Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 102 of 126
Found at i:31148450 original size:41 final size:41
Alignment explanation
Indices: 31148364--31148457 Score: 98
Period size: 41 Copynumber: 2.3 Consensus size: 41
31148354 TAGACTTTAT
** * * * * *
31148364 GTCTAGCAGATTTGATGCCGGTGAAATATTTCAAACTTTAT
1 GTCTAGCAGGCTTAATGCCGGTGAAACAATTCAAACTATAA
* **
31148405 GTCTAGTAGGCTTAATGCCGGTGAAACAATTCGGACTATAA
1 GTCTAGCAGGCTTAATGCCGGTGAAACAATTCAAACTATAA
31148446 GTCTAGCAGGCT
1 GTCTAGCAGGCT
31148458 GAAAGTCGGT
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (41 bp):
GTCTAGCAGGCTTAATGCCGGTGAAACAATTCAAACTATAA
Found at i:31148671 original size:69 final size:71
Alignment explanation
Indices: 31148582--31148736 Score: 190
Period size: 69 Copynumber: 2.2 Consensus size: 71
31148572 TTGAAGAACA
* * * **
31148582 TGTATATACATTTGGTGATAATACTTGTTAGGC-ATATGTATATATGCATTC-AGCTATTCATG-
1 TGTATATACATTCGATGATAATACTTGTTAAGCAATATGTATATACACATTCGA-CTATTCATGT
31148644 TTTAAAG
65 TTTAAAG
* *
31148651 TGTATATACATTCGATGATAATATTTTTTAAGCATATATGTATATACACATTCGACTATTCATGT
1 TGTATATACATTCGATGATAATACTTGTTAAGCA-ATATGTATATACACATTCGACTATTCATGT
*
31148716 TTTAAAT
65 TTTAAAG
*
31148723 TGTATATGCATTCG
1 TGTATATACATTCG
31148737 GTTTTAAGTG
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
69 28 0.38
71 25 0.34
72 20 0.27
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (71 bp):
TGTATATACATTCGATGATAATACTTGTTAAGCAATATGTATATACACATTCGACTATTCATGTT
TTAAAG
Found at i:31149744 original size:21 final size:21
Alignment explanation
Indices: 31149715--31149768 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
31149705 TTTCTAGTGA
*
31149715 TATCACGATACCAAGGATGGG
1 TATCGCGATACCAAGGATGGG
31149736 TATCGCGATACCAAGGATGGG
1 TATCGCGATACCAAGGATGGG
31149757 TATCGCGATACC
1 TATCGCGATACC
31149769 GAGACCCTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.30, C:0.22, G:0.28, T:0.20
Consensus pattern (21 bp):
TATCGCGATACCAAGGATGGG
Found at i:31150410 original size:9 final size:9
Alignment explanation
Indices: 31150396--31150472 Score: 84
Period size: 9 Copynumber: 8.4 Consensus size: 9
31150386 TTTGGTTAAA
31150396 AATTACCCG
1 AATTACCCG
*
31150405 AATTACCTG
1 AATTACCCG
31150414 AATTACCCG
1 AATTACCCG
*
31150423 AATTAACCG
1 AATTACCCG
*
31150432 AATTAACCG
1 AATTACCCG
31150441 AATTA-CCG
1 AATTACCCG
*
31150449 AAAAATACCCG
1 --AATTACCCG
*
31150460 AATTACCCA
1 AATTACCCG
31150469 AATT
1 AATT
31150473 TTTTTTTTAA
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
8 3 0.05
9 49 0.83
10 4 0.07
11 3 0.05
ACGTcount: A:0.42, C:0.26, G:0.09, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:31158600 original size:18 final size:19
Alignment explanation
Indices: 31158538--31158650 Score: 92
Period size: 19 Copynumber: 5.9 Consensus size: 19
31158528 TTATTCTAGA
31158538 AATTTTTT-T-ATTTTTT-
1 AATTTTTTATAATTTTTTG
*
31158554 AACTTTCTTTATATTTTTTTTG
1 AA-TTT-TTTATA-ATTTTTTG
31158576 AATTTTTTATAATTTTTTG
1 AATTTTTTATAATTTTTTG
*
31158595 AA-TTTTTATAAATATTTTG
1 AATTTTTTAT-AATTTTTTG
* *
31158614 -ATTTTTAAAAATTATTTTG
1 AATTTTTTATAATT-TTTTG
*
31158633 AATTATTTTGTAATTTTT
1 AATT-TTTTATAATTTTT
31158651 GTTGGGAGAA
Statistics
Matches: 77, Mismatches: 9, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
16 2 0.03
17 3 0.04
18 14 0.18
19 28 0.36
20 12 0.16
21 16 0.21
22 2 0.03
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.66
Consensus pattern (19 bp):
AATTTTTTATAATTTTTTG
Found at i:31162292 original size:19 final size:19
Alignment explanation
Indices: 31162242--31162290 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
31162232 TTTCTCAATT
* * *
31162242 TAAGTATGTTAAAGTAAAA
1 TAAGTTTGTTTAATTAAAA
*
31162261 TAATTTTGTTTAATTAAAA
1 TAAGTTTGTTTAATTAAAA
31162280 TATAGTTTGTT
1 TA-AGTTTGTT
31162291 AACCTATAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (19 bp):
TAAGTTTGTTTAATTAAAA
Found at i:31172735 original size:9 final size:9
Alignment explanation
Indices: 31172682--31172741 Score: 52
Period size: 10 Copynumber: 6.6 Consensus size: 9
31172672 ACACATGATA
*
31172682 AAAAATGAT
1 AAAAATTAT
31172691 AAAAA-TAT
1 AAAAATTAT
* *
31172699 TAAAATCAAT
1 AAAAAT-TAT
31172709 AAAAATT-T
1 AAAAATTAT
31172717 AAAAATTTAT
1 AAAAA-TTAT
31172727 AAAAATTAT
1 AAAAATTAT
31172736 AGAAAA
1 A-AAAA
31172742 ATATTTAAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
8 12 0.29
9 12 0.29
10 17 0.41
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (9 bp):
AAAAATTAT
Found at i:31172808 original size:20 final size:20
Alignment explanation
Indices: 31172783--31172826 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
31172773 AAATTGTATT
*
31172783 AAAATTTATT-TAAAATATA
1 AAAATTTATTAGAAAATATA
31172802 GAAAA-TTATTAGAAAATATA
1 -AAAATTTATTAGAAAATATA
31172822 AAAAT
1 AAAAT
31172827 ATAAAATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (20 bp):
AAAATTTATTAGAAAATATA
Found at i:31172927 original size:10 final size:10
Alignment explanation
Indices: 31172914--31172965 Score: 52
Period size: 10 Copynumber: 5.3 Consensus size: 10
31172904 TAAAATCAAT
31172914 AAAAATATAA
1 AAAAATATAA
31172924 AAAAATATAA
1 AAAAATATAA
** *
31172934 AATTAT-TAC
1 AAAAATATAA
**
31172943 AAATTTATAA
1 AAAAATATAA
31172953 AAAAATATAA
1 AAAAATATAA
31172963 AAA
1 AAA
31172966 TAGAGAAAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
9 6 0.18
10 27 0.82
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (10 bp):
AAAAATATAA
Found at i:31172937 original size:37 final size:37
Alignment explanation
Indices: 31172895--31172967 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 37
31172885 GATAAAGATA
*
31172895 AAAATTGATTA-AAATCAATAAAAATATAAAAAAATAT
1 AAAATT-ATTACAAATCAATAAAAAAATAAAAAAATAT
** *
31172932 AAAATTATTACAAATTTATAAAAAAATATAAAAATA
1 AAAATTATTACAAATCAATAAAAAAATAAAAAAATA
31172968 GAGAAAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 4 0.13
37 27 0.87
ACGTcount: A:0.67, C:0.03, G:0.01, T:0.29
Consensus pattern (37 bp):
AAAATTATTACAAATCAATAAAAAAATAAAAAAATAT
Found at i:31172954 original size:46 final size:45
Alignment explanation
Indices: 31172893--31173012 Score: 116
Period size: 47 Copynumber: 2.6 Consensus size: 45
31172883 CGGATAAAGA
* *
31172893 TAAAAATTGATTAAAATCAATAAAAATATA-AAAAAATATAAAATTAT
1 TAAAAATTCA-TAAAATCAATAAAAATAGAGAAAAAATA-AAAA-TAT
* * **
31172940 TACAAATTTATAAAAAAATATAAAAATAGAGAAAAAATAAAAATAT
1 TAAAAATTCATAAAATCA-ATAAAAATAGAGAAAAAATAAAAATAT
*
31172986 TAAAAATTCATGAAAATCTATAGAAAA
1 TAAAAATTCAT-AAAATCAATA-AAAA
31173013 ATTAGTTACT
Statistics
Matches: 59, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
46 21 0.36
47 30 0.51
48 8 0.14
ACGTcount: A:0.66, C:0.03, G:0.04, T:0.27
Consensus pattern (45 bp):
TAAAAATTCATAAAATCAATAAAAATAGAGAAAAAATAAAAATAT
Found at i:31172991 original size:17 final size:17
Alignment explanation
Indices: 31172952--31172984 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
31172942 CAAATTTATA
31172952 AAAAAATATAAAAATAG
1 AAAAAATATAAAAATAG
31172969 AGAAAAA-ATAAAAATA
1 A-AAAAATATAAAAATA
31172985 TTAAAAATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (17 bp):
AAAAAATATAAAAATAG
Found at i:31175962 original size:43 final size:43
Alignment explanation
Indices: 31175872--31175975 Score: 113
Period size: 43 Copynumber: 2.4 Consensus size: 43
31175862 TACAGCATGT
* * *
31175872 TATGCGAACCATGTTATAATTTCATGCGAACCTTGCAGTGTGT
1 TATGCGAACCATGTTATATTTTCATGCGAACCTTGCAGTATGA
* * *
31175915 TATGCGAACCATGTTATATTTTCATGTG-AGCTCTGTAGTATGA
1 TATGCGAACCATGTTATATTTTCATGCGAACCT-TGCAGTATGA
* *
31175958 TATGCAAACC-TGCTATAT
1 TATGCGAACCATGTTATAT
31175976 GACATGCAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
42 10 0.19
43 42 0.81
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (43 bp):
TATGCGAACCATGTTATATTTTCATGCGAACCTTGCAGTATGA
Found at i:31176163 original size:25 final size:25
Alignment explanation
Indices: 31176135--31176192 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
31176125 AATATGCTAG
* * **
31176135 GTTGAGTGATGTGCGATCATGTTAT
1 GTTGAATGATGTGCGAACATACTAT
*
31176160 GTTGAATGCTGTGCGAACATACTAT
1 GTTGAATGATGTGCGAACATACTAT
31176185 GTTGAATG
1 GTTGAATG
31176193 GTATCTAAAC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.24, C:0.10, G:0.29, T:0.36
Consensus pattern (25 bp):
GTTGAATGATGTGCGAACATACTAT
Found at i:31176228 original size:25 final size:25
Alignment explanation
Indices: 31176174--31176247 Score: 78
Period size: 25 Copynumber: 2.9 Consensus size: 25
31176164 AATGCTGTGC
* * *
31176174 GAACATACTATGTTGAATGGTATCTA
1 GAACATGCTATGTTGAATGATAT-AA
*
31176200 -AACATGTTATGTTGAATGATATAA
1 GAACATGCTATGTTGAATGATATAA
*
31176224 GAACATGCTATGATTGAGTGATAT
1 GAACATGCTATG-TTGAATGATAT
31176248 GCGAACCCTT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
24 1 0.03
25 29 0.73
26 10 0.25
ACGTcount: A:0.36, C:0.08, G:0.20, T:0.35
Consensus pattern (25 bp):
GAACATGCTATGTTGAATGATATAA
Found at i:31177917 original size:40 final size:41
Alignment explanation
Indices: 31177838--31177923 Score: 147
Period size: 40 Copynumber: 2.1 Consensus size: 41
31177828 TGTGGATTCT
*
31177838 CCACAGCTCGTGTGAGCAGTATCGTGTAGCTTACATTTCGAC
1 CCACAGCTCGTGTGAGCAGCATC-TGTAGCTTACATTTCGAC
31177880 CCACAGCTCGTGTGAGCAGCAT-TGTAGCTTACATTTCGAC
1 CCACAGCTCGTGTGAGCAGCATCTGTAGCTTACATTTCGAC
31177920 CCAC
1 CCAC
31177924 TTTGTGTGAG
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
40 22 0.51
42 21 0.49
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (41 bp):
CCACAGCTCGTGTGAGCAGCATCTGTAGCTTACATTTCGAC
Found at i:31180852 original size:22 final size:22
Alignment explanation
Indices: 31180827--31180957 Score: 136
Period size: 22 Copynumber: 5.9 Consensus size: 22
31180817 GCAAACCCAT
31180827 GCTATGTGATATGCGAACTTAA
1 GCTATGTGATATGCGAACTTAA
* *
31180849 GCTATATGATATGCGAACTTAT
1 GCTATGTGATATGCGAACTTAA
* * * *
31180871 GCTAAAGTGACATGCCAACCTAA
1 GCT-ATGTGATATGCGAACTTAA
* * * *
31180894 GCTATATAATATGTGAACTTAT
1 GCTATGTGATATGCGAACTTAA
* *
31180916 GCTAAAGTGATATGCGAACCTAA
1 GCT-ATGTGATATGCGAACTTAA
31180939 GCTATGTGATATGCGAACT
1 GCTATGTGATATGCGAACT
31180958 ATGACTTATG
Statistics
Matches: 83, Mismatches: 24, Indels: 4
0.75 0.22 0.04
Matches are distributed among these distances:
22 51 0.61
23 32 0.39
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (22 bp):
GCTATGTGATATGCGAACTTAA
Found at i:31180865 original size:67 final size:68
Alignment explanation
Indices: 31180787--31180934 Score: 172
Period size: 67 Copynumber: 2.2 Consensus size: 68
31180777 TTATTGCAAT
* * * *
31180787 GTGATATGCGAACTTAAATTAAAATAACATGCAAACCCATGCTATGTGATATGCGAACTTAAGCT
1 GTGATATGCGAACTTAAACTAAAATAACATGCAAACCCAAGCTATATAATATGCGAACTTAAGCT
*
31180852 ATA
66 AAA
** * * * * * *
31180855 -TGATATGCGAACTTATGCTAAAGTGACATGCCAACCTAAGCTATATAATATGTGAACTTATGCT
1 GTGATATGCGAACTTAAACTAAAATAACATGCAAACCCAAGCTATATAATATGCGAACTTAAGCT
31180919 AAA
66 AAA
31180922 GTGATATGCGAAC
1 GTGATATGCGAAC
31180935 CTAAGCTATG
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
67 54 0.82
68 12 0.18
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (68 bp):
GTGATATGCGAACTTAAACTAAAATAACATGCAAACCCAAGCTATATAATATGCGAACTTAAGCT
AAA
Found at i:31180896 original size:45 final size:45
Alignment explanation
Indices: 31180832--31180957 Score: 198
Period size: 45 Copynumber: 2.8 Consensus size: 45
31180822 CCCATGCTAT
*
31180832 GTGATATGCGAACTTAAGCTATATGATATGCGAACTTATGCTAAA
1 GTGATATGCGAACCTAAGCTATATGATATGCGAACTTATGCTAAA
* * * *
31180877 GTGACATGCCAACCTAAGCTATATAATATGTGAACTTATGCTAAA
1 GTGATATGCGAACCTAAGCTATATGATATGCGAACTTATGCTAAA
*
31180922 GTGATATGCGAACCTAAGCTATGTGATATGCGAACT
1 GTGATATGCGAACCTAAGCTATATGATATGCGAACT
31180958 ATGACTTATG
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 71 1.00
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (45 bp):
GTGATATGCGAACCTAAGCTATATGATATGCGAACTTATGCTAAA
Found at i:31181556 original size:17 final size:17
Alignment explanation
Indices: 31181536--31181599 Score: 58
Period size: 17 Copynumber: 3.8 Consensus size: 17
31181526 AGAACTTTTA
* *
31181536 TTTGGTATGAATTGTTG
1 TTTGATATGAACTGTTG
31181553 TTTGATATGAACTGTTG
1 TTTGATATGAACTGTTG
* *
31181570 TTT-ATTGTGAACTGATG
1 TTTGA-TATGAACTGTTG
* *
31181587 TTTTATGTGAACT
1 TTTGATATGAACT
31181600 ACCTATTTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
16 1 0.02
17 39 0.95
18 1 0.02
ACGTcount: A:0.22, C:0.05, G:0.23, T:0.50
Consensus pattern (17 bp):
TTTGATATGAACTGTTG
Found at i:31181608 original size:18 final size:18
Alignment explanation
Indices: 31181587--31181653 Score: 71
Period size: 18 Copynumber: 3.7 Consensus size: 18
31181577 TGAACTGATG
*
31181587 TTTTATGTGAACTACCTA
1 TTTTATGTGAACTACTTA
* *
31181605 TTTTATGTGAATTGCTTA
1 TTTTATGTGAACTACTTA
* * *
31181623 CTCTATGTGAACTATTTA
1 TTTTATGTGAACTACTTA
*
31181641 TTTTATGGGAACT
1 TTTTATGTGAACT
31181654 GTAAGTCGTG
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.25, C:0.12, G:0.15, T:0.48
Consensus pattern (18 bp):
TTTTATGTGAACTACTTA
Found at i:31186060 original size:20 final size:20
Alignment explanation
Indices: 31186037--31186139 Score: 68
Period size: 20 Copynumber: 5.2 Consensus size: 20
31186027 AAAATACAAA
31186037 CAGGGGCACGTATGTGCATT
1 CAGGGGCACGTATGTGCATT
* * * *
31186057 CAGGGGTACCG-AAGTACAAAT
1 CAGGGGCA-CGTATGTGC-ATT
*
31186078 -AGGGGCACATATGTGCATT
1 CAGGGGCACGTATGTGCATT
* * * **
31186097 CAGGGGTACCG-AAGTACAAA
1 CAGGGGCA-CGTATGTGCATT
31186117 CAGGGGCACGTATGTGCATT
1 CAGGGGCACGTATGTGCATT
31186137 CAG
1 CAG
31186140 TAATATTTTA
Statistics
Matches: 57, Mismatches: 20, Indels: 12
0.64 0.22 0.13
Matches are distributed among these distances:
19 5 0.09
20 47 0.82
21 5 0.09
ACGTcount: A:0.29, C:0.19, G:0.32, T:0.19
Consensus pattern (20 bp):
CAGGGGCACGTATGTGCATT
Found at i:31186063 original size:40 final size:40
Alignment explanation
Indices: 31186008--31186139 Score: 219
Period size: 40 Copynumber: 3.3 Consensus size: 40
31185998 CAGAGCATGA
* * *
31186008 ATGTGCATTCAGGGGTATCAAAATACAAACAGGGGCACGT
1 ATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACGT
* *
31186048 ATGTGCATTCAGGGGTACCGAAGTACAAATAGGGGCACAT
1 ATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACGT
31186088 ATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACGT
1 ATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACGT
31186128 ATGTGCATTCAG
1 ATGTGCATTCAG
31186140 TAATATTTTA
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 85 1.00
ACGTcount: A:0.32, C:0.18, G:0.30, T:0.20
Consensus pattern (40 bp):
ATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACGT
Found at i:31190184 original size:21 final size:21
Alignment explanation
Indices: 31190158--31190201 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
31190148 TTACTAATTC
31190158 TAAAAAT-TCTAAAATATA-TTT
1 TAAAAATCT-TAAAA-ATACTTT
31190179 TAAAAATCTTAAAAATACTTT
1 TAAAAATCTTAAAAATACTTT
31190200 TA
1 TA
31190202 TGTTAACTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 3 0.14
21 17 0.81
22 1 0.05
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (21 bp):
TAAAAATCTTAAAAATACTTT
Found at i:31191054 original size:5 final size:5
Alignment explanation
Indices: 31191039--31191069 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
31191029 ATATTTATCT
31191039 TTTAA -TTAA TTTAA TTTAA TTTAA TTTAA TT
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TT
31191070 AGAGAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TTTAA
Found at i:31193881 original size:21 final size:21
Alignment explanation
Indices: 31193857--31193897 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
31193847 ATTCCCTACT
* * *
31193857 GGAGGAACCAGAATCCCGGCC
1 GGAGCAACCACAACCCCGGCC
31193878 GGAGCAACCACAACCCCGGC
1 GGAGCAACCACAACCCCGGC
31193898 TGAAAGCTGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.39, G:0.29, T:0.02
Consensus pattern (21 bp):
GGAGCAACCACAACCCCGGCC
Found at i:31194855 original size:31 final size:32
Alignment explanation
Indices: 31194794--31194855 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
31194784 AAATTACAAG
31194794 AGTAATTGAATCCTAATAAAAACTCTTTAAAT
1 AGTAATTGAATCCTAATAAAAACTCTTTAAAT
31194826 AGTAATTGAATCCTAATAAAAA-TCTTTAAA
1 AGTAATTGAATCCTAATAAAAACTCTTTAAA
31194856 ATTATCTAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 8 0.27
32 22 0.73
ACGTcount: A:0.48, C:0.11, G:0.06, T:0.34
Consensus pattern (32 bp):
AGTAATTGAATCCTAATAAAAACTCTTTAAAT
Found at i:31199885 original size:23 final size:24
Alignment explanation
Indices: 31199855--31199906 Score: 79
Period size: 23 Copynumber: 2.2 Consensus size: 24
31199845 AGTAGGCAAC
*
31199855 TTTTTTTTTTACGTTTTTT-TTCT
1 TTTTTTTTTTACGTTTTTTGCTCT
*
31199878 TTTTTTTTTTGCGTTTTTTGCTCT
1 TTTTTTTTTTACGTTTTTTGCTCT
31199902 TTTTT
1 TTTTT
31199907 CTGTTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 18 0.69
24 8 0.31
ACGTcount: A:0.02, C:0.10, G:0.08, T:0.81
Consensus pattern (24 bp):
TTTTTTTTTTACGTTTTTTGCTCT
Found at i:31202113 original size:126 final size:125
Alignment explanation
Indices: 31201888--31202171 Score: 406
Period size: 126 Copynumber: 2.3 Consensus size: 125
31201878 GCCAAATAGG
* * * * *
31201888 AACTACTGTAACAAAAGAGCGTCCACGTGGGAGATTCTTTTAGTACTTTTGCTGATATTGAATCC
1 AACTACTGTAGCAAAAGAGCATCCACGTGGGAGATTCTTTCAGTACTTTTGCTGACAATGAATCC
* * *
31201953 TGCTTGAAGCGTTTTTGACACTATTTGCTCAGAAACATCTTTTCAAAATTATTTTTTCAGA
66 TGCTTAAAGCATTTTTGACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTTT-AGA
* * *
31202014 AACTACTGTAGCAAAAGAGCATTCACGTGGGAGTTTCTTTCAGTACTTTTGCTGACAATGCATCC
1 AACTACTGTAGCAAAAGAGCATCCACGTGGGAGATTCTTTCAGTACTTTTGCTGACAATGAATCC
** *
31202079 TGCTTAAAGCATTTTTGACACTATTTGCTCAGAAATGTCTTCTCAAAATTATTTTTTAGG
66 TGCTTAAAGCATTTTTGACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTTTAGA
* * *
31202139 AACTACTATAGCAAAAGAGCGTCCACGTAGGAG
1 AACTACTGTAGCAAAAGAGCATCCACGTGGGAG
31202172 CTTTTTTAAA
Statistics
Matches: 140, Mismatches: 18, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
125 31 0.22
126 109 0.78
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.35
Consensus pattern (125 bp):
AACTACTGTAGCAAAAGAGCATCCACGTGGGAGATTCTTTCAGTACTTTTGCTGACAATGAATCC
TGCTTAAAGCATTTTTGACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTTTAGA
Found at i:31202505 original size:97 final size:96
Alignment explanation
Indices: 31202217--31202680 Score: 556
Period size: 97 Copynumber: 4.9 Consensus size: 96
31202207 CTTAAACCCC
* * * * *
31202217 AAACCCTAATTTGTTTGA-TTTTTCCTTAAAAACCTTAAACCCTAAACCCTAATCT-A-TTTAAA
1 AAACCCTAATTTATTTGATTTTTTTCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTAA
* * *
31202279 AAAATTATAATTAATTTACTCAAGTAATCAT
66 AAATTTATAATTAATTTACTCAAGTAACCTT
31202310 AAACCCTAATTTATTTGA-TTTTTTCTTAAAAA--C----C-CTAAACCCTAATCTAATTTTTAA
1 AAACCCTAATTTATTTGATTTTTTTCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTT--
* *
31202367 AAAAAATTATAATTAATTTACTCAAGTAATCTT
64 AAAAATTTATAATTAATTTACTCAAGTAACCTT
* *
31202400 AAACCCTAATTTATTTGATTTTTTTTCTTAAAAACCCTAAACACTAAACCATAATCTAATTTTTT
1 AAACCCTAATTTATTTGA-TTTTTTTCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTA
*
31202465 TAAATTTATAATTAATTTACTCAAGTAACCTT
65 AAAATTTATAATTAATTTACTCAAGTAACCTT
* * *
31202497 GAATCCTAATTTATTTGATTTTTTTCCTTAAAAA-CCAAAACCACTAAACCCTAATCTAATTTTT
1 AAACCCTAATTTATTTGATTTTTTT-CTTAAAAACCCTAAA-CACTAAACCCTAATCTAA----T
** * *
31202561 TTTTTTAAATTTATAACTAATTTACTCAAGTAACCCT
60 TTTTAAAAATTTATAATTAATTTACTCAAGTAACCTT
* * *
31202598 AAACCGTAATTTATTTGATTTTTTTCTTAAAAACCATAAACACCAAACCCTAATCTAATTTTTAA
1 AAACCCTAATTTATTTGATTTTTTTCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTAA
31202663 AAATTTATAATTAATTTA
66 AAATTTATAATTAATTTA
31202681 ATTAAGAAAC
Statistics
Matches: 326, Mismatches: 25, Indels: 37
0.84 0.06 0.10
Matches are distributed among these distances:
86 14 0.04
87 2 0.01
88 3 0.01
90 50 0.15
92 14 0.04
93 30 0.09
94 1 0.00
96 34 0.10
97 70 0.21
98 1 0.00
99 20 0.06
100 25 0.08
101 62 0.19
ACGTcount: A:0.39, C:0.17, G:0.03, T:0.41
Consensus pattern (96 bp):
AAACCCTAATTTATTTGATTTTTTTCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTAA
AAATTTATAATTAATTTACTCAAGTAACCTT
Found at i:31211364 original size:23 final size:22
Alignment explanation
Indices: 31211321--31211364 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
31211311 TTCTAAGTTG
31211321 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
31211344 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
31211365 TTAGTAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:31211475 original size:45 final size:45
Alignment explanation
Indices: 31211411--31211497 Score: 156
Period size: 45 Copynumber: 1.9 Consensus size: 45
31211401 CAGATACTCG
* *
31211411 GTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTCCA
1 GTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCCA
31211456 GTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
1 GTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
31211498 TCGGTTCACA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.25
Consensus pattern (45 bp):
GTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCCA
Found at i:31211570 original size:51 final size:51
Alignment explanation
Indices: 31211518--31211694 Score: 196
Period size: 51 Copynumber: 3.5 Consensus size: 51
31211508 TAGTAAGCTG
* * *
31211518 CACATAGTACTACACATGTGACCATTACCATCCGATACACGTAGTAGCCTG
1 CACATAGTACTACACACGTGACCATTACCATCCGGTACACGTAGTAGCCTA
* * ** * * * *
31211569 CACATAGAACTACACACGTGATCAAAACTATCTGGTACGCATAGTAGCCTA
1 CACATAGTACTACACACGTGACCATTACCATCCGGTACACGTAGTAGCCTA
* * *
31211620 CACATAGTACTACACATGCGACC--TATCATTCCGGTACACGTAGTAGCCTA
1 CACATAGTACTACACACGTGACCATTACCA-TCCGGTACACGTAGTAGCCTA
*
31211670 CACATAGTACTATACACGTGACCAT
1 CACATAGTACTACACACGTGACCAT
31211695 CACTTTCACT
Statistics
Matches: 99, Mismatches: 24, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
49 2 0.02
50 38 0.38
51 59 0.60
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.23
Consensus pattern (51 bp):
CACATAGTACTACACACGTGACCATTACCATCCGGTACACGTAGTAGCCTA
Found at i:31217742 original size:138 final size:138
Alignment explanation
Indices: 31217494--31217916 Score: 675
Period size: 138 Copynumber: 3.1 Consensus size: 138
31217484 TAGAAAAATG
* *
31217494 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTTTTTTATATTTTGACCAAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTAA
* * * *
31217559 TATAATTGTTCATAATAATAAATTTGGTAAAATATATACAATTAATATTTTTTATGAATCAAATT
66 TATAAATGTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
31217624 CATATATT
131 CATATATT
* *
31217632 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTACATTTTGACTAAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTAA
* * * *
31217697 TATAAATGTTTATATTAATAAATTCGATAAAATATATACAATTAATATTTTGTACGAATGAAATT
66 TATAAATGTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
31217762 CATATATT
131 CATATATT
* * *
31217770 ACTTATATTTTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTAA
* * *
31217835 TATAACTATTTCTATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAAATGTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
31217900 CATATATT
131 CATATATT
*
31217908 AATTTTATT
1 AATTATATT
31217917 TATGTTCTCC
Statistics
Matches: 259, Mismatches: 26, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
138 259 1.00
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (138 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTAA
TATAAATGTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
CATATATT
Found at i:31220137 original size:44 final size:43
Alignment explanation
Indices: 31220049--31220137 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 43
31220039 CCATCACAGA
**
31220049 ATCAGTTTGGGCCTTAGCCCATTCAGATACAGTCTCAGAAATAC
1 ATCAGTTTGGGCCTTAGCCCATTCAGATACAGAATCAG-AATAC
*
31220093 ATCAGTTTGGGCCTTGGCCCATATCAGATACAGAATACAG-ATAC
1 ATCAGTTTGGGCCTTAGCCCAT-TCAGATACAGAAT-CAGAATAC
31220137 A
1 A
31220138 GTAAATCAGA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
44 26 0.65
45 11 0.28
46 3 0.08
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (43 bp):
ATCAGTTTGGGCCTTAGCCCATTCAGATACAGAATCAGAATAC
Found at i:31224721 original size:40 final size:40
Alignment explanation
Indices: 31224650--31224795 Score: 177
Period size: 40 Copynumber: 3.6 Consensus size: 40
31224640 TGCTCAGACA
* * * *
31224650 AGCCTTACCTACTGAATCTACTAAAACGTATGCACTTTCG
1 AGCCATACCTATTGAATCTACTGAAATGTATGCACTTTCG
* * *
31224690 AGCCATACTTATTGAATCTATTGGAAA-GTATGCACTTTTG
1 AGCCATACCTATTGAATCTACT-GAAATGTATGCACTTTCG
* * *
31224730 AGCCACACCTACTGAATCTACTGAAATGTATGCACTTTCA
1 AGCCATACCTATTGAATCTACTGAAATGTATGCACTTTCG
*
31224770 AGCCATACCTATTAAATCTACTGAAA
1 AGCCATACCTATTGAATCTACTGAAA
31224796 AGAATGCTCT
Statistics
Matches: 89, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.04
40 82 0.92
41 3 0.03
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.31
Consensus pattern (40 bp):
AGCCATACCTATTGAATCTACTGAAATGTATGCACTTTCG
Found at i:31225268 original size:18 final size:19
Alignment explanation
Indices: 31225239--31225274 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
31225229 ACTTGTTTGC
*
31225239 TTAAGTTGAAATGAATGAT
1 TTAAGTTGAAATCAATGAT
31225258 TTAAG-TGAAATCAATGA
1 TTAAGTTGAAATCAATGA
31225275 CCCTATATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.44, C:0.03, G:0.19, T:0.33
Consensus pattern (19 bp):
TTAAGTTGAAATCAATGAT
Found at i:31227120 original size:12 final size:12
Alignment explanation
Indices: 31227103--31227130 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
31227093 ACCTTTCGTC
31227103 ATTAACTTAAGT
1 ATTAACTTAAGT
31227115 ATTAACTTAAGT
1 ATTAACTTAAGT
31227127 ATTA
1 ATTA
31227131 GAGAATGTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (12 bp):
ATTAACTTAAGT
Found at i:31227902 original size:17 final size:16
Alignment explanation
Indices: 31227878--31227910 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
31227868 TATAATATGT
31227878 TATTATTTATATTATA
1 TATTATTTATATTATA
31227894 TATTGATTTATATTATA
1 TATT-ATTTATATTATA
31227911 AAAAATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (16 bp):
TATTATTTATATTATA
Found at i:31231988 original size:40 final size:40
Alignment explanation
Indices: 31231943--31232078 Score: 150
Period size: 40 Copynumber: 3.4 Consensus size: 40
31231933 GTTTGCATAA
31231943 AAAACGCCGCTAAAAATTGAGCATTAGCGGCGCTTTATAT
1 AAAACGCCGCTAAAAATTGAGCATTAGCGGCGCTTTATAT
* * *
31231983 AAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTTA-AGG
1 AAAACGCCGCTAAAAATTGAGCATTAGCGGCGCTTTATA-T
* * * * * *
31232023 AAAATGCCGCTAATAA-TGAGTATTAGCGGCGTTTTTTGT
1 AAAACGCCGCTAAAAATTGAGCATTAGCGGCGCTTTATAT
*
31232062 AAAAACGCCGCAAAAAA
1 -AAAACGCCGCTAAAAA
31232079 CCTAAACCCA
Statistics
Matches: 78, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
39 17 0.22
40 61 0.78
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (40 bp):
AAAACGCCGCTAAAAATTGAGCATTAGCGGCGCTTTATAT
Found at i:31232216 original size:42 final size:41
Alignment explanation
Indices: 31232112--31232268 Score: 233
Period size: 41 Copynumber: 3.8 Consensus size: 41
31232102 CTTACCTTTT
*
31232112 AGGGCTTTAGCGGCGTTTTTGTAGAAGCGCCGCTAATGCTC
1 AGGGCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTC
*
31232153 AGGCCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTC
1 AGGGCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTC
* * * *
31232194 AAGGGCTTTAACGGCGTTTTTGGAGAAACGCCGCTAATACTG
1 -AGGGCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTC
* *
31232236 AGGGCTTTAGCGGCGTTTTTGTAAAAGCGCCGC
1 AGGGCTTTAGCGGCGTTTTTGGAGAAGCGCCGC
31232269 AAAAACATTT
Statistics
Matches: 104, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
41 68 0.65
42 36 0.35
ACGTcount: A:0.20, C:0.22, G:0.31, T:0.27
Consensus pattern (41 bp):
AGGGCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTC
Found at i:31232251 original size:83 final size:83
Alignment explanation
Indices: 31232112--31232268 Score: 242
Period size: 83 Copynumber: 1.9 Consensus size: 83
31232102 CTTACCTTTT
* * * * *
31232112 AGGGCTTTAGCGGCGTTTTTGTAGAAGCGCCGCTAATGCTCAGGCCTTTAGCGGCGTTTTTGGAG
1 AGGGCTTTAACGGCGTTTTTGGAGAAACGCCGCTAATACTCAGGCCTTTAGCGGCGTTTTTGGAA
31232177 AAGCGCCGCTAATGCTCA
66 AAGCGCCGCTAATGCTCA
* * *
31232195 AGGGCTTTAACGGCGTTTTTGGAGAAACGCCGCTAATACTGAGGGCTTTAGCGGCGTTTTTGTAA
1 AGGGCTTTAACGGCGTTTTTGGAGAAACGCCGCTAATACTCAGGCCTTTAGCGGCGTTTTTGGAA
31232260 AAGCGCCGC
66 AAGCGCCGC
31232269 AAAAACATTT
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
83 66 1.00
ACGTcount: A:0.20, C:0.22, G:0.31, T:0.27
Consensus pattern (83 bp):
AGGGCTTTAACGGCGTTTTTGGAGAAACGCCGCTAATACTCAGGCCTTTAGCGGCGTTTTTGGAA
AAGCGCCGCTAATGCTCA
Found at i:31232878 original size:28 final size:27
Alignment explanation
Indices: 31232819--31232884 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 27
31232809 CGGTTTATGA
31232819 TTTAAGGTTATAGATTAAGGGTTGGGG
1 TTTAAGGTTATAGATTAAGGGTTGGGG
*
31232846 TTTAAGGTT-TAGGAGTTAGGGGTTGAGGG
1 TTTAAGGTTATA-GA-TTAAGGGTTG-GGG
31232875 -TTAAGAGTTA
1 TTTAAG-GTTA
31232885 GGGGTTTAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
26 2 0.06
27 11 0.33
28 14 0.42
29 6 0.18
ACGTcount: A:0.26, C:0.00, G:0.38, T:0.36
Consensus pattern (27 bp):
TTTAAGGTTATAGATTAAGGGTTGGGG
Found at i:31232893 original size:8 final size:7
Alignment explanation
Indices: 31232789--31232907 Score: 57
Period size: 7 Copynumber: 17.0 Consensus size: 7
31232779 GATCGTGTAA
31232789 GGTTTAG
1 GGTTTAG
31232796 GGTTTAG
1 GGTTTAG
* *
31232803 GGGTTAC
1 GGTTTAG
*
31232810 GGTTTAT
1 GGTTTAG
* *
31232817 GATTTAA
1 GGTTTAG
31232824 GGTTATA-
1 GGTT-TAG
* *
31232831 GATTAAG
1 GGTTTAG
*
31232838 GG-TTGG
1 GGTTTAG
*
31232844 GGTTTAA
1 GGTTTAG
31232851 GGTTTAG
1 GGTTTAG
31232858 GAG-TTAGG
1 G-GTTTA-G
*
31232866 GGTTGAG
1 GGTTTAG
*
31232873 GGTTAAG
1 GGTTTAG
*
31232880 AG-TTAGG
1 GGTTTA-G
31232887 GGTTTAG
1 GGTTTAG
*
31232894 GATTTAG
1 GGTTTAG
31232901 GGTTTAG
1 GGTTTAG
31232908 ATTAATTAGT
Statistics
Matches: 82, Mismatches: 22, Indels: 16
0.68 0.18 0.13
Matches are distributed among these distances:
6 7 0.09
7 65 0.79
8 10 0.12
ACGTcount: A:0.22, C:0.01, G:0.39, T:0.38
Consensus pattern (7 bp):
GGTTTAG
Found at i:31233033 original size:16 final size:17
Alignment explanation
Indices: 31233014--31233055 Score: 68
Period size: 16 Copynumber: 2.5 Consensus size: 17
31233004 AAATTATTTA
31233014 TAAATAATTT-ATATAT
1 TAAATAATTTAATATAT
31233030 TAAATAATTTAATATAT
1 TAAATAATTTAATATAT
31233047 TAAAATAAT
1 T-AAATAAT
31233056 GATTATAGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 10 0.42
17 7 0.29
18 7 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TAAATAATTTAATATAT
Found at i:31238866 original size:43 final size:42
Alignment explanation
Indices: 31238819--31239042 Score: 286
Period size: 43 Copynumber: 5.2 Consensus size: 42
31238809 ACTGTACTTT
* *
31238819 TAGCGGCGTTTGTAACCAAAGCGTCGCTAAAGGTCTTGAGCTA
1 TAGCGGCGTTTGTAA-AAAAGCGTCGCTAAAGGTCTTGATCTA
* * *
31238862 TAGCGGCGTTTTTGAAAAAAGCGTCGCTAAAGATCATGATCTA
1 TAGCGGCGTTTGT-AAAAAAGCGTCGCTAAAGGTCTTGATCTA
* *
31238905 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGATCTA
1 TAGCGGCGTTTGT-AAAAAAGCGTCGCTAAAGGTCTTGATCTA
*
31238948 TAGCGGCGTTTGTGAAAAAAGCGTCGCTAAAGGTCTTGTTCTA
1 TAGCGGCGTTTGT-AAAAAAGCGTCGCTAAAGGTCTTGATCTA
* * * * *
31238991 TAGCGGCGTTTGTAAAAAAGTGCCACTAAAGATCATGATCTA
1 TAGCGGCGTTTGTAAAAAAGCGTCGCTAAAGGTCTTGATCTA
*
31239033 TAGTGGCGTT
1 TAGCGGCGTT
31239043 CGTGGAAAAA
Statistics
Matches: 160, Mismatches: 20, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
42 32 0.20
43 126 0.79
44 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (42 bp):
TAGCGGCGTTTGTAAAAAAGCGTCGCTAAAGGTCTTGATCTA
Found at i:31238942 original size:86 final size:85
Alignment explanation
Indices: 31238819--31239055 Score: 321
Period size: 86 Copynumber: 2.8 Consensus size: 85
31238809 ACTGTACTTT
* * * *
31238819 TAGCGGCGTTTGTAACCAAAGCGTCGCTAAAGGTCTTGAGCTATAGCGGCGTTTTTGAAAAAAGC
1 TAGCGGCGTTTGTAA-AAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGAAAAAAGC
31238884 GTCGCTAAAGATCATGATCTA
65 GTCGCTAAAGATCATGATCTA
*
31238905 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGAAAAAAGC
1 TAGCGGCGTTTGT-AAAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGAAAAAAGC
* * *
31238970 GTCGCTAAAGGTCTTGTTCTA
65 GTCGCTAAAGATCATGATCTA
* * * * * * *
31238991 TAGCGGCGTTTGTAAAAAAGTGCCACTAAAGATCATGATCTATAGTGGCGTTCGTGGAAAAAGCG
1 TAGCGGCGTTTGTAAAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGAAAAAAGCG
31239056 CCGCAAACGT
Statistics
Matches: 134, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
85 44 0.33
86 89 0.66
87 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (85 bp):
TAGCGGCGTTTGTAAAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGAAAAAAGCG
TCGCTAAAGATCATGATCTA
Found at i:31240608 original size:3 final size:3
Alignment explanation
Indices: 31240591--31240635 Score: 72
Period size: 3 Copynumber: 14.3 Consensus size: 3
31240581 CTTGGCAATT
31240591 TTA TTA TTTA GTTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA -TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
31240636 CATCTACTTA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
3 34 0.85
4 6 0.15
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:31242993 original size:19 final size:19
Alignment explanation
Indices: 31242953--31242995 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
31242943 ATCTCTTTAG
* *
31242953 GCATTCATTTCATGCATGT
1 GCATTCATTGCATGCATAT
31242972 GCATTGCATTGCAT-CATAT
1 GCATT-CATTGCATGCATAT
31242991 GCATT
1 GCATT
31242996 AGATTTTCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.40
Consensus pattern (19 bp):
GCATTCATTGCATGCATAT
Found at i:31245106 original size:144 final size:144
Alignment explanation
Indices: 31244861--31245125 Score: 368
Period size: 144 Copynumber: 1.8 Consensus size: 144
31244851 AAACTGCTAC
* * * *
31244861 CGGGGCAACATATTGGCTTATCGCAGTTTTGCTCATCAAGGTTAAGATTCCTTCTCTCTGAGTGT
1 CGGGGCAACATATTGGCTTATCACAGTTTTCCTCATCAAGGTCAAGATTCCTTCTCTCCGAGTGT
* * * * *
31244926 TGGATCAAATCTCGATTGAAGAGAAATGTTAAAAGTTATCTGTCTTGGTCAAATGCGAAAAAAGA
66 TGGATCAAATCCCAATTAAAGAGAAATGTTAAAAGTTATCCGTCTGGGTCAAATGCGAAAAAAGA
31244991 AAAAAAACTATTGT
131 AAAAAAACTATTGT
* * *** *
31245005 CGGGGTAACATATTGGCTTATCATAGTTTTCCTCATTGGGGTCAAGATTCTTTCTCTCCGAGTGT
1 CGGGGCAACATATTGGCTTATCACAGTTTTCCTCATCAAGGTCAAGATTCCTTCTCTCCGAGTGT
* * *
31245070 TGGATCAGATCCCAATTAAAGAGAAATGTTTAAAGTTATCCGTCTGGGTCGAATGC
66 TGGATCAAATCCCAATTAAAGAGAAATGTTAAAAGTTATCCGTCTGGGTCAAATGC
31245126 TCCAAAAACA
Statistics
Matches: 103, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
144 103 1.00
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (144 bp):
CGGGGCAACATATTGGCTTATCACAGTTTTCCTCATCAAGGTCAAGATTCCTTCTCTCCGAGTGT
TGGATCAAATCCCAATTAAAGAGAAATGTTAAAAGTTATCCGTCTGGGTCAAATGCGAAAAAAGA
AAAAAAACTATTGT
Found at i:31245402 original size:17 final size:18
Alignment explanation
Indices: 31245363--31245408 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
31245353 AAGAATTTTC
31245363 AAAAGAAAAAAAGGTAAAA
1 AAAAGAAAAAAA-GTAAAA
* *
31245382 AAAAGAAAAAAA-TGAAG
1 AAAAGAAAAAAAGTAAAA
31245399 AAAAGAAAAA
1 AAAAGAAAAA
31245409 GAAAAAGGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 13 0.52
19 12 0.48
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.04
Consensus pattern (18 bp):
AAAAGAAAAAAAGTAAAA
Found at i:31245858 original size:92 final size:95
Alignment explanation
Indices: 31245741--31245925 Score: 279
Period size: 97 Copynumber: 2.0 Consensus size: 95
31245731 TCTCATTTCG
* *
31245741 TATCTTAGCAAATTTGCTATCTTGATT-ATTTA-T-T-TCGAGCTTTGTTCTCAATAAAATTTCA
1 TATCTTAGCAAATTTGCTATCTTGATTAATTTATTATCTCCAGCTTTGTTCTCAATAAAATTACA
*
31245802 TCTTATCCATTGTGATAATCTTTTTCATCT
66 TCTTATCCATTGTAATAATCTTTTTCATCT
*
31245832 TATCTTAGCAAAATTTTCTATCTTGATTAATTTATTCATCTCCAGCTTTGTTCTCAATAAAATTA
1 TATCTTAGC-AAATTTGCTATCTTGATTAATTTATT-ATCTCCAGCTTTGTTCTCAATAAAATTA
*
31245897 CATCTTGTCCATTGTAATAATCTTTTTCA
64 CATCTTATCCATTGTAATAATCTTTTTCA
31245926 AGCATTTTTT
Statistics
Matches: 83, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
91 9 0.11
92 17 0.20
93 5 0.06
94 1 0.01
96 1 0.01
97 50 0.60
ACGTcount: A:0.27, C:0.17, G:0.08, T:0.48
Consensus pattern (95 bp):
TATCTTAGCAAATTTGCTATCTTGATTAATTTATTATCTCCAGCTTTGTTCTCAATAAAATTACA
TCTTATCCATTGTAATAATCTTTTTCATCT
Found at i:31246910 original size:46 final size:46
Alignment explanation
Indices: 31246824--31248032 Score: 1548
Period size: 46 Copynumber: 26.3 Consensus size: 46
31246814 AAAAAAACAA
* * * * * * *
31246824 ATCTTATCTTCTTGTATCAGGCAG-GGAAGTAAATCAAAGATAGTAG
1 ATCTTGTCTTCCTGTATTAGGCAGCGG-AGTAGATCGAAGAAAGCAG
* * *
31246870 ATCCTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGCAG
1 ATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGATCGAAGAAAGCAG
* * * **
31246916 ATCTTATCTTCCTATATTAGACAGCAAAGTAGATCGAAGAAAGCAG
1 ATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGATCGAAGAAAGCAG
* *
31246962 ATCTTGTCTTCCTGTATTAGGCAGCGGGGTAGATTGAAGAAAGCAG
1 ATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGATCGAAGAAAGCAG
* * *
31247008 ATCTTGTCTTCCTGTATTTGGCAGCAGAGTAGATCGAAGATAGCAG
1 ATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGATCGAAGAAAGCAG
* * * *
31247054 ATCTTGTCTTCCTGTATTAGGCAGCGAAGTAGATCAAAGATAGTAG
1 ATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGATCGAAGAAAGCAG
* *
31247100 ATCTTGTCTTCCTGTATTAGACAGCGGATTAGATCGAAGAAAGCAG
1 ATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGATCGAAGAAAGCAG
* *
31247146 ATCTTGTCTTCCTGTATTAGGCAGCGGGGTAGATTGAAGAAAGCAG
1 ATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGATCGAAGAAAGCAG
* * *
31247192 ATCTTGTCTTCCTGTATTTGGCAGCAGAGTAGATCGAAGATAGCAG
1 ATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGATCGAAGAAAGCAG
* * * *
31247238 ATCTTGTCTTCCTGTATTAGGCAGCGAAGTAGATCAAAGATAGTAG
1 ATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGATCGAAGAAAGCAG
* *
31247284 ATCTTGTCTTCCTGTATTAGACAGCGGATTAGATCGAAGAAAGCAG
1 ATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGATCGAAGAAAGCAG
* *
31247330 ATCTTGTCTTCCTGTATTAGGCAGCGGGGTAGATTGAAGAAAGCAG
1 ATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGATCGAAGAAAGCAG
* * *
31247376 ATCTTGTCTTCCTGTATTTGGCAGCAGAGTAGATCGAAGATAGCAG
1 ATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGATCGAAGAAAGCAG
* * * *
31247422 ATCTTGTCTTCCTGTATTAGGCAGCGAAGTAGATCAAAGATAGTAG
1 ATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGATCGAAGAAAGCAG
* *
31247468 ATCTTGTCTTCCTGTATTAGACAGCGGATTAGATCGAAGAAAGCAG
1 ATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGATCGAAGAAAGCAG
* * * *
31247514 ATCTTGTCTTCCTGTATTTGACAGCGGAGTAGATCGAAGATAGTAG
1 ATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGATCGAAGAAAGCAG
*
31247560 ATCTTGTCTTCCTGTATTAGGCAGCGGAGTATATCGAAGAAAGCAG
1 ATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGATCGAAGAAAGCAG
* * *
31247606 ATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATAGCAG
1 ATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGATCGAAGAAAGCAG
** * *
31247652 ATCTTGTCTTCCTGTATTTTGCAGCGGAGTAAATCGAAGATAGCAG
1 ATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGATCGAAGAAAGCAG
* ** * *
31247698 ATCTTGTCTTCCTATATTTTGCAGCGGAGTAAATCGAAGATAGCAG
1 ATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGATCGAAGAAAGCAG
* ** * *
31247744 ATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATAAAAAAAAGTAG
1 ATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGATCGAAGAAAGCAG
* *
31247790 ATCTTGTCTTCCTATATTAGGCAGCGGAGTAGATCGAAGAAAGTAG
1 ATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGATCGAAGAAAGCAG
* * * **
31247836 ATCTTGTCTTCCTGTTTTTGGCAGCGGAGTAGATCGAAAAAAATAG
1 ATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGATCGAAGAAAGCAG
31247882 ATCTTGTCTTCCCT-TATTAGGCAGCGGAGTAGATCGAAGAAAGCAG
1 ATCTTGTCTT-CCTGTATTAGGCAGCGGAGTAGATCGAAGAAAGCAG
* * **
31247928 ATCTTGTCTTCTTGTATTTGGCAGCGGAGTAGATCGAAG-TTGCAG
1 ATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGATCGAAGAAAGCAG
* * * * * * *
31247973 ATCTTGCCTTCTTGTACT-GACGGCGAAGCAGATCGAAGAAA-CTAG
1 ATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGATCGAAGAAAGC-AG
*
31248018 -TCTTGCCTTCCTGTA
1 ATCTTGTCTTCCTGTA
31248033 CTGACAGTGG
Statistics
Matches: 1026, Mismatches: 132, Indels: 12
0.88 0.11 0.01
Matches are distributed among these distances:
44 31 0.03
45 24 0.02
46 966 0.94
47 5 0.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (46 bp):
ATCTTGTCTTCCTGTATTAGGCAGCGGAGTAGATCGAAGAAAGCAG
Found at i:31249653 original size:3 final size:3
Alignment explanation
Indices: 31249645--31249669 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
31249635 CTTGGCAATT
31249645 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
31249670 CTACTTATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:31252204 original size:11 final size:11
Alignment explanation
Indices: 31252190--31252214 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
31252180 TTTGTATTCT
31252190 TTTATTTTAAA
1 TTTATTTTAAA
31252201 TTTATTTTAAA
1 TTTATTTTAAA
31252212 TTT
1 TTT
31252215 TTTAAGAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTATTTTAAA
Found at i:31256921 original size:25 final size:25
Alignment explanation
Indices: 31256884--31257195 Score: 104
Period size: 25 Copynumber: 12.5 Consensus size: 25
31256874 AAACCAAACC
** *
31256884 AAGCCTTCATGGTGATTTATTTGGG
1 AAGCCTTTGTGGTGATTTACTTGGG
* * * ***
31256909 AAGCCTTTGTGGTGAGTCACCTATA
1 AAGCCTTTGTGGTGATTTACTTGGG
* *
31256934 AAGCCTTTGTGGAGATTTATTTGGG
1 AAGCCTTTGTGGTGATTTACTTGGG
*** * * * *
31256959 AAGCCTTTACAGTAAGTCACTTGTG
1 AAGCCTTTGTGGTGATTTACTTGGG
*
31256984 AAGCTTTTGTGGTGATTTACTTGGG
1 AAGCCTTTGTGGTGATTTACTTGGG
* * * * **
31257009 AAGCCTTTGTGGCGAGTCACCTGTA
1 AAGCCTTTGTGGTGATTTACTTGGG
* ** * *
31257034 AAG-CTCTTGTAGCAATTTATTTAGG
1 AAGCCT-TTGTGGTGATTTACTTGGG
** * * * **
31257059 AAGCCTTTGTGGCAAGTCACCTGTA
1 AAGCCTTTGTGGTGATTTACTTGGG
* ** *
31257084 AAGCCCTTGTGGAAATTTATTTGGG
1 AAGCCTTTGTGGTGATTTACTTGGG
* * * * * **
31257109 AAGCCTTTCTGGCGAGTCACCTGTA
1 AAGCCTTTGTGGTGATTTACTTGGG
*
31257134 AAGCCTTTGTGGTGATTTATTTGGG
1 AAGCCTTTGTGGTGATTTACTTGGG
* * * * **
31257159 GAGCCCTTGTGGTAAGTTACTTGTA
1 AAGCCTTTGTGGTGATTTACTTGGG
*
31257184 AAGCCTATGTGG
1 AAGCCTTTGTGG
31257196 CGTAATGTCT
Statistics
Matches: 191, Mismatches: 94, Indels: 4
0.66 0.33 0.01
Matches are distributed among these distances:
24 2 0.01
25 187 0.98
26 2 0.01
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.35
Consensus pattern (25 bp):
AAGCCTTTGTGGTGATTTACTTGGG
Found at i:31256938 original size:50 final size:50
Alignment explanation
Indices: 31256884--31257195 Score: 338
Period size: 50 Copynumber: 6.2 Consensus size: 50
31256874 AAACCAAACC
** ** *
31256884 AAGCCTTCATGGTGATTTATTTGGGAAGCCTTTGTGGTGAGTCACCTATA
1 AAGCCTTTGTGGTGATTTATTTGGGAAGCCTTTGTGGCAAGTCACCTGTA
* *** * * *
31256934 AAGCCTTTGTGGAGATTTATTTGGGAAGCCTTTACAGTAAGTCACTTGTG
1 AAGCCTTTGTGGTGATTTATTTGGGAAGCCTTTGTGGCAAGTCACCTGTA
* * *
31256984 AAGCTTTTGTGGTGATTTACTTGGGAAGCCTTTGTGGCGAGTCACCTGTA
1 AAGCCTTTGTGGTGATTTATTTGGGAAGCCTTTGTGGCAAGTCACCTGTA
* ** *
31257034 AAG-CTCTTGTAGCAATTTATTTAGGAAGCCTTTGTGGCAAGTCACCTGTA
1 AAGCCT-TTGTGGTGATTTATTTGGGAAGCCTTTGTGGCAAGTCACCTGTA
* ** * *
31257084 AAGCCCTTGTGGAAATTTATTTGGGAAGCCTTTCTGGCGAGTCACCTGTA
1 AAGCCTTTGTGGTGATTTATTTGGGAAGCCTTTGTGGCAAGTCACCTGTA
* * * * *
31257134 AAGCCTTTGTGGTGATTTATTTGGGGAGCCCTTGTGGTAAGTTACTTGTA
1 AAGCCTTTGTGGTGATTTATTTGGGAAGCCTTTGTGGCAAGTCACCTGTA
*
31257184 AAGCCTATGTGG
1 AAGCCTTTGTGG
31257196 CGTAATGTCT
Statistics
Matches: 216, Mismatches: 44, Indels: 4
0.82 0.17 0.02
Matches are distributed among these distances:
49 1 0.00
50 214 0.99
51 1 0.00
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.35
Consensus pattern (50 bp):
AAGCCTTTGTGGTGATTTATTTGGGAAGCCTTTGTGGCAAGTCACCTGTA
Found at i:31257169 original size:150 final size:150
Alignment explanation
Indices: 31256898--31257170 Score: 395
Period size: 150 Copynumber: 1.8 Consensus size: 150
31256888 CTTCATGGTG
* ** * *
31256898 ATTTATTTGGGAAGCCTTTGTGGTGAGTCACCTATAAAGCCTTTGTGGAGATTTATTTGGGAAGC
1 ATTTATTTAGGAAGCCTTTGTGGCAAGTCACCTATAAAGCCCTTGTGGAAATTTATTTGGGAAGC
* * * * *
31256963 CTTTACAGTAAGTCACTTGTGAAGCTTTTGTGGTGATTTACTTGGGAAGCCTTTGTGGCGAGTCA
66 CTTTACAGCAAGTCACCTGTAAAGCCTTTGTGGTGATTTACTTGGGAAGCCCTTGTGGCGAGTCA
31257028 CCTGTAAAGCTCTTGTAGCA
131 CCTGTAAAGCTCTTGTAGCA
*
31257048 ATTTATTTAGGAAGCCTTTGTGGCAAGTCACCTGTAAAGCCCTTGTGGAAATTTATTTGGGAAGC
1 ATTTATTTAGGAAGCCTTTGTGGCAAGTCACCTATAAAGCCCTTGTGGAAATTTATTTGGGAAGC
* * * *
31257113 CTTT-CTGGCGAGTCACCTGTAAAGCCTTTGTGGTGATTTATTTGGGGAGCCCTTGTGG
66 CTTTAC-AGCAAGTCACCTGTAAAGCCTTTGTGGTGATTTACTTGGGAAGCCCTTGTGG
31257171 TAAGTTACTT
Statistics
Matches: 107, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
149 1 0.01
150 106 0.99
ACGTcount: A:0.21, C:0.16, G:0.27, T:0.36
Consensus pattern (150 bp):
ATTTATTTAGGAAGCCTTTGTGGCAAGTCACCTATAAAGCCCTTGTGGAAATTTATTTGGGAAGC
CTTTACAGCAAGTCACCTGTAAAGCCTTTGTGGTGATTTACTTGGGAAGCCCTTGTGGCGAGTCA
CCTGTAAAGCTCTTGTAGCA
Found at i:31260427 original size:20 final size:21
Alignment explanation
Indices: 31260391--31260435 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
31260381 AATGTTACTA
*
31260391 AAAGAAATGTTTTCAAAATGC
1 AAAGAAATGTTTCCAAAATGC
*
31260412 AAAGAAA-GTTTCCAAAATTC
1 AAAGAAATGTTTCCAAAATGC
31260432 AAAG
1 AAAG
31260436 TGACCAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.51, C:0.11, G:0.13, T:0.24
Consensus pattern (21 bp):
AAAGAAATGTTTCCAAAATGC
Found at i:31268942 original size:10 final size:10
Alignment explanation
Indices: 31268927--31268956 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
31268917 TGTGTGATGA
31268927 TATAATATGT
1 TATAATATGT
31268937 TATAATATGT
1 TATAATATGT
31268947 TATAAT-TGT
1 TATAATATGT
31268956 T
1 T
31268957 TTATCATTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.20
10 16 0.80
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (10 bp):
TATAATATGT
Found at i:31269237 original size:37 final size:37
Alignment explanation
Indices: 31269160--31269237 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
31269150 TTTTTTTACT
* * *
31269160 TGTTTTCGGTTGGACTAGCTCTTATAAGCATCTTGTG
1 TGTTTTCGGTTGGACTAGCTCTTAGAAGCATCTGGCG
* * *
31269197 TGTTTTTGGTTGGACTAGCTGTTAGGAGCATCTGGCG
1 TGTTTTCGGTTGGACTAGCTCTTAGAAGCATCTGGCG
31269234 TGTT
1 TGTT
31269238 ATCAGGTGGT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.14, C:0.14, G:0.29, T:0.42
Consensus pattern (37 bp):
TGTTTTCGGTTGGACTAGCTCTTAGAAGCATCTGGCG
Found at i:31282789 original size:57 final size:57
Alignment explanation
Indices: 31282690--31282812 Score: 158
Period size: 57 Copynumber: 2.1 Consensus size: 57
31282680 ATAGAAATAG
* *
31282690 TGAAAATGGAGAAAAGGGAAACATTTGGAAATGATTATGGTTTTCTCCAAAATGAAAA
1 TGAAAATGGAGAAAA-GGAAACATTTGGAAATGAATACGGTTTTCTCCAAAATGAAAA
* * * * *
31282748 TGAAAATGGAGAAATA-GAATCATTTGGAAATGAATGCGGTTTTCTTCAAATTTAAAA
1 TGAAAATGGAGAAA-AGGAAACATTTGGAAATGAATACGGTTTTCTCCAAAATGAAAA
31282805 TGAAAATG
1 TGAAAATG
31282813 ACTTGGAAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
57 42 0.74
58 14 0.25
59 1 0.02
ACGTcount: A:0.44, C:0.07, G:0.21, T:0.28
Consensus pattern (57 bp):
TGAAAATGGAGAAAAGGAAACATTTGGAAATGAATACGGTTTTCTCCAAAATGAAAA
Found at i:31283302 original size:17 final size:17
Alignment explanation
Indices: 31283276--31283309 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
31283266 TCCACTCATC
31283276 TTTTCTATTTCTTCTCCT
1 TTTTCTATTTCTT-TCCT
31283294 TTTTC-ATTTCTTTCCT
1 TTTTCTATTTCTTTCCT
31283310 CTTCTTTGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 7 0.44
18 5 0.31
ACGTcount: A:0.06, C:0.26, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTCTATTTCTTTCCT
Found at i:31284111 original size:38 final size:38
Alignment explanation
Indices: 31284069--31284159 Score: 112
Period size: 38 Copynumber: 2.4 Consensus size: 38
31284059 TTGCATGTTT
* * *
31284069 AGCATGCCTACTATTACTGTTGAATTGAATTCAAGTTA
1 AGCATGTCTACTATTACTGTTGAACTGAATACAAGTTA
* **
31284107 AGCATGTCTA-TAGATACTGTTGAACTGAATACGTGTTA
1 AGCATGTCTACTA-TTACTGTTGAACTGAATACAAGTTA
31284145 AGCATGTCTACTATT
1 AGCATGTCTACTATT
31284160 TCTATATGAT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 2 0.05
38 40 0.91
39 2 0.05
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (38 bp):
AGCATGTCTACTATTACTGTTGAACTGAATACAAGTTA
Found at i:31285894 original size:19 final size:19
Alignment explanation
Indices: 31285867--31285904 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
31285857 TGATCTTTAT
* *
31285867 GAATTATAATACTTTAAAA
1 GAATAATAATACCTTAAAA
31285886 GAATAATAATACCTTAAAA
1 GAATAATAATACCTTAAAA
31285905 TCTAATAGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.55, C:0.08, G:0.05, T:0.32
Consensus pattern (19 bp):
GAATAATAATACCTTAAAA
Found at i:31286226 original size:23 final size:21
Alignment explanation
Indices: 31286184--31286227 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
31286174 TTTTATTTTT
* *
31286184 TTAAAAAATAAGTAATTAGAA
1 TTAAAAAATAAATAAATAGAA
31286205 TTAAAAAATCAAATAACATAGAA
1 TTAAAAAAT-AAATAA-ATAGAA
31286228 ATTTTAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 9 0.47
22 5 0.26
23 5 0.26
ACGTcount: A:0.64, C:0.05, G:0.07, T:0.25
Consensus pattern (21 bp):
TTAAAAAATAAATAAATAGAA
Found at i:31286409 original size:24 final size:25
Alignment explanation
Indices: 31286381--31286435 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 25
31286371 AAAAGAAAAG
*
31286381 AAATTGGT-TGGACAAAAATAA-TAT
1 AAATT-GTCTGGAAAAAAATAATTAT
*
31286405 TAATT-TCTGGAAAAAAATAATTAT
1 AAATTGTCTGGAAAAAAATAATTAT
31286429 AAATTGT
1 AAATTGT
31286436 AAGAGAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 1 0.04
23 12 0.48
24 11 0.44
25 1 0.04
ACGTcount: A:0.49, C:0.04, G:0.13, T:0.35
Consensus pattern (25 bp):
AAATTGTCTGGAAAAAAATAATTAT
Found at i:31286739 original size:24 final size:25
Alignment explanation
Indices: 31286711--31286758 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
31286701 AATAAGATAG
*
31286711 TTATTTTAACTTTT-TATTTTTCTT
1 TTATTTTAAATTTTGTATTTTTCTT
*
31286735 TTATTTTAAATTTTGTTTTTTTCT
1 TTATTTTAAATTTTGTATTTTTCT
31286759 CTCTCCCTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.75
Consensus pattern (25 bp):
TTATTTTAAATTTTGTATTTTTCTT
Found at i:31303133 original size:48 final size:46
Alignment explanation
Indices: 31303063--31303156 Score: 161
Period size: 48 Copynumber: 2.0 Consensus size: 46
31303053 TTGGGGGGGA
31303063 GGGGTGGGGGGGGGGGGAGATTAATTGGGGAAATAATGTAGGTATG
1 GGGGTGGGGGGGGGGGGAGATTAATTGGGGAAATAATGTAGGTATG
*
31303109 NGGGGTGGGGGGGGGGGTGAGATTAATTGTGGAAATAATGTAGGTATG
1 -GGGGTGGGGGGGGGGG-GAGATTAATTGGGGAAATAATGTAGGTATG
31303157 TAAGACCATG
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 16 0.36
48 29 0.64
ACGTcount: A:0.23, C:0.00, G:0.52, T:0.23
Consensus pattern (46 bp):
GGGGTGGGGGGGGGGGGAGATTAATTGGGGAAATAATGTAGGTATG
Found at i:31316538 original size:17 final size:17
Alignment explanation
Indices: 31316516--31316551 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
31316506 GAAAAAAAAC
31316516 AACAAGAAAATAAG-AAA
1 AACAAGAAAA-AAGTAAA
31316533 AACAAGAAAAAAGTAAA
1 AACAAGAAAAAAGTAAA
31316550 AA
1 AA
31316552 AAAAAAGACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 3 0.17
17 15 0.83
ACGTcount: A:0.78, C:0.06, G:0.11, T:0.06
Consensus pattern (17 bp):
AACAAGAAAAAAGTAAA
Found at i:31316553 original size:20 final size:20
Alignment explanation
Indices: 31316507--31316559 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
31316497 CAAAATAGTG
*
31316507 AAAAAAAACAACAAGAAAAT
1 AAAAAAAACAAGAAGAAAAT
*
31316527 AAGAAAAACAAGAA-AAAAGT
1 AAAAAAAACAAGAAGAAAA-T
*
31316547 AAAAAAAAAAAGA
1 AAAAAAAACAAGA
31316560 CAACAATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 4 0.14
20 24 0.86
ACGTcount: A:0.81, C:0.06, G:0.09, T:0.04
Consensus pattern (20 bp):
AAAAAAAACAAGAAGAAAAT
Found at i:31316736 original size:57 final size:56
Alignment explanation
Indices: 31316648--31316761 Score: 219
Period size: 57 Copynumber: 2.0 Consensus size: 56
31316638 TTACCCAAAC
31316648 CCATTTTTCAGACCTATATTTTTACCCAAACCCTCCCATGGACAAGTTTAAGTGGGA
1 CCATTTTTCAGACCTATATTTTTACCCAAA-CCTCCCATGGACAAGTTTAAGTGGGA
31316705 CCATTTTTCAGACCTATATTTTTACCCAAACCTCCCATGGACAAGTTTAAGTGGGA
1 CCATTTTTCAGACCTATATTTTTACCCAAACCTCCCATGGACAAGTTTAAGTGGGA
31316761 C
1 C
31316762 AGAGATGGGG
Statistics
Matches: 57, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
56 27 0.47
57 30 0.53
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (56 bp):
CCATTTTTCAGACCTATATTTTTACCCAAACCTCCCATGGACAAGTTTAAGTGGGA
Found at i:31317154 original size:31 final size:31
Alignment explanation
Indices: 31317116--31317180 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
31317106 AAAAAATAAA
31317116 AACATATAAATATTGGTTAATTCAATTAACC
1 AACATATAAATATTGGTTAATTCAATTAACC
*
31317147 AACATATAAATGTTGGTTAATTCAATTAACC
1 AACATATAAATATTGGTTAATTCAATTAACC
31317178 AAC
1 AAC
31317181 CAAATTAATC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.45, C:0.14, G:0.08, T:0.34
Consensus pattern (31 bp):
AACATATAAATATTGGTTAATTCAATTAACC
Found at i:31320426 original size:13 final size:13
Alignment explanation
Indices: 31320404--31320442 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
31320394 GTAAATCCAG
31320404 CTACATATTTTAA
1 CTACATATTTTAA
*
31320417 CTACA-AATTTAA
1 CTACATATTTTAA
*
31320429 CTATATATTTTAA
1 CTACATATTTTAA
31320442 C
1 C
31320443 CTGACTTCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (13 bp):
CTACATATTTTAA
Found at i:31329655 original size:30 final size:30
Alignment explanation
Indices: 31329619--31329680 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
31329609 CTTATAAAAG
31329619 TTAGTTTTCTTAATAATGTTAATGTAACTC
1 TTAGTTTTCTTAATAATGTTAATGTAACTC
31329649 TTAGTTTTCTTAATAATGTTAATGTAACTC
1 TTAGTTTTCTTAATAATGTTAATGTAACTC
31329679 TT
1 TT
31329681 CAGACTTGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.29, C:0.10, G:0.10, T:0.52
Consensus pattern (30 bp):
TTAGTTTTCTTAATAATGTTAATGTAACTC
Found at i:31333529 original size:34 final size:34
Alignment explanation
Indices: 31333455--31333520 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 34
31333445 ATATGTATAT
* *
31333455 AAATATATATACTTATGTATAATAATACGAAATA
1 AAATATATATACGTATGTATAATAATACAAAATA
31333489 AAATATAT-TACGTATGTATAA-AATA-AAAATA
1 AAATATATATACGTATGTATAATAATACAAAATA
31333520 A
1 A
31333521 TTTAATATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
31 6 0.20
32 4 0.13
33 12 0.40
34 8 0.27
ACGTcount: A:0.56, C:0.05, G:0.06, T:0.33
Consensus pattern (34 bp):
AAATATATATACGTATGTATAATAATACAAAATA
Found at i:31335554 original size:100 final size:100
Alignment explanation
Indices: 31335450--31335661 Score: 282
Period size: 100 Copynumber: 2.1 Consensus size: 100
31335440 ACACTGCTAG
* * * * *
31335450 GGAAGTGAGATTCGCCGTTGTGGTTTTAATCTTTTTAACTACAATGTCAGGGAAGCGAGATTCAC
1 GGAAGTAAGATTCGCCGTTGTAGCTTTAATCATTTTAACTACAATGTCAGGGAAGCAAGATTCAC
31335515 CGATGTGGCTTTAATCTGTTCCACCGCACCGCCAA
66 CGATGTGGCTTTAATCTGTTCCACCGCACCGCCAA
* * * *
31335550 GGAAGTAAGATTCGCTGTTGTAGCTTTAATCATTTTAACTGCAATGTCGGGGAAGCAAGATTCAT
1 GGAAGTAAGATTCGCCGTTGTAGCTTTAATCATTTTAACTACAATGTCAGGGAAGCAAGATTCAC
* * * * *
31335615 TGTTGTGGCTTTAATCTGTTCCACTGCATCG-CATG
66 CGATGTGGCTTTAATCTGTTCCACCGCACCGCCA-A
31335650 GGAAGTAAGATT
1 GGAAGTAAGATT
31335662 TGAAATTCTT
Statistics
Matches: 97, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
99 2 0.02
100 95 0.98
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (100 bp):
GGAAGTAAGATTCGCCGTTGTAGCTTTAATCATTTTAACTACAATGTCAGGGAAGCAAGATTCAC
CGATGTGGCTTTAATCTGTTCCACCGCACCGCCAA
Found at i:31335641 original size:50 final size:50
Alignment explanation
Indices: 31335448--31335642 Score: 158
Period size: 50 Copynumber: 3.9 Consensus size: 50
31335438 CTACACTGCT
** * * * * * *
31335448 AGGGAAGTGAGATTCGCCGTTGTGGTTTTAATCTTTTTAACTACAATGTC
1 AGGGAAGCAAGATTCACTGTTGTGGCTTTAATCTGTTCAACTGCAATGTC
* * * * * ** *
31335498 AGGGAAGCGAGATTCACCGATGTGGCTTTAATCTGTTCCACCGCACCGCC
1 AGGGAAGCAAGATTCACTGTTGTGGCTTTAATCTGTTCAACTGCAATGTC
* * * * *
31335548 AAGGAAGTAAGATTCGCTGTTGTAGCTTTAATCAT-TTTAACTGCAATGTC
1 AGGGAAGCAAGATTCACTGTTGTGGCTTTAATC-TGTTCAACTGCAATGTC
* * *
31335598 GGGGAAGCAAGATTCATTGTTGTGGCTTTAATCTGTTCCACTGCA
1 AGGGAAGCAAGATTCACTGTTGTGGCTTTAATCTGTTCAACTGCA
31335643 TCGCATGGGA
Statistics
Matches: 110, Mismatches: 33, Indels: 4
0.75 0.22 0.03
Matches are distributed among these distances:
49 1 0.01
50 108 0.98
51 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (50 bp):
AGGGAAGCAAGATTCACTGTTGTGGCTTTAATCTGTTCAACTGCAATGTC
Found at i:31335653 original size:50 final size:50
Alignment explanation
Indices: 31335497--31335661 Score: 147
Period size: 50 Copynumber: 3.3 Consensus size: 50
31335487 ACTACAATGT
* * * * *
31335497 CAGGGAAGCGAGATTCACCGATGTGGCTTTAATCTGTTCCACCGCACCGC
1 CAGGGAAGCAAGATTCACTGTTGTGGCTTTAATCTGTTCCACTGCATCGC
* * * * ** *
31335547 CAAGGAAGTAAGATTCGCTGTTGTAGCTTTAATCAT-TTTAACTGCAAT-GT
1 CAGGGAAGCAAGATTCACTGTTGTGGCTTTAATC-TGTTCCACTGC-ATCGC
* *
31335597 CGGGGAAGCAAGATTCATTGTTGTGGCTTTAATCTGTTCCACTGCATCG-
1 CAGGGAAGCAAGATTCACTGTTGTGGCTTTAATCTGTTCCACTGCATCGC
*
31335646 CATGGGAAGTAAGATT
1 CA-GGGAAGCAAGATT
31335662 TGAAATTCTT
Statistics
Matches: 88, Mismatches: 22, Indels: 10
0.73 0.18 0.08
Matches are distributed among these distances:
49 4 0.05
50 82 0.93
51 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (50 bp):
CAGGGAAGCAAGATTCACTGTTGTGGCTTTAATCTGTTCCACTGCATCGC
Found at i:31335843 original size:44 final size:44
Alignment explanation
Indices: 31335764--31335881 Score: 146
Period size: 44 Copynumber: 2.7 Consensus size: 44
31335754 TTTTAATCCA
* * * *
31335764 CTCCACTGTCATCTCAAGGAAATAGGATTACTGGCTTCAATCTG
1 CTCCACTGTAATCTCAAGGAGATAAGATTTCTGGCTTCAATCTG
* * *
31335808 CTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATTTG
1 CTCCACTGTAATCTCAAGGAGATAAGATTTCTGGCTTCAATCTG
* * *
31335852 CTCCACTGTAACCTCATGGAGATGAGATTT
1 CTCCACTGTAATCTCAAGGAGATAAGATTT
31335882 GAAATTCTTC
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 63 1.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.31
Consensus pattern (44 bp):
CTCCACTGTAATCTCAAGGAGATAAGATTTCTGGCTTCAATCTG
Found at i:31335902 original size:19 final size:19
Alignment explanation
Indices: 31335878--31335918 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
31335868 TGGAGATGAG
31335878 ATTTGAAATTCTTCGGTCT
1 ATTTGAAATTCTTCGGTCT
31335897 ATTTGAAATTCTTCGGTCT
1 ATTTGAAATTCTTCGGTCT
31335916 ATT
1 ATT
31335919 CCCCTGTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.22, C:0.15, G:0.15, T:0.49
Consensus pattern (19 bp):
ATTTGAAATTCTTCGGTCT
Found at i:31336049 original size:44 final size:44
Alignment explanation
Indices: 31336002--31336485 Score: 317
Period size: 44 Copynumber: 11.0 Consensus size: 44
31335992 TTTTAATCCG
* * *
31336002 CTCCACTGTAATCTCAGGGAAATAGGATTACTGGCTTCAATCTG
1 CTCCACTGTAATCTCAGGGAGATAGGATTACTTGCTTCAATCTA
* * * * * *
31336046 CTCCGCTGTAATCTCAGGGGGATAAGATTTGAAATT-TTTCAGTCTA
1 CTCCACTGTAATCTCAGGGAGATAGGA-TT--ACTTGCTTCAATCTA
* * * * * * *
31336092 TTCCCCTGTAATCTCAGGGAGATA--A-GACCTGATGCGATCTA
1 CTCCACTGTAATCTCAGGGAGATAGGATTACTTGCTTCAATCTA
* * * * * ** * **
31336133 CTCTACTGTAATTTTAGAGAGATAAGG--TCCTTTATTTTAATCCG
1 CTCCACTGTAATCTCAGGGAGAT-AGGATTAC-TTGCTTCAATCTA
* *
31336177 CTCCACTGTAATCTCAGGGAAATAGGATTACTGGCTTCAATCTA
1 CTCCACTGTAATCTCAGGGAGATAGGATTACTTGCTTCAATCTA
* * ** * * *
31336221 CTCCGCTGTAATCTCAGGGAGATAAGATT-CTTTATTTTACTCTG
1 CTCCACTGTAATCTCAGGGAGATAGGATTAC-TTGCTTCAATCTA
*
31336265 CTCCACTGTAATCTC-GGAGAGATAGGATTACTAGCTTCAATCTA
1 CTCCACTGTAATCTCAGG-GAGATAGGATTACTTGCTTCAATCTA
* ** * * *
31336309 CTCCACTGTAATCTCAGGGAGATAAGATT-CTTTATTTTACTCTG
1 CTCCACTGTAATCTCAGGGAGATAGGATTAC-TTGCTTCAATCTA
*
31336353 CTCCACTGTAATCTC-GGAGAGATAGGATTACTAGCTTCAATCTA
1 CTCCACTGTAATCTCAGG-GAGATAGGATTACTTGCTTCAATCTA
* * *
31336397 CTCCACTGTAATCTCAGGGAGATAAGATCTGAAATT-CTTCGATCTA
1 CTCCACTGTAATCTCAGGGAGATAGGAT-T--ACTTGCTTCAATCTA
* * * *
31336443 TTCCAGTGTAATCTCAGGGTGATAGGATTA-TCAGCTTCAATCT
1 CTCCACTGTAATCTCAGGGAGATAGGATTACT-TGCTTCAATCT
31336486 GCTTTCTTAC
Statistics
Matches: 329, Mismatches: 88, Indels: 46
0.71 0.19 0.10
Matches are distributed among these distances:
40 2 0.01
41 23 0.07
42 2 0.01
43 11 0.03
44 214 0.65
45 12 0.04
46 61 0.19
47 4 0.01
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (44 bp):
CTCCACTGTAATCTCAGGGAGATAGGATTACTTGCTTCAATCTA
Found at i:31336188 original size:175 final size:175
Alignment explanation
Indices: 31335897--31336466 Score: 747
Period size: 175 Copynumber: 3.3 Consensus size: 175
31335887 TCTTCGGTCT
* * * *
31335897 ATTTGAAATTCTTCGGTCTATTCCCCTGTAATCTCAAGGAGATAAGGCCTGATGCGATCTACTCT
1 ATTTGAAATTCTTCAGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCT
31335962 ACTGTAATTTTAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAAATAG
66 ACTGTAATTTTAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAAATAG
* *
31336027 GATTACTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGGGATAAG
131 GATTACTGGCTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAG
* *
31336072 ATTTGAAATTTTTCAGTCTATTCCCCTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCT
1 ATTTGAAATTCTTCAGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCT
*
31336137 ACTGTAATTTTAGAGAGATAAGGTCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAAATAG
66 ACTGTAATTTTAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAAATAG
31336202 GATTACTGGCTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAG
131 GATTACTGGCTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAG
** * ** * * * * *
31336247 ATTCT-TTATT-TT-ACTCTGCTCCACTGTAATCTC-GGAGAGATAGGATTACTAGCTTCAATCT
1 ATT-TGAAATTCTTCAGTCTATTCCACTGTAATCTCAGG-GAGATAAGA--CCT-GATGCGATCT
* * * * * * *
31336308 ACTCCACTGTAATCTCAGGGAGATAAGATTCTTTATTTTACTCTGCTCCACTGTAATCTC-GGAG
61 ACTCTACTGTAATTTTAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGG-G
* * *
31336372 AGATAGGATTACTAGCTTCAATCTACTCCACTGTAATCTCAGGGAGATAAG
125 AAATAGGATTACTGGCTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAG
* * *
31336423 ATCTGAAATTCTTC-GATCTATTCCAGTGTAATCTCAGGGTGATA
1 ATTTGAAATTCTTCAG-TCTATTCCACTGTAATCTCAGGGAGATA
31336467 GGATTATCAG
Statistics
Matches: 347, Mismatches: 37, Indels: 19
0.86 0.09 0.05
Matches are distributed among these distances:
172 2 0.01
173 25 0.07
174 2 0.01
175 179 0.52
176 114 0.33
177 2 0.01
178 21 0.06
179 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.34
Consensus pattern (175 bp):
ATTTGAAATTCTTCAGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCT
ACTGTAATTTTAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAAATAG
GATTACTGGCTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAG
Found at i:31336232 original size:88 final size:88
Alignment explanation
Indices: 31335953--31336485 Score: 553
Period size: 88 Copynumber: 6.0 Consensus size: 88
31335943 GCCTGATGCG
* * * * *
31335953 ATCTACTCTACTGTAATTTTAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCA
1 ATCTACTCCACTGTAATCTCAGGGAGATAAGATCCTTTATTTTAATCTGCTCCACTGTAATCTCA
* *
31336018 GGGAAATAGGATTACTGGCTTCA
66 GGGAGATAGGATTACTAGCTTCA
* * * * * ** *
31336041 ATCTGCTCCGCTGTAATCTCAGGGGGATAAGAT--TTGAAATTTTTCAGTCTATTCCCCTGTAAT
1 ATCTACTCCACTGTAATCTCAGGGAGATAAGATCCTT--TA-TTTT-AATCTGCTCCACTGTAAT
* * * * *
31336104 CTCAGGGAGATAAGA--CCT-GATGCG
62 CTCAGGGAGATAGGATTACTAGCTTCA
* * * * * *
31336128 ATCTACTCTACTGTAATTTTAGAGAGATAAGGTCCTTTATTTTAATCCGCTCCACTGTAATCTCA
1 ATCTACTCCACTGTAATCTCAGGGAGATAAGATCCTTTATTTTAATCTGCTCCACTGTAATCTCA
* *
31336193 GGGAAATAGGATTACTGGCTTCA
66 GGGAGATAGGATTACTAGCTTCA
* * *
31336216 ATCTACTCCGCTGTAATCTCAGGGAGATAAGATTCTTTATTTTACTCTGCTCCACTGTAATCTC-
1 ATCTACTCCACTGTAATCTCAGGGAGATAAGATCCTTTATTTTAATCTGCTCCACTGTAATCTCA
31336280 GGAGAGATAGGATTACTAGCTTCA
66 GG-GAGATAGGATTACTAGCTTCA
* *
31336304 ATCTACTCCACTGTAATCTCAGGGAGATAAGATTCTTTATTTTACTCTGCTCCACTGTAATCTC-
1 ATCTACTCCACTGTAATCTCAGGGAGATAAGATCCTTTATTTTAATCTGCTCCACTGTAATCTCA
31336368 GGAGAGATAGGATTACTAGCTTCA
66 GG-GAGATAGGATTACTAGCTTCA
** * ** *
31336392 ATCTACTCCACTGTAATCTCAGGGAGATAAGAT-CTGAAATTCTTCGATCTATTCCAGTGTAATC
1 ATCTACTCCACTGTAATCTCAGGGAGATAAGATCCT-TTATT-TT-AATCTGCTCCACTGTAATC
*
31336456 TCAGGGTGATAGGATTA-TCAGCTTCA
63 TCAGGGAGATAGGATTACT-AGCTTCA
31336482 ATCT
1 ATCT
31336486 GCTTTCTTAC
Statistics
Matches: 371, Mismatches: 59, Indels: 28
0.81 0.13 0.06
Matches are distributed among these distances:
85 26 0.07
86 6 0.02
87 35 0.09
88 229 0.62
89 9 0.02
90 64 0.17
91 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (88 bp):
ATCTACTCCACTGTAATCTCAGGGAGATAAGATCCTTTATTTTAATCTGCTCCACTGTAATCTCA
GGGAGATAGGATTACTAGCTTCA
Found at i:31336720 original size:129 final size:129
Alignment explanation
Indices: 31336476--31336712 Score: 375
Period size: 129 Copynumber: 1.8 Consensus size: 129
31336466 AGGATTATCA
* * * *
31336476 GCTTCAATCTGCTTTCTTACACTTGAAGATAAGATTCACCGTTTTCGATCTGTTCCGCTACTGCT
1 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTCGATCTGCTCCGCTACTGCT
*
31336541 TAGGGAGACAAGATTTCTAATTTCCCAACCTAATCCACTGCTGACCAGGGATATAGGACTTGTG
66 TAGGGAGACAAGATCTCTAATTTCCCAACCTAATCCACTGCTGACCAGGGATATAGGACTTGTG
* **
31336605 GCTTAAATCTGCTTCCTTACACTTGAAGATAATATTTGCCGTCTTCGATCTGCTCCGCTACTGCT
1 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTCGATCTGCTCCGCTACTGCT
* * *
31336670 TAGGGAGACATGATCTGTAATTTCCCAACCTATTCCACTGCTG
66 TAGGGAGACAAGATCTCTAATTTCCCAACCTAATCCACTGCTG
31336713 GTCAGGGAGC
Statistics
Matches: 97, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
129 97 1.00
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (129 bp):
GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTCGATCTGCTCCGCTACTGCT
TAGGGAGACAAGATCTCTAATTTCCCAACCTAATCCACTGCTGACCAGGGATATAGGACTTGTG
Found at i:31338949 original size:6 final size:6
Alignment explanation
Indices: 31338890--31338991 Score: 105
Period size: 6 Copynumber: 16.7 Consensus size: 6
31338880 TTCTCTCTTT
* * * * * ** *
31338890 TTTTCA TTTTCA TTTTGA CTTTGA TTATGA TTATGA TTTTTC TTTTGCTT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTG--A
*
31338940 TTTTTA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA
31338988 TTTT
1 TTTT
31338992 TTTTTTAATT
Statistics
Matches: 82, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
6 78 0.95
8 4 0.05
ACGTcount: A:0.16, C:0.05, G:0.12, T:0.68
Consensus pattern (6 bp):
TTTTGA
Found at i:31338955 original size:50 final size:51
Alignment explanation
Indices: 31338886--31338994 Score: 148
Period size: 50 Copynumber: 2.2 Consensus size: 51
31338876 TTCCTTCTCT
**
31338886 CTTTTTTTCATTTTCATTTTGACTTTGATTATGATTATGATTTTTCTTTTG
1 CTTTTTTTCATTTTCATTTTGACTTTGATTATGATTATGATTTTGATTTTG
* * * *
31338937 CTTTTTTT-ATTTTGATTTTGATTTTGATTTTGATTTTGATTTTGATTTTG
1 CTTTTTTTCATTTTCATTTTGACTTTGATTATGATTATGATTTTGATTTTG
*
31338987 ATTTTTTT
1 CTTTTTTT
31338995 TTTAATTGCA
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
50 43 0.84
51 8 0.16
ACGTcount: A:0.15, C:0.06, G:0.11, T:0.69
Consensus pattern (51 bp):
CTTTTTTTCATTTTCATTTTGACTTTGATTATGATTATGATTTTGATTTTG
Found at i:31338980 original size:44 final size:44
Alignment explanation
Indices: 31338896--31338985 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 44
31338886 CTTTTTTTCA
** *
31338896 TTTTCATTTTGACTTTGATTATGATTATGATTTTTCTTTTGCTT
1 TTTTCATTTTGACTTTGATTATGATTATGATTTTGATTTTGATT
* * * *
31338940 TTTTTATTTTGATTTTGATTTTGATTTTGATTTTGATTTTGATT
1 TTTTCATTTTGACTTTGATTATGATTATGATTTTGATTTTGATT
31338984 TT
1 TT
31338986 GATTTTTTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.16, C:0.04, G:0.12, T:0.68
Consensus pattern (44 bp):
TTTTCATTTTGACTTTGATTATGATTATGATTTTGATTTTGATT
Found at i:31339683 original size:25 final size:27
Alignment explanation
Indices: 31339654--31339710 Score: 75
Period size: 25 Copynumber: 2.2 Consensus size: 27
31339644 GAAGAAAATA
*
31339654 AAAGAATAGTTA-TTCAAAAA-GAATG-
1 AAAGAATA-TTAGCTCAAAAATGAATGC
31339679 AAAGAATATTAGCTCAAAAATGAATGC
1 AAAGAATATTAGCTCAAAAATGAATGC
31339706 AAAGA
1 AAAGA
31339711 TGTATTTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 3 0.11
25 15 0.54
26 5 0.18
27 5 0.18
ACGTcount: A:0.56, C:0.07, G:0.16, T:0.21
Consensus pattern (27 bp):
AAAGAATATTAGCTCAAAAATGAATGC
Found at i:31347348 original size:50 final size:51
Alignment explanation
Indices: 31347223--31347348 Score: 123
Period size: 50 Copynumber: 2.5 Consensus size: 51
31347213 TTAATCCATT
* * * * *
31347223 TAACTGCAATGCCGGGGAAGCAAAATTCATTGTTGTAGCTTCAATCTGTTC
1 TAACTGCAATGCTGGGGAAGCAAGATTCACTATTGCAGCTTCAATCTGTTC
* ** * *
31347274 -CACTGCACCGACT-GGGCAGTAAGATTCACTATTGCAGCTTCAATCT-TTC
1 TAACTGCAATG-CTGGGGAAGCAAGATTCACTATTGCAGCTTCAATCTGTTC
*
31347323 TAACTGCAATGTTGGGGAAGCAAGAT
1 TAACTGCAATGCTGGGGAAGCAAGAT
31347349 CCGTTGTTGT
Statistics
Matches: 56, Mismatches: 16, Indels: 7
0.71 0.20 0.09
Matches are distributed among these distances:
49 4 0.07
50 51 0.91
51 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (51 bp):
TAACTGCAATGCTGGGGAAGCAAGATTCACTATTGCAGCTTCAATCTGTTC
Found at i:31347644 original size:129 final size:130
Alignment explanation
Indices: 31347479--31347716 Score: 381
Period size: 129 Copynumber: 1.8 Consensus size: 130
31347469 GTCTATTCCA
** * * *
31347479 CTGTAACCTCAGGGAGATAAGACCTGGTGCGATCTACTCTACTGTAATTTCAGAGAGATAAGATC
1 CTGTAACCTCAGGGAGATAAGACCTAATGCGATCTACTCTACTGCAACTTCAAAGAGATAAGATC
*
31347544 ATTTATTTTAATCCGCTCCAC-TGTAA-TCTCTGGGAAATAGGATTACTGGCTTCGATCTGCTCT
66 ATTTATTTTAATCCGCTCCACTTGTAACT-TCAGGGAAATAGGATTACTGGCTTCGATCTGCTCT
31347607 G
130 G
31347608 CTGTAACCTCAGGGAGATAAGACCTAATGCGATCTACTCTACTGCAACTTCAAAGAGATAAGATC
1 CTGTAACCTCAGGGAGATAAGACCTAATGCGATCTACTCTACTGCAACTTCAAAGAGATAAGATC
* *
31347673 TTTTATTTTAATCCGCTCCACTTGTAACTTCAGGGAGATAGGAT
66 ATTTATTTTAATCCGCTCCACTTGTAACTTCAGGGAAATAGGAT
31347717 CTGTAATTTC
Statistics
Matches: 99, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
129 80 0.81
130 18 0.18
131 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.31
Consensus pattern (130 bp):
CTGTAACCTCAGGGAGATAAGACCTAATGCGATCTACTCTACTGCAACTTCAAAGAGATAAGATC
ATTTATTTTAATCCGCTCCACTTGTAACTTCAGGGAAATAGGATTACTGGCTTCGATCTGCTCTG
Found at i:31347871 original size:127 final size:128
Alignment explanation
Indices: 31347704--31348896 Score: 1838
Period size: 127 Copynumber: 9.3 Consensus size: 128
31347694 TTGTAACTTC
* * * *
31347704 AGGGAGATAGGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAAGACTTGTAGC
1 AGGGAGACAAGATCTGTAATTT-CCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGC
* *** * *
31347769 TTAAATCTGCTTCCTTACACTTGAAGGTAAGATTCACCGTCTCCGATCTGCTCCGCTACTGCTT
65 TTAAATCTGCTTCCTTACACTTGAAGATAAGATTTGTCGTCTTCGATCTGCTCCGCTATTGCTT
*
31347833 AGGGAGACAAGATCTATAA-TTCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCT
1 AGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCT
*
31347897 TAAATCTGCTTCCTTACACTTGAAGATAAGATTTGTCGTCTTCGATCTACTCCGCTATTGCTT
66 TAAATCTGCTTCCTTACACTTGAAGATAAGATTTGTCGTCTTCGATCTGCTCCGCTATTGCTT
* * * *
31347960 AAGGAGACAAGATCTGTAA-TTCCAACCTATTCCACTACTGACCATGGATATAGGATTTGTGGCT
1 AGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCT
* * * *
31348024 TAAATCTGCTTCCTTACACTTGAAGATAAGATTTGCCATCTTCGATCTGCTCCACTATTGCCT
66 TAAATCTGCTTCCTTACACTTGAAGATAAGATTTGTCGTCTTCGATCTGCTCCGCTATTGCTT
* **
31348087 AGAGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGGTCAGGGATATAGGACTTGTGGC
1 AGGGAGACAAGATCTGTAATTT-CCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGC
* *
31348152 TTAAATATGCTTCCTTACACTTGAAGATAAGATTTGTCGTCTTCGATCTGCTCTGCTATTGCTT
65 TTAAATCTGCTTCCTTACACTTGAAGATAAGATTTGTCGTCTTCGATCTGCTCCGCTATTGCTT
*
31348216 AGAGAGACAAGATCTGTAATTTCCAAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGC
1 AGGGAGACAAGATCTGTAATTTCC-AACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGC
* * *
31348281 TTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCCATTGCTT
65 TTAAATCTGCTTCCTTACACTTGAAGATAAGATTTGTCGTCTTCGATCTGCTCCGCTATTGCTT
31348345 AGGGAGACAAGATCTGTAA-TTCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCT
1 AGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCT
* * * * * *
31348409 TAAATCTGATTCCTTACACTTGAAGATAAGATTCGCCATCTTTGATCTGCTCCGCTACTGCTT
66 TAAATCTGCTTCCTTACACTTGAAGATAAGATTTGTCGTCTTCGATCTGCTCCGCTATTGCTT
* * * *
31348472 AGGGAGGCAAGATCTATAATTTCCCAACCTATTCCACTACTGACCGGGGATATAGGACTTGTGGC
1 AGGGAGACAAGATCTGTAATTT-CCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGC
*
31348537 TTAAATCTGCTTCCTTACACTTGAAGATAAGATTTGTCGTCTTCGATCTGCTCCGCTACTGCTT
65 TTAAATCTGCTTCCTTACACTTGAAGATAAGATTTGTCGTCTTCGATCTGCTCCGCTATTGCTT
* * * *
31348601 AGGGAGACAAGATCTGTAA-TTCTAACCTATTCCACTGCTAACCATGGATATAAGACTTGTGGCT
1 AGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCT
*
31348665 TAAATCTGCTTCCTTACACTTGAAGATAAGATTTGTCGTCTTCGATCTGCTCCGCTACTGCTT
66 TAAATCTGCTTCCTTACACTTGAAGATAAGATTTGTCGTCTTCGATCTGCTCCGCTATTGCTT
* * * *
31348728 AGGGAGACAAGATCTGTAA-TTCTAACCTATTCCACTGCTAACCATGGATATAAGACTTGTGGCT
1 AGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCT
* *
31348792 TAAATCTGCTTCCTTACACTTGAAGATAAGATTCGTCGTCTTTGATCTGCTCCGCTATTGCTT
66 TAAATCTGCTTCCTTACACTTGAAGATAAGATTTGTCGTCTTCGATCTGCTCCGCTATTGCTT
*
31348855 AGGGAGACAAGATCTGTAATTTCCCAACCTATTCAACTGCTG
1 AGGGAGACAAGATCTGTAATTT-CCAACCTATTCCACTGCTG
31348897 GTCAGGTAGC
Statistics
Matches: 986, Mismatches: 71, Indels: 14
0.92 0.07 0.01
Matches are distributed among these distances:
127 590 0.60
128 16 0.02
129 380 0.39
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (128 bp):
AGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCT
TAAATCTGCTTCCTTACACTTGAAGATAAGATTTGTCGTCTTCGATCTGCTCCGCTATTGCTT
Found at i:31348180 original size:256 final size:255
Alignment explanation
Indices: 31347714--31348896 Score: 1841
Period size: 256 Copynumber: 4.6 Consensus size: 255
31347704 AGGGAGATAG
* *
31347714 GATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAAGACTTGTAGCTTAAATCTGC
1 GATCTGTAATTT-CCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAAATCTGC
* * * *
31347779 TTCCTTACACTTGAAGGTAAGATTCACCGTCTCCGATCTGCTCCGCTACTGCTTAGGGAGACAAG
65 TTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGGAGACAAG
*
31347844 ATCTATAATTCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAAATCTGCTTC
130 ATCTGTAATTCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAAATCTGCTTC
* *
31347909 CTTACACTTGAAGATAAGATTTGTCGTCTTCGATCTACTCCGCTATTGCTTAAGGAGACAA
195 CTTACACTTGAAGATAAGATTTGTCGTCTTCGATCTGCTCCGCTACTGCTTAAGGAGACAA
* * *
31347970 GATCTGTAA-TTCCAACCTATTCCACTACTGACCATGGATATAGGATTTGTGGCTTAAATCTGCT
1 GATCTGTAATTTCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAAATCTGCT
* * * * *
31348034 TCCTTACACTTGAAGATAAGATTTGCCATCTTCGATCTGCTCCACTATTGCCTAGAGAGACAAGA
66 TCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGGAGACAAGA
** *
31348099 TCTGTAATTTCCCAACCTATTCCACTGCTGGTCAGGGATATAGGACTTGTGGCTTAAATATGCTT
131 TCTGTAA-TT-CCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAAATCTGCTT
* *
31348164 CCTTACACTTGAAGATAAGATTTGTCGTCTTCGATCTGCTCTGCTATTGCTT-AGAGAGACAA
194 CCTTACACTTGAAGATAAGATTTGTCGTCTTCGATCTGCTCCGCTACTGCTTAAG-GAGACAA
31348226 GATCTGTAATTTCCAAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAAATCTGC
1 GATCTGTAATTTCC-AACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAAATCTGC
*
31348291 TTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCCATTGCTTAGGGAGACAAG
65 TTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGGAGACAAG
*
31348356 ATCTGTAATTCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAAATCTGATTC
130 ATCTGTAATTCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAAATCTGCTTC
* * * * * *
31348421 CTTACACTTGAAGATAAGATTCGCCATCTTTGATCTGCTCCGCTACTGCTTAGGGAGGCAA
195 CTTACACTTGAAGATAAGATTTGTCGTCTTCGATCTGCTCCGCTACTGCTTAAGGAGACAA
* * *
31348482 GATCTATAATTTCCCAACCTATTCCACTACTGACCGGGGATATAGGACTTGTGGCTTAAATCTGC
1 GATCTGTAATTT-CCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAAATCTGC
* * *
31348547 TTCCTTACACTTGAAGATAAGATTTGTCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAG
65 TTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGGAGACAAG
* * * *
31348612 ATCTGTAATTCTAACCTATTCCACTGCTAACCATGGATATAAGACTTGTGGCTTAAATCTGCTTC
130 ATCTGTAATTCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAAATCTGCTTC
*
31348677 CTTACACTTGAAGATAAGATTTGTCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAA
195 CTTACACTTGAAGATAAGATTTGTCGTCTTCGATCTGCTCCGCTACTGCTTAAGGAGACAA
* * * *
31348738 GATCTGTAA-TTCTAACCTATTCCACTGCTAACCATGGATATAAGACTTGTGGCTTAAATCTGCT
1 GATCTGTAATTTCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAAATCTGCT
* *
31348802 TCCTTACACTTGAAGATAAGATTCGTCGTCTTTGATCTGCTCCGCTATTGCTTAGGGAGACAAGA
66 TCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGGAGACAAGA
*
31348867 TCTGTAATTTCCCAACCTATTCAACTGCTG
131 TCTGTAA-TT-CCAACCTATTCCACTGCTG
31348897 GTCAGGTAGC
Statistics
Matches: 847, Mismatches: 71, Indels: 18
0.90 0.08 0.02
Matches are distributed among these distances:
254 226 0.27
255 10 0.01
256 488 0.58
257 9 0.01
258 114 0.13
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.32
Consensus pattern (255 bp):
GATCTGTAATTTCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAAATCTGCT
TCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGGAGACAAGA
TCTGTAATTCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAAATCTGCTTCC
TTACACTTGAAGATAAGATTTGTCGTCTTCGATCTGCTCCGCTACTGCTTAAGGAGACAA
Found at i:31349899 original size:17 final size:17
Alignment explanation
Indices: 31349877--31349909 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
31349867 CATTTTTGAT
31349877 TTTCATTTTTTCATTCA
1 TTTCATTTTTTCATTCA
*
31349894 TTTCATTTTTTTATTC
1 TTTCATTTTTTCATTC
31349910 CAAAATCACC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTCATTTTTTCATTCA
Found at i:31360509 original size:42 final size:43
Alignment explanation
Indices: 31360435--31360516 Score: 121
Period size: 42 Copynumber: 1.9 Consensus size: 43
31360425 TACATCTCGT
* * *
31360435 TGTGGACAAGCCACCAGTATTTGCAGGTAAACTGCCAGAAATA
1 TGTGGACAAACCACCAGTAATTGCAGATAAACTGCCAGAAATA
*
31360478 TGTGGATAAACCACCA-TAATTGCAGATAAACTGCCAGAA
1 TGTGGACAAACCACCAGTAATTGCAGATAAACTGCCAGAA
31360517 GTTCCTCCTT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
42 21 0.60
43 14 0.40
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (43 bp):
TGTGGACAAACCACCAGTAATTGCAGATAAACTGCCAGAAATA
Found at i:31362768 original size:19 final size:19
Alignment explanation
Indices: 31362715--31362769 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
31362705 TTGTCTTAAA
31362715 AATATATAATATAT-AAATT
1 AATATA-AATATATAAAATT
* *
31362734 AATAAAAAAACT-TAAAATT
1 AATATAAATA-TATAAAATT
*
31362753 TATATAAATATATAAAA
1 AATATAAATATATAAAA
31362770 GAATTAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
18 5 0.18
19 23 0.82
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (19 bp):
AATATAAATATATAAAATT
Found at i:31362779 original size:29 final size:29
Alignment explanation
Indices: 31362724--31362778 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
31362714 AAATATATAA
31362724 TATATAAATTAATAAAAAAACTTAAAATT
1 TATATAAATTAATAAAAAAACTTAAAATT
*
31362753 TATATAAA-TATATAAAAGAA-TTAAAA
1 TATATAAATTA-ATAAAAAAACTTAAAA
31362779 ACTTGCCCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (29 bp):
TATATAAATTAATAAAAAAACTTAAAATT
Found at i:31367523 original size:24 final size:24
Alignment explanation
Indices: 31367472--31367523 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
31367462 CAAAGCCACT
* **
31367472 AAAAACATTAAAATAAATGTTTCT
1 AAAAAAATTAAAATAAATGTTTAA
31367496 AAAAAAATTAAAAATAAAT-TTTAA
1 AAAAAAATT-AAAATAAATGTTTAA
31367520 AAAA
1 AAAA
31367524 GTCTTTATAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 15 0.62
25 9 0.38
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (24 bp):
AAAAAAATTAAAATAAATGTTTAA
Found at i:31370485 original size:29 final size:28
Alignment explanation
Indices: 31370448--31370530 Score: 85
Period size: 29 Copynumber: 2.9 Consensus size: 28
31370438 ACTCAATGTA
31370448 CAATATTATACATGAAGTTTGATTTTGTG
1 CAATATTATACATGAAGTTTGATTTT-TG
* * * **
31370477 CAATGTTATATACGAAGTTCAATTTTTG
1 CAATATTATACATGAAGTTTGATTTTTG
* *
31370505 CAATTTTATACATGAAATTTTGATTT
1 CAATATTATACATG-AAGTTTGATTT
31370531 GATTCAATTT
Statistics
Matches: 42, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
28 13 0.31
29 29 0.69
ACGTcount: A:0.33, C:0.08, G:0.13, T:0.46
Consensus pattern (28 bp):
CAATATTATACATGAAGTTTGATTTTTG
Found at i:31375144 original size:34 final size:34
Alignment explanation
Indices: 31375106--31375251 Score: 150
Period size: 34 Copynumber: 4.3 Consensus size: 34
31375096 AATTGATTGA
* * *
31375106 TTATAAGTATATTATTTGTTACCGTATCGATCTG
1 TTATAAGCATATTAATTGCTACCGTATCGATCTG
* * *
31375140 TTATAAGCATATTAATTACTACTGTA-CTGATTTG
1 TTATAAGCATATTAATTGCTACCGTATC-GATCTG
* * * *
31375174 TTATAAGCATATTAATTGCGATCGTATTGATCTA
1 TTATAAGCATATTAATTGCTACCGTATCGATCTG
* * *
31375208 TTATACGCATATAAATTGCTACCGTATTGATCTG
1 TTATAAGCATATTAATTGCTACCGTATCGATCTG
*
31375242 TAATAAGCAT
1 TTATAAGCAT
31375252 GTCATATTGC
Statistics
Matches: 90, Mismatches: 20, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
33 1 0.01
34 89 0.99
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.42
Consensus pattern (34 bp):
TTATAAGCATATTAATTGCTACCGTATCGATCTG
Found at i:31375469 original size:44 final size:45
Alignment explanation
Indices: 31375358--31375550 Score: 156
Period size: 45 Copynumber: 4.3 Consensus size: 45
31375348 TATCTGCAAA
* * * * * * *
31375358 TTTGGTGTGCATCCACAGCCAAAGGTAGATTCTATCTACGGGATT
1 TTTGCTGTGTATCCATAGCCAGAGATAAATTCTATCTACGAGATT
* * * * *
31375403 TTTGTTGTGCATCCACAGCCAGAGGTAAATTCTATCTGCGAGA-T
1 TTTGCTGTGTATCCATAGCCAGAGATAAATTCTATCTACGAGATT
* * * * * *
31375447 TTTGCTGCGTATTCATAGCCAGAGACAAATTTTATTTGCGAGATT
1 TTTGCTGTGTATCCATAGCCAGAGATAAATTCTATCTACGAGATT
* * * * *
31375492 TTTTCTATGTACCCATAGCCAGAGATAGATTCTATCTACGGGA-T
1 TTTGCTGTGTATCCATAGCCAGAGATAAATTCTATCTACGAGATT
*
31375536 TTTGTTGTGTATCCA
1 TTTGCTGTGTATCCA
31375551 CAGTCATTGA
Statistics
Matches: 118, Mismatches: 29, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
44 47 0.40
45 71 0.60
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (45 bp):
TTTGCTGTGTATCCATAGCCAGAGATAAATTCTATCTACGAGATT
Found at i:31382972 original size:96 final size:96
Alignment explanation
Indices: 31382853--31383073 Score: 282
Period size: 96 Copynumber: 2.3 Consensus size: 96
31382843 TGTTTATTAT
* * *
31382853 TTTTTAATAAAAAATTAATTAAATTAGGGTTTAAGGTTACTTGAGTAATTTAATTAAAAATTATT
1 TTTTTAAGAAAAAATTAAATAAATTAGGGTTTAAGGTTACTTGAGTAAATTAATTAAAAATT-TT
*
31382918 TA-AAAGTCAGATAAGGGTTTAGAGTTAAGGG
65 TATAAAATCAGATAAGGGTTTAGAGTTAAGGG
* * **
31382949 TTTTTAAGGAAAAATTAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTGTAAATTTTT
1 TTTTTAAGAAAAAATTAAATAAATTAGGGTTTAAGGTTACTTGAGTAAATTAATTAAAAATTTTT
** * * *
31383014 ATAAAATTTGATTAGGGTTTAGTGTTTAGGG
66 ATAAAATCAGATAAGGGTTTAGAGTTAAGGG
* *
31383045 TTTTTAAGTAAAAACTCAAATAAATTAGG
1 TTTTTAAG-AAAAAATTAAATAAATTAGG
31383074 ATTTGGGGTT
Statistics
Matches: 107, Mismatches: 16, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
95 4 0.04
96 86 0.80
97 17 0.16
ACGTcount: A:0.40, C:0.02, G:0.18, T:0.40
Consensus pattern (96 bp):
TTTTTAAGAAAAAATTAAATAAATTAGGGTTTAAGGTTACTTGAGTAAATTAATTAAAAATTTTT
ATAAAATCAGATAAGGGTTTAGAGTTAAGGG
Found at i:31383341 original size:126 final size:126
Alignment explanation
Indices: 31383116--31383403 Score: 450
Period size: 126 Copynumber: 2.3 Consensus size: 126
31383106 TTGTTAATTT
* *
31383116 AAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAATAGCTCCTGAAAAAATAATTTCGAGTAGAC
1 AAAAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
* * * * * *
31383181 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAACAGAAGTCCTG
66 GTTTCTAAGAAAATAGTGTCAAAAACGCTTTAAGCAAGATACTTTGTCAACAAAAGTACTG
*
31383242 AAAAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCTTGAAAAAATAATTTCGAGTAGAC
1 AAAAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
* * *
31383307 GTTTCTAAGAAAATAGTGTCAAAAATGCTTTAAGCAAGATATTTTGTCAGCAAAAGTACTG
66 GTTTCTAAGAAAATAGTGTCAAAAACGCTTTAAGCAAGATACTTTGTCAACAAAAGTACTG
* *
31383368 AAAGAAGCTCCCACGTGGACACGCTTTTGCTACAGT
1 AAAAAAGCTCCCACGTGGACGCGCTTTTGCTACAGT
31383404 GGCGCATGTT
Statistics
Matches: 148, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
126 148 1.00
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (126 bp):
AAAAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
GTTTCTAAGAAAATAGTGTCAAAAACGCTTTAAGCAAGATACTTTGTCAACAAAAGTACTG
Found at i:31387120 original size:18 final size:18
Alignment explanation
Indices: 31387094--31387136 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
31387084 GACTAGAAAA
* * *
31387094 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
31387112 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
31387130 AGGATAC
1 AGGATAC
31387137 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:31388988 original size:33 final size:33
Alignment explanation
Indices: 31388944--31389021 Score: 106
Period size: 33 Copynumber: 2.3 Consensus size: 33
31388934 TCTTTTAAAT
*
31388944 AGAAATCTGAGAGGAATTTGAGAGGAAT-TT-GAG
1 AGAAAT-TGAGAGAAATTTGAGA-GAATATTAGAG
31388977 AGAAAATTGAGAGAAATTTGAGAGAATATTAGAG
1 AG-AAATTGAGAGAAATTTGAGAGAATATTAGAG
31389011 AGAAATTGAGA
1 AGAAATTGAGA
31389022 AAAAGGATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
32 4 0.10
33 28 0.68
34 9 0.22
ACGTcount: A:0.46, C:0.01, G:0.29, T:0.23
Consensus pattern (33 bp):
AGAAATTGAGAGAAATTTGAGAGAATATTAGAG
Found at i:31389010 original size:10 final size:10
Alignment explanation
Indices: 31388944--31389021 Score: 75
Period size: 11 Copynumber: 7.1 Consensus size: 10
31388934 TCTTTTAAAT
31388944 AGAAATCTGAG
1 AGAAAT-TGAG
*
31388955 AGGAATTTGAG
1 A-GAAATTGAG
*
31388966 AGGAATTTGAG
1 A-GAAATTGAG
31388977 AGAAAATTGAG
1 AG-AAATTGAG
31388988 AGAAATTTGAG
1 AGAAA-TTGAG
31388999 AGAATATTAGAG
1 AGAA-ATT-GAG
31389011 AGAAATTGAG
1 AGAAATTGAG
31389021 A
1 A
31389022 AAAAGGATTT
Statistics
Matches: 60, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
10 8 0.13
11 40 0.67
12 12 0.20
ACGTcount: A:0.46, C:0.01, G:0.29, T:0.23
Consensus pattern (10 bp):
AGAAATTGAG
Found at i:31394411 original size:3 final size:3
Alignment explanation
Indices: 31394403--31394437 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
31394393 CAAAACCCAG
31394403 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
31394438 CCTTAGCAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:31394553 original size:3 final size:3
Alignment explanation
Indices: 31394545--31394570 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
31394535 CAAAACCCAA
31394545 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
31394571 CCTTAGCAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:31397922 original size:19 final size:19
Alignment explanation
Indices: 31397898--31397935 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
31397888 ATTTATGAAG
31397898 TGTCATTAAAGTGGTATTA
1 TGTCATTAAAGTGGTATTA
31397917 TGTCATTAAAGTGGTATTA
1 TGTCATTAAAGTGGTATTA
31397936 AAGTTCCGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.21, T:0.42
Consensus pattern (19 bp):
TGTCATTAAAGTGGTATTA
Found at i:31405571 original size:25 final size:25
Alignment explanation
Indices: 31405543--31405591 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
31405533 TACAATCTAT
* *
31405543 CTATAGTAGTCTCAGTATATACTAC
1 CTATAGCAGTCTCAATATATACTAC
*
31405568 CTATAGCAGTTTCAATATATACTA
1 CTATAGCAGTCTCAATATATACTA
31405592 TCAAAAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (25 bp):
CTATAGCAGTCTCAATATATACTAC
Found at i:31406482 original size:97 final size:96
Alignment explanation
Indices: 31406366--31406685 Score: 412
Period size: 97 Copynumber: 3.3 Consensus size: 96
31406356 GTTTTTAAAT
* * * * *
31406366 TTTAGGG-TTTTAAGGAAAAAATTAAATAAATAAGGGTTTAGGGTTTCTTAATTAAATTAATTAT
1 TTTAGGGTTTTTAAGGAAAAAATAAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAT
*
31406430 AAATTTTAAAAAATTAGATTAGGGTTTAGCG
66 AAATTTTAAAAAATTAGATTAGGGTTTAGTG
* * * * *
31406461 TTTATGGTTTTTAAAGAAAAAATCAAATAAATTAGGGTTTAAGGCTACTTGAGTAAATTAATTAT
1 TTTAGGGTTTTTAAGGAAAAAATAAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAT
*
31406526 AAATTTTAAAAAAATTAGATTAGGATTTAGTG
66 AAATTTT-AAAAAATTAGATTAGGGTTTAGTG
* * *
31406558 TTTAGGGTTTTTAAGGAAAGAATAAAATAAATTAGGGATCAGGGTTACTTGAGTAAATTAATTAT
1 TTTAGGGTTTTTAAGGAAAAAATAAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAT
* * *
31406623 AAATTTAAAAAAAAAGTAGATT-GAGGTTTAGTA
66 AAATTT--TAAAAAATTAGATTAG-GGTTTAGTG
*
31406656 TTTAGGGTTTTTAAGG-AAAAATCAAATAAA
1 TTTAGGGTTTTTAAGGAAAAAATAAAATAAA
31406686 GATAGTTGTT
Statistics
Matches: 195, Mismatches: 25, Indels: 8
0.86 0.11 0.04
Matches are distributed among these distances:
95 6 0.03
96 56 0.29
97 98 0.50
98 35 0.18
ACGTcount: A:0.43, C:0.03, G:0.18, T:0.37
Consensus pattern (96 bp):
TTTAGGGTTTTTAAGGAAAAAATAAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAT
AAATTTTAAAAAATTAGATTAGGGTTTAGTG
Found at i:31406759 original size:34 final size:33
Alignment explanation
Indices: 31406721--31406808 Score: 81
Period size: 33 Copynumber: 2.7 Consensus size: 33
31406711 TAAACTCCTC
31406721 TAAAAAATAAAATAATAAAATTAAATGTTTTTAA
1 TAAAAAATAAAATAATAAAA-TAAATGTTTTTAA
* * * * *
31406755 TAAAAATTAAATTTATTAAAA-GAATTTTTTTAA
1 TAAAAAATAAA-ATAATAAAATAAATGTTTTTAA
* *
31406788 TAATAAATTAAAT-ATAAAATA
1 TAAAAAATAAAATAATAAAATA
31406809 TATAATCAAT
Statistics
Matches: 41, Mismatches: 11, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
31 5 0.12
32 1 0.02
33 18 0.44
34 10 0.24
35 7 0.17
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (33 bp):
TAAAAAATAAAATAATAAAATAAATGTTTTTAA
Found at i:31407253 original size:11 final size:11
Alignment explanation
Indices: 31407237--31407262 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
31407227 GTTAGACTTG
31407237 ATAAATAATTT
1 ATAAATAATTT
31407248 ATAAATAATTT
1 ATAAATAATTT
31407259 ATAA
1 ATAA
31407263 TTTTTAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
ATAAATAATTT
Found at i:31407264 original size:18 final size:17
Alignment explanation
Indices: 31407241--31407281 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
31407231 GACTTGATAA
*
31407241 ATAATTTATAAATAATTT
1 ATAATTTATAAA-AAATT
*
31407259 ATAATTTTTAAAAAATT
1 ATAATTTATAAAAAATT
31407276 ATAATT
1 ATAATT
31407282 AATTTAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATAATTTATAAAAAATT
Found at i:31407511 original size:39 final size:40
Alignment explanation
Indices: 31407439--31407517 Score: 106
Period size: 39 Copynumber: 2.0 Consensus size: 40
31407429 TGAAGCGCTT
*
31407439 TGTCCACGTGGACACAAAGCGCTCCCTCAAGGAAGCTTTTC
1 TGTCCACGTGGA-ACAAAGCGCTCCCTCAAGGAAGATTTTC
* **
31407480 TGTCCACGTGG-ACAAAGCGCTTCCTTGAGGAAGATTTT
1 TGTCCACGTGGAACAAAGCGCTCCCTCAAGGAAGATTTT
31407518 TTACTTCTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 23 0.68
41 11 0.32
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
TGTCCACGTGGAACAAAGCGCTCCCTCAAGGAAGATTTTC
Found at i:31408538 original size:18 final size:18
Alignment explanation
Indices: 31408499--31408534 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
31408489 CATGATGTTC
*
31408499 GCCCGTGTAGGTCCACAT
1 GCCCGTGTAGGCCCACAT
31408517 GCCCGTGT-GGCCCACAT
1 GCCCGTGTAGGCCCACAT
31408534 G
1 G
31408535 GCCCAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.14, C:0.36, G:0.31, T:0.19
Consensus pattern (18 bp):
GCCCGTGTAGGCCCACAT
Found at i:31412682 original size:17 final size:17
Alignment explanation
Indices: 31412662--31412700 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
31412652 GTCTCAGCCA
*
31412662 TGTGAATCACACGGTCG
1 TGTGAATCACACGGCCG
*
31412679 TGTGAATCACACTGCCG
1 TGTGAATCACACGGCCG
31412696 TGTGA
1 TGTGA
31412701 CCCCTGCAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (17 bp):
TGTGAATCACACGGCCG
Found at i:31419801 original size:47 final size:47
Alignment explanation
Indices: 31419732--31419827 Score: 165
Period size: 47 Copynumber: 2.0 Consensus size: 47
31419722 TTTGGTCTTC
*
31419732 AAACAATGTTTTATATTACTTATATTGTTTCATTAAAAATTATAATT
1 AAACAATGTTTTATATTACTTATATTATTTCATTAAAAATTATAATT
* *
31419779 AAACAATGTTTTATATTACTTATATTATTTGATTAGAAATTATAATT
1 AAACAATGTTTTATATTACTTATATTATTTCATTAAAAATTATAATT
31419826 AA
1 AA
31419828 CACTACAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.48
Consensus pattern (47 bp):
AAACAATGTTTTATATTACTTATATTATTTCATTAAAAATTATAATT
Found at i:31423071 original size:43 final size:43
Alignment explanation
Indices: 31423010--31423117 Score: 144
Period size: 43 Copynumber: 2.5 Consensus size: 43
31423000 TGTCCTAGAC
* **
31423010 ATGGTCTTACATGGAAATCTCGTATCGATGCCAATAGCACAACT
1 ATGGTCTTACA-CGAAATCTCAAATCGATGCCAATAGCACAACT
* * *
31423054 ATGGTCTTACACAAAATCTCAAATCGATGCCAATAGCCCATCT
1 ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCACAACT
*
31423097 ATGGTCTTACATGAAATCTCA
1 ATGGTCTTACACGAAATCTCA
31423118 CCTCAGAAGT
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
43 45 0.80
44 11 0.20
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCACAACT
Found at i:31423311 original size:30 final size:30
Alignment explanation
Indices: 31423232--31423314 Score: 87
Period size: 31 Copynumber: 2.7 Consensus size: 30
31423222 ATTCAATGCT
* * *
31423232 CAAATCAATTCGACAATATATATACATATA
1 CAAATCAATTCGGCAATGTATATACACATA
* **
31423262 CGAATCAAATTTAGCAATGTATAT-CTACATA
1 CAAATC-AATTCGGCAATGTATATAC-ACATA
31423293 CAAATCAATTCGGCAATGTATA
1 CAAATCAATTCGGCAATGTATA
31423315 AAACATATAC
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
30 20 0.48
31 22 0.52
ACGTcount: A:0.45, C:0.17, G:0.08, T:0.30
Consensus pattern (30 bp):
CAAATCAATTCGGCAATGTATATACACATA
Done.