Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 6 of 297
Found at i:1831648 original size:19 final size:18
Alignment explanation
Indices: 1831581--1831653 Score: 80
Period size: 17 Copynumber: 4.1 Consensus size: 18
1831571 ATAATATATA
*
1831581 AAATAT-AATA-ATAACT
1 AAATATAAATAGATAAAT
*
1831597 GAAATATAAATAGAT-AAG
1 -AAATATAAATAGATAAAT
1831615 AAATATAAATAGATAAAT
1 AAATATAAATAGATAAAT
*
1831633 AAATAAAAATTAGATAAAT
1 AAATATAAA-TAGATAAAT
1831652 AA
1 AA
1831654 TAAGAAAATA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
17 20 0.42
18 15 0.31
19 13 0.27
ACGTcount: A:0.66, C:0.01, G:0.07, T:0.26
Consensus pattern (18 bp):
AAATATAAATAGATAAAT
Found at i:1831696 original size:17 final size:17
Alignment explanation
Indices: 1831676--1831713 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
1831666 TATCGATGAA
*
1831676 AATATAATAGTAGTAAT
1 AATATAATAGTAATAAT
1831693 AATATAATAGTAATAAT
1 AATATAATAGTAATAAT
1831710 AATA
1 AATA
1831714 ACAACGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (17 bp):
AATATAATAGTAATAAT
Found at i:1831779 original size:27 final size:26
Alignment explanation
Indices: 1831720--1831774 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
1831710 AATAACAACG
*
1831720 AAAATAGTAACAATAATATGTTAAAT
1 AAAATAGTAACAATAATATATTAAAT
1831746 AATAATAGTAA-AAT-ATATA-TAATAT
1 AA-AATAGTAACAATAATATATTAA-AT
1831771 AAAA
1 AAAA
1831775 AAATAATAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
24 5 0.19
25 8 0.31
26 5 0.19
27 8 0.31
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (26 bp):
AAAATAGTAACAATAATATATTAAAT
Found at i:1831794 original size:18 final size:18
Alignment explanation
Indices: 1831755--1831815 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
1831745 TAATAATAGT
1831755 AAAATATATATAATATAAA
1 AAAATA-ATATAATATAAA
*
1831774 AAAATAATAGTAAT-TATA
1 AAAATAATA-TAATATAAA
1831792 AAAAT-A-ATAATAGTAAA
1 AAAATAATATAATA-TAAA
1831809 AAAATAA
1 AAAATAA
1831816 GATGATGATG
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
15 4 0.11
16 1 0.03
17 9 0.25
18 12 0.33
19 10 0.28
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (18 bp):
AAAATAATATAATATAAA
Found at i:1831800 original size:21 final size:20
Alignment explanation
Indices: 1831755--1831807 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 20
1831745 TAATAATAGT
1831755 AAAATATATA-TAA-TATAAA
1 AAAATA-ATAGTAATTATAAA
1831774 AAAATAATAGTAATTATAAA
1 AAAATAATAGTAATTATAAA
1831794 AATAATAATAGTAA
1 AA-AATAATAGTAA
1831808 AAAAATAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
18 3 0.10
19 9 0.29
20 8 0.26
21 11 0.35
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (20 bp):
AAAATAATAGTAATTATAAA
Found at i:1831811 original size:17 final size:17
Alignment explanation
Indices: 1831742--1831815 Score: 80
Period size: 17 Copynumber: 4.4 Consensus size: 17
1831732 ATAATATGTT
1831742 AAATAATAATAGT-AAA
1 AAATAATAATAGTAAAA
*
1831758 ATATATATAATA-TAAAA
1 AAATA-ATAATAGTAAAA
* * *
1831775 AAATAATAGTAATTATAA
1 AAATAATAAT-AGTAAAA
1831793 AAATAATAATAGTAAAA
1 AAATAATAATAGTAAAA
1831810 AAATAA
1 AAATAA
1831816 GATGATGATG
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
16 9 0.19
17 25 0.53
18 13 0.28
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (17 bp):
AAATAATAATAGTAAAA
Found at i:1831860 original size:3 final size:3
Alignment explanation
Indices: 1831679--1831843 Score: 51
Period size: 3 Copynumber: 57.0 Consensus size: 3
1831669 CGATGAAAAT
* * * * *
1831679 ATA ATA GTA GTA ATA AT- ATA ATA GTA ATA ATA ATA ACA ACGA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA
* * * * *
1831723 ATA GTA ACA ATA AT- ATG TTAA ATA ATA ATA GTA A-A AT- ATA TATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA -ATA
* * * * * *
1831767 AT- ATA A-A AAA ATA ATA GTA ATT ATA AAA ATA ATA ATA GTA A-A AAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
1831812 ATA A-G ATG ATG ATG ATG ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1831844 TATTAAATAG
Statistics
Matches: 123, Mismatches: 27, Indels: 24
0.71 0.16 0.14
Matches are distributed among these distances:
2 17 0.14
3 100 0.81
4 6 0.05
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:1838421 original size:973 final size:973
Alignment explanation
Indices: 1836535--1838479 Score: 3890
Period size: 973 Copynumber: 2.0 Consensus size: 973
1836525 ATACACCCAT
1836535 GTATACCTGCTATGCATGTCCACAAAAGAGACATAATAAACAAAACCATTTGACTTTAGATAAGC
1 GTATACCTGCTATGCATGTCCACAAAAGAGACATAATAAACAAAACCATTTGACTTTAGATAAGC
1836600 AGGGCCCCAAACAACAGATTCCACTAATTCAAAAAGTGACGAATACAAGGTTTGTAACGAACTAA
66 AGGGCCCCAAACAACAGATTCCACTAATTCAAAAAGTGACGAATACAAGGTTTGTAACGAACTAA
1836665 ATGGCAGCTTATGAGCCATGCCTAACTGGAAAGATGAAAAAACAGTAGACAAGATACTACGTTTG
131 ATGGCAGCTTATGAGCCATGCCTAACTGGAAAGATGAAAAAACAGTAGACAAGATACTACGTTTG
1836730 AAAGGAATATTACAATTTTTTAAAACATTAATAAGAACATTGGTACATGGGTGGCCTAGTCGATT
196 AAAGGAATATTACAATTTTTTAAAACATTAATAAGAACATTGGTACATGGGTGGCCTAGTCGATT
1836795 ATGCCACAAAGTAGGTGAAGGCATGAGTTGATTTGTGTAGAAACACATCGAGCTGGACTGAGGAA
261 ATGCCACAAAGTAGGTGAAGGCATGAGTTGATTTGTGTAGAAACACATCGAGCTGGACTGAGGAA
1836860 TACCACGTTTGCTGGAAACTGACGGTCTAGAGATATCAAACTTGTAGAGACCATTATGCATGCGG
326 TACCACGTTTGCTGGAAACTGACGGTCTAGAGATATCAAACTTGTAGAGACCATTATGCATGCGG
1836925 CTCACTAGGAGAGGTTTCCTGGTTTGAATATCCTTTACAAAGCAAAATAATGGGTGAAATTCAAA
391 CTCACTAGGAGAGGTTTCCTGGTTTGAATATCCTTTACAAAGCAAAATAATGGGTGAAATTCAAA
1836990 ATAGACAGCATTATCCTTGGCAAATTGAGCAACCGAGAGCAAGTTCTTGCACACAGTAGGGACGT
456 ATAGACAGCATTATCCTTGGCAAATTGAGCAACCGAGAGCAAGTTCTTGCACACAGTAGGGACGT
1837055 GTAGAGCATGTTTCAAGCAAAAAACCCGAGAACCAGCCTGCATACTAGATGAGCCTATATTGGCA
521 GTAGAGCATGTTTCAAGCAAAAAACCCGAGAACCAGCCTGCATACTAGATGAGCCTATATTGGCA
1837120 ATCGAAACAGAAGCACCATTACCCATAGAAATATGTCTCATACCTGTATAAGGAGAAACCGCTGA
586 ATCGAAACAGAAGCACCATTACCCATAGAAATATGTCTCATACCTGTATAAGGAGAAACCGCTGA
1837185 AAGAGTTGTCATGCCAGAGGTGATATGGTTAGTTGCCCAGAATCTGGATACTGGGCCTGATCATG
651 AAGAGTTGTCATGCCAGAGGTGATATGGTTAGTTGCCCAGAATCTGGATACTGGGCCTGATCATG
1837250 AGTAGTAGACGACTGCTGTCGAGGAGATGCAACAGCAACCTGACAAGAAGTACTAAAAGAAGAAG
716 AGTAGTAGACGACTGCTGTCGAGGAGATGCAACAGCAACCTGACAAGAAGTACTAAAAGAAGAAG
1837315 AGCCCCCTTAATCATTGAGTTGATGGTAATTAACCGTCATGGACTGGTGCGGATTAACTCCCGAA
781 AGCCCCCTTAATCATTGAGTTGATGGTAATTAACCGTCATGGACTGGTGCGGATTAACTCCCGAA
1837380 AATGTTTCATCAAATCGATGGTAGCATGTTTGAACTAAGTGACCAATTTTGCCACATAATTGACA
846 AATGTTTCATCAAATCGATGGTAGCATGTTTGAACTAAGTGACCAATTTTGCCACATAATTGACA
1837445 TTACGGTTTAGATTGAGACCAACCTCTACCAGTGCCACGCGCCCTGCCACGAGACCAACCACG
911 TTACGGTTTAGATTGAGACCAACCTCTACCAGTGCCACGCGCCCTGCCACGAGACCAACCACG
1837508 GTATACCTGCTATGCATGTCCACAAAAGAGACATAATAAACAAAACCATTTGACTTTAGATAAGC
1 GTATACCTGCTATGCATGTCCACAAAAGAGACATAATAAACAAAACCATTTGACTTTAGATAAGC
1837573 AGGGCCCCAAACAACAGATTCCACTAATTCAAAAAGTGACGAATACAAGGTTTGTAACGAACTAA
66 AGGGCCCCAAACAACAGATTCCACTAATTCAAAAAGTGACGAATACAAGGTTTGTAACGAACTAA
1837638 ATGGCAGCTTATGAGCCATGCCTAACTGGAAAGATGAAAAAACAGTAGACAAGATACTACGTTTG
131 ATGGCAGCTTATGAGCCATGCCTAACTGGAAAGATGAAAAAACAGTAGACAAGATACTACGTTTG
1837703 AAAGGAATATTACAATTTTTTAAAACATTAATAAGAACATTGGTACATGGGTGGCCTAGTCGATT
196 AAAGGAATATTACAATTTTTTAAAACATTAATAAGAACATTGGTACATGGGTGGCCTAGTCGATT
1837768 ATGCCACAAAGTAGGTGAAGGCATGAGTTGATTTGTGTAGAAACACATCGAGCTGGACTGAGGAA
261 ATGCCACAAAGTAGGTGAAGGCATGAGTTGATTTGTGTAGAAACACATCGAGCTGGACTGAGGAA
1837833 TACCACGTTTGCTGGAAACTGACGGTCTAGAGATATCAAACTTGTAGAGACCATTATGCATGCGG
326 TACCACGTTTGCTGGAAACTGACGGTCTAGAGATATCAAACTTGTAGAGACCATTATGCATGCGG
1837898 CTCACTAGGAGAGGTTTCCTGGTTTGAATATCCTTTACAAAGCAAAATAATGGGTGAAATTCAAA
391 CTCACTAGGAGAGGTTTCCTGGTTTGAATATCCTTTACAAAGCAAAATAATGGGTGAAATTCAAA
1837963 ATAGACAGCATTATCCTTGGCAAATTGAGCAACCGAGAGCAAGTTCTTGCACACAGTAGGGACGT
456 ATAGACAGCATTATCCTTGGCAAATTGAGCAACCGAGAGCAAGTTCTTGCACACAGTAGGGACGT
1838028 GTAGAGCATGTTTCAAGCAAAAAACCCGAGAACCAGCCTGCATACTAGATGAGCCTATATTGGCA
521 GTAGAGCATGTTTCAAGCAAAAAACCCGAGAACCAGCCTGCATACTAGATGAGCCTATATTGGCA
1838093 ATCGAAACAGAAGCACCATTACCCATAGAAATATGTCTCATACCTGTATAAGGAGAAACCGCTGA
586 ATCGAAACAGAAGCACCATTACCCATAGAAATATGTCTCATACCTGTATAAGGAGAAACCGCTGA
1838158 AAGAGTTGTCATGCCAGAGGTGATATGGTTAGTTGCCCAGAATCTGGATACTGGGCCTGATCATG
651 AAGAGTTGTCATGCCAGAGGTGATATGGTTAGTTGCCCAGAATCTGGATACTGGGCCTGATCATG
1838223 AGTAGTAGACGACTGCTGTCGAGGAGATGCAACAGCAACCTGACAAGAAGTACTAAAAGAAGAAG
716 AGTAGTAGACGACTGCTGTCGAGGAGATGCAACAGCAACCTGACAAGAAGTACTAAAAGAAGAAG
1838288 AGCCCCCTTAATCATTGAGTTGATGGTAATTAACCGTCATGGACTGGTGCGGATTAACTCCCGAA
781 AGCCCCCTTAATCATTGAGTTGATGGTAATTAACCGTCATGGACTGGTGCGGATTAACTCCCGAA
1838353 AATGTTTCATCAAATCGATGGTAGCATGTTTGAACTAAGTGACCAATTTTGCCACATAATTGACA
846 AATGTTTCATCAAATCGATGGTAGCATGTTTGAACTAAGTGACCAATTTTGCCACATAATTGACA
1838418 TTACGGTTTAGATTGAGACCAACCTCTACCAGTGCCACGCGCCCTGCCACGAGACCAACCAC
911 TTACGGTTTAGATTGAGACCAACCTCTACCAGTGCCACGCGCCCTGCCACGAGACCAACCAC
1838480 AGCCTCGCCC
Statistics
Matches: 972, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
973 972 1.00
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.24
Consensus pattern (973 bp):
GTATACCTGCTATGCATGTCCACAAAAGAGACATAATAAACAAAACCATTTGACTTTAGATAAGC
AGGGCCCCAAACAACAGATTCCACTAATTCAAAAAGTGACGAATACAAGGTTTGTAACGAACTAA
ATGGCAGCTTATGAGCCATGCCTAACTGGAAAGATGAAAAAACAGTAGACAAGATACTACGTTTG
AAAGGAATATTACAATTTTTTAAAACATTAATAAGAACATTGGTACATGGGTGGCCTAGTCGATT
ATGCCACAAAGTAGGTGAAGGCATGAGTTGATTTGTGTAGAAACACATCGAGCTGGACTGAGGAA
TACCACGTTTGCTGGAAACTGACGGTCTAGAGATATCAAACTTGTAGAGACCATTATGCATGCGG
CTCACTAGGAGAGGTTTCCTGGTTTGAATATCCTTTACAAAGCAAAATAATGGGTGAAATTCAAA
ATAGACAGCATTATCCTTGGCAAATTGAGCAACCGAGAGCAAGTTCTTGCACACAGTAGGGACGT
GTAGAGCATGTTTCAAGCAAAAAACCCGAGAACCAGCCTGCATACTAGATGAGCCTATATTGGCA
ATCGAAACAGAAGCACCATTACCCATAGAAATATGTCTCATACCTGTATAAGGAGAAACCGCTGA
AAGAGTTGTCATGCCAGAGGTGATATGGTTAGTTGCCCAGAATCTGGATACTGGGCCTGATCATG
AGTAGTAGACGACTGCTGTCGAGGAGATGCAACAGCAACCTGACAAGAAGTACTAAAAGAAGAAG
AGCCCCCTTAATCATTGAGTTGATGGTAATTAACCGTCATGGACTGGTGCGGATTAACTCCCGAA
AATGTTTCATCAAATCGATGGTAGCATGTTTGAACTAAGTGACCAATTTTGCCACATAATTGACA
TTACGGTTTAGATTGAGACCAACCTCTACCAGTGCCACGCGCCCTGCCACGAGACCAACCACG
Found at i:1842425 original size:27 final size:27
Alignment explanation
Indices: 1842395--1842572 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
1842385 ATATTGAGTC
* * * *
1842395 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
1842422 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
1842449 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
1842477 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
1842504 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
1842531 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
1842558 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
1842573 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:1842534 original size:82 final size:81
Alignment explanation
Indices: 1842416--1842571 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
1842406 TGCTATATAA
* *
1842416 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
1842481 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
1842498 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
1842562 CACTTAGTGC
65 CACTTAGTGC
1842572 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:1850487 original size:27 final size:27
Alignment explanation
Indices: 1850457--1850634 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
1850447 ATATTGAGCC
* *
1850457 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
1850484 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
1850511 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
1850539 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
1850566 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
1850593 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
1850620 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
1850635 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:1850569 original size:55 final size:54
Alignment explanation
Indices: 1850457--1850634 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
1850447 ATATTGAGCC
* * * * *
1850457 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
1850511 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
1850566 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
1850620 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
1850635 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:1854308 original size:32 final size:31
Alignment explanation
Indices: 1854248--1854308 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
1854238 TGGAATAAAC
* * *
1854248 TATATACATAATAAGTTTGAAAGGAAATACG
1 TATATACATAATAAATTTAAAAGAAAATACG
*
1854279 TATATATATGAATAAATTTAAAAGAAAATA
1 TATATACAT-AATAAATTTAAAAGAAAATA
1854309 TAGGCTTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 8 0.32
32 17 0.68
ACGTcount: A:0.54, C:0.03, G:0.11, T:0.31
Consensus pattern (31 bp):
TATATACATAATAAATTTAAAAGAAAATACG
Found at i:1854510 original size:22 final size:20
Alignment explanation
Indices: 1854471--1854515 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 20
1854461 ACAATTAAAC
1854471 AAAAAAAAATCAAATGAAAGT
1 AAAAAAAAATCAAATGAAA-T
*
1854492 AAAAAAAAATCAAGTTGAAAT
1 AAAAAAAAATCAA-ATGAAAT
1854513 AAA
1 AAA
1854516 GTAAAACTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.71, C:0.04, G:0.09, T:0.16
Consensus pattern (20 bp):
AAAAAAAAATCAAATGAAAT
Found at i:1858811 original size:20 final size:20
Alignment explanation
Indices: 1858786--1858827 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
1858776 TTTGTATGGG
1858786 CTAAAGCAAGTGCCTAGAGC
1 CTAAAGCAAGTGCCTAGAGC
1858806 CTAAAGCAAGTGCCTAGAGC
1 CTAAAGCAAGTGCCTAGAGC
1858826 CT
1 CT
1858828 GGTACATAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.26, G:0.24, T:0.17
Consensus pattern (20 bp):
CTAAAGCAAGTGCCTAGAGC
Found at i:1862812 original size:265 final size:265
Alignment explanation
Indices: 1862339--1862867 Score: 1058
Period size: 265 Copynumber: 2.0 Consensus size: 265
1862329 AAAATAAATT
1862339 CTTTTGTTATTAGATATAGTTAATTTAAAAATAATGTGAAATAAATTAAAATAAAAAGTTTAAAT
1 CTTTTGTTATTAGATATAGTTAATTTAAAAATAATGTGAAATAAATTAAAATAAAAAGTTTAAAT
1862404 TTTATTTTGATTTTTAAGTAATTTATATCTTTTATATATATATATATAAACTATGCATTGTAACA
66 TTTATTTTGATTTTTAAGTAATTTATATCTTTTATATATATATATATAAACTATGCATTGTAACA
1862469 TATCTTGTTTTGTTTGAGTTGTATTGTTTAGGTTTCGTTTGTTTCACTAAAAATAGCTTTCGAAA
131 TATCTTGTTTTGTTTGAGTTGTATTGTTTAGGTTTCGTTTGTTTCACTAAAAATAGCTTTCGAAA
1862534 AATGATTTATTTTTTTTAAAAAAATTAATATGTTTTAGTGTTTGGATGAATCTGTATAAAATACT
196 AATGATTTATTTTTTTTAAAAAAATTAATATGTTTTAGTGTTTGGATGAATCTGTATAAAATACT
1862599 TTTTA
261 TTTTA
1862604 CTTTTGTTATTAGATATAGTTAATTTAAAAATAATGTGAAATAAATTAAAATAAAAAGTTTAAAT
1 CTTTTGTTATTAGATATAGTTAATTTAAAAATAATGTGAAATAAATTAAAATAAAAAGTTTAAAT
1862669 TTTATTTTGATTTTTAAGTAATTTATATCTTTTATATATATATATATAAACTATGCATTGTAACA
66 TTTATTTTGATTTTTAAGTAATTTATATCTTTTATATATATATATATAAACTATGCATTGTAACA
1862734 TATCTTGTTTTGTTTGAGTTGTATTGTTTAGGTTTCGTTTGTTTCACTAAAAATAGCTTTCGAAA
131 TATCTTGTTTTGTTTGAGTTGTATTGTTTAGGTTTCGTTTGTTTCACTAAAAATAGCTTTCGAAA
1862799 AATGATTTATTTTTTTTAAAAAAATTAATATGTTTTAGTGTTTGGATGAATCTGTATAAAATACT
196 AATGATTTATTTTTTTTAAAAAAATTAATATGTTTTAGTGTTTGGATGAATCTGTATAAAATACT
1862864 TTTT
261 TTTT
1862868 TGTTGTTTGG
Statistics
Matches: 264, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
265 264 1.00
ACGTcount: A:0.35, C:0.05, G:0.11, T:0.48
Consensus pattern (265 bp):
CTTTTGTTATTAGATATAGTTAATTTAAAAATAATGTGAAATAAATTAAAATAAAAAGTTTAAAT
TTTATTTTGATTTTTAAGTAATTTATATCTTTTATATATATATATATAAACTATGCATTGTAACA
TATCTTGTTTTGTTTGAGTTGTATTGTTTAGGTTTCGTTTGTTTCACTAAAAATAGCTTTCGAAA
AATGATTTATTTTTTTTAAAAAAATTAATATGTTTTAGTGTTTGGATGAATCTGTATAAAATACT
TTTTA
Found at i:1867070 original size:48 final size:48
Alignment explanation
Indices: 1866876--1867067 Score: 278
Period size: 48 Copynumber: 4.0 Consensus size: 48
1866866 ACCGTGCTAA
* * * *
1866876 ATGTGCCTGTGTAAGACCATGTTTGGGACATGGAATCGGCGATGAAAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATAT
*
1866924 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCGTCAGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATAT
* *
1866972 ATGTACCTGTGTAAGACCATGTCTGGGACATGGCATC-GATGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAG-CGATGATAT
* * *
1867020 GTGTGCCTATGTAAGACCATGTCTGGGACATGGCATCAGTGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATAT
1867068 GTGGATTCAT
Statistics
Matches: 131, Mismatches: 11, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
47 1 0.01
48 129 0.98
49 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.28
Consensus pattern (48 bp):
ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATAT
Found at i:1867080 original size:48 final size:47
Alignment explanation
Indices: 1866885--1867103 Score: 228
Period size: 48 Copynumber: 4.6 Consensus size: 47
1866875 AATGTGCCTG
* * * * *
1866885 TGTAAGACCATGTTTGGGACATGGAATCGGCGATGAAATATGT-GCCTG
1 TGTAAGACCATGTCTGGGACATGGCATCAGCGATG--ATATGTGGACTA
* * * *
1866933 TGTAAGACCATGTCTGGGACATGGCGTCAGCGATGATATATGTACCTG
1 TGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATGTGGA-CTA
* *
1866981 TGTAAGACCATGTCTGGGACATGGCATC-GATGATGATATGTGTGCCTA
1 TGTAAGACCATGTCTGGGACATGGCATCAG-CGATGATATGTG-GACTA
* *
1867029 TGTAAGACCATGTCTGGGACATGGCATCAGTGATGATATGTGGATTCA
1 TGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATGTGGACT-A
*
1867077 TGTAAGACCATGT-TGAGGACAGGGCAT
1 TGTAAGACCATGTCTG-GGACATGGCAT
1867104 TGGTACTTTA
Statistics
Matches: 148, Mismatches: 16, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
46 5 0.03
47 5 0.03
48 137 0.93
49 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.27
Consensus pattern (47 bp):
TGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATGTGGACTA
Found at i:1867081 original size:96 final size:95
Alignment explanation
Indices: 1866885--1867103 Score: 278
Period size: 96 Copynumber: 2.3 Consensus size: 95
1866875 AATGTGCCTG
* * *
1866885 TGTAAGACCATGTTTGGGACATGGAATCGGCGATGAAATATGTGCCTGTGTAAGACCATGTCTGG
1 TGTAAGACCATG-TTGGGACATGGCATCGACGATGAAATATGTGCCTATGTAAGACCATGTCTGG
* * *
1866950 GACATGGCGTCAGCGATGATATATGTACCTG
65 GACATGGCATCAGCGATGATATATGGACCTA
* * *
1866981 TGTAAGACCATGTCTGGGACATGGCATCGATGATGATATGTGTGCCTATGTAAGACCATGTCTGG
1 TGTAAGACCATGT-TGGGACATGGCATCGACGATGAAATATGTGCCTATGTAAGACCATGTCTGG
* * *
1867046 GACATGGCATCAGTGATGATATGTGGA-TTCA
65 GACATGGCATCAGCGATGATATATGGACCT-A
*
1867077 TGTAAGACCATGTTGAGGACAGGGCAT
1 TGTAAGACCATGTTG-GGACATGGCAT
1867104 TGGTACTTTA
Statistics
Matches: 107, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
95 4 0.04
96 103 0.96
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.27
Consensus pattern (95 bp):
TGTAAGACCATGTTGGGACATGGCATCGACGATGAAATATGTGCCTATGTAAGACCATGTCTGGG
ACATGGCATCAGCGATGATATATGGACCTA
Found at i:1883379 original size:54 final size:53
Alignment explanation
Indices: 1883201--1883409 Score: 208
Period size: 54 Copynumber: 3.9 Consensus size: 53
1883191 TTTTCCTTTT
* * * *
1883201 TGAACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTA
1 TGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTA
* * * *
1883254 TGAACTCACCAATGCTATGCCTTGGCATGGTCTT--ATG-TAGGACGTTTGCCTTA
1 TGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATA--TC-CTTGCCTTA
* * * *
1883307 TGGTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCTTTA
1 T-G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTA
* * *
1883362 TAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 T-GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTT
1883410 ATCTTACCAA
Statistics
Matches: 128, Mismatches: 20, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
50 2 0.02
51 3 0.02
52 1 0.01
53 38 0.30
54 42 0.33
55 37 0.29
56 1 0.01
57 3 0.02
58 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (53 bp):
TGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTA
Found at i:1885695 original size:40 final size:40
Alignment explanation
Indices: 1885636--1885843 Score: 260
Period size: 40 Copynumber: 5.2 Consensus size: 40
1885626 CATTTGAATG
* *
1885636 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
1885676 TTATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATT
*
1885716 TTATCCGGGTTAAGACCCGAAGGCATTTGTG-TGAGTTGA-T
1 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCT-AG-TGATT
* * *
1885756 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * * *
1885796 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATT
1885836 ATATCCGG
1 ATATCCGG
1885844 CTAAATTCCG
Statistics
Matches: 148, Mismatches: 15, Indels: 10
0.86 0.09 0.06
Matches are distributed among these distances:
39 3 0.02
40 142 0.96
41 3 0.02
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.29
Consensus pattern (40 bp):
ATATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:1893537 original size:55 final size:53
Alignment explanation
Indices: 1893412--1893600 Score: 195
Period size: 55 Copynumber: 3.5 Consensus size: 53
1893402 AACTTACCAT
* * * * * *
1893412 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCCTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGGAT-TTTGCCTTATAGAACTCATCAA
* * *
1893465 TGCTATGCCTTGGCATGGTCTTACATGGGACTTTTGCCTTTTAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGGA-TTTTGCCTTATAG-AACTCATCAA
* *
1893520 TGCCATGTCTTGACATGGTCTTACAT--GATTTCCATGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGGATTT---TGCCTTATAGAACTCATCAA
*
1893574 TGTCATGCCTTGACATGGTCTTACATG
1 TGCCATGCCTTGACATGGTCTTACATG
1893601 ATATCCTTAT
Statistics
Matches: 113, Mismatches: 16, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
52 3 0.03
53 34 0.30
54 35 0.31
55 41 0.36
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.36
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGGGATTTTGCCTTATAGAACTCATCAA
Found at i:1898209 original size:48 final size:48
Alignment explanation
Indices: 1898151--1898432 Score: 246
Period size: 48 Copynumber: 5.9 Consensus size: 48
1898141 CGTGACACCG
* * * *
1898151 TGATAAATGTGCCTATGTACGAGCATTGCTT-GGACATGGCATCGACGA
1 TGATATATGTGCCTATGTAAGACCA-TGTTTGGGACATGGCATCGACGA
* * * * * * *
1898199 TGATATATGTGCCTGTGTAAGATCAAGTTTGGGATATTGCGTCGTCGA
1 TGATATATGTGCCTATGTAAGACCATGTTTGGGACATGGCATCGACGA
*
1898247 TGATATATGTGCCTATGTAAGACCATGTTTGGGACATGGCATCGGCGA
1 TGATATATGTGCCTATGTAAGACCATGTTTGGGACATGGCATCGACGA
* * * **
1898295 TGATATTTGTGCCTGTGTAAGACCATGTTTGGGACATGGCCTCGGTGA
1 TGATATATGTGCCTATGTAAGACCATGTTTGGGACATGGCATCGACGA
* * * ** ** *
1898343 TAATATGTGTGCC-AGTGTAAGACCATGTCTGATACATGGCATTAACAA
1 TGATATATGTGCCTA-TGTAAGACCATGTTTGGGACATGGCATCGACGA
* ** **
1898391 TGATATGTG-GATTCATGTAAGACCATGTCGGGGACATGGCAT
1 TGATATATGTGCCT-ATGTAAGACCATGTTTGGGACATGGCAT
1898433 TGGTACTTTA
Statistics
Matches: 191, Mismatches: 39, Indels: 8
0.80 0.16 0.03
Matches are distributed among these distances:
47 4 0.02
48 186 0.97
49 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (48 bp):
TGATATATGTGCCTATGTAAGACCATGTTTGGGACATGGCATCGACGA
Found at i:1898315 original size:96 final size:96
Alignment explanation
Indices: 1898151--1898384 Score: 276
Period size: 96 Copynumber: 2.4 Consensus size: 96
1898141 CGTGACACCG
* * * *
1898151 TGATAAATGTGCCTATGTACGAGCATTGCTT-GGACATGGCATCGACGATGATATATGTGCCTGT
1 TGATATATGTGCCTATGTAAGACCA-TGTTTGGGACATGGCATCGACGATGATATATGTGCCTGT
* * * *
1898215 GTAAGATCAAGTTTGGGATATTGCGTC-GTCGA
65 GTAAGACCAAGTTTGGGACATGGCCTCGGT-GA
* *
1898247 TGATATATGTGCCTATGTAAGACCATGTTTGGGACATGGCATCGGCGATGATATTTGTGCCTGTG
1 TGATATATGTGCCTATGTAAGACCATGTTTGGGACATGGCATCGACGATGATATATGTGCCTGTG
*
1898312 TAAGACCATGTTTGGGACATGGCCTCGGTGA
66 TAAGACCAAGTTTGGGACATGGCCTCGGTGA
* * * **
1898343 TAATATGTGTGCC-AGTGTAAGACCATGTCTGATACATGGCAT
1 TGATATATGTGCCTA-TGTAAGACCATGTTTGGGACATGGCAT
1898385 TAACAATGAT
Statistics
Matches: 119, Mismatches: 16, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
95 5 0.04
96 112 0.94
97 2 0.02
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.31
Consensus pattern (96 bp):
TGATATATGTGCCTATGTAAGACCATGTTTGGGACATGGCATCGACGATGATATATGTGCCTGTG
TAAGACCAAGTTTGGGACATGGCCTCGGTGA
Found at i:1913807 original size:14 final size:14
Alignment explanation
Indices: 1913788--1913833 Score: 67
Period size: 14 Copynumber: 3.3 Consensus size: 14
1913778 ATGGTAAGAG
1913788 TGGTATGAACT-AAA
1 TGGTATGAA-TGAAA
1913802 TGGTATGAATGAAA
1 TGGTATGAATGAAA
*
1913816 TGGTATGAATGAAT
1 TGGTATGAATGAAA
1913830 TGGT
1 TGGT
1913834 CGATTTAAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 1 0.03
14 29 0.97
ACGTcount: A:0.37, C:0.02, G:0.28, T:0.33
Consensus pattern (14 bp):
TGGTATGAATGAAA
Found at i:1919672 original size:48 final size:48
Alignment explanation
Indices: 1919617--1919888 Score: 240
Period size: 46 Copynumber: 5.8 Consensus size: 48
1919607 ATTGGTGTGA
*
1919617 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGACGAGT
* * * * * *
1919665 GCTAGTGTAAG-GCATGTCTGGGACAT-GTATCGGCCTTGAGACGTA-A
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGACG-AGT
*
1919711 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TACGAGA--TGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-CGAGACGAGT
* * * * *
1919755 GTCAGTGTAAGACCATGTCTGGGATATGGCATCGGTA-CGGATACGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATC-GAGACGAGT
* * * * * * *
1919803 GCTAGTGTAAGACCATGTCTGGGATATGGCATCAGCCTCAATAATGA-T
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGA-GACGAGT
*
1919851 AGCCAGTGTAAGACCATGTCCGGGACATGGCATCGGCA
1 -GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1919889 GCTTACCCTG
Statistics
Matches: 181, Mismatches: 30, Indels: 25
0.77 0.13 0.11
Matches are distributed among these distances:
44 11 0.06
45 15 0.08
46 60 0.33
47 15 0.08
48 44 0.24
49 36 0.20
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (48 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGACGAGT
Found at i:1921015 original size:21 final size:20
Alignment explanation
Indices: 1920991--1921029 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
1920981 TCAAGTTGGT
*
1920991 CACACGGGCGTGTTGCCCTTC
1 CACACAGGCGTGTT-CCCTTC
1921012 CACACAGGCGTGTTCCCT
1 CACACAGGCGTGTTCCCT
1921030 ATTTTAAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.13, C:0.38, G:0.26, T:0.23
Consensus pattern (20 bp):
CACACAGGCGTGTTCCCTTC
Found at i:1922133 original size:14 final size:14
Alignment explanation
Indices: 1922099--1922133 Score: 54
Period size: 13 Copynumber: 2.5 Consensus size: 14
1922089 TGAAAGTTGG
1922099 AATTGAAATTGCAAA
1 AATT-AAATTGCAAA
1922114 AA-TAAATTGCAAA
1 AATTAAATTGCAAA
1922127 AATTAAA
1 AATTAAA
1922134 ATTAAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 12 0.63
14 5 0.26
15 2 0.11
ACGTcount: A:0.60, C:0.06, G:0.09, T:0.26
Consensus pattern (14 bp):
AATTAAATTGCAAA
Found at i:1922881 original size:20 final size:21
Alignment explanation
Indices: 1922857--1922908 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
1922847 AATTAAATTC
1922857 TAAAAGATAAATACAA-ATAAA
1 TAAAAGATAAATA-AAGATAAA
*
1922878 -AAAAGATAATTAAAGATAAA
1 TAAAAGATAAATAAAGATAAA
1922898 TAAAA-ATAAAT
1 TAAAAGATAAAT
1922909 CCTAAATCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 2 0.07
20 21 0.78
21 4 0.15
ACGTcount: A:0.71, C:0.02, G:0.06, T:0.21
Consensus pattern (21 bp):
TAAAAGATAAATAAAGATAAA
Found at i:1922886 original size:10 final size:11
Alignment explanation
Indices: 1922857--1922908 Score: 58
Period size: 10 Copynumber: 5.1 Consensus size: 11
1922847 AATTAAATTC
1922857 TAAAAGATAAA
1 TAAAAGATAAA
*
1922868 TACAA-ATAAA
1 TAAAAGATAAA
1922878 -AAAAGAT-AA
1 TAAAAGATAAA
*
1922887 TTAAAGATAAA
1 TAAAAGATAAA
1922898 TAAAA-ATAAA
1 TAAAAGATAAA
1922908 T
1 T
1922909 CCTAAATCTA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
9 5 0.15
10 19 0.56
11 10 0.29
ACGTcount: A:0.71, C:0.02, G:0.06, T:0.21
Consensus pattern (11 bp):
TAAAAGATAAA
Found at i:1922958 original size:14 final size:13
Alignment explanation
Indices: 1922922--1922959 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
1922912 AAATCTAAAT
1922922 CTAAATAATTATC
1 CTAAATAATTATC
*
1922935 CTTAATAATTATC
1 CTAAATAATTATC
1922948 CTAATATAATTA
1 CTAA-ATAATTA
1922960 AACATTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (13 bp):
CTAAATAATTATC
Found at i:1931526 original size:13 final size:13
Alignment explanation
Indices: 1931508--1931532 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1931498 GATAAGATAT
1931508 GTGTGAAAATTTC
1 GTGTGAAAATTTC
1931521 GTGTGAAAATTT
1 GTGTGAAAATTT
1931533 TATCGTCTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:1932784 original size:42 final size:42
Alignment explanation
Indices: 1932628--1932785 Score: 160
Period size: 42 Copynumber: 3.7 Consensus size: 42
1932618 TATGAGTTGT
* *
1932628 CGTGTAAGACCACATCTGGAACATTGGCATCGAT-TTGAGATTTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGATATT--GA-TTA
* ** *
1932672 CGTGTAAGACCATGTCTGGGACATCAGCATC-ATATTTGATTT
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGATA-TTGATTA
* * *
1932714 CGTGTAAGACC-CTGTTTGGGATAGTGGCATCGATATTGATTA
1 CGTGTAAGACCAC-GTCTGGGACATTGGCATCGATATTGATTA
*
1932756 CATGTAAGACCACGTCTGGGACATTGGCAT
1 CGTGTAAGACCACGTCTGGGACATTGGCAT
1932786 TGTACGAGCT
Statistics
Matches: 92, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
42 56 0.61
43 8 0.09
44 26 0.28
45 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (42 bp):
CGTGTAAGACCACGTCTGGGACATTGGCATCGATATTGATTA
Found at i:1952738 original size:42 final size:42
Alignment explanation
Indices: 1952686--1952813 Score: 148
Period size: 42 Copynumber: 3.0 Consensus size: 42
1952676 ACACATAGAA
* * * **
1952686 TCATACCAATGACATATCCAAAATATGGTCTTACATGGGATC
1 TCATATCAATGCCATATCCAAAATATGGTCTTACACGAAATC
* * *
1952728 TCATATCAATGCCAATAGCCTAGATATGGTCTTACACGAAATC
1 TCATATCAATGCC-ATATCCAAAATATGGTCTTACACGAAATC
* * *
1952771 TCATATCGATGCCATATCCCAAATATGGTCTTACACGTAATC
1 TCATATCAATGCCATATCCAAAATATGGTCTTACACGAAATC
1952813 T
1 T
1952814 TAACTAACCC
Statistics
Matches: 72, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 37 0.51
43 35 0.49
ACGTcount: A:0.34, C:0.23, G:0.13, T:0.30
Consensus pattern (42 bp):
TCATATCAATGCCATATCCAAAATATGGTCTTACACGAAATC
Found at i:1960258 original size:42 final size:42
Alignment explanation
Indices: 1960210--1960331 Score: 145
Period size: 43 Copynumber: 2.9 Consensus size: 42
1960200 CACACATATA
* * * ****
1960210 CTCATACCAATGTCATATCTCAGATATGGTCTTACATGGGAT
1 CTCATACCGATGCCATATCCCAGATATGGTCTTACACAAAAT
* *
1960252 CTCATACCGATGCCAATAGCCCAGCTATGGTCTTACACAAAAT
1 CTCATACCGATGCC-ATATCCCAGATATGGTCTTACACAAAAT
*
1960295 CTCATATCGATGCCATATCCCAGATATGGTCTTACAC
1 CTCATACCGATGCCATATCCCAGATATGGTCTTACAC
1960332 GTAATCCTAA
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 33 0.49
43 34 0.51
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.29
Consensus pattern (42 bp):
CTCATACCGATGCCATATCCCAGATATGGTCTTACACAAAAT
Found at i:1963573 original size:25 final size:25
Alignment explanation
Indices: 1963531--1963588 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
1963521 CAACTCGTGA
*
1963531 GAGCATACCGATCTACAGCTCAAAT
1 GAGCATACCGATCTACAGCCCAAAT
* *
1963556 GAGCATACCG-TTTCACAGCCCATAT
1 GAGCATACCGATCT-ACAGCCCAAAT
*
1963581 CAGCATAC
1 GAGCATAC
1963589 TTGTACATGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 2 0.07
25 26 0.93
ACGTcount: A:0.33, C:0.31, G:0.16, T:0.21
Consensus pattern (25 bp):
GAGCATACCGATCTACAGCCCAAAT
Found at i:1972591 original size:9 final size:9
Alignment explanation
Indices: 1972577--1972613 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
1972567 TATAGTTTGA
1972577 TATTCGAAT
1 TATTCGAAT
1972586 TATTCGAAT
1 TATTCGAAT
*
1972595 TATTCGAGT
1 TATTCGAAT
*
1972604 TATTTGAAT
1 TATTCGAAT
1972613 T
1 T
1972614 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:1972686 original size:18 final size:18
Alignment explanation
Indices: 1972663--1972697 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1972653 ATTTGAGTTG
1972663 ACTCGAATAACTCGATTA
1 ACTCGAATAACTCGATTA
*
1972681 ACTCGAATAATTCGATT
1 ACTCGAATAACTCGATT
1972698 CGTTTAACTC
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:0.37, C:0.20, G:0.11, T:0.31
Consensus pattern (18 bp):
ACTCGAATAACTCGATTA
Found at i:1982206 original size:19 final size:19
Alignment explanation
Indices: 1982171--1982247 Score: 86
Period size: 19 Copynumber: 4.1 Consensus size: 19
1982161 GCTTATGGTT
*
1982171 AATTAATTAAAGTTTAATTA
1 AATTAATT-AAGATTAATTA
1982191 AATTAATTAAGATTAATTA
1 AATTAATTAAGATTAATTA
* *
1982210 AA-AAATAAAG-TCTAATTA
1 AATTAATTAAGAT-TAATTA
*
1982228 AATTAATTAAGATTATTTA
1 AATTAATTAAGATTAATTA
1982247 A
1 A
1982248 TAATTAAACT
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
17 1 0.02
18 14 0.29
19 24 0.50
20 9 0.19
ACGTcount: A:0.53, C:0.01, G:0.05, T:0.40
Consensus pattern (19 bp):
AATTAATTAAGATTAATTA
Found at i:1985547 original size:46 final size:46
Alignment explanation
Indices: 1985480--1985651 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
1985470 AACCTGCCCC
1985480 TAAGTGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAG-TTCGGGCGTTCGCATCCA
*
1985526 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * *
1985574 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
1985619 TAGGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1985652 ATGCTCAACC
Statistics
Matches: 107, Mismatches: 9, Indels: 20
0.79 0.07 0.15
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 3 0.03
46 58 0.54
47 28 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:1985597 original size:93 final size:93
Alignment explanation
Indices: 1985485--1985655 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
1985475 GCCCCTAAGT
* *
1985485 GAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1985549 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
*
1985578 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1985643 CGAGTTCGGATGC
66 CGAGTTCGGATGC
1985656 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:1986109 original size:30 final size:30
Alignment explanation
Indices: 1986075--1986134 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
1986065 ATTTAATACG
*
1986075 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTACCCCTA
* * *
1986105 AACTTTTGCATAATTACACTTTTACCCCTA
1 AACTTTGGAAAAATTACACTTTTACCCCTA
1986135 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTACCCCTA
Found at i:1992157 original size:22 final size:22
Alignment explanation
Indices: 1992110--1992157 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
1992100 GTTTATGTTG
* *
1992110 CAACTTAGGGGGTTCCTCATCC
1 CAACTTAGAGGGTTCCTCATCA
*
1992132 CAACTTCGAGGGTTCCT-AGTCA
1 CAACTTAGAGGGTTCCTCA-TCA
1992154 CAAC
1 CAAC
1992158 GCAACATGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.25
Consensus pattern (22 bp):
CAACTTAGAGGGTTCCTCATCA
Found at i:1993999 original size:51 final size:51
Alignment explanation
Indices: 1993930--1994056 Score: 166
Period size: 51 Copynumber: 2.5 Consensus size: 51
1993920 ACCATCTAAG
* * * *
1993930 AACACCCCAGGGCACTAAGTGCCAAGCCTGTAGGCTAAACATCTC-TCTAGT
1 AACACACCTGGGCACTAAGTGCCAAGCCTGTAGACTAAAAATCTCTTC-AGT
* *
1993981 AACATACTTGGGCACTAAGTGCCAAGCCTGTAGACTAAAAATCTCTTCAGT
1 AACACACCTGGGCACTAAGTGCCAAGCCTGTAGACTAAAAATCTCTTCAGT
**
1994032 AACACACCTAAGCACTAAGTGCCAA
1 AACACACCTGGGCACTAAGTGCCAA
1994057 TCCCATAGGC
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
51 63 0.97
52 2 0.03
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.20
Consensus pattern (51 bp):
AACACACCTGGGCACTAAGTGCCAAGCCTGTAGACTAAAAATCTCTTCAGT
Found at i:2000505 original size:26 final size:26
Alignment explanation
Indices: 2000474--2000581 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
2000464 TGAAATGCCC
*
2000474 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
2000500 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
2000526 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
2000552 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
2000578 ATCA
1 ATCA
2000582 ATTTGTACCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:2002389 original size:32 final size:32
Alignment explanation
Indices: 2002353--2002417 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
2002343 TTTTTGGAAA
2002353 ACCTCTTTCTATTGAATTTTTAAATATTTTTG
1 ACCTCTTTCTATTGAATTTTTAAATATTTTTG
2002385 ACCTCTTTCTATTGAATTTTTAAATATTTTTG
1 ACCTCTTTCTATTGAATTTTTAAATATTTTTG
2002417 A
1 A
2002418 ACTCCGAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.26, C:0.12, G:0.06, T:0.55
Consensus pattern (32 bp):
ACCTCTTTCTATTGAATTTTTAAATATTTTTG
Found at i:2013549 original size:47 final size:47
Alignment explanation
Indices: 2013496--2013608 Score: 136
Period size: 47 Copynumber: 2.4 Consensus size: 47
2013486 TAGCCAAGAC
* * * *
2013496 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGAACGTGAA
* * * *
2013543 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGACGTGAA
1 AGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGAACGTGAA
* *
2013590 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
2013609 TCCCGAAGGG
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
47 54 1.00
ACGTcount: A:0.32, C:0.11, G:0.32, T:0.26
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGAACGTGAA
Found at i:2013783 original size:37 final size:37
Alignment explanation
Indices: 2013727--2013805 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
2013717 CCGAGCTCTA
* *
2013727 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
2013764 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
2013801 AAGAC
1 AAGAC
2013806 TTCATAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:2015619 original size:48 final size:48
Alignment explanation
Indices: 2015562--2015843 Score: 262
Period size: 48 Copynumber: 5.9 Consensus size: 48
2015552 AGGGAGAATT
*
2015562 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCGAG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATGTCGAG
* * * * * *
2015610 GTCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCCTGAT-GTG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATG-TCGAG
* * * * * *
2015658 GCTGATGACATGTCCCAAACATGGTCTTACACTAGCGCACATGTCAAC
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATGTCGAG
* *** *
2015706 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCACAAC-ATT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATGTCGA-G
* * * * *
2015754 GCCGATGCCATGTTCCAAACATGGTCTTACATTGGCTCTCATATCGTG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATGTCGAG
* * * * * * *
2015802 GTCGACGCCATGTCCTAGACATGGTGTTACACTAGCACACAT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACAT
2015844 ATCACCCAAA
Statistics
Matches: 186, Mismatches: 44, Indels: 8
0.78 0.18 0.03
Matches are distributed among these distances:
47 2 0.01
48 183 0.98
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATGTCGAG
Found at i:2015812 original size:96 final size:94
Alignment explanation
Indices: 2015559--2015834 Score: 345
Period size: 96 Copynumber: 2.9 Consensus size: 94
2015549 AAGAGGGAGA
2015559 ATTGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCGAGGTCGATGCCATGTC
1 ATTGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCGAGGTCGATGCCATGTC
* **
2015624 CCAGACATGGTCTTACATTGGCTCTCCTG
66 CCAGACATGGTCTTACACTGGCTCTCCAC
* * * * * * * *
2015653 ATGTGGCTGATGACATGTCCCAAACATGGTCTTACACTAGCGCACATGTCAACGCCGATGCCATG
1 AT-T-GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCGAGGTCGATGCCATG
*
2015718 TCCCAAACATGGTCTTACACTGGCTCTCACAAC
64 TCCCAGACATGGTCTTACACTGGCTCTC-C-AC
* * * * *
2015751 ATTGCCGATGCCATGTTCCAAACATGGTCTTACATTGGCTCTCATATCGTGGTCGACGCCATGTC
1 ATTGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCGAGGTCGATGCCATGTC
* *
2015816 CTAGACATGGTGTTACACT
66 CCAGACATGGTCTTACACT
2015835 AGCACACATA
Statistics
Matches: 150, Mismatches: 28, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
94 2 0.01
95 1 0.01
96 143 0.95
97 2 0.01
98 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.28
Consensus pattern (94 bp):
ATTGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCGAGGTCGATGCCATGTC
CCAGACATGGTCTTACACTGGCTCTCCAC
Found at i:2015824 original size:144 final size:144
Alignment explanation
Indices: 2015562--2015843 Score: 372
Period size: 144 Copynumber: 2.0 Consensus size: 144
2015552 AGGGAGAATT
* *** *
2015562 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCGAGGTCGATGCCATGTCCCA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACACAACGAGGCCGATGCCATGTCCCA
* * *
2015627 GACATGGTCTTACATTGGCTCTCCTGATGTGGCTGATGACATGTCCCAAACATGGTCTTACACTA
66 AACATGGTCTTACATTGGCTCTCATGATGTGGCTGACGACATGTCCCAAACATGGTCTTACACTA
*
2015692 GCGCACATGTCAAC
131 GCACACATGTCAAC
* * *
2015706 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCACAAC-ATTGCCGATGCCATGTTCC
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACACAACGA-GGCCGATGCCATGTCCC
* * * *
2015770 AAACATGGTCTTACATTGGCTCTCAT-ATCGTGG-TCGACGCCATGTCCTAGACATGGTGTTACA
65 AAACATGGTCTTACATTGGCTCTCATGAT-GTGGCT-GACGACATGTCCCAAACATGGTCTTACA
2015833 CTAGCACACAT
128 CTAGCACACAT
2015844 ATCACCCAAA
Statistics
Matches: 119, Mismatches: 16, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
143 4 0.03
144 115 0.97
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (144 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACACAACGAGGCCGATGCCATGTCCCA
AACATGGTCTTACATTGGCTCTCATGATGTGGCTGACGACATGTCCCAAACATGGTCTTACACTA
GCACACATGTCAAC
Found at i:2018347 original size:38 final size:37
Alignment explanation
Indices: 2018282--2018355 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
2018272 TGTTTAACCT
*
2018282 TACAATCTCCCTTAAGATTTTTACCAAAATCTTAAGAG
1 TACAATCTCCCTTAAGATTTCTACCAAAAT-TTAAGAG
* *
2018320 TACAA-CTCCCTTAAGGTTTCTACCCAAACTTTAAGA
1 TACAATCTCCCTTAAGATTTCTA-CCAAAATTTAAGA
2018356 CTTAACCCTC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
37 21 0.66
38 11 0.34
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.32
Consensus pattern (37 bp):
TACAATCTCCCTTAAGATTTCTACCAAAATTTAAGAG
Found at i:2019266 original size:20 final size:20
Alignment explanation
Indices: 2019241--2019280 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
2019231 CAAAAAATAC
2019241 TAAAAATAAAATAATTACAA
1 TAAAAATAAAATAATTACAA
2019261 TAAAAATAAAATAATTACAA
1 TAAAAATAAAATAATTACAA
2019281 GTTTGGTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (20 bp):
TAAAAATAAAATAATTACAA
Found at i:2022289 original size:15 final size:15
Alignment explanation
Indices: 2022269--2022300 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
2022259 TCATGTATGA
2022269 TAAATATTGAGATAG
1 TAAATATTGAGATAG
2022284 TAAATATTGAGATAG
1 TAAATATTGAGATAG
2022299 TA
1 TA
2022301 GGACTCCCGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (15 bp):
TAAATATTGAGATAG
Found at i:2022437 original size:46 final size:46
Alignment explanation
Indices: 2022366--2022814 Score: 563
Period size: 46 Copynumber: 9.7 Consensus size: 46
2022356 TCATTTGTGT
* * **
2022366 GCTAGTGTAAGACATGTCTGAGACATGCATCGGCCA-CATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGG-CATTAAGATGAGA
* *
2022412 GCCAGTGTAAGACATGTCTGGGACATGCATCGGTATTAAGATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTAAGATGAGA
*
2022458 GCTAGTGTAAGACATGTCTGGGACATGCATCGGTATTAAGATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTAAGATGAGA
*
2022504 GCTAGTGTAAGACATGTCTGGGACATGCATCGGTATTAAGATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTAAGATGAGA
*
2022550 GCTAGTGTAAGACATGTCTGGGACATGCATCGGTATTAAGATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTAAGATGAGA
*
2022596 GCTAGTGTAAGACATGTCTGGGACATGCATCGGTATTAAGATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTAAGATGAGA
**
2022642 GCTAGTGTAAGACATGTCTGGGACATGCATCGGGC-TCGAGATGTA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-GGCATTAAGATG-AGA
* * * *
2022688 GAC-AGTGTAAGAGATGTCTGGGACATCCATCGGC--TATGA-GATGT
1 G-CTAGTGTAAGACATGTCTGGGACATGCATCGGCATTAAGATGA-GA
* * *
2022732 GTTAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CAGATATGTGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATTA-AGA--TGAGA
2022782 GCTAGTGTAAGACAATGTCTGGGACATGGCATC
1 GCTAGTGTAAGAC-ATGTCTGGGACAT-GCATC
2022815 AGCCTCGATT
Statistics
Matches: 364, Mismatches: 24, Indels: 26
0.88 0.06 0.06
Matches are distributed among these distances:
42 1 0.00
43 1 0.00
44 12 0.03
45 17 0.05
46 293 0.80
47 5 0.01
48 1 0.00
49 1 0.00
50 31 0.09
51 2 0.01
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTAAGATGAGA
Found at i:2032541 original size:39 final size:39
Alignment explanation
Indices: 2032487--2032623 Score: 204
Period size: 39 Copynumber: 3.5 Consensus size: 39
2032477 ATTTGAAAAT
*
2032487 TATATCCGGACTTAAAGTCTGCAGGCTATATGCGGGAAA
1 TATATCCGGACTTAAAGTCCGCAGGCTATATGCGGGAAA
2032526 TATATCCGGACTTAAAGTCCGCAGGCTATATGCGGGAAA
1 TATATCCGGACTTAAAGTCCGCAGGCTATATGCGGGAAA
* * * **
2032565 TATATCCGGACTTCAGGTCCGCAGGCTACATGCTAGAAA
1 TATATCCGGACTTAAAGTCCGCAGGCTATATGCGGGAAA
2032604 TATATCCAGG-CTTAAAGTCC
1 TATATCC-GGACTTAAAGTCC
2032624 CGAAGGCTTA
Statistics
Matches: 89, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
39 87 0.98
40 2 0.02
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (39 bp):
TATATCCGGACTTAAAGTCCGCAGGCTATATGCGGGAAA
Found at i:2033510 original size:46 final size:46
Alignment explanation
Indices: 2033442--2033802 Score: 227
Period size: 46 Copynumber: 7.7 Consensus size: 46
2033432 TTTGTGTGCT
* *
2033442 AGTGTAAGACATGTATGGGACATGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCC
* * **** * ** *
2033488 AGTGTAAGACATGTTTGAGACATGCATCGGTGTTAAGACAAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCC
* * * *
2033534 AGTGTAAGACATGTCTAGGACAAGCATCGACCTAGA-GATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-ACATGATG-AGAGCC
* * * *
2033580 AGTGTAAGACATGTTTGGGACATGCATCGGCTAC--GA-GATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGA-GAGCC
* * *
2033624 AGTGTAAGACCATGTTTGGGACATGTCATCGGCACGGATATG-TGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACATG-CATCGGC-C--ACATGATGAGAGCC
* ** * *
2033674 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTAGATTTTGAAAGTC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCC-ACATGATGAGAGCC
*
2033723 AGTGTAAGACCATGTCTGGGACATGGCATCGG---CTTGATGGATGAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATGAT-GA-GAGCC
* *
2033770 AGGGTAAGACCATGTCCGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
2033803 ATCATACCCT
Statistics
Matches: 247, Mismatches: 51, Indels: 32
0.75 0.15 0.10
Matches are distributed among these distances:
42 1 0.00
43 1 0.00
44 13 0.05
45 18 0.07
46 101 0.41
47 35 0.14
48 3 0.01
49 39 0.16
50 32 0.13
51 4 0.02
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCC
Found at i:2033654 original size:92 final size:89
Alignment explanation
Indices: 2033442--2033755 Score: 283
Period size: 92 Copynumber: 3.3 Consensus size: 89
2033432 TTTGTGTGCT
* * *
2033442 AGTGTAAGACATGTATGGGACATGCATCGGCCACATTATG-AGAGCCAGTGTAAGACATGTTTGA
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAGA-TATGTAGAGCCAGTGTAAGACATGTTTGG
* *
2033506 GACATGCATCGGTGTTAAGACAAGAG-C
65 GACATGCATC-G-GCT-AGACATGAGTC
* * * *
2033533 TAGTGTAAGACATGTCTAGGACAAGCATCGACCTAGAGATGTA-AGCCAGTGTAAGACATGTTTG
1 -AGTGTAAGACATGTCTGGGACATGCATCGGCC-AGATATGTAGAGCCAGTGTAAGACATGTTTG
* *
2033597 GGACATGCATCGGCTACGAGATGTGTC
64 GGACATGCATCGGCTA-GACATGAGTC
* * *
2033624 AGTGTAAGACCATGTTTGGGACATGTCATCGGCACGGATATGTGAGAGCTAGTGTAAGACCATGT
1 AGTGTAAGA-CATGTCTGGGACATG-CATCGGC-CAGATATGT-AGAGCCAGTGTAAGA-CATGT
* **
2033689 CTGGGACATGGCATCGGCCTAGATTTTGAAAGTC
61 TTGGGACAT-GCATCGG-CTAGA-CATG--AGTC
2033723 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
2033756 TTGATGGATG
Statistics
Matches: 183, Mismatches: 23, Indels: 25
0.79 0.10 0.11
Matches are distributed among these distances:
89 1 0.01
90 16 0.09
91 14 0.08
92 74 0.40
93 5 0.03
94 12 0.07
95 13 0.07
96 9 0.05
97 5 0.03
99 33 0.18
100 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.24
Consensus pattern (89 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCAGATATGTAGAGCCAGTGTAAGACATGTTTGGG
ACATGCATCGGCTAGACATGAGTC
Found at i:2033795 original size:47 final size:47
Alignment explanation
Indices: 2033627--2033802 Score: 176
Period size: 49 Copynumber: 3.6 Consensus size: 47
2033617 ATGTGTCAGT
* * * * *
2033627 GTAAGACCATGTTTGGGACATGTCATCGGC-ACGGATATGTGAGAGCTAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCTA--GAT-TG-GAAAGCCAGG
* * *
2033677 GTAAGACCATGTCTGGGACATGGCATCGGCCTAGATTTTGAAAGTCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGG-CTAGA-TTGGAAAGCCAGG
* *
2033726 GTAAGACCATGTCTGGGACATGGCATCGGCTTGA-TGGATGAGCCAGG
1 GTAAGACCATGTCTGGGACATGGCATCGGCTAGATTGGA-AAGCCAGG
*
2033773 GTAAGACCATGTCCGGGACATGGCATCGGC
1 GTAAGACCATGTCTGGGACATGGCATCGGC
2033803 ATCATACCCT
Statistics
Matches: 110, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
46 3 0.03
47 34 0.31
48 4 0.04
49 36 0.33
50 30 0.27
51 2 0.02
52 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.23
Consensus pattern (47 bp):
GTAAGACCATGTCTGGGACATGGCATCGGCTAGATTGGAAAGCCAGG
Found at i:2033799 original size:96 final size:98
Alignment explanation
Indices: 2033621--2033802 Score: 262
Period size: 96 Copynumber: 1.9 Consensus size: 98
2033611 TACGAGATGT
* * * *
2033621 GTCAGTGTAAGACCATGTTTGGGACATGTCATCGGCACGGATATGTGAGAGCTAGTGTAAGACCA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGA-ATGTGAGAGCCAGGGTAAGACCA
*
2033686 TGTCTGGGACATGGCATCGGCCTAGATTTTGAAA
65 TGTCCGGGACATGGCATCGGCCTAGATTTTGAAA
**
2033720 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TTG-ATG-GATGAGCCAGGGTAAGACCA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGAATGTGA-GAGCCAGGGTAAGACCA
2033782 TGTCCGGGACATGGCATCGGC
65 TGTCCGGGACATGGCATCGGC
2033803 ATCATACCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
95 2 0.03
96 38 0.51
98 1 0.01
99 34 0.45
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (98 bp):
GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGAATGTGAGAGCCAGGGTAAGACCAT
GTCCGGGACATGGCATCGGCCTAGATTTTGAAA
Found at i:2035014 original size:20 final size:21
Alignment explanation
Indices: 2034975--2035014 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
2034965 GTCATAATGA
*
2034975 CCACACCGGTGTGTTGCCCTT
1 CCACACCGGCGTGTTGCCCTT
*
2034996 CCACACGGGCGTG-TGCCCT
1 CCACACCGGCGTGTTGCCCT
2035015 GTTTCAAGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.10, C:0.40, G:0.28, T:0.23
Consensus pattern (21 bp):
CCACACCGGCGTGTTGCCCTT
Found at i:2040378 original size:35 final size:35
Alignment explanation
Indices: 2040314--2040387 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 35
2040304 GGGAACATTA
* *
2040314 GCTAACCTAGGGTTAAGGATGACGACTACCTGAAG
1 GCTAACCTAGGGTTAAGGAAGACGACTACCTAAAG
*
2040349 GCTAACCTAGGGTTAAGGACAG-CGGCTACCTAAAG
1 GCTAACCTAGGGTTAAGGA-AGACGACTACCTAAAG
2040384 GCTA
1 GCTA
2040388 TAAATAGGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
35 34 0.97
36 1 0.03
ACGTcount: A:0.31, C:0.22, G:0.28, T:0.19
Consensus pattern (35 bp):
GCTAACCTAGGGTTAAGGAAGACGACTACCTAAAG
Found at i:2040481 original size:31 final size:32
Alignment explanation
Indices: 2040443--2040507 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 32
2040433 TAAGATTCTA
*
2040443 TCTTAGGTTTT-TAGATTTA-TTTTTTTGTTTC
1 TCTTAGGTTTTATAG-TTTAGTTTATTTGTTTC
2040474 TCTTAGGTTTTCATAGTTTAGTTTATTTGTTTC
1 TCTTAGGTTTT-ATAGTTTAGTTTATTTGTTTC
2040507 T
1 T
2040508 TCAAAAAATC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 11 0.37
32 4 0.13
33 15 0.50
ACGTcount: A:0.14, C:0.08, G:0.14, T:0.65
Consensus pattern (32 bp):
TCTTAGGTTTTATAGTTTAGTTTATTTGTTTC
Found at i:2043948 original size:64 final size:65
Alignment explanation
Indices: 2043734--2044001 Score: 315
Period size: 65 Copynumber: 4.1 Consensus size: 65
2043724 AACTTTACTT
** * * * * * *
2043734 GTGGCTTTAGTTCTTTAAGGTAACACGCTTCTTTAAAGAAAACTTAAAAGACACATTTCGTTAAA
1 GTGGCTTTACCTCTTTAAGGTAACACACTTCTTTAAAGCAAACTTAGATGACACACTTCTTTAAA
* * *** *
2043799 GAT-GCTTTACCTCTTTAAGGAAACACACTTCTTTAAAGCAAAATTAGATGATGTAGTTCTTTAA
1 G-TGGCTTTACCTCTTTAAGGTAACACACTTCTTTAAAGCAAACTTAGATGACACACTTCTTTAA
2043863 A
65 A
*
2043864 GTGGCTTTACCTCTTTAAGGTAACACACTTCTTTAAAGCAAACTTAGACGACACACTT-TTTAAA
1 GTGGCTTTACCTCTTTAAGGTAACACACTTCTTTAAAGCAAACTTAGATGACACACTTCTTTAAA
* ** ** *
2043928 GTGGATTTACCTCTTTAAGGTAACATGCTTCTTTAAAGTGAACTTAGATAACACACTTCTTTAAA
1 GTGGCTTTACCTCTTTAAGGTAACACACTTCTTTAAAGCAAACTTAGATGACACACTTCTTTAAA
*
2043993 GTGGTTTTA
1 GTGGCTTTA
2044002 TCTTCTTAAG
Statistics
Matches: 172, Mismatches: 28, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
64 58 0.34
65 113 0.66
66 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (65 bp):
GTGGCTTTACCTCTTTAAGGTAACACACTTCTTTAAAGCAAACTTAGATGACACACTTCTTTAAA
Found at i:2044012 original size:129 final size:129
Alignment explanation
Indices: 2043734--2044001 Score: 324
Period size: 129 Copynumber: 2.1 Consensus size: 129
2043724 AACTTTACTT
** *
2043734 GTGGCTTTAGTTCTTTAAGGTAACACGCTTCTTTAAAGAAAACTTAAAAGACACATTTCGTTAAA
1 GTGGCTTTACCTCTTTAAGGTAACACACTTCTTTAAAGAAAACTTAAAAGACACATTTC-TTAAA
* * *** *
2043799 GATGCTTTACCTCTTTAAGGAAACACACTTCTTTAAAGCAAAATTAGATGATGTAGTTCTTTAAA
65 GATGATTTACCTCTTTAAGGAAACACACTTCTTTAAAGCAAAATTAGATAACACACTTCTTTAAA
* * *
2043864 GTGGCTTTACCTCTTTAAGGTAACACACTTCTTTAAAGCAAACTTAGACGACACACTTT-TTAAA
1 GTGGCTTTACCTCTTTAAGGTAACACACTTCTTTAAAGAAAACTTAAAAGACACA-TTTCTTAAA
* ** ** *
2043928 G-TGGATTTACCTCTTTAAGGTAACATGCTTCTTTAAAGTGAACTTAGATAACACACTTCTTTAA
65 GAT-GATTTACCTCTTTAAGGAAACACACTTCTTTAAAGCAAAATTAGATAACACACTTCTTTAA
2043992 A
129 A
*
2043993 GTGGTTTTA
1 GTGGCTTTA
2044002 TCTTCTTAAG
Statistics
Matches: 117, Mismatches: 19, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
128 1 0.01
129 64 0.55
130 49 0.42
131 3 0.03
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (129 bp):
GTGGCTTTACCTCTTTAAGGTAACACACTTCTTTAAAGAAAACTTAAAAGACACATTTCTTAAAG
ATGATTTACCTCTTTAAGGAAACACACTTCTTTAAAGCAAAATTAGATAACACACTTCTTTAAA
Found at i:2046618 original size:55 final size:55
Alignment explanation
Indices: 2046493--2046603 Score: 159
Period size: 55 Copynumber: 2.0 Consensus size: 55
2046483 AGCCCGTGTG
* * ** *
2046493 CAACACTGACTTTGAAACACGGCCATGACACATGCCCGTGTGTCCTACCCATGTA
1 CAACACTGACTTTAAAACACGGCCACGACACACACCCGTGTGGCCTACCCATGTA
* *
2046548 CAACACTGACTTTAAAACACGGCCACGACACACACCCGTGTGGCCTGCCCCTGTA
1 CAACACTGACTTTAAAACACGGCCACGACACACACCCGTGTGGCCTACCCATGTA
2046603 C
1 C
2046604 TAAATTGATT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.27, C:0.36, G:0.18, T:0.19
Consensus pattern (55 bp):
CAACACTGACTTTAAAACACGGCCACGACACACACCCGTGTGGCCTACCCATGTA
Found at i:2047448 original size:48 final size:47
Alignment explanation
Indices: 2047382--2047599 Score: 205
Period size: 48 Copynumber: 4.6 Consensus size: 47
2047372 ATAAGTTGCA
* *
2047382 GATGTCATGTCCCGGACATGGTCTTA-ACTGGCTATCATCATCGAGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTATCATCATCGAGGCC
* * ** * *
2047430 GATGCCATGTCCCAGACATGGTCTTATACTAGCTCTCGCCTATGCG-TGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTATCATC-AT-CGAGGCC
* * *
2047480 GATGCATGTCCTAGACATGTCTTACACTAGC-A-CAAC-TCTTA-GCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTATCATCATC-GAGGCC
* * *
2047524 GATGCATGTCCCAGACACGTCTTACACTGGCTATCATCGTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTATCATCATCGAGGCC
2047571 GATGCATGTCCCAGACATGTCTTACACTA
1 GATGCATGTCCCAGACATGTCTTACACTA
2047600 ACGCTCATTC
Statistics
Matches: 139, Mismatches: 22, Indels: 19
0.77 0.12 0.11
Matches are distributed among these distances:
43 1 0.01
44 31 0.22
45 1 0.01
46 6 0.04
47 32 0.23
48 36 0.26
49 22 0.16
50 8 0.06
51 2 0.01
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.27
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTATCATCATCGAGGCC
Found at i:2047655 original size:141 final size:142
Alignment explanation
Indices: 2047382--2047652 Score: 347
Period size: 139 Copynumber: 1.9 Consensus size: 142
2047372 ATAAGTTGCA
* *
2047382 GATGTCATGTCCCGGACATGGTCTTAACTGGCTATCATCATCGAGGCCGATGCCATGTCCCAGAC
1 GATGTCATGTCCCAGACATCGTCTTAACTGGCTATCATCATCGAGGCCGATGCCATGTCCCAGAC
* * * * * * *
2047447 ATGGTCTTATACTAGCTCTCGCCTATGCGTGCTGATGCATGTCCTAGACATGTCTTACACTAGCA
66 ATGGTCTTACACTAACGCTCGCCTATACGTGCTAATGCATGTCCCAAACATGTCTTACACTAGCA
2047512 CAACTCTTAGCC
131 CAACTCTTAGCC
*
2047524 GATG-CATGTCCCAGACA-CGTCTTACACTGGCTATCATCGTCGAGGCCGATG-CATGTCCCAGA
1 GATGTCATGTCCCAGACATCGTCTTA-ACTGGCTATCATCATCGAGGCCGATGCCATGTCCCAGA
** * *
2047586 CAT-GTCTTACACTAACGCTCATTCTCTAC-T-CTAATGCCATGTCCCAAACATGTCTTACACTG
65 CATGGTCTTACACTAACGCTC-GCCTATACGTGCTAATG-CATGTCCCAAACATGTCTTACACTA
2047648 GCACA
128 GCACA
2047653 CAAGTAATCC
Statistics
Matches: 112, Mismatches: 14, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
138 5 0.04
139 42 0.38
140 24 0.21
141 37 0.33
142 4 0.04
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.27
Consensus pattern (142 bp):
GATGTCATGTCCCAGACATCGTCTTAACTGGCTATCATCATCGAGGCCGATGCCATGTCCCAGAC
ATGGTCTTACACTAACGCTCGCCTATACGTGCTAATGCATGTCCCAAACATGTCTTACACTAGCA
CAACTCTTAGCC
Found at i:2052382 original size:47 final size:47
Alignment explanation
Indices: 2052328--2052522 Score: 205
Period size: 47 Copynumber: 4.1 Consensus size: 47
2052318 TTGGGATTTT
** *
2052328 ATGTGATGAATGTGAATGTGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
2052375 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
2052422 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
** * * * *
2052469 ATGTGAAAAATGTATGAGAAATG--TATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATG--TGA-ACATGCATATATGTGATAAGGCCGAATGGCCA
2052517 ATGTGA
1 ATGTGA
2052523 AATATGTATG
Statistics
Matches: 128, Mismatches: 17, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
47 90 0.70
48 31 0.24
49 3 0.02
50 4 0.03
ACGTcount: A:0.34, C:0.10, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:2052430 original size:25 final size:25
Alignment explanation
Indices: 2052357--2052430 Score: 59
Period size: 23 Copynumber: 3.1 Consensus size: 25
2052347 GCATATATGA
*
2052357 GATAAGGCCGAATGGCCAATGTGAT
1 GATAAGGCCGAATGGCCAATGTGGT
* * *
2052382 GA-ATGTG-AGCAT-G-CATATGT-GT
1 GATAAG-GCCGAATGGCCA-ATGTGGT
2052404 GATAAGGCCGAATGGCCAATGTGGT
1 GATAAGGCCGAATGGCCAATGTGGT
2052429 GA
1 GA
2052431 ATATGAACAT
Statistics
Matches: 35, Mismatches: 7, Indels: 14
0.62 0.12 0.25
Matches are distributed among these distances:
22 6 0.17
23 10 0.29
24 10 0.29
25 9 0.26
ACGTcount: A:0.30, C:0.14, G:0.34, T:0.23
Consensus pattern (25 bp):
GATAAGGCCGAATGGCCAATGTGGT
Found at i:2052600 original size:98 final size:96
Alignment explanation
Indices: 2052445--2052628 Score: 298
Period size: 98 Copynumber: 1.9 Consensus size: 96
2052435 GAACATGCAT
*
2052445 ATATGTGGTAAAGCCGAATGGCTAATGTGAAAAATGTATGAGAAATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAAAATATATGAGAAATGTATATGTGGTAAAGCCGA
2052510 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATGTGAAATATGTATGAGATATGC
* *
2052541 ATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGC
1 ATATGTGGTAAAGCCGAATGGCT-AATGTGAAA-A-ATATATGAGAAATGTATATGTGGTAAAGC
*
2052605 CGAATGGCTAGTGTGAAATATGTA
63 CGAATGGCTAATGTGAAATATGTA
2052629 GGCGATGTGC
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
95 1 0.01
96 29 0.36
97 1 0.01
98 50 0.62
ACGTcount: A:0.37, C:0.07, G:0.27, T:0.30
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAAAATATATGAGAAATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:2052644 original size:50 final size:48
Alignment explanation
Indices: 2052444--2052628 Score: 282
Period size: 48 Copynumber: 3.8 Consensus size: 48
2052434 TGAACATGCA
* *
2052444 TATATGTGGTAAAGCCGAATGGCTAATGTGAAAAATGTATGAGAAATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
2052492 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* * *
2052540 CATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
2052590 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
2052629 GGCGATGTGC
Statistics
Matches: 124, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
47 1 0.01
48 78 0.63
49 4 0.03
50 40 0.32
51 1 0.01
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.30
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:2052882 original size:37 final size:37
Alignment explanation
Indices: 2052774--2052882 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
2052764 GGAAATATAT
*
2052774 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
2052811 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
2052848 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
2052883 CGTCTGAGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:2061780 original size:23 final size:23
Alignment explanation
Indices: 2061731--2061780 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
2061721 CATAGTTGTG
* *
2061731 AATGAGAATGGTGGAGGTTGCAC
1 AATGACAATGGTGGAGGTTCCAC
*
2061754 AATGACAATGGAT-GAGGTTCCAT
1 AATGACAATGG-TGGAGGTTCCAC
2061777 AATG
1 AATG
2061781 TCCATTAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 22 0.96
24 1 0.04
ACGTcount: A:0.34, C:0.10, G:0.32, T:0.24
Consensus pattern (23 bp):
AATGACAATGGTGGAGGTTCCAC
Found at i:2065154 original size:15 final size:15
Alignment explanation
Indices: 2065134--2065179 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
2065124 TAATTTCATG
*
2065134 TTTAATCTTTAAATA
1 TTTAATATTTAAATA
*
2065149 TTTAATATTTAATTA
1 TTTAATATTTAAATA
*
2065164 TTT--TATTTAAACA
1 TTTAATATTTAAATA
2065177 TTT
1 TTT
2065180 TATACAAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 11 0.41
15 16 0.59
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTAATATTTAAATA
Found at i:2069281 original size:20 final size:20
Alignment explanation
Indices: 2069256--2069296 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
2069246 TCTCTAGTAG
2069256 CCCATATTTTTCATTTATTT
1 CCCATATTTTTCATTTATTT
2069276 CCCATATTTTTCATTTATTT
1 CCCATATTTTTCATTTATTT
2069296 C
1 C
2069297 ACAATTTAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.22, G:0.00, T:0.59
Consensus pattern (20 bp):
CCCATATTTTTCATTTATTT
Found at i:2071403 original size:40 final size:40
Alignment explanation
Indices: 2071302--2071525 Score: 317
Period size: 40 Copynumber: 5.6 Consensus size: 40
2071292 TGGATGATAA
* * * * **
2071302 CCGGGCAAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
2071342 CCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
2071381 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAATAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
2071421 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* * *
2071461 TCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
*
2071501 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
2071526 AGTGAGTAGC
Statistics
Matches: 169, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 34 0.20
40 133 0.79
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:2074591 original size:23 final size:22
Alignment explanation
Indices: 2074547--2074593 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
2074537 TCATCAAACA
2074547 AATTTCCATGTTCATATATCAT
1 AATTTCCATGTTCATATATCAT
*
2074569 AATTT-CATGCTTCCATATTTCAT
1 AATTTCCATG-TT-CATATATCAT
2074592 AA
1 AA
2074594 AACATCATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 4 0.18
22 7 0.32
23 11 0.50
ACGTcount: A:0.32, C:0.19, G:0.04, T:0.45
Consensus pattern (22 bp):
AATTTCCATGTTCATATATCAT
Found at i:2083416 original size:42 final size:42
Alignment explanation
Indices: 2083356--2083447 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
2083346 TGGCCCATAG
*
2083356 GCCCATTTCAATAACACATGAAATATCAATGAATGTATGCAA
1 GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
* *
2083398 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCTA
1 GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
2083440 GCCCATTT
1 GCCCATTT
2083448 GGGGAGACTA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.28
Consensus pattern (42 bp):
GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
Found at i:2083656 original size:26 final size:26
Alignment explanation
Indices: 2083592--2083818 Score: 368
Period size: 26 Copynumber: 8.8 Consensus size: 26
2083582 CCTCTTTAAT
**
2083592 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
2083617 AACTGGGGCA-AAGCCCTTTTTAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
2083642 AACTGGGGCATAAGCCCTTTTCAGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
2083668 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
2083694 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
2083720 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
2083746 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
2083772 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
2083798 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
2083819 GCACTTCCTC
Statistics
Matches: 187, Mismatches: 14, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
25 32 0.17
26 155 0.83
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:2083703 original size:52 final size:52
Alignment explanation
Indices: 2083592--2083818 Score: 422
Period size: 52 Copynumber: 4.4 Consensus size: 52
2083582 CCTCTTTAAT
*
2083592 AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCTTTTTAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
*
2083642 AACTGGGGCATAAGCCCTTTTCAGTAAACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
2083694 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
2083746 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
2083798 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
2083819 GCACTTCCTC
Statistics
Matches: 172, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
50 10 0.06
51 24 0.14
52 138 0.80
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (52 bp):
AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
Found at i:2083893 original size:20 final size:20
Alignment explanation
Indices: 2083868--2083922 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
2083858 TTATGAATTC
*
2083868 ATCATGTGCATTTCATA-CA
1 ATCATGTGCATATCATATCA
2083887 TATCATGTGCATATCATATCA
1 -ATCATGTGCATATCATATCA
2083908 ATCATGT--ATATCATA
1 ATCATGTGCATATCATA
2083923 CCCCACGTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
18 8 0.24
20 23 0.70
21 2 0.06
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:2084686 original size:26 final size:26
Alignment explanation
Indices: 2084620--2084721 Score: 80
Period size: 27 Copynumber: 3.8 Consensus size: 26
2084610 GGGCATATTT
2084620 GTCATTTTACCATACAAGGGTATTACG
1 GTCATTTTACC-TACAAGGGTATTACG
* *
2084647 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTA-CCTACAAGGG-TATTACG
* * ***
2084674 GTCTTTTTACCTATTAAGGGTATTGTA
1 GTCATTTTACCTA-CAAGGGTATTACG
*
2084701 GTCATTTCATCCTACAAGGGT
1 GTCATTTTA-CCTACAAGGGT
2084722 GTTTTGGTAA
Statistics
Matches: 58, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
26 5 0.09
27 46 0.79
28 7 0.12
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.36
Consensus pattern (26 bp):
GTCATTTTACCTACAAGGGTATTACG
Found at i:2084843 original size:56 final size:54
Alignment explanation
Indices: 2084735--2084871 Score: 143
Period size: 56 Copynumber: 2.5 Consensus size: 54
2084725 TTGGTAAATC
* *
2084735 TACAAACCAAGGGTATTTCAGTAATTTTGTAAACTAATGGTATTTCTATAATTTT
1 TACAAATCAAGGGTATTTCAGTAATTTTGTAAACTAAGGGTATTTCTATAA-TTT
* * * *
2084790 TAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAA-TCAGGGGTATTT-TGGTAATTT
1 TACAAA-TCAAGGGTATTTCAGTAATTTTGTAAACT-AAGGGTATTTCT-ATAATTT
** *
2084845 TACAAATTGAGGGTATTTCGGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
2084872 CACAAACCGT
Statistics
Matches: 69, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
54 18 0.26
55 15 0.22
56 36 0.52
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (54 bp):
TACAAATCAAGGGTATTTCAGTAATTTTGTAAACTAAGGGTATTTCTATAATTT
Found at i:2084966 original size:53 final size:53
Alignment explanation
Indices: 2084800--2085032 Score: 193
Period size: 53 Copynumber: 4.4 Consensus size: 53
2084790 TAGAAAGTCA
** * **
2084800 AGGGTATTTCT-GTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTT-TGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAA-CC
* * * * *
2084854 AGGGTATTTCGGTAATTTCACAAACC-GTGGTATTTTGGTAACTTTACAAACT
1 AGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACC
* * * *
2084906 AGGGGTATTTTGATAATTTTACAAACCAGGGGTATTTTAGCAATTTTACAGACC
1 A-GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACC
* ** * * **
2084960 ATGGTATTTTGGTAATTTTACTGATC-GATGGTATTTTGGTAATTTTGGAAACC
1 AGGGTATTTTGGTAATTTTACAAACCAG-GGGTATTTTGGTAATTTTACAAACC
* *
2085013 AATGGTATTTTAGTAATTTT
1 -AGGGTATTTTGGTAATTTT
2085033 GTAAATTGAG
Statistics
Matches: 144, Mismatches: 30, Indels: 10
0.78 0.16 0.05
Matches are distributed among these distances:
52 2 0.01
53 83 0.58
54 59 0.41
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.42
Consensus pattern (53 bp):
AGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACC
Found at i:2084993 original size:80 final size:80
Alignment explanation
Indices: 2084826--2085032 Score: 220
Period size: 80 Copynumber: 2.6 Consensus size: 80
2084816 TTTGTAAATC
** ** * *
2084826 AGGGGTATTTTGGTAATTTTACAAA-TTGAGGGTATTTCGGTAATTTCACAAACCGTGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAACCAG-GGGTATTTTAGTAATTTTACAAACCATGGTATTTT
*
2084890 GGTAACTTTACAAACT
65 GGTAACTTTACAAACG
* * *
2084906 AGGGGTATTTTGATAATTTTACAAACCAGGGGTATTTTAGCAATTTTACAGACCATGGTATTTTG
1 AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAACCATGGTATTTTG
* * *
2084971 GTAATTTTACTGATCG
66 GTAACTTTAC-AAACG
* ** **
2084987 A-TGGTATTTTGGTAATTTTGGAAACCAATGGTATTTTAGTAATTTT
1 AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTT
2085033 GTAAATTGAG
Statistics
Matches: 105, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
80 101 0.96
81 4 0.04
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.41
Consensus pattern (80 bp):
AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAACCATGGTATTTTG
GTAACTTTACAAACG
Found at i:2085033 original size:27 final size:27
Alignment explanation
Indices: 2084715--2085032 Score: 205
Period size: 27 Copynumber: 11.8 Consensus size: 27
2084705 TTTCATCCTA
* * *
2084715 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
** **
2084742 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * * * *
2084769 TAATGGTATTTCT-ATAATTTTTAGAAAGT
1 CAAGGGTATTT-TGGTAA-TTTTACAAA-C
** *
2084798 CAAGGGTATTTCT-GTAATTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTACAAAC
* *
2084825 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
** * *
2084852 TGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
2084879 C--GTGGTATTTTGGTAACTTTACAAAC
1 CAAG-GGTATTTTGGTAATTTTACAAAC
* * *
2084905 TAGGGGTATTTTGATAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * * *
2084932 CAGGGGTATTTTAGCAATTTTACAGAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* ** *
2084959 C-ATGGTATTTTGGTAATTTTACTGAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * **
2084985 CGATGGTATTTTGGTAATTTTGGAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
2085012 CAATGGTATTTTAGTAATTTT
1 CAAGGGTATTTTGGTAATTTT
2085033 GTAAATTGAG
Statistics
Matches: 230, Mismatches: 53, Indels: 16
0.77 0.18 0.05
Matches are distributed among these distances:
25 1 0.00
26 41 0.18
27 159 0.69
28 15 0.07
29 14 0.06
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.41
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:2085053 original size:27 final size:27
Alignment explanation
Indices: 2085025--2086016 Score: 1732
Period size: 27 Copynumber: 36.7 Consensus size: 27
2085015 TGGTATTTTA
* * * * *
2085025 GTAATTTTGTAAATTGAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTTAAATG
** * *
2085052 GTAATTCTGCAAATCAAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTTAAATG
* *
2085079 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTTAAATG
* * * * * *
2085106 GTAATTTTGTAAATCTAAGGTAAAACG
1 GTAATTCTATAAATCGAGGGTTAAATG
* * *
2085133 GTAATTCTATAAATTGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTTAAATG
* * *
2085160 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTTAAATG
*
2085187 GTAATTCTGTAAATCGAGGGTTAAATG
1 GTAATTCTATAAATCGAGGGTTAAATG
2085214 GTAATTCTATAAATCGAGGGTTAAATG
1 GTAATTCTATAAATCGAGGGTTAAATG
2085241 GTAATTCTATAAATCGAGGGTTAAATG
1 GTAATTCTATAAATCGAGGGTTAAATG
2085268 GTAATTCTATAAATCGAGGGTTAAATG
1 GTAATTCTATAAATCGAGGGTTAAATG
2085295 GTAATTCTATAAATCGAGGGTTAAATG
1 GTAATTCTATAAATCGAGGGTTAAATG
2085322 GTAATTCTATAAATCGAGGGTTAAATG
1 GTAATTCTATAAATCGAGGGTTAAATG
2085349 GTAATTCTATAAATCGAGGGTTAAATG
1 GTAATTCTATAAATCGAGGGTTAAATG
2085376 GTAATTCTATAAATCGAGGGTTAAATG
1 GTAATTCTATAAATCGAGGGTTAAATG
2085403 GTAATTCTATAAATCGAGGGTTAAATG
1 GTAATTCTATAAATCGAGGGTTAAATG
2085430 GTAATTCTATAAATCGAGGGTTAAATG
1 GTAATTCTATAAATCGAGGGTTAAATG
2085457 GTAATTCTATAAATCGAGGGTTAAATG
1 GTAATTCTATAAATCGAGGGTTAAATG
2085484 GTAATTCTATAAATCGAGGGTTAAATG
1 GTAATTCTATAAATCGAGGGTTAAATG
2085511 GTAATTCTATAAATCGAGGGTTAAATG
1 GTAATTCTATAAATCGAGGGTTAAATG
2085538 GTAATTCTATAAATCGAGGGTTAAATG
1 GTAATTCTATAAATCGAGGGTTAAATG
2085565 GTAATTCTATAAATCGAGGGTTAAATG
1 GTAATTCTATAAATCGAGGGTTAAATG
2085592 GTAATTCTATAAATCGAGGGTTAAATG
1 GTAATTCTATAAATCGAGGGTTAAATG
2085619 GTAATTCTATAAATCGAGGGTTAAATG
1 GTAATTCTATAAATCGAGGGTTAAATG
2085646 GTAATTCTATAAATCGAGGGTTAAATG
1 GTAATTCTATAAATCGAGGGTTAAATG
2085673 GTAATTCTATAAATCGAGGGTTAAATG
1 GTAATTCTATAAATCGAGGGTTAAATG
2085700 GTAATTCTATAAATCGAGGGTTAAATG
1 GTAATTCTATAAATCGAGGGTTAAATG
2085727 GTAATTCTATAAATCGAGGGTTAAATG
1 GTAATTCTATAAATCGAGGGTTAAATG
2085754 GTAATTCTATAAATCGAGGGTTAAATG
1 GTAATTCTATAAATCGAGGGTTAAATG
2085781 GTAATTCTATAAATCGAGGGTTAAATG
1 GTAATTCTATAAATCGAGGGTTAAATG
2085808 GTAATTCTATAAATCGAGGGTTAAATG
1 GTAATTCTATAAATCGAGGGTTAAATG
2085835 GTAATTCTATAAATCGAGGGTTAAATG
1 GTAATTCTATAAATCGAGGGTTAAATG
2085862 GTAATTCTATAAATCGAGGGTTAAATG
1 GTAATTCTATAAATCGAGGGTTAAATG
2085889 GTAATTCTATAAATCGAGGGTTAAATG
1 GTAATTCTATAAATCGAGGGTTAAATG
* *
2085916 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTTAAATG
*
2085943 GTAATTCTGTAAATCGAGGGTTAAATG
1 GTAATTCTATAAATCGAGGGTTAAATG
2085970 GTAATTCTATAAATCGAGGGTTAAATG
1 GTAATTCTATAAATCGAGGGTTAAATG
*
2085997 GTAATTCTACAAATCGAGGG
1 GTAATTCTATAAATCGAGGG
2086017 CATTTTAGTA
Statistics
Matches: 933, Mismatches: 32, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 933 1.00
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTTAAATG
Found at i:2092423 original size:13 final size:13
Alignment explanation
Indices: 2092407--2092439 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
2092397 TTTAATTAAA
*
2092407 TTAGTTAATTAGT
1 TTAGATAATTAGT
2092420 TTAGATAATTAGT
1 TTAGATAATTAGT
2092433 TTA-ATAA
1 TTAGATAA
2092440 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:2100384 original size:27 final size:26
Alignment explanation
Indices: 2100318--2100401 Score: 96
Period size: 27 Copynumber: 3.2 Consensus size: 26
2100308 GGTCGTTAAG
*
2100318 ACCCCCAATTTGTGAAATTACTGAAAT
1 ACCCCCAATTTGTGAAATTACCG-AAT
* *
2100345 ACCCCCAAGTTGTAAAATTACCGAGAT
1 ACCCCCAATTTGTGAAATTACCGA-AT
** *
2100372 ACCCCTGATTTGTGAAATAACCGAAT
1 ACCCCCAATTTGTGAAATTACCGAAT
2100398 ACCC
1 ACCC
2100402 TTGAGGGGTA
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
26 7 0.15
27 41 0.85
ACGTcount: A:0.36, C:0.26, G:0.13, T:0.25
Consensus pattern (26 bp):
ACCCCCAATTTGTGAAATTACCGAAT
Found at i:2106897 original size:18 final size:18
Alignment explanation
Indices: 2106874--2106910 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
2106864 GGTTTACAAG
2106874 CCTATAATCAAGGATGAA
1 CCTATAATCAAGGATGAA
2106892 CCTATAATCAAGGATGAA
1 CCTATAATCAAGGATGAA
2106910 C
1 C
2106911 ACATATTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.19, G:0.16, T:0.22
Consensus pattern (18 bp):
CCTATAATCAAGGATGAA
Found at i:2107311 original size:57 final size:57
Alignment explanation
Indices: 2107203--2107342 Score: 158
Period size: 57 Copynumber: 2.5 Consensus size: 57
2107193 ATATAGACAA
* *
2107203 CAGGATTACCAGTCTAGGCTAAATCCTGTCTACAATATATACTCAATAGAGCTTAG-T
1 CAGGATTACCAGTCCAGGCTAAATCCTGTCTACAACATATACTCAATAGAGCTT-GCT
* * ** *
2107260 CAGGATTACCAGTCCAGGCTAAATCCTTTTTATGACATATGCTCTAA-AGAGCTTGCT
1 CAGGATTACCAGTCCAGGCTAAATCCTGTCTACAACATATACTC-AATAGAGCTTGCT
* **
2107317 CTGGATTACTTGTCCAGGCTAAATCC
1 CAGGATTACCAGTCCAGGCTAAATCC
2107343 AATCCATAAC
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
56 1 0.01
57 68 0.96
58 2 0.03
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (57 bp):
CAGGATTACCAGTCCAGGCTAAATCCTGTCTACAACATATACTCAATAGAGCTTGCT
Found at i:2122561 original size:43 final size:43
Alignment explanation
Indices: 2122498--2122664 Score: 187
Period size: 43 Copynumber: 3.9 Consensus size: 43
2122488 AGCTCGTATA
* * * *
2122498 ATGCC-ATATCCCAAATATGGTCTTACATGTTATCACATATCG
1 ATGCCAATGTCCCAAACATGGTCTTACACGTAATCACATATCG
* * **
2122540 ATGCCAAGGTCCCAAACATGGTCTTACACGAAATCATGTAAT-G
1 ATGCCAATGTCCCAAACATGGTCTTACACGTAATCACAT-ATCG
* *
2122583 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA-ATACA
1 ATGCCAATGTCCCAAACATGGTCTTACACGTAATCACATAT-CG
* *
2122626 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAT
1 ATGCCAATGTCCCAAACATGGTCTTACACGTAATCACAT
2122665 CTTGGTAATT
Statistics
Matches: 105, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
41 2 0.02
42 5 0.05
43 96 0.91
44 2 0.02
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAAACATGGTCTTACACGTAATCACATATCG
Found at i:2140955 original size:22 final size:20
Alignment explanation
Indices: 2140930--2140981 Score: 50
Period size: 23 Copynumber: 2.4 Consensus size: 20
2140920 AAAACATTTA
2140930 TTTATTATTTTATGTTTTTAAT
1 TTTATTATTTT-T-TTTTTAAT
*
2140952 TTTAATTAAATTTTTTTTTTATT
1 TTT-ATT--ATTTTTTTTTTAAT
2140975 TTTATTA
1 TTTATTA
2140982 GATTTTAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
20 1 0.04
22 6 0.23
23 13 0.50
24 1 0.04
25 5 0.19
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (20 bp):
TTTATTATTTTTTTTTTAAT
Found at i:2140986 original size:22 final size:22
Alignment explanation
Indices: 2140944--2140987 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
2140934 TTATTTTATG
2140944 TTTTTAATTTTAATTAAATTTT
1 TTTTTAATTTTAATTAAATTTT
* * *
2140966 TTTTTTATTTTTATTAGATTTT
1 TTTTTAATTTTAATTAAATTTT
2140988 AGAATTTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (22 bp):
TTTTTAATTTTAATTAAATTTT
Found at i:2154015 original size:47 final size:47
Alignment explanation
Indices: 2153961--2154841 Score: 1402
Period size: 47 Copynumber: 18.6 Consensus size: 47
2153951 TATTTGAATA
2153961 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
2154008 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
2154055 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
2154104 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
2154151 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
2154200 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
2154247 AATGTGAAAGTGTATATAGGTGATAAGGCCTAATAGCCGACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
2154294 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
2154343 AATGTGAAAGTGTATATATTTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
2154390 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* **
2154437 AATGTGAAAGTGTATATATGTGATAAGGTCTAATAACCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * *
2154484 AAAGTGAAAGTGTATATAGGTGATAAGGCCTAATAGCCGACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
2154531 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
2154580 AATGTGAAAGTGTATATATTTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
2154627 AATGTGAAAGTGTATATATTTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
2154674 AATGTGAAAGTGTATATATTTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
2154721 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGACGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
2154768 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
2154815 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
2154842 TCCCGAAGGG
Statistics
Matches: 778, Mismatches: 48, Indels: 16
0.92 0.06 0.02
Matches are distributed among these distances:
47 600 0.77
49 178 0.23
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:2154120 original size:143 final size:141
Alignment explanation
Indices: 2153961--2154841 Score: 1420
Period size: 143 Copynumber: 6.2 Consensus size: 141
2153951 TATTTGAATA
2153961 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
2154026 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
66 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAAT
*
2154091 GGCCGATGTGATG
129 AGCCGATGTGATG
* *
2154104 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
2154169 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
64 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
*
2154234 AGCCGATGTGATA
129 AGCCGATGTGATG
* * *
2154247 AATGTGAAAGTGTATATAGGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
*
2154312 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATTTGATAAGGCCTAAT
64 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
2154377 AGCCGATGTGATG
129 AGCCGATGTGATG
2154390 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* ** * *
2154455 TGTGATAAGGTCTAATAACCGATGTGATGAAAGTGAAAGTGTATATAGGTGATAAGGCCTAATAG
66 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAG
*
2154520 CCGACGTGATG
131 CCGATGTGATG
2154531 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* * *
2154596 TATTTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATTTGATAAGGCCTAAT
64 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
2154661 AGCCGATGTGATG
129 AGCCGATGTGATG
*
2154674 AATGTGAAAGTGTATATATTTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * *
2154739 TGTGATAAGGCCTAATGGACGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGG
66 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAG
* *
2154804 CCAACGTGATG
131 CCGATGTGATG
* *
2154815 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
2154842 TCCCGAAGGG
Statistics
Matches: 689, Mismatches: 45, Indels: 10
0.93 0.06 0.01
Matches are distributed among these distances:
141 228 0.33
143 416 0.60
145 45 0.07
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.29
Consensus pattern (141 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAG
CCGATGTGATG
Found at i:2162426 original size:40 final size:40
Alignment explanation
Indices: 2162378--2162605 Score: 402
Period size: 40 Copynumber: 5.7 Consensus size: 40
2162368 GCAAACACAT
* * *
2162378 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
2162418 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
2162458 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
2162498 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
2162538 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
2162578 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
2162606 TCCAATGCTC
Statistics
Matches: 179, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 179 1.00
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:2168408 original size:27 final size:27
Alignment explanation
Indices: 2168377--2168554 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
2168367 TAAATTGTAC
*
2168377 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
2168404 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
2168430 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
2168458 GGCACTAAGTGTGCGAGATGGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * * *
2168486 GGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
2168513 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
2168540 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
2168555 GGCTCAATAA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:2168493 original size:82 final size:81
Alignment explanation
Indices: 2168378--2168533 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
2168368 AAATTGTACA
* * * *
2168378 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGAATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
2168442 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
2168459 GCACTAAGTGTGCGAGATGGACTATGTGGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-ATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
2168524 TGCGAGTTGA
65 TGCGAATTGA
2168534 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 15 0.23
82 49 0.75
83 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:2168545 original size:82 final size:81
Alignment explanation
Indices: 2168374--2168554 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
2168364 GATTAAATTG
* * * *
2168374 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGATGCACTAA
2168439 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
2168455 TGCGGCACTAAGTGTGCGAGATGGACTATGTGGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-ATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
2168519 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
2168537 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
2168555 GGCTCAATAA
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 18 0.22
82 64 0.78
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:2170291 original size:32 final size:31
Alignment explanation
Indices: 2170241--2170311 Score: 124
Period size: 32 Copynumber: 2.3 Consensus size: 31
2170231 TATTAAGCTT
*
2170241 TGAATGATAGTTAATATTCATTTTGAGTTTA
1 TGAAAGATAGTTAATATTCATTTTGAGTTTA
2170272 TGAAAGATACGTTAATATTCATTTTGAGTTTA
1 TGAAAGATA-GTTAATATTCATTTTGAGTTTA
2170304 TGAAAGAT
1 TGAAAGAT
2170312 GTATTCTCTT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
31 8 0.21
32 30 0.79
ACGTcount: A:0.35, C:0.04, G:0.17, T:0.44
Consensus pattern (31 bp):
TGAAAGATAGTTAATATTCATTTTGAGTTTA
Found at i:2175868 original size:14 final size:14
Alignment explanation
Indices: 2175849--2175876 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2175839 TGAGACATTC
2175849 TAAATTTTTGATAA
1 TAAATTTTTGATAA
2175863 TAAATTTTTGATAA
1 TAAATTTTTGATAA
2175877 GAACACAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
TAAATTTTTGATAA
Found at i:2177397 original size:16 final size:17
Alignment explanation
Indices: 2177375--2177412 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
2177365 TATTTATTCT
*
2177375 TATTTCATCTTTATTTA
1 TATTTCATCTCTATTTA
*
2177392 -ATTTCATGTCTATTTA
1 TATTTCATCTCTATTTA
2177408 TATTT
1 TATTT
2177413 ATGTTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.24, C:0.11, G:0.03, T:0.63
Consensus pattern (17 bp):
TATTTCATCTCTATTTA
Found at i:2179309 original size:40 final size:39
Alignment explanation
Indices: 2179278--2179487 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
2179268 GGACTAAGAT
* *
2179278 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
2179318 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
2179358 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
2179398 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
2179438 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
2179477 CCGAAGGCATT
1 CCGAAGGCATT
2179488 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:2179441 original size:120 final size:120
Alignment explanation
Indices: 2179225--2179487 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
2179215 TTGAATGCTG
* *
2179225 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
2179289 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
2179345 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
2179408 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
2179464 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
2179488 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:2179507 original size:79 final size:80
Alignment explanation
Indices: 2179226--2179522 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
2179216 TGAATGCTGT
* ** * * * **
2179226 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
2179289 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
2179306 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
2179370 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
2179386 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
2179450 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
2179465 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
2179523 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:2187262 original size:40 final size:40
Alignment explanation
Indices: 2187231--2187600 Score: 582
Period size: 40 Copynumber: 9.3 Consensus size: 40
2187221 GGACTAAGAT
* * * *
2187231 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGTTATTAAA-TCCGGGTTAAGTC
* * * *
2187271 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
2187311 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
2187351 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
2187391 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
2187431 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
2187471 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
2187511 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
2187551 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
2187590 CCGAAGGCATT
1 CCGAAGGCATT
2187601 TGAACGAGGA
Statistics
Matches: 315, Mismatches: 14, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
39 34 0.11
40 278 0.88
41 3 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:2187315 original size:80 final size:80
Alignment explanation
Indices: 2187178--2187600 Score: 584
Period size: 80 Copynumber: 5.3 Consensus size: 80
2187168 TTGAATGCTG
* * * * * * **
2187178 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
* * *
2187241 TTGTGCGAGATA-CAAA
64 TCGTGCGAGTTATTAAA
* * * * *
2187257 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 -TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
2187322 CGTGCGAGTTATTAAA
65 CGTGCGAGTTATTAAA
2187338 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
2187403 GTGCGAGTTATTAAA
66 GTGCGAGTTATTAAA
2187418 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
2187483 GTGCGAGTTATTAAA
66 GTGCGAGTTATTAAA
* *
2187498 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATT-
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
2187562 GTGTGAGTTACTAAA
66 GTGCGAGTTATTAAA
* * *
2187577 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
2187601 TGAACGAGGA
Statistics
Matches: 316, Mismatches: 24, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
79 35 0.11
80 271 0.86
81 10 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
GTGCGAGTTATTAAA
Found at i:2187394 original size:120 final size:120
Alignment explanation
Indices: 2187178--2187600 Score: 584
Period size: 120 Copynumber: 3.5 Consensus size: 120
2187168 TTGAATGCTG
* * * * * * *
2187178 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGCTAAG-TCCCGAAGGCAT
* * * * * * * *
2187241 TTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
64 TCGTGCGAGTTATTAAA-TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
2187298 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGCTAAGTCCCGAAGGCATTC
2187363 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
66 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
2187418 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGCTAAGTCCCGAAGGCATTC
*
2187483 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
66 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * * * *
2187538 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGCTAAGTCCCGAAGGCATT
2187601 TGAACGAGGA
Statistics
Matches: 277, Mismatches: 23, Indels: 7
0.90 0.07 0.02
Matches are distributed among these distances:
119 35 0.13
120 233 0.84
121 9 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGCTAAGTCCCGAAGGCATTC
GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:2192168 original size:49 final size:49
Alignment explanation
Indices: 2192115--2192294 Score: 227
Period size: 49 Copynumber: 3.7 Consensus size: 49
2192105 CTGGTACGCA
* * *
2192115 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGATACACG
*
2192164 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGATACACG
* ** * ** **
2192213 TAGTAGCC-ACGGTTAGTACTACACACGTGACCTAACCATTTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCCGATACACG
*
2192262 TAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC
2192295 TCACAATAGA
Statistics
Matches: 113, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
48 21 0.19
49 73 0.65
50 19 0.17
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGATACACG
Found at i:2200595 original size:27 final size:27
Alignment explanation
Indices: 2200565--2200741 Score: 144
Period size: 27 Copynumber: 6.5 Consensus size: 27
2200555 ATATTGAGCC
* * *
2200565 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCCACATAATCAACT
* * *
2200592 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCCACATAATCAACT
* *
2200619 CGCACACTTAGTGCCACATAGTCCATCT
1 CGCACACTTAGTGCCACATAAT-CAACT
* ** *
2200647 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCCACATAATCAACT
* **
2200674 CGCACACTTAGTG-CATCATATTCATTT
1 CGCACACTTAGTGCCA-CATAATCAACT
* *
2200701 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCCACATAA-TCA-ACT
2200728 CGCACACTTAGTGC
1 CGCACACTTAGTGC
2200742 TGTACAATTT
Statistics
Matches: 122, Mismatches: 23, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
26 3 0.02
27 95 0.78
28 24 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCCACATAATCAACT
Found at i:2209804 original size:43 final size:43
Alignment explanation
Indices: 2209730--2209896 Score: 273
Period size: 43 Copynumber: 3.9 Consensus size: 43
2209720 GCTAGTATTA
*
2209730 TATTCAGGCCTTCGTG-CTAGCAGGCTTAGTGCCGGTAATGTG
1 TATTCAGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
*
2209772 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
1 TATTCAGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
*
2209815 TATTCAGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCAGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
* * *
2209858 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
1 TATTCAGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGA
2209897 AATGATATGT
Statistics
Matches: 116, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
42 15 0.13
43 101 0.87
ACGTcount: A:0.14, C:0.24, G:0.33, T:0.29
Consensus pattern (43 bp):
TATTCAGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
Found at i:2210280 original size:45 final size:45
Alignment explanation
Indices: 2210213--2210320 Score: 134
Period size: 45 Copynumber: 2.4 Consensus size: 45
2210203 TTGACTTGAT
* *
2210213 TATTCGGGCCTTTGAGCTTAGCAAACTATAATGCCGGTGAGA-T-A
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGA-ACTGA
**
2210257 CTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAACTGA
1 -TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGAACTGA
2210303 TATT-GGGCC-TCGAGCCTA
1 TATTCGGGCCTTCGAGCCTA
2210321 ACAGGTGAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
43 9 0.16
44 6 0.11
45 41 0.72
46 1 0.02
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (45 bp):
TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGAACTGA
Found at i:2227395 original size:52 final size:52
Alignment explanation
Indices: 2227316--2227419 Score: 181
Period size: 52 Copynumber: 2.0 Consensus size: 52
2227306 TGAGGGTCAA
2227316 GGAGACTGATGTTTATAAAACAATGTTTAAGACTCGTTATGGTCATTACGAG
1 GGAGACTGATGTTTATAAAACAATGTTTAAGACTCGTTATGGTCATTACGAG
* * *
2227368 GGAGACTGATGTTTATAAGACAGTGTTTAGGACTCGTTATGGTCATTACGAG
1 GGAGACTGATGTTTATAAAACAATGTTTAAGACTCGTTATGGTCATTACGAG
2227420 TTCCTAGTGA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.33
Consensus pattern (52 bp):
GGAGACTGATGTTTATAAAACAATGTTTAAGACTCGTTATGGTCATTACGAG
Found at i:2234283 original size:14 final size:14
Alignment explanation
Indices: 2234264--2234293 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2234254 TAGAGAGAAT
*
2234264 GATGATGGATGAGG
1 GATGATGAATGAGG
2234278 GATGATGAATGAGG
1 GATGATGAATGAGG
2234292 GA
1 GA
2234294 ATGAAGGGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.47, T:0.20
Consensus pattern (14 bp):
GATGATGAATGAGG
Found at i:2249778 original size:29 final size:28
Alignment explanation
Indices: 2249736--2249791 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
2249726 ACTTTCATTT
** *
2249736 ATTTCACATTTTAACCACATATTTTGCAC
1 ATTTCACAAATTAACC-CATATTATGCAC
*
2249765 ATTTCACAAATTAATCCATATTATGCA
1 ATTTCACAAATTAACCCATATTATGCA
2249792 TTTTCATCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 10 0.43
29 13 0.57
ACGTcount: A:0.36, C:0.21, G:0.04, T:0.39
Consensus pattern (28 bp):
ATTTCACAAATTAACCCATATTATGCAC
Found at i:2252771 original size:66 final size:66
Alignment explanation
Indices: 2252665--2252794 Score: 244
Period size: 66 Copynumber: 2.0 Consensus size: 66
2252655 ATTGAGTCGC
2252665 GTGATTCGAAGAAGAGACAGACGGGGAAGTCACATCAGTCCTCATTTAAGAAATTGAGAGAATTA
1 GTGATTCGAAGAAGAGACAGACGGGGAAGTCACATCAGTCCTCATTTAAGAAATTGAGAGAATTA
2252730 T
66 T
2252731 GTGATTCTG-AGAAGAGACAGACGGGGAAGTCACATCAGTCCTCATTTAAGAAATTGAGAGAATT
1 GTGATTC-GAAGAAGAGACAGACGGGGAAGTCACATCAGTCCTCATTTAAGAAATTGAGAGAATT
2252795 CACTACCCGA
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
66 62 0.98
67 1 0.02
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (66 bp):
GTGATTCGAAGAAGAGACAGACGGGGAAGTCACATCAGTCCTCATTTAAGAAATTGAGAGAATTA
T
Found at i:2258230 original size:37 final size:37
Alignment explanation
Indices: 2258180--2258258 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
2258170 TTATTACGAA
* * *
2258180 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
2258217 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
2258254 GTCTT
1 GTCTT
2258259 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:2258441 original size:47 final size:47
Alignment explanation
Indices: 2258377--2258602 Score: 344
Period size: 47 Copynumber: 4.8 Consensus size: 47
2258367 CCTTTCGGGA
* * * * * * *
2258377 CTTATCACATTTTTACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
2258424 CCTGTCACATATATACACTTTCACATTCATTACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
2258471 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
2258518 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
2258565 CTTATCACATATATACACTTTCACATTCATCACATCGG
1 CTTATCACATATATACACTTTCACATTCATCACATCGG
2258603 ATCCTAAATC
Statistics
Matches: 162, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 162 1.00
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Done.