTGAAAGTATTAATTTTCCTCATAAATAAATTTCAAAAAAAAATATTTTTAGG
129 TTTGGGGAAAAGTTGAAAGTATCAATTTTCCTGA-AAATAAATTTCAAAAAAAAATATTTTTAGG
9947250 GAAAAGTTGAAAGTATCAATTTTTCTTA-AGAATAAATTTTC
193 GAAAAGTTGAAAGTATCAATTTTTCTTAGA-AATAAATTTTC
*
9947291 -AAAAAATATTTTTAGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCCAA
1 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAG--AAATAAATTTCC-A
9947355 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAAATA
62 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAAATA
*
9947420 TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCAAAAAAAAAAATATTTT
127 TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTGA-AAATAAATTTC--AAAAAAAAATATTTT
* *
9947485 TAGGGAGAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
189 TAGGGAAAAGTTGAAAGTATCAATTTTTCTTAGAAATAAATTTTC
*** * * *
9947530 AAAAAAGGGGTTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAA-ATAA-AAGTTTTC-
1 AAAAAA-ATATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCT-TAAAGA-AATAAATTTCCA
* * *
9947591 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAAAAA
62 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA-TTTCCAAAAAAT
*
9947656 AGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCGAAATTTTC---AAAAAATA
126 A--TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC-TGAAAAT--AAA-TTTCAAAAAAAAATA
*
9947718 TTTTTGGGGAAAAGTTGAAAGTATCAATTTT
185 TTTTTAGGGAAAAGTTGAAAGTATCAATTTT
9947749 CCCTACAAAA
Statistics
Matches: 634, Mismatches: 28, Indels: 60
0.88 0.04 0.08
Matches are distributed among these distances:
230 36 0.06
231 7 0.01
232 64 0.10
233 4 0.01
235 11 0.02
236 52 0.08
237 252 0.40
238 19 0.03
239 94 0.15
240 9 0.01
241 46 0.07
242 13 0.02
243 27 0.04
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (233 bp):
AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAGAAATAAATTTCCAAAAA
AATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAAATATTTT
TGGGGAAAAGTTGAAAGTATCAATTTTCCTGAAAATAAATTTCAAAAAAAAATATTTTTAGGGAA
AAGTTGAAAGTATCAATTTTTCTTAGAAATAAATTTTC
Found at i:9960794 original size:10 final size:9
Alignment explanation
Indices: 9960771--9960795 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
9960761 ACAAAAAATT
9960771 TAAAAAAAA
1 TAAAAAAAA
9960780 TAAAAAAAA
1 TAAAAAAAA
9960789 TAAAAAA
1 TAAAAAA
9960796 TTTCACCTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:9971497 original size:11 final size:11
Alignment explanation
Indices: 9971467--9971502 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
9971457 TAATGATATG
9971467 ATATGAAAATA
1 ATATGAAAATA
9971478 ATA--AAAATA
1 ATATGAAAATA
9971487 ATATGAAAATA
1 ATATGAAAATA
9971498 ATATG
1 ATATG
9971503 GGTTAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 9 0.39
11 14 0.61
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (11 bp):
ATATGAAAATA
Found at i:9974812 original size:96 final size:97
Alignment explanation
Indices: 9974707--9974906 Score: 341
Period size: 96 Copynumber: 2.1 Consensus size: 97
9974697 TTTTTCTCAA
**
9974707 ATAT-TATTATATGTTTTGAATTTTGAATTTTTGAATTAAATTTTTTTATTTTATTATG-TTTAA
1 ATATATATTATATGTTTTGAATTTTGAATTTTTGAATTAAAAATTTTTATTTTATTATGTTTTAA
9974770 TATTTTAATTATATTATTTGTAATTTACATAT
66 TATTTTAATTATATTATTTGTAATTTACATAT
* *
9974802 ATATATATTATATGTTTTGAATTTTGAATTTTTTAATTAAAAATTTTTATTTTATTATGTTTTGA
1 ATATATATTATATGTTTTGAATTTTGAATTTTTGAATTAAAAATTTTTATTTTATTATGTTTTAA
*
9974867 TATTTTAATTATATTATTTGTAATTTACGTAT
66 TATTTTAATTATATTATTTGTAATTTACATAT
9974899 ATATATAT
1 ATATATAT
9974907 ATTAAATTAT
Statistics
Matches: 98, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
95 4 0.04
96 51 0.52
97 43 0.44
ACGTcount: A:0.33, C:0.01, G:0.07, T:0.60
Consensus pattern (97 bp):
ATATATATTATATGTTTTGAATTTTGAATTTTTGAATTAAAAATTTTTATTTTATTATGTTTTAA
TATTTTAATTATATTATTTGTAATTTACATAT
Found at i:9981423 original size:18 final size:18
Alignment explanation
Indices: 9981400--9981434 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
9981390 ACTGGCTCTA
*
9981400 GTTCATCATAAATCAAAC
1 GTTCATCACAAATCAAAC
9981418 GTTCATCACAAATCAAA
1 GTTCATCACAAATCAAA
9981435 GTTTAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.46, C:0.23, G:0.06, T:0.26
Consensus pattern (18 bp):
GTTCATCACAAATCAAAC
Found at i:9983910 original size:7 final size:7
Alignment explanation
Indices: 9983867--9983914 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
9983857 TGATTTCAAA
*
9983867 GTTTAAG
1 GTTTAGG
9983874 GTTTAGAG
1 GTTTAG-G
9983882 GATTTAGG
1 G-TTTAGG
*
9983890 GTTTTGG
1 GTTTAGG
*
9983897 TTTTAGG
1 GTTTAGG
9983904 GTTTAGG
1 GTTTAGG
9983911 GTTT
1 GTTT
9983915 GGATGATCAG
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
7 25 0.74
8 4 0.12
9 5 0.15
ACGTcount: A:0.17, C:0.00, G:0.35, T:0.48
Consensus pattern (7 bp):
GTTTAGG
Found at i:9983939 original size:29 final size:29
Alignment explanation
Indices: 9983905--9984035 Score: 94
Period size: 28 Copynumber: 4.6 Consensus size: 29
9983895 GGTTTTAGGG
* *
9983905 TTTAGGGTTTGGATGA-TCAGGGTTTTGAT
1 TTTAGGGTTTGGA-GATTCAAGGATTTGAT
*
9983934 TTTAGGGTTT-GAGATTTAAGGATTTGAT
1 TTTAGGGTTTGGAGATTCAAGGATTTGAT
*
9983962 TTTAGGGTTTGGAGGATTTACAA--TTTTGAT
1 TTTAGGGTTTGGA-GA-TT-CAAGGATTTGAT
* * * ** *
9983992 TTTAGGATTT-AAGGTTTGAGGTTTTGAT
1 TTTAGGGTTTGGAGATTCAAGGATTTGAT
9984020 TTTAGGGTTT-GAGATT
1 TTTAGGGTTTGGAGATT
9984036 TGGGGTTTTG
Statistics
Matches: 82, Mismatches: 13, Indels: 15
0.75 0.12 0.14
Matches are distributed among these distances:
26 1 0.01
27 4 0.05
28 43 0.52
29 13 0.16
30 17 0.21
31 2 0.02
32 2 0.02
ACGTcount: A:0.21, C:0.02, G:0.30, T:0.47
Consensus pattern (29 bp):
TTTAGGGTTTGGAGATTCAAGGATTTGAT
Found at i:9983942 original size:14 final size:14
Alignment explanation
Indices: 9983923--9984057 Score: 69
Period size: 14 Copynumber: 9.5 Consensus size: 14
9983913 TTGGATGATC
9983923 AGGGTTTTGATTTT
1 AGGGTTTTGATTTT
*
9983937 AGGG-TTTGAGATTT
1 AGGGTTTTGA-TTTT
* *
9983951 AAGGATTTGATTTT
1 AGGGTTTTGATTTT
* *
9983965 AGGGTTTGGAGGATTT
1 AGGGTTTTGA--TTTT
***
9983981 ACAATTTTGATTTT
1 AGGGTTTTGATTTT
* * * *
9983995 AGGATTTAAGGTTTG
1 AGGGTTT-TGATTTT
9984010 A-GGTTTTGATTTT
1 AGGGTTTTGATTTT
*
9984023 AGGG-TTTGAGATTT
1 AGGGTTTTGA-TTTT
*
9984037 GGGGTTTTGATTTT
1 AGGGTTTTGATTTT
*
9984051 AGAGTTT
1 AGGGTTT
9984058 AGAGGATTTA
Statistics
Matches: 87, Mismatches: 26, Indels: 16
0.67 0.20 0.12
Matches are distributed among these distances:
13 15 0.17
14 48 0.55
15 15 0.17
16 9 0.10
ACGTcount: A:0.21, C:0.01, G:0.30, T:0.49
Consensus pattern (14 bp):
AGGGTTTTGATTTT
Found at i:9983966 original size:28 final size:28
Alignment explanation
Indices: 9983928--9984067 Score: 131
Period size: 28 Copynumber: 4.9 Consensus size: 28
9983918 TGATCAGGGT
9983928 TTTGATTTTAGGGTTTGAGATTTAAGGA
1 TTTGATTTTAGGGTTTGAGATTTAAGGA
9983956 TTTGATTTTAGGGTTTGGAGGATTTACA--A
1 TTTGATTTTAGGGTTT-GA-GATTTA-AGGA
* * * * *
9983985 TTTTGATTTTAGGATTTAAGGTTTGAGGT
1 -TTTGATTTTAGGGTTTGAGATTTAAGGA
** *
9984014 TTTGATTTTAGGGTTTGAGATTTGGGGT
1 TTTGATTTTAGGGTTTGAGATTTAAGGA
*
9984042 TTTGATTTTAGAGTTTAGAGGATTTA
1 TTTGATTTTAGGGTTT-GA-GATTTA
9984068 CAATTTAGTT
Statistics
Matches: 93, Mismatches: 11, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
27 1 0.01
28 59 0.63
29 6 0.06
30 26 0.28
31 1 0.01
ACGTcount: A:0.22, C:0.01, G:0.29, T:0.49
Consensus pattern (28 bp):
TTTGATTTTAGGGTTTGAGATTTAAGGA
Found at i:9983972 original size:13 final size:13
Alignment explanation
Indices: 9983923--9983972 Score: 55
Period size: 13 Copynumber: 3.6 Consensus size: 13
9983913 TTGGATGATC
9983923 AGGGTTTTGATTTT
1 AGGG-TTTGATTTT
*
9983937 AGGGTTTGAGATTTA
1 AGGGTTT--GATTTT
*
9983952 AGGATTTGATTTT
1 AGGGTTTGATTTT
9983965 AGGGTTTG
1 AGGGTTTG
9983973 GAGGATTTAC
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
13 15 0.50
14 4 0.13
15 11 0.37
ACGTcount: A:0.20, C:0.00, G:0.32, T:0.48
Consensus pattern (13 bp):
AGGGTTTGATTTT
Found at i:9984026 original size:86 final size:86
Alignment explanation
Indices: 9983925--9984095 Score: 263
Period size: 86 Copynumber: 2.0 Consensus size: 86
9983915 GGATGATCAG
* * *
9983925 GGTTTTGATTTTAGGGTTTGAGATTTAAGGATTTGATTTTAGGGTTTGGAGGATTTACAATTTTG
1 GGTTTTGATTTTAGGGTTTGAGATTTAAGGATTTGATTTTAGAGTTTAGAGGATTTACAATTTAG
9983990 ATTTTAGGATTT-AAGGTTTGA
66 -TTTTAGGATTTGAAGGTTTGA
** *
9984011 GGTTTTGATTTTAGGGTTTGAGATTTGGGGTTTTGATTTTAGAGTTTAGAGGATTTACAATTTAG
1 GGTTTTGATTTTAGGGTTTGAGATTTAAGGATTTGATTTTAGAGTTTAGAGGATTTACAATTTAG
9984076 TTTTAGGATTTGGAAGGTTT
66 TTTTAGGATTT-GAAGGTTT
9984096 AGAAATTTGA
Statistics
Matches: 77, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
85 11 0.14
86 59 0.77
87 7 0.09
ACGTcount: A:0.22, C:0.01, G:0.29, T:0.48
Consensus pattern (86 bp):
GGTTTTGATTTTAGGGTTTGAGATTTAAGGATTTGATTTTAGAGTTTAGAGGATTTACAATTTAG
TTTTAGGATTTGAAGGTTTGA
Found at i:9984384 original size:3 final size:3
Alignment explanation
Indices: 9984376--9984417 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
9984366 TATCTTACAT
*
9984376 ATA ATA ATA ATA ATA ATA ATA ACA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
9984418 TTATTATTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:9984422 original size:3 final size:3
Alignment explanation
Indices: 9984416--9984447 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
9984406 ATAATAATAA
*
9984416 TAT TAT TAT TAT TAT TAT TGT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
9984448 ATTTTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:9985666 original size:21 final size:21
Alignment explanation
Indices: 9985642--9985682 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
9985632 TTTCTATTAT
9985642 TTTTTTCTTTT-TTTGTATTTA
1 TTTTTTCTTTTATTT-TATTTA
*
9985663 TTTTTTGTTTTATTTTATTT
1 TTTTTTCTTTTATTTTATTT
9985683 TTTAATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.10, C:0.02, G:0.05, T:0.83
Consensus pattern (21 bp):
TTTTTTCTTTTATTTTATTTA
Found at i:9985674 original size:12 final size:13
Alignment explanation
Indices: 9985650--9985678 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
9985640 ATTTTTTTCT
9985650 TTTTTTGTATTTA
1 TTTTTTGTATTTA
9985663 TTTTTTGT-TTTA
1 TTTTTTGTATTTA
9985675 TTTT
1 TTTT
9985679 ATTTTTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.10, C:0.00, G:0.07, T:0.83
Consensus pattern (13 bp):
TTTTTTGTATTTA
Found at i:9986081 original size:37 final size:38
Alignment explanation
Indices: 9986040--9986116 Score: 104
Period size: 38 Copynumber: 2.1 Consensus size: 38
9986030 CGATCGGGAT
*
9986040 AACACCACAAGT-TAAGAAATAAA-AAATTGATCAAGAC
1 AACACCACAAGTCTAA-AAATAAAGAAAATGATCAAGAC
* *
9986077 AACACCACAAGTCTAATAGTAAAGAAAATGATCAAGAC
1 AACACCACAAGTCTAAAAATAAAGAAAATGATCAAGAC
9986115 AA
1 AA
9986117 TAACGCAAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
37 17 0.49
38 18 0.51
ACGTcount: A:0.56, C:0.17, G:0.12, T:0.16
Consensus pattern (38 bp):
AACACCACAAGTCTAAAAATAAAGAAAATGATCAAGAC
Found at i:9986228 original size:22 final size:22
Alignment explanation
Indices: 9986202--9986278 Score: 75
Period size: 22 Copynumber: 3.5 Consensus size: 22
9986192 TAGCAAGTCA
*
9986202 AAATTATGCCTAGAAGTCTTGG
1 AAATTATGCCTAGAAGTCTTAG
*
9986224 AAATTATACCTA-AAGATCTTAG
1 AAATTATGCCTAGAAG-TCTTAG
* * * *
9986246 AGATTATGTCTGGAGGTCTTAG
1 AAATTATGCCTAGAAGTCTTAG
9986268 AGAATTATGCC
1 A-AATTATGCC
9986279 CGAAGCTCTT
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
21 3 0.07
22 31 0.72
23 9 0.21
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (22 bp):
AAATTATGCCTAGAAGTCTTAG
Found at i:9986288 original size:23 final size:23
Alignment explanation
Indices: 9986240--9986295 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
9986230 TACCTAAAGA
* * * *
9986240 TCTTAGAG-ATTATGTCTGGAGG
1 TCTTAGAGAATTATGCCCGAAGC
9986262 TCTTAGAGAATTATGCCCGAAGC
1 TCTTAGAGAATTATGCCCGAAGC
*
9986285 TCTTAAAGAAT
1 TCTTAGAGAAT
9986296 CGATCGGGAC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 8 0.29
23 20 0.71
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.32
Consensus pattern (23 bp):
TCTTAGAGAATTATGCCCGAAGC
Found at i:9986536 original size:22 final size:21
Alignment explanation
Indices: 9986505--9986554 Score: 82
Period size: 21 Copynumber: 2.3 Consensus size: 21
9986495 GTGAATTGAA
9986505 ATTATACCAAAAGGTCTTAAAG
1 ATTATACCAAAA-GTCTTAAAG
*
9986527 ATTATGCCAAAAGTCTTAAAG
1 ATTATACCAAAAGTCTTAAAG
9986548 ATTATAC
1 ATTATAC
9986555 GCGAAGGTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 15 0.58
22 11 0.42
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (21 bp):
ATTATACCAAAAGTCTTAAAG
Found at i:9986544 original size:21 final size:22
Alignment explanation
Indices: 9986505--9986567 Score: 85
Period size: 22 Copynumber: 2.9 Consensus size: 22
9986495 GTGAATTGAA
9986505 ATTATACCAAAAGGTCTTAAAG
1 ATTATACCAAAAGGTCTTAAAG
*
9986527 ATTATGCCAAAA-GTCTTAAAG
1 ATTATACCAAAAGGTCTTAAAG
*
9986548 ATTATACGC-GAAGGTCTTAA
1 ATTATAC-CAAAAGGTCTTAA
9986568 TAATCATACC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 17 0.47
22 19 0.53
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (22 bp):
ATTATACCAAAAGGTCTTAAAG
Found at i:9986567 original size:22 final size:21
Alignment explanation
Indices: 9986505--9986567 Score: 81
Period size: 21 Copynumber: 2.9 Consensus size: 21
9986495 GTGAATTGAA
9986505 ATTATACCAAAAGGTCTTAAAG
1 ATTATACC-AAAGGTCTTAAAG
* *
9986527 ATTATGCCAAAAGTCTTAAAG
1 ATTATACCAAAGGTCTTAAAG
*
9986548 ATTATACGCGAAGGTCTTAA
1 ATTATAC-CAAAGGTCTTAA
9986568 TAATCATACC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
21 18 0.51
22 17 0.49
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (21 bp):
ATTATACCAAAGGTCTTAAAG
Done.