Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 72 of 161
Found at i:22500457 original size:55 final size:55
Alignment explanation
Indices: 22500391--22500541 Score: 223
Period size: 55 Copynumber: 2.7 Consensus size: 55
22500381 TAAATTGTAC
*
22500391 AGCACTAAGTGTGCGAGTTGGAATATGTAGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTT-GACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
* * * *
22500446 TGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
* *
22500501 AGCACTAAGTGTGCGAGTTGACTATATAGCACTGAGTGTGC
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGC
22500542 AGACTTAATA
Statistics
Matches: 86, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
54 23 0.27
55 63 0.73
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
Found at i:22500505 original size:82 final size:82
Alignment explanation
Indices: 22500391--22500541 Score: 248
Period size: 82 Copynumber: 1.8 Consensus size: 82
22500381 TAAATTGTAC
* *
22500391 AGCACTAAGTGTGCGAGTTGGAATATGTAGCACTAAGTGTGCGAATTGACTATGTTGCACTAAGT
1 AGCACTAAGTGTGCGAGTTGGAATATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
22500456 GTGCGAATTGACTATGT
66 GTGCGAATTGACTATGT
* * * *
22500473 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGACTATATAGCACTGAGT
1 AGCACTAAGTGTGCGAGTTGGAATATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
22500538 GTGC
66 GTGC
22500542 AGACTTAATA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 63 1.00
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.30
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAGTTGGAATATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
GTGCGAATTGACTATGT
Found at i:22501699 original size:72 final size:72
Alignment explanation
Indices: 22501582--22501725 Score: 279
Period size: 72 Copynumber: 2.0 Consensus size: 72
22501572 ATCATATGGA
22501582 CAGTATGTTAAGAGATAATCAGGTTCTCGTGGGACAGGGCCAGGACGGTTTCTGGATTCCCTGCT
1 CAGTATGTTAAGAGATAATCAGGTTCTCGTGGGACAGGGCCAGGACGGTTTCTGGATTCCCTGCT
*
22501647 CCGACTT
66 CCAACTT
22501654 CAGTATGTTAAGAGATAATCAGGTTCTCGTGGGACAGGGCCAGGACGGTTTCTGGATTCCCTGCT
1 CAGTATGTTAAGAGATAATCAGGTTCTCGTGGGACAGGGCCAGGACGGTTTCTGGATTCCCTGCT
22501719 CCAACTT
66 CCAACTT
22501726 TGGAAATTCA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (72 bp):
CAGTATGTTAAGAGATAATCAGGTTCTCGTGGGACAGGGCCAGGACGGTTTCTGGATTCCCTGCT
CCAACTT
Found at i:22505974 original size:21 final size:21
Alignment explanation
Indices: 22505906--22505967 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
22505896 GTAACTCAAA
** * *
22505906 CACACGGGTGTGTGTCTCCTC
1 CACACGGACGTGTGTTTCTTC
* *
22505927 CACACGGTCGTGTGCTTCTTC
1 CACACGGACGTGTGTTTCTTC
22505948 CACACGGACGTGTGTTTCTT
1 CACACGGACGTGTGTTTCTT
22505968 GTACACGAGT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.11, C:0.31, G:0.26, T:0.32
Consensus pattern (21 bp):
CACACGGACGTGTGTTTCTTC
Found at i:22508853 original size:19 final size:19
Alignment explanation
Indices: 22508829--22508875 Score: 67
Period size: 21 Copynumber: 2.4 Consensus size: 19
22508819 TAGCCCACAT
22508829 CAAGGCTTATGGCTCAACA
1 CAAGGCTTATGGCTCAACA
*
22508848 CAAGGCTATTGTGGCTCAACA
1 CAAGGC--TTATGGCTCAACA
22508869 CAAGGCT
1 CAAGGCT
22508876 ATGTGTTGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 7 0.28
21 18 0.72
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.21
Consensus pattern (19 bp):
CAAGGCTTATGGCTCAACA
Found at i:22508864 original size:21 final size:21
Alignment explanation
Indices: 22508838--22508877 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
22508828 TCAAGGCTTA
22508838 TGGCTCAACACAAGGCTATTG
1 TGGCTCAACACAAGGCTATTG
22508859 TGGCTCAACACAAGGCTAT
1 TGGCTCAACACAAGGCTAT
22508878 GTGTTGCAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.23
Consensus pattern (21 bp):
TGGCTCAACACAAGGCTATTG
Found at i:22508887 original size:20 final size:20
Alignment explanation
Indices: 22508838--22508890 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 20
22508828 TCAAGGCTTA
22508838 TGGCTCAACACAAGGCTATTG
1 TGGC-CAACACAAGGCTATTG
22508859 TGGCTCAACACAAGGCTATGTG
1 TGGC-CAACACAAGGCTAT-TG
*
22508881 TTG-CAACACA
1 TGGCCAACACA
22508891 CACATTGCGT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 7 0.23
21 19 0.63
22 4 0.13
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.23
Consensus pattern (20 bp):
TGGCCAACACAAGGCTATTG
Found at i:22511782 original size:57 final size:56
Alignment explanation
Indices: 22511673--22511788 Score: 162
Period size: 57 Copynumber: 2.1 Consensus size: 56
22511663 GAGCAGCCAT
*
22511673 AAGAAGAAAAGTGGCAAGAGTTCATGAAGTCGACGCTATTACGTNCTAAGTAGCCTC
1 AAGAAGAAAAGTGGCAAGAGTTCATGAAGTCGACGCTATTACGTACTAAGTAG-CTC
* * * *
22511730 AAGAAGAAGAGTGGCATGAGTTCATGAAGTCGACGCTCTTACGT-CTTTAGTAGCTC
1 AAGAAGAAAAGTGGCAAGAGTTCATGAAGTCGACGCTATTACGTAC-TAAGTAGCTC
22511786 AAG
1 AAG
22511789 TATCTACTAT
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
56 7 0.13
57 47 0.87
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.23
Consensus pattern (56 bp):
AAGAAGAAAAGTGGCAAGAGTTCATGAAGTCGACGCTATTACGTACTAAGTAGCTC
Found at i:22514757 original size:15 final size:16
Alignment explanation
Indices: 22514739--22514768 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22514729 TATTAAAATA
22514739 AATGC-AATTATCCTT
1 AATGCAAATTATCCTT
22514754 AATGCAAATTATCCT
1 AATGCAAATTATCCT
22514769 AAGAATGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.37, C:0.20, G:0.07, T:0.37
Consensus pattern (16 bp):
AATGCAAATTATCCTT
Found at i:22526539 original size:21 final size:21
Alignment explanation
Indices: 22526506--22526545 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
22526496 ATTTTAAAAT
22526506 TAATTATTAAATATAATTTTA
1 TAATTATTAAATATAATTTTA
*
22526527 TAATT-TTATAATATTATTT
1 TAATTATTA-AATATAATTT
22526546 AATTTACTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TAATTATTAAATATAATTTTA
Found at i:22531726 original size:22 final size:22
Alignment explanation
Indices: 22531695--22531780 Score: 84
Period size: 22 Copynumber: 3.9 Consensus size: 22
22531685 ACTTGTATAG
* *
22531695 GATTTTCACTACGATGCCTACT
1 GATTTACACTTCGATGCCTACT
* *
22531717 GATTTGCACTTCTATGCCTACT
1 GATTTACACTTCGATGCCTACT
* *
22531739 G-TTCTACACTTCGGTGCCTACA
1 GATT-TACACTTCGATGCCTACT
* *
22531761 GATTTACACTTTGGTGCCTA
1 GATTTACACTTCGATGCCTA
22531781 TCGTTCAACA
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
21 2 0.04
22 50 0.93
23 2 0.04
ACGTcount: A:0.20, C:0.27, G:0.16, T:0.37
Consensus pattern (22 bp):
GATTTACACTTCGATGCCTACT
Found at i:22531779 original size:44 final size:44
Alignment explanation
Indices: 22531709--22531793 Score: 102
Period size: 44 Copynumber: 1.9 Consensus size: 44
22531699 TTCACTACGA
* * *
22531709 TGCCTACTGATTTGCACTTCTATGCCTA-CTGTTCTACACTTCGG
1 TGCCTACAGATTTACACTTCTATGCCTATC-GTTCAACACTTCGG
*
22531753 TGCCTACAGATTTACACTT-TGGTGCCTATCGTTCAACACTT
1 TGCCTACAGATTTACACTTCT-ATGCCTATCGTTCAACACTT
22531794 TGATGCATTC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
43 1 0.03
44 33 0.94
45 1 0.03
ACGTcount: A:0.19, C:0.28, G:0.15, T:0.38
Consensus pattern (44 bp):
TGCCTACAGATTTACACTTCTATGCCTATCGTTCAACACTTCGG
Found at i:22535103 original size:27 final size:27
Alignment explanation
Indices: 22535047--22535114 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 27
22535037 CACGCCAAGA
* *
22535047 AAATGGAAGCCTTTGTGGCAATCTATG
1 AAATGGAAGCCTTTGTCGCAATCTAGG
* *
22535074 AAATGGAATCC-TTGTCGCGATCTAAGG
1 AAATGGAAGCCTTTGTCGCAATCT-AGG
22535101 AAA-GGAAAGCCTTT
1 AAATGG-AAGCCTTT
22535115 ATGGCAAGTG
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
26 12 0.36
27 19 0.58
28 2 0.06
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.26
Consensus pattern (27 bp):
AAATGGAAGCCTTTGTCGCAATCTAGG
Found at i:22542722 original size:51 final size:51
Alignment explanation
Indices: 22542664--22542897 Score: 251
Period size: 51 Copynumber: 4.6 Consensus size: 51
22542654 CCGGTTCACA
*
22542664 TAGTAGCCTGCACATAGTACTACACAAGTGACCATTTTCATCCGATATACG
1 TAGTAGCCTGCACATAGTACTACACAAGTGACCATTTTCATCCGATACACG
* * *** * * *
22542715 TAGTAGCCTGCATATAGTACTACACACA-TGATCGAAGCT-ATTCGATACGCA
1 TAGTAGCCTGCACATAGTACTACACA-AGTGA-CCATTTTCATCCGATACACG
* * * *
22542766 TAGTAGCCTGCACATAGTACTACACATGCGACC--TATCATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACAAGTGACCATTTTCA-TCCGATACACG
* * **
22542816 TAGTAGTCTGCACATAGTACTACACACGTGACCATTTTCATCCGATACGTG
1 TAGTAGCCTGCACATAGTACTACACAAGTGACCATTTTCATCCGATACACG
*
22542867 TAGTAGCCTGCACATAGTACTACACACGTGA
1 TAGTAGCCTGCACATAGTACTACACAAGTGA
22542898 TCTAGCAACT
Statistics
Matches: 149, Mismatches: 27, Indels: 14
0.78 0.14 0.07
Matches are distributed among these distances:
48 1 0.01
49 1 0.01
50 38 0.26
51 101 0.68
52 8 0.05
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACAAGTGACCATTTTCATCCGATACACG
Found at i:22542842 original size:101 final size:101
Alignment explanation
Indices: 22542662--22542892 Score: 286
Period size: 101 Copynumber: 2.3 Consensus size: 101
22542652 ACCCGGTTCA
* * *
22542662 CATAGTAGCCTGCACATAGTACTACACAAGTGACCATTTTCATCCGATATACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACAAGCGACCA-TATCATCCGATACACGTAGTAGCCTGCA
* * *
22542727 TATAGTACTACACACATGATCGAAGCT-ATTCGATACG
65 CATAGTACTACACACATGA-CCAAGCTCATCCGATACG
* * *
22542764 CATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACGTAGTAGTCTGCA
1 CATAGTAGCCTGCACATAGTACTACACAAGCGACCATATCA-TCCGATACACGTAGTAGCCTGCA
* ***
22542828 CATAGTACTACACACGTGACCATTTTCATCCGATACG
65 CATAGTACTACACACATGACCAAGCTCATCCGATACG
**
22542865 TGTAGTAGCCTGCACATAGTACTACACA
1 CATAGTAGCCTGCACATAGTACTACACA
22542893 CGTGATCTAG
Statistics
Matches: 112, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
100 7 0.06
101 72 0.64
102 33 0.29
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACAAGCGACCATATCATCCGATACACGTAGTAGCCTGCAC
ATAGTACTACACACATGACCAAGCTCATCCGATACG
Found at i:22544558 original size:4 final size:4
Alignment explanation
Indices: 22544549--22544576 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
22544539 TTAAACTAAG
22544549 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
22544577 AATAAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:22545988 original size:23 final size:22
Alignment explanation
Indices: 22545936--22545988 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
22545926 TCCACGTCTT
*
22545936 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
22545958 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
22545981 TTTCTTTT
1 TTTCTTTT
22545989 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:22555674 original size:20 final size:19
Alignment explanation
Indices: 22555625--22555670 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
22555615 TTCAATCTCC
*
22555625 TTTTC-AAACTCTTTTTCT
1 TTTTCGAAACTCTTTTTAT
*
22555643 TTTTCGACACTCTCTTTTAT
1 TTTTCGAAACTCT-TTTTAT
22555663 TTTT-GAAA
1 TTTTCGAAA
22555671 ACTCATTCTC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 5 0.22
19 9 0.39
20 9 0.39
ACGTcount: A:0.20, C:0.20, G:0.04, T:0.57
Consensus pattern (19 bp):
TTTTCGAAACTCTTTTTAT
Found at i:22555886 original size:19 final size:19
Alignment explanation
Indices: 22555859--22555916 Score: 73
Period size: 18 Copynumber: 3.0 Consensus size: 19
22555849 TTCCTTCAAG
*
22555859 CTTTCTTTTTCTCTCATTT
1 CTTTTTTTTTCTCTCATTT
22555878 C-TTTTTTTTCTCTCAATTT
1 CTTTTTTTTTCTCTC-ATTT
*
22555897 CTTTTATTTTTCGCTCATTT
1 CTTTT-TTTTTCTCTCATTT
22555917 TCTCTCATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 12 0.35
19 6 0.18
20 7 0.21
21 9 0.26
ACGTcount: A:0.09, C:0.22, G:0.02, T:0.67
Consensus pattern (19 bp):
CTTTTTTTTTCTCTCATTT
Found at i:22555942 original size:25 final size:21
Alignment explanation
Indices: 22555914--22555970 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 21
22555904 TTTTCGCTCA
22555914 TTTTCTCTCATTATCAACTCTTGTC
1 TTTTCTCTCATT-TCAA-T-TT-TC
* *
22555939 TTTTTTTTC-TTTCAATTTTC
1 TTTTCTCTCATTTCAATTTTC
22555959 TTTTCTCTCATT
1 TTTTCTCTCATT
22555971 CTTTCGTTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
20 9 0.33
21 4 0.15
22 1 0.04
23 4 0.15
24 2 0.07
25 7 0.26
ACGTcount: A:0.12, C:0.23, G:0.02, T:0.63
Consensus pattern (21 bp):
TTTTCTCTCATTTCAATTTTC
Found at i:22560888 original size:36 final size:35
Alignment explanation
Indices: 22560813--22560888 Score: 107
Period size: 35 Copynumber: 2.1 Consensus size: 35
22560803 CCCTTCCGAG
* *
22560813 GTGTCACCTCAAAAGACCTATCTATCCTTTACACG
1 GTGTCACCTCAAAAGACCTATCTAACCTTTACACA
* *
22560848 GTGTCACCTCAAAAGACCTATATTAACGTTTACACA
1 GTGTCACCTCAAAAGACCTAT-CTAACCTTTACACA
22560884 GTGTC
1 GTGTC
22560889 GCAGGGTGTC
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
35 21 0.58
36 15 0.42
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.29
Consensus pattern (35 bp):
GTGTCACCTCAAAAGACCTATCTAACCTTTACACA
Found at i:22561760 original size:35 final size:35
Alignment explanation
Indices: 22561714--22561784 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
22561704 AATTTGTAAA
22561714 CAAAATTTGAGGGAAATTCCTTTTGTACGAATGAC
1 CAAAATTTGAGGGAAATTCCTTTTGTACGAATGAC
22561749 CAAAATTTGAGGGAAATTCCTTTTGTACGAATGAC
1 CAAAATTTGAGGGAAATTCCTTTTGTACGAATGAC
22561784 C
1 C
22561785 CATCTCTCCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (35 bp):
CAAAATTTGAGGGAAATTCCTTTTGTACGAATGAC
Found at i:22562836 original size:8 final size:8
Alignment explanation
Indices: 22562823--22562862 Score: 55
Period size: 8 Copynumber: 5.0 Consensus size: 8
22562813 CAAAATATAT
22562823 CAAAAAAA
1 CAAAAAAA
22562831 CAAAAAAA
1 CAAAAAAA
*
22562839 TAAAAAAA
1 CAAAAAAA
22562847 -ATAAAAAA
1 CA-AAAAAA
22562855 CAAAAAAA
1 CAAAAAAA
22562863 ACCTGGACTG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
7 1 0.03
8 27 0.93
9 1 0.03
ACGTcount: A:0.88, C:0.07, G:0.00, T:0.05
Consensus pattern (8 bp):
CAAAAAAA
Found at i:22563013 original size:18 final size:17
Alignment explanation
Indices: 22562990--22563167 Score: 73
Period size: 19 Copynumber: 10.0 Consensus size: 17
22562980 GAAGGAGAGG
22562990 GGAAG-AAGAAGAAAGAAA
1 GGAAGAAAGAA-AAAG-AA
22563008 GGAAGAAAGAAAAAGAA
1 GGAAGAAAGAAAAAGAA
* *
22563025 GG-A-AAAGGAAAGGAGA
1 GGAAGAAAGAAAAAGA-A
22563041 GGAAAGAAAGAAAAAGAA
1 GG-AAGAAAGAAAAAGAA
** *
22563059 GGAAAGAAAAGGAAAGGGGA
1 GG-AAG-AAA-GAAAAAGAA
*
22563079 GGAAAGAAAGAAAAATAA
1 GG-AAGAAAGAAAAAGAA
* *
22563097 TGAAAGAAAAGGAAAGGAGAA
1 -GGAAG-AAA-GAAA-AAGAA
22563118 GAGAA-AAA-AAAAAGAA
1 G-GAAGAAAGAAAAAGAA
* **
22563134 AGAAG-AAGAAGAGGGAA
1 GGAAGAAAGAA-AAAGAA
22563151 GGAAGGAAA-AAAAAGAA
1 GGAA-GAAAGAAAAAGAA
22563168 AATAAGGTAA
Statistics
Matches: 121, Mismatches: 22, Indels: 35
0.68 0.12 0.20
Matches are distributed among these distances:
15 14 0.12
16 10 0.08
17 18 0.15
18 28 0.23
19 29 0.24
20 17 0.14
21 5 0.04
ACGTcount: A:0.66, C:0.00, G:0.33, T:0.01
Consensus pattern (17 bp):
GGAAGAAAGAAAAAGAA
Found at i:22563023 original size:10 final size:10
Alignment explanation
Indices: 22562992--22563063 Score: 54
Period size: 10 Copynumber: 6.6 Consensus size: 10
22562982 AGGAGAGGGG
*
22562992 AAGAAGAAGA
1 AAGAAAAAGA
22563002 AAGAAAGGAAGA
1 AAGAAA--AAGA
22563014 AAGAAAAAGA
1 AAGAAAAAGA
* *
22563024 AGGAAAAGGA
1 AAGAAAAAGA
22563034 AAGGAGAGGAAAGA
1 AA-GA-A--AAAGA
22563048 AAGAAAAAGA
1 AAGAAAAAGA
*
22563058 AGGAAA
1 AAGAAA
22563064 GAAAAGGAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
10 28 0.56
11 2 0.04
12 12 0.24
13 2 0.04
14 6 0.12
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (10 bp):
AAGAAAAAGA
Found at i:22563023 original size:22 final size:23
Alignment explanation
Indices: 22562992--22563093 Score: 73
Period size: 24 Copynumber: 4.3 Consensus size: 23
22562982 AGGAGAGGGG
*
22562992 AAGAAGAAGAAAG-AAAGGAAGA
1 AAGAAAAAGAAAGAAAAGGAAGA
*
22563014 AAGAAAAAGAAGGAAAAGGAA-A
1 AAGAAAAAGAAAGAAAAGGAAGA
* * *
22563036 GGAGAGGAAAGAAAGAAAAAGAAGGA
1 -AAGA-AAAAGAAAGAAAAGGAA-GA
* ***
22563062 AAGAAAAGGAAAGGGGAGGAAAGA
1 AAGAAAAAGAAAGAAAAGG-AAGA
22563086 AAGAAAAA
1 AAGAAAAA
22563094 TAATGAAAGA
Statistics
Matches: 60, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
22 12 0.20
23 10 0.17
24 32 0.53
25 5 0.08
26 1 0.02
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (23 bp):
AAGAAAAAGAAAGAAAAGGAAGA
Found at i:22563029 original size:14 final size:13
Alignment explanation
Indices: 22562995--22563145 Score: 52
Period size: 13 Copynumber: 11.5 Consensus size: 13
22562985 AGAGGGGAAG
22562995 AAGAAGAAAG-AA
1 AAGAAGAAAGAAA
*
22563007 AGGAAGAAAGAAA
1 AAGAAGAAAGAAA
22563020 AAGAAGGAAAAGGAAA
1 AAGAA-G-AAA-GAAA
22563036 GGAGAGGAAAGAAAGAAA
1 --A-A-G-AAGAAAGAAA
22563054 AAGAAGGAAAG-AA
1 AAGAA-GAAAGAAA
***
22563067 AAG--GAAAGGGG
1 AAGAAGAAAGAAA
*
22563078 AGGAAAGAAAGAAA
1 AAG-AAGAAAGAAA
*
22563092 AATAATGAAAG-AA
1 AAGAA-GAAAGAAA
* *
22563105 AAG--GAAAGGAG
1 AAGAAGAAAGAAA
22563116 AAG-AGAAA-AAA
1 AAGAAGAAAGAAA
*
22563127 AA-AAGAAAGAAG
1 AAGAAGAAAGAAA
22563139 AAGAAGA
1 AAGAAGA
22563146 GGGAAGGAAG
Statistics
Matches: 104, Mismatches: 15, Indels: 39
0.66 0.09 0.25
Matches are distributed among these distances:
10 10 0.10
11 14 0.13
12 17 0.16
13 23 0.22
14 18 0.17
15 4 0.04
16 5 0.05
18 5 0.05
19 4 0.04
20 2 0.02
21 2 0.02
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (13 bp):
AAGAAGAAAGAAA
Found at i:22563038 original size:5 final size:5
Alignment explanation
Indices: 22563023--22563114 Score: 50
Period size: 5 Copynumber: 19.0 Consensus size: 5
22563013 AAAGAAAAAG
* * * *
22563023 AAGGAA AAGGA AAGGA GAGGA AA-GA AAGAA AAAG- AAGGA AAGAA AAGGA
1 AAGG-A AAGGA AAGGA AAGGA AAGGA AAGGA AAGGA AAGGA AAGGA AAGGA
* * * * *
22563072 AAGGG GAGGA AA-GA AA-GA AA-AA TAATGA AAGAA AAGGA AAGGA
1 AAGGA AAGGA AAGGA AAGGA AAGGA -AAGGA AAGGA AAGGA AAGGA
22563115 GAAGAGAAAA
Statistics
Matches: 65, Mismatches: 17, Indels: 9
0.71 0.19 0.10
Matches are distributed among these distances:
4 16 0.25
5 44 0.68
6 5 0.08
ACGTcount: A:0.64, C:0.00, G:0.34, T:0.02
Consensus pattern (5 bp):
AAGGA
Found at i:22563050 original size:28 final size:28
Alignment explanation
Indices: 22562995--22563074 Score: 85
Period size: 34 Copynumber: 2.8 Consensus size: 28
22562985 AGAGGGGAAG
22562995 AAGAA-GAAAG-AAAGG-AAGAAAGAAA
1 AAGAAGGAAAGAAAAGGAAAGAAAGAAA
22563020 AAGAAGGAAAAGGAAAGGAGAGGAAAGAAAGAAA
1 AAGAAGG-AAA-G-AA--A-AGGAAAGAAAGAAA
22563054 AAGAAGGAAAGAAAAGGAAAG
1 AAGAAGGAAAGAAAAGGAAAG
22563075 GGGAGGAAAG
Statistics
Matches: 46, Mismatches: 0, Indels: 15
0.75 0.00 0.25
Matches are distributed among these distances:
25 5 0.11
26 1 0.02
27 3 0.07
28 8 0.17
29 1 0.02
30 1 0.02
31 2 0.04
32 2 0.04
33 6 0.13
34 17 0.37
ACGTcount: A:0.68, C:0.00, G:0.33, T:0.00
Consensus pattern (28 bp):
AAGAAGGAAAGAAAAGGAAAGAAAGAAA
Found at i:22563068 original size:38 final size:38
Alignment explanation
Indices: 22563010--22563169 Score: 163
Period size: 38 Copynumber: 4.3 Consensus size: 38
22563000 GAAAGAAAGG
22563010 AAGAAAGAAAAAGAA-G---GAAAAGGAAAGGAGAGGA
1 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAGGA
*
22563044 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGGGAGGA
1 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAGGA
* * *
22563082 AAGAAAGAAAAATAATGAAAGAAAAGGAAAGGAGAAGA
1 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAGGA
* * *
22563120 GAA-AAA-AAAAAGAAAGAAGAAGAAGAGGGAAGGA-AGGAA
1 -AAGAAAGAAAAAG-AAGGA-AAGAAAAGGAAAGGAGAGG-A
*
22563159 AAAAAAGAAAA
1 AAGAAAGAAAA
22563170 TAAGGTAATT
Statistics
Matches: 105, Mismatches: 11, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
34 15 0.14
35 1 0.01
37 5 0.05
38 61 0.58
39 19 0.18
40 4 0.04
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (38 bp):
AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAGGA
Found at i:22563070 original size:10 final size:10
Alignment explanation
Indices: 22563012--22563112 Score: 70
Period size: 10 Copynumber: 10.5 Consensus size: 10
22563002 AAGAAAGGAA
*
22563012 GAAAGAAAAA
1 GAAAGAAAAG
*
22563022 GAAGGAAAAG
1 GAAAGAAAAG
* *
22563032 GAAAGGAGAG
1 GAAAGAAAAG
22563042 GAAAG-AAA-
1 GAAAGAAAAG
22563050 GAAA-AAGAAG
1 GAAAGAA-AAG
22563060 GAAAGAAAAG
1 GAAAGAAAAG
***
22563070 GAAAGGGGAG
1 GAAAGAAAAG
22563080 GAAAG-AAA-
1 GAAAGAAAAG
*
22563088 GAAA-AATAAT
1 GAAAGAA-AAG
22563098 GAAAGAAAAG
1 GAAAGAAAAG
22563108 GAAAG
1 GAAAG
22563113 GAGAAGAGAA
Statistics
Matches: 71, Mismatches: 12, Indels: 16
0.72 0.12 0.16
Matches are distributed among these distances:
8 10 0.14
9 7 0.10
10 50 0.70
11 4 0.06
ACGTcount: A:0.65, C:0.00, G:0.33, T:0.02
Consensus pattern (10 bp):
GAAAGAAAAG
Found at i:22563867 original size:20 final size:19
Alignment explanation
Indices: 22563839--22563887 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
22563829 AAAATATATA
* * *
22563839 TAATATTTTGGTATTTTTTT
1 TAATGTTTTAGTA-TTTTTG
*
22563859 TAATGTTTTATTATTTTTG
1 TAATGTTTTAGTATTTTTG
22563878 TAATGTTTTA
1 TAATGTTTTA
22563888 TTATAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.22, C:0.00, G:0.10, T:0.67
Consensus pattern (19 bp):
TAATGTTTTAGTATTTTTG
Found at i:22563881 original size:19 final size:18
Alignment explanation
Indices: 22563850--22563891 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 18
22563840 AATATTTTGG
22563850 TATT-TTTTTTAATGTTT
1 TATTATTTTTTAATGTTT
22563867 TATTATTTTTGTAATGTTT
1 TATTATTTTT-TAATGTTT
22563886 TATTAT
1 TATTAT
22563892 AGGTTTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.71
Consensus pattern (18 bp):
TATTATTTTTTAATGTTT
Found at i:22563983 original size:27 final size:29
Alignment explanation
Indices: 22563929--22563997 Score: 108
Period size: 27 Copynumber: 2.5 Consensus size: 29
22563919 ATAAAAAAAA
22563929 TTACCAAAATAT-TATAACTTTTTCTTAT
1 TTACCAAAATATATATAACTTTTTCTTAT
*
22563957 TTACCAAAAAATATATAA-TTTTT-TTAT
1 TTACCAAAATATATATAACTTTTTCTTAT
22563984 TTACCAAAATATAT
1 TTACCAAAATATAT
22563998 CAAAAAAAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 17 0.45
28 16 0.42
29 5 0.13
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.46
Consensus pattern (29 bp):
TTACCAAAATATATATAACTTTTTCTTAT
Found at i:22568768 original size:18 final size:18
Alignment explanation
Indices: 22568742--22568776 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22568732 ATCCCAATGA
* *
22568742 TCGCCACCACCTTCTTCT
1 TCGCAACCACATTCTTCT
22568760 TCGCAACCACATTCTTC
1 TCGCAACCACATTCTTC
22568777 GCAACCACTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.46, G:0.06, T:0.31
Consensus pattern (18 bp):
TCGCAACCACATTCTTCT
Found at i:22568776 original size:15 final size:15
Alignment explanation
Indices: 22568756--22568784 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
22568746 CACCACCTTC
22568756 TTCTTCGCAACCACA
1 TTCTTCGCAACCACA
22568771 TTCTTCGCAACCAC
1 TTCTTCGCAACCAC
22568785 TAACCATATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.41, G:0.07, T:0.28
Consensus pattern (15 bp):
TTCTTCGCAACCACA
Found at i:22569913 original size:10 final size:9
Alignment explanation
Indices: 22569898--22569949 Score: 54
Period size: 9 Copynumber: 5.8 Consensus size: 9
22569888 ATCAGTCCAG
22569898 GTTTTTTTCT
1 GTTTTTTT-T
22569908 GTTTTTTATT
1 GTTTTTT-TT
22569918 -TTTTTTTT
1 GTTTTTTTT
*
22569926 ATTTTTTTT
1 GTTTTTTTT
*
22569935 -TGTTTTTT
1 GTTTTTTTT
22569943 GTTTTTT
1 GTTTTTT
22569950 GATATATTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
8 9 0.24
9 19 0.51
10 8 0.22
11 1 0.03
ACGTcount: A:0.04, C:0.02, G:0.08, T:0.87
Consensus pattern (9 bp):
GTTTTTTTT
Found at i:22569919 original size:7 final size:7
Alignment explanation
Indices: 22569901--22569950 Score: 57
Period size: 7 Copynumber: 7.0 Consensus size: 7
22569891 AGTCCAGGTT
22569901 TTTTTCTG
1 TTTTT-TG
*
22569909 TTTTTTA
1 TTTTTTG
22569916 TTTTTT-
1 TTTTTTG
*
22569922 TTTTATTT
1 TTTT-TTG
22569930 TTTTTTG
1 TTTTTTG
22569937 TTTTTTG
1 TTTTTTG
22569944 TTTTTTG
1 TTTTTTG
22569951 ATATATTTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
6 4 0.11
7 25 0.66
8 9 0.24
ACGTcount: A:0.04, C:0.02, G:0.08, T:0.86
Consensus pattern (7 bp):
TTTTTTG
Found at i:22569923 original size:11 final size:11
Alignment explanation
Indices: 22569909--22569948 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
22569899 TTTTTTTCTG
22569909 TTTTTTATTTT
1 TTTTTTATTTT
22569920 TTTTTTATTTT
1 TTTTTTATTTT
22569931 TTTTTGT-TTTT
1 TTTTT-TATTTT
22569942 TGTTTTT
1 T-TTTTT
22569949 TGATATATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 22 0.81
12 5 0.19
ACGTcount: A:0.05, C:0.00, G:0.05, T:0.90
Consensus pattern (11 bp):
TTTTTTATTTT
Found at i:22569959 original size:28 final size:29
Alignment explanation
Indices: 22569899--22569959 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
22569889 TCAGTCCAGG
* *
22569899 TTTTTTTCTGTTTTTTATTTTTTTTTTAT
1 TTTTTTTCTGTTTTTTATTTTTTATATAT
*
22569928 TTTTTTT-TGTTTTTTGTTTTTTGATATAT
1 TTTTTTTCTGTTTTTTATTTTTT-ATATAT
22569957 TTT
1 TTT
22569960 GGTAAATAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 14 0.50
29 14 0.50
ACGTcount: A:0.08, C:0.02, G:0.07, T:0.84
Consensus pattern (29 bp):
TTTTTTTCTGTTTTTTATTTTTTATATAT
Found at i:22569981 original size:27 final size:28
Alignment explanation
Indices: 22569951--22570018 Score: 113
Period size: 27 Copynumber: 2.5 Consensus size: 28
22569941 TTGTTTTTTG
22569951 ATATATTTTGGTAAAT-AAAAAAATTAT
1 ATATATTTTGGTAAATAAAAAAAATTAT
22569978 ATATATTTTGGTAAATAAAAAAAATTAT
1 ATATATTTTGGTAAATAAAAAAAATTAT
*
22570006 A-ACATTTTGGTAA
1 ATATATTTTGGTAA
22570019 TTTTTTATTT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 27 0.69
28 12 0.31
ACGTcount: A:0.50, C:0.01, G:0.09, T:0.40
Consensus pattern (28 bp):
ATATATTTTGGTAAATAAAAAAAATTAT
Found at i:22574470 original size:23 final size:23
Alignment explanation
Indices: 22574440--22574492 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
22574430 TGGCACCAAC
*
22574440 ACTGTAATATCCCGAAAATTACT
1 ACTGTAATACCCCGAAAATTACT
*
22574463 ACTGTAATACCCCGAAAGTTACT
1 ACTGTAATACCCCGAAAATTACT
*
22574486 ACAGTAA
1 ACTGTAA
22574493 GAAAGTAGGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.40, C:0.23, G:0.11, T:0.26
Consensus pattern (23 bp):
ACTGTAATACCCCGAAAATTACT
Found at i:22575662 original size:45 final size:45
Alignment explanation
Indices: 22575611--22575700 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 45
22575601 ATGTGAACTA
* * *
22575611 GACATCATTTATTAGTAAGGTGGTTGTTATGTGCT-AATTCCACCG
1 GACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAA-TCCACCG
22575656 GACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCG
1 GACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCG
22575701 AGTATCTGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
45 39 0.95
46 2 0.05
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (45 bp):
GACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCG
Found at i:22589583 original size:29 final size:29
Alignment explanation
Indices: 22589551--22589678 Score: 170
Period size: 29 Copynumber: 4.4 Consensus size: 29
22589541 GGGAGTAACG
* *
22589551 GGCCATAT-AATGGTGATTTAGGCCTAATA
1 GGCCATATGAAT-GTGAATTGGGCCTAATA
* *
22589580 GGCCATATGAATATGAATTGGGCCTAATG
1 GGCCATATGAATGTGAATTGGGCCTAATA
*
22589609 GGCCATATGAATGTGAATTGGGCCTGATA
1 GGCCATATGAATGTGAATTGGGCCTAATA
*
22589638 GGCCATATGAATGTGAATTGGGCTTAAT-
1 GGCCATATGAATGTGAATTGGGCCTAATA
*
22589666 GGGCATATGAATG
1 GGCCATATGAATG
22589679 AGATGGGCCA
Statistics
Matches: 88, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
28 12 0.14
29 73 0.83
30 3 0.03
ACGTcount: A:0.30, C:0.12, G:0.29, T:0.29
Consensus pattern (29 bp):
GGCCATATGAATGTGAATTGGGCCTAATA
Found at i:22589633 original size:58 final size:58
Alignment explanation
Indices: 22589550--22589678 Score: 190
Period size: 58 Copynumber: 2.2 Consensus size: 58
22589540 TGGGAGTAAC
*
22589550 GGGCCATAT-AATGGTGATTTAGGCCTAATAGGCCATATGAATATGAATTGGGCCTAAT
1 GGGCCATATGAAT-GTGAATTAGGCCTAATAGGCCATATGAATATGAATTGGGCCTAAT
* * * *
22589608 GGGCCATATGAATGTGAATTGGGCCTGATAGGCCATATGAATGTGAATTGGGCTTAAT
1 GGGCCATATGAATGTGAATTAGGCCTAATAGGCCATATGAATATGAATTGGGCCTAAT
22589666 GGG-CATATGAATG
1 GGGCCATATGAATG
22589679 AGATGGGCCA
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
57 10 0.15
58 52 0.80
59 3 0.05
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.29
Consensus pattern (58 bp):
GGGCCATATGAATGTGAATTAGGCCTAATAGGCCATATGAATATGAATTGGGCCTAAT
Found at i:22594016 original size:28 final size:29
Alignment explanation
Indices: 22593985--22594045 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
22593975 GTGAGCATGA
*
22593985 ATAT-AAGGTGATTT-GAGCCTAACGGGCC
1 ATATAAAGGTGATTTAG-GCCTAACAGGCC
*
22594013 ATATAAAGGTGATTTAGGCCTAATAGGCC
1 ATATAAAGGTGATTTAGGCCTAACAGGCC
22594042 ATAT
1 ATAT
22594046 CAATGGAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 4 0.14
29 24 0.83
30 1 0.03
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.28
Consensus pattern (29 bp):
ATATAAAGGTGATTTAGGCCTAACAGGCC
Found at i:22597696 original size:13 final size:13
Alignment explanation
Indices: 22597678--22597707 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
22597668 ACAAATATTC
*
22597678 ATATAAACATTTT
1 ATATAAACACTTT
22597691 ATATAAACACTTT
1 ATATAAACACTTT
22597704 ATAT
1 ATAT
22597708 TATTATTTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.43
Consensus pattern (13 bp):
ATATAAACACTTT
Found at i:22598253 original size:135 final size:135
Alignment explanation
Indices: 22598058--22598366 Score: 356
Period size: 135 Copynumber: 2.3 Consensus size: 135
22598048 TTCCAATATG
* * * ** * * *
22598058 ATGCCATAGTATCTTTCAACTATGGTTTTATT-TTTTTGCGACAT-GATGCCATAGTTTCTTTTA
1 ATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTT-CGGTATAG-TACCATAGTGTCTTTCA
* ** * *
22598121 ACTATGGTCTTATTTATTTTGGACA-AGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTT
64 ACTATGGTCTTATTCATTTCCGACATAG-TACCATAGTGTCTTTCAACTATGGTCTTATTCACTT
*
22598185 TCGTCATG
128 TCGTCATA
*
22598193 TTGCCATAGTGTCCTTT-AACTATGGTCTTATTCATTTTCGGTATAGTACCATAGTGTCTTTCAA
1 ATGCCATAGTGT-CTTTCAACTATGGTCTTATTCATTTTCGGTATAGTACCATAGTGTCTTTCAA
** *
22598257 CTATTTTCTTATTCATTTCCGATATAGTACCATAGTGTCTTTCAACTATGGTCTTATTCACTTTC
65 CTATGGTCTTATTCATTTCCGACATAGTACCATAGTGTCTTTCAACTATGGTCTTATTCACTTTC
*
22598322 GTTATA
130 GTCATA
* * *
22598328 ATGCCATATTGTTTTTCAACTATGTTCTTATTCATTTTC
1 ATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTC
22598367 CAAGCCAATG
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
134 3 0.02
135 132 0.90
136 11 0.08
ACGTcount: A:0.22, C:0.18, G:0.13, T:0.47
Consensus pattern (135 bp):
ATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCGGTATAGTACCATAGTGTCTTTCAAC
TATGGTCTTATTCATTTCCGACATAGTACCATAGTGTCTTTCAACTATGGTCTTATTCACTTTCG
TCATA
Found at i:22598360 original size:45 final size:45
Alignment explanation
Indices: 22598058--22598366 Score: 318
Period size: 45 Copynumber: 6.9 Consensus size: 45
22598048 TTCCAATATG
* * * ** *
22598058 ATGCCATAGTATCTTTCAACTATGGTTTTATT-TTTTTGCGACATG
1 ATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTT-CGTTATA
* * * * **
22598103 ATGCCATAGTTTCTTTTAACTATGGTCTTATTTATTTTGGACA-A
1 ATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCGTTATA
* *
22598147 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCGTCATG
1 -ATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCGTTATA
* *
22598193 TTGCCATAGTGTCCTTT-AACTATGGTCTTATTCATTTTCGGTATA
1 ATGCCATAGTGT-CTTTCAACTATGGTCTTATTCATTTTCGTTATA
* * ** * *
22598238 GTACCATAGTGTCTTTCAACTATTTTCTTATTCATTTCCGATATA
1 ATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCGTTATA
* * *
22598283 GTACCATAGTGTCTTTCAACTATGGTCTTATTCACTTTCGTTATA
1 ATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCGTTATA
* * *
22598328 ATGCCATATTGTTTTTCAACTATGTTCTTATTCATTTTC
1 ATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTC
22598367 CAAGCCAATG
Statistics
Matches: 226, Mismatches: 33, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
44 4 0.02
45 214 0.95
46 8 0.04
ACGTcount: A:0.22, C:0.18, G:0.13, T:0.47
Consensus pattern (45 bp):
ATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTCGTTATA
Found at i:22599993 original size:49 final size:49
Alignment explanation
Indices: 22599916--22600097 Score: 213
Period size: 49 Copynumber: 3.7 Consensus size: 49
22599906 ACTATTGTGA
* * *
22599916 GGTCACATGTGTAGTACTACGTGCAGGCTACTACGTGTACTGGATAATT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATT
* * * ** *
22599965 GGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAA-T-T
* * *
22600016 GATCAG-GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTATT
1 GGTC-GCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATT
*
22600065 GGTCGCATGTGCAGTACTAAGTGCAGGCTACTA
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
22600098 TGCGTACCAG
Statistics
Matches: 109, Mismatches: 20, Indels: 8
0.80 0.15 0.06
Matches are distributed among these distances:
48 1 0.01
49 68 0.62
50 2 0.02
51 37 0.34
52 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATT
Found at i:22600096 original size:100 final size:100
Alignment explanation
Indices: 22599923--22600105 Score: 321
Period size: 100 Copynumber: 1.8 Consensus size: 100
22599913 TGAGGTCACA
* * *
22599923 TGTGTAGTACTACGTGCAGGCTACTACGTGTACTGGATAATTGGTCGCATGTGTAGTACTAAGTG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATTGGTCGCATGTGCAGTACTAAGTG
*
22599988 TAGGCTACTATGCGTACCCGAAAACTGTGATCAGG
66 CAGGCTACTATGCGTACCCGAAAACTGTGATCAGG
*
22600023 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTATTGGTCGCATGTGCAGTACTAAGTG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATTGGTCGCATGTGCAGTACTAAGTG
22600088 CAGGCTACTATGCGTACC
66 CAGGCTACTATGCGTACC
22600106 AGACAACTTC
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 78 1.00
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.30
Consensus pattern (100 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATTGGTCGCATGTGCAGTACTAAGTG
CAGGCTACTATGCGTACCCGAAAACTGTGATCAGG
Found at i:22605328 original size:46 final size:46
Alignment explanation
Indices: 22605261--22605621 Score: 278
Period size: 46 Copynumber: 7.8 Consensus size: 46
22605251 TGTAACCCAC
22605261 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
*
22605307 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCACAT
* * * * * * *
22605357 --TTCA-CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
*
22605400 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCACAT
* * * * * * *
22605450 --TTCA-CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
*
22605493 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCACAT
* * * * * * *
22605543 --TTCA-CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
*
22605586 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG
22605622 ATGCTCAACC
Statistics
Matches: 242, Mismatches: 46, Indels: 54
0.71 0.13 0.16
Matches are distributed among these distances:
42 6 0.02
43 9 0.04
44 3 0.01
45 6 0.02
46 113 0.47
47 78 0.32
48 7 0.03
49 3 0.01
50 10 0.04
51 7 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
Found at i:22605380 original size:93 final size:93
Alignment explanation
Indices: 22605268--22605625 Score: 671
Period size: 93 Copynumber: 3.8 Consensus size: 93
22605258 CACCCATAAG
* * * * *
22605268 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
22605333 ACGAGCTCGGATGCCTAGTTACATTTCA
66 ACGAGCTCGGATGCCTAGTTACATTTCA
22605361 CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
22605426 ACGAGCTCGGATGCCTAGTTACATTTCA
66 ACGAGCTCGGATGCCTAGTTACATTTCA
22605454 CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
22605519 ACGAGCTCGGATGCCTAGTTACATTTCA
66 ACGAGCTCGGATGCCTAGTTACATTTCA
22605547 CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
22605612 ACGAGCTCGGATGC
66 ACGAGCTCGGATGC
22605626 TCAACCATCC
Statistics
Matches: 260, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 260 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATTTCA
Found at i:22605384 original size:47 final size:47
Alignment explanation
Indices: 22605315--22605570 Score: 262
Period size: 47 Copynumber: 5.5 Consensus size: 47
22605305 ATCCATAAGT
22605315 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATTTCAC
* * * * * *
22605362 GAACTCGGACTCAACTCAACGAGTTTGGA---C-A-TTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT--TTCA-C
22605408 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATTTCAC
* * * * * *
22605455 GAACTCGGACTCAACTCAACGAGTTTGGA---C-A-TTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT--TTCA-C
22605501 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATTTCAC
22605548 GAACTCGGACTCAACTCAACGAG
1 GAACTCGGACTCAACTCAACGAG
22605571 TTTGGACATT
Statistics
Matches: 167, Mismatches: 24, Indels: 36
0.74 0.11 0.16
Matches are distributed among these distances:
42 4 0.02
43 8 0.05
44 2 0.01
45 4 0.02
46 54 0.32
47 77 0.46
48 4 0.02
49 2 0.01
50 8 0.05
51 4 0.02
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.23
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATTTCAC
Found at i:22611218 original size:93 final size:93
Alignment explanation
Indices: 22611110--22611281 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
22611100 CGCCCATAAG
* *
22611110 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTTGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
22611174 AACGAGCTCGGATGCCTAGTTACATTTCA
65 AACGAGCTCGGATGCCTAGTTACATTTCA
*
22611203 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
22611268 ACGAGTTCGGATGC
66 ACGAGCTCGGATGC
22611282 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATTTCA
Found at i:22611273 original size:46 final size:45
Alignment explanation
Indices: 22611103--22611278 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 45
22611093 TGTAACCCGC
*
22611103 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC-GGAC-ATTGCAT
* *
22611149 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTGCAT
* * *
22611199 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATT-GCAT
* *
22611242 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
22611279 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 4 0.04
46 62 0.57
47 28 0.26
48 2 0.02
49 1 0.01
50 5 0.05
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (45 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTGCAT
Found at i:22611735 original size:31 final size:30
Alignment explanation
Indices: 22611700--22611758 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
22611690 TTAACTCAAG
22611700 TTTTGGCAAACTTACAATTTTGCCCCTAAAC
1 TTTT-GCAAACTTACAATTTTGCCCCTAAAC
* * * *
22611731 TTTTGCATATTTACATTTTTTCCCCTAA
1 TTTTGCAAACTTACAATTTTGCCCCTAA
22611759 GCTCGAGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.25, C:0.24, G:0.07, T:0.44
Consensus pattern (30 bp):
TTTTGCAAACTTACAATTTTGCCCCTAAAC
Found at i:22624458 original size:27 final size:27
Alignment explanation
Indices: 22624404--22624460 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
22624394 TACACACGAG
* *
22624404 GGGCAAAATAGTCATTTAACACCTTAA
1 GGGCAAAATAGTAATTTAACACCATAA
* * *
22624431 GGGCAAAATGGTAATTTTACCCCATAA
1 GGGCAAAATAGTAATTTAACACCATAA
22624458 GGG
1 GGG
22624461 TATCTCGGTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.25
Consensus pattern (27 bp):
GGGCAAAATAGTAATTTAACACCATAA
Found at i:22624620 original size:22 final size:22
Alignment explanation
Indices: 22624593--22624634 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
22624583 TACCCTATAG
*
22624593 GGGTATTTTGGTATTGCTACAA
1 GGGTATTTCGGTATTGCTACAA
*
22624615 GGGTATTTCGGTATTTCTAC
1 GGGTATTTCGGTATTGCTAC
22624635 CCTACAACGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.12, G:0.26, T:0.43
Consensus pattern (22 bp):
GGGTATTTCGGTATTGCTACAA
Found at i:22624650 original size:76 final size:76
Alignment explanation
Indices: 22624533--22624676 Score: 207
Period size: 76 Copynumber: 1.9 Consensus size: 76
22624523 TAATTCTATC
* ** * *
22624533 CTACAAGCTTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTATAGGGGTA
1 CTACAAGCGTATTTCGGTAATTCTACCCTACAACGGCATTTCAATAATTCTACCCTACAGGGGTA
22624598 TTTTGGTATTG
66 TTTTGGTATTG
* * **
22624609 CTACAAGGGTATTTCGGTATTTCTACCCTACAACGGCATTTCGGTAATTCTACCCTACAGGGGTA
1 CTACAAGCGTATTTCGGTAATTCTACCCTACAACGGCATTTCAATAATTCTACCCTACAGGGGTA
22624674 TTT
66 TTT
22624677 CAATAATTCT
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
76 59 1.00
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (76 bp):
CTACAAGCGTATTTCGGTAATTCTACCCTACAACGGCATTTCAATAATTCTACCCTACAGGGGTA
TTTTGGTATTG
Found at i:22624657 original size:103 final size:103
Alignment explanation
Indices: 22624510--22624923 Score: 735
Period size: 103 Copynumber: 4.0 Consensus size: 103
22624500 TCTACCCTAT
* *
22624510 AAGGGTATTTCGGTAATTCTATCCTACAA--GCTTATTTCGGTAATTCTACCCTACAGGGGTATT
1 AAGGGTATTTCGGTATTTCTACCCTACAACGGC--ATTTCGGTAATTCTACCCTACAGGGGTATT
22624573 TCAATAATTCTACCCTATAGGGGTATTTTGGTATTGCTAC
64 TCAATAATTCTACCCTATAGGGGTATTTTGGTATTGCTAC
22624613 AAGGGTATTTCGGTATTTCTACCCTACAACGGCATTTCGGTAATTCTACCCTACAGGGGTATTTC
1 AAGGGTATTTCGGTATTTCTACCCTACAACGGCATTTCGGTAATTCTACCCTACAGGGGTATTTC
*
22624678 AATAATTCTACCCTATAGGGGTATTTTGGTATTCCTAC
66 AATAATTCTACCCTATAGGGGTATTTTGGTATTGCTAC
22624716 AAGGGTATTTCGGTATTTCTACCCTACAACGGCATTTCGGTAATTCTACCCTACAGGGGTATTTC
1 AAGGGTATTTCGGTATTTCTACCCTACAACGGCATTTCGGTAATTCTACCCTACAGGGGTATTTC
22624781 AATAATTCTACCCTATAGGGGTATTTTGGTATTGCTAC
66 AATAATTCTACCCTATAGGGGTATTTTGGTATTGCTAC
22624819 AAGGGTATTTCGGTATTTCTACCCTACAACGGCATTTCGGTAATTCTACCCTACAGGGGTATTTC
1 AAGGGTATTTCGGTATTTCTACCCTACAACGGCATTTCGGTAATTCTACCCTACAGGGGTATTTC
* *
22624884 AATAATTCTACCCTACAGGGGTATTTCGGTAATT-CTAC
66 AATAATTCTACCCTATAGGGGTATTTTGGT-ATTGCTAC
22624922 AA
1 AA
22624924 CTTATCCACT
Statistics
Matches: 302, Mismatches: 6, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
103 297 0.98
104 3 0.01
105 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.36
Consensus pattern (103 bp):
AAGGGTATTTCGGTATTTCTACCCTACAACGGCATTTCGGTAATTCTACCCTACAGGGGTATTTC
AATAATTCTACCCTATAGGGGTATTTTGGTATTGCTAC
Found at i:22624715 original size:76 final size:76
Alignment explanation
Indices: 22624635--22624779 Score: 209
Period size: 76 Copynumber: 1.9 Consensus size: 76
22624625 GTATTTCTAC
** * *
22624635 CCTACAACGGCATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTATAGGGGT
1 CCTACAACGGCATTTCGGTAATTCTACCCTACAACGGCATTTCAATAATTCTACCCTACAGGGGT
22624700 ATTTTGGTATT
66 ATTTTGGTATT
* * * **
22624711 CCTACAAGGGTATTTCGGTATTTCTACCCTACAACGGCATTTCGGTAATTCTACCCTACAGGGGT
1 CCTACAACGGCATTTCGGTAATTCTACCCTACAACGGCATTTCAATAATTCTACCCTACAGGGGT
22624776 ATTT
66 ATTT
22624780 CAATAATTCT
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
76 60 1.00
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (76 bp):
CCTACAACGGCATTTCGGTAATTCTACCCTACAACGGCATTTCAATAATTCTACCCTACAGGGGT
ATTTTGGTATT
Found at i:22624721 original size:22 final size:22
Alignment explanation
Indices: 22624696--22624737 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
22624686 TACCCTATAG
*
22624696 GGGTATTTTGGTATTCCTACAA
1 GGGTATTTCGGTATTCCTACAA
*
22624718 GGGTATTTCGGTATTTCTAC
1 GGGTATTTCGGTATTCCTAC
22624738 CCTACAACGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.14, G:0.24, T:0.43
Consensus pattern (22 bp):
GGGTATTTCGGTATTCCTACAA
Found at i:22624819 original size:76 final size:76
Alignment explanation
Indices: 22624739--22624882 Score: 207
Period size: 76 Copynumber: 1.9 Consensus size: 76
22624729 TATTTCTACC
** * *
22624739 CTACAACGGCATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTATAGGGGTA
1 CTACAACGGCATTTCGGTAATTCTACCCTACAACGGCATTTCAATAATTCTACCCTACAGGGGTA
22624804 TTTTGGTATTG
66 TTTTGGTATTG
* * * **
22624815 CTACAAGGGTATTTCGGTATTTCTACCCTACAACGGCATTTCGGTAATTCTACCCTACAGGGGTA
1 CTACAACGGCATTTCGGTAATTCTACCCTACAACGGCATTTCAATAATTCTACCCTACAGGGGTA
22624880 TTT
66 TTT
22624883 CAATAATTCT
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
76 59 1.00
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (76 bp):
CTACAACGGCATTTCGGTAATTCTACCCTACAACGGCATTTCAATAATTCTACCCTACAGGGGTA
TTTTGGTATTG
Found at i:22624826 original size:22 final size:22
Alignment explanation
Indices: 22624799--22624840 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
22624789 TACCCTATAG
*
22624799 GGGTATTTTGGTATTGCTACAA
1 GGGTATTTCGGTATTGCTACAA
*
22624821 GGGTATTTCGGTATTTCTAC
1 GGGTATTTCGGTATTGCTAC
22624841 CCTACAACGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.12, G:0.26, T:0.43
Consensus pattern (22 bp):
GGGTATTTCGGTATTGCTACAA
Found at i:22624918 original size:27 final size:27
Alignment explanation
Indices: 22624440--22624921 Score: 449
Period size: 27 Copynumber: 18.4 Consensus size: 27
22624430 AGGGCAAAAT
* * * * *
22624440 GGTAATTTTACCCCATAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
22624467 GGTAATTCTACCTTACAGGAGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
22624494 AGTATTTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * **
22624521 GGTAATTCTATCCTACAAGCTTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
22624548 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** * *
22624575 AATAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
22624602 GGT-ATTGCTA--C-A-A-GGGTATTTC
1 GGTAATT-CTACCCTACAGGGGTATTTC
* ** *
22624624 GGTATTTCTACCCTACAACGGCATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
22624651 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** * *
22624678 AATAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
22624705 GGT-A-T-T--CCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* ** *
22624727 GGTATTTCTACCCTACAACGGCATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
22624754 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** * *
22624781 AATAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
22624808 GGT-ATTGCTA--C-A-A-GGGTATTTC
1 GGTAATT-CTACCCTACAGGGGTATTTC
* ** *
22624830 GGTATTTCTACCCTACAACGGCATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
22624857 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
22624884 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
22624911 GGTAATTCTAC
1 GGTAATTCTAC
22624922 AACTTATCCA
Statistics
Matches: 365, Mismatches: 71, Indels: 38
0.77 0.15 0.08
Matches are distributed among these distances:
22 44 0.12
23 6 0.02
24 6 0.02
25 6 0.02
26 9 0.02
27 294 0.81
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:22628625 original size:40 final size:40
Alignment explanation
Indices: 22628565--22628825 Score: 436
Period size: 40 Copynumber: 6.5 Consensus size: 40
22628555 ACCCAAGTAT
* * *
22628565 CTTCGGGATTTAG-CCGGATATAACT-ACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATAT-AGTAACTTGCACAAATGC
* * *
22628604 CTTCGGGACTTCGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
22628644 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
22628684 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
22628724 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
22628764 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
*
22628804 CTTCGAGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
22628826 CATCCGAATA
Statistics
Matches: 212, Mismatches: 8, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
39 13 0.06
40 199 0.94
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
Found at i:22637023 original size:79 final size:81
Alignment explanation
Indices: 22636887--22637069 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
22636877 TCGAATGATG
* *
22636887 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
22636951 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * ** *
22636966 CTCCGGGCTAAG-CCCGAAGGCATTGGTGC-AAGTTACTAAATCCGGGTTAAG-TCCCGAAGGTA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
22637028 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
22637046 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
22637070 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:22637078 original size:40 final size:39
Alignment explanation
Indices: 22636888--22637071 Score: 185
Period size: 40 Copynumber: 4.6 Consensus size: 39
22636878 CGAATGATGT
* * * *
22636888 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* * *
22636928 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAACT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
* *
22636968 CCGGGCTAAG-CCCGAAGGCATTGGTGCAAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
22637006 TCCGGGTTAAGTCCCGAAGGTATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
22637047 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
22637072 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 17, Indels: 14
0.79 0.11 0.09
Matches are distributed among these distances:
39 33 0.28
40 77 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:22642314 original size:28 final size:27
Alignment explanation
Indices: 22642251--22642401 Score: 135
Period size: 27 Copynumber: 5.6 Consensus size: 27
22642241 ATATTGAGCC
* *
22642251 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
22642278 CGCACACTTAGTGCTACGTAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
22642306 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
22642333 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
22642360 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
*
22642387 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
22642402 GTACAATTTA
Statistics
Matches: 103, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
27 79 0.77
28 24 0.23
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:22647027 original size:79 final size:81
Alignment explanation
Indices: 22646891--22647073 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
22646881 TCGAATGATG
* *
22646891 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
22646955 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
22646970 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
22647032 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* * *
22647050 ACCGGGCTATGTCCCGGAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
22647074 TGAACGAGTA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.66
80 29 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:22647082 original size:40 final size:40
Alignment explanation
Indices: 22646891--22647075 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
22646881 TCGAATGATG
* * * *
22646891 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
22646931 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
22646971 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
22647010 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
22647051 -CCGGGCTATGTCCCGGAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
22647076 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:22649842 original size:40 final size:40
Alignment explanation
Indices: 22649764--22649987 Score: 310
Period size: 40 Copynumber: 5.5 Consensus size: 40
22649754 ACCCAAGTAT
* *
22649764 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
22649803 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
22649843 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
22649883 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
22649926 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
22649966 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
22649988 CATCCGAATA
Statistics
Matches: 166, Mismatches: 12, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
39 12 0.07
40 117 0.70
41 1 0.01
43 36 0.22
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:22649960 original size:83 final size:80
Alignment explanation
Indices: 22649764--22649987 Score: 317
Period size: 83 Copynumber: 2.8 Consensus size: 80
22649754 ACCCAAGTAT
* * * *
22649764 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
**
22649828 CACTAGCATGAATGC
66 CACTAGCACAAATGC
* *
22649843 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
22649907 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
*
22649926 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
22649988 CATCCGAATA
Statistics
Matches: 129, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
79 13 0.10
80 49 0.38
83 67 0.52
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:22653374 original size:18 final size:17
Alignment explanation
Indices: 22653351--22653384 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
22653341 CTCTCCTAAA
22653351 ACGATTTCGATCTTTCTC
1 ACGA-TTCGATCTTTCTC
*
22653369 ACGATTCTATCTTTCT
1 ACGATTCGATCTTTCT
22653385 GTATGCTTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.18, C:0.26, G:0.09, T:0.47
Consensus pattern (17 bp):
ACGATTCGATCTTTCTC
Found at i:22654527 original size:26 final size:27
Alignment explanation
Indices: 22654498--22654548 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
22654488 CATAAGTTAG
22654498 TCATTT-ACACACGAGGGGCAAAATTA
1 TCATTTAACACACGAGGGGCAAAATTA
* *
22654524 TCATTTAACACCCTAGGGGCAAAAT
1 TCATTTAACACACGAGGGGCAAAAT
22654549 GGTAATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.24
Consensus pattern (27 bp):
TCATTTAACACACGAGGGGCAAAATTA
Found at i:22654599 original size:27 final size:27
Alignment explanation
Indices: 22654567--22654900 Score: 382
Period size: 27 Copynumber: 12.7 Consensus size: 27
22654557 TACCCCGTAA
* *
22654567 GGGTATCTCGGTAATTCTACCCTATAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* * * *
22654594 GAGTATTTCTGTATTTCTATCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* *
22654621 GGGTATTTTGGTAATTTTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
** * *
22654648 GGGTATTTCAATAATCCTACCCTATAG
1 GGGTATTTCGGTAATTCTACCCTACAG
*
22654675 GGGTATTTCGGT-A-T-T--CCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAG
* *
22654697 GGGTATTTCGGTATTTCTACCCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAG
*
22654724 GGGTATTTCGGTAATTCTACCCTATAG
1 GGGTATTTCGGTAATTCTACCCTACAG
** *
22654751 GGGTATTTCAATAATTCTACCCTATAG
1 GGGTATTTCGGTAATTCTACCCTACAG
*
22654778 GGGTATTTCGGT-A-T-T--CCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAG
* * *
22654800 GGGTATTTTGGTATTTCTACCCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAG
22654827 GGGTATTTCGGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
*
22654854 GGGTATTTCGATAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
22654881 GGGTATTTCGGTAATTCTAC
1 GGGTATTTCGGTAATTCTAC
22654901 AACTTATCCA
Statistics
Matches: 257, Mismatches: 40, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
22 33 0.13
24 4 0.02
25 3 0.01
26 2 0.01
27 215 0.84
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (27 bp):
GGGTATTTCGGTAATTCTACCCTACAG
Found at i:22654728 original size:103 final size:103
Alignment explanation
Indices: 22654596--22654902 Score: 508
Period size: 103 Copynumber: 3.0 Consensus size: 103
22654586 CCCTATAGGA
* * * * *
22654596 GTATTTCTGTATTTCTATCCTACAGGGGTATTTTGGTAATTTTACCCTACAGGGGTATTTCAATA
1 GTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATA
*
22654661 ATCCTACCCTATAGGGGTATTTCGGTATTCCTACAAGG
66 ATTCTACCCTATAGGGGTATTTCGGTATTCCTACAAGG
*
22654699 GTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCAATA
1 GTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATA
22654764 ATTCTACCCTATAGGGGTATTTCGGTATTCCTACAAGG
66 ATTCTACCCTATAGGGGTATTTCGGTATTCCTACAAGG
* *
22654802 GTATTTTGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATA
1 GTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATA
*
22654867 ATTCTACCCTACAGGGGTATTTCGGTAATT-CTACAA
66 ATTCTACCCTATAGGGGTATTTCGGT-ATTCCTACAA
22654903 CTTATCCACT
Statistics
Matches: 192, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
103 189 0.98
104 3 0.02
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.37
Consensus pattern (103 bp):
GTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATA
ATTCTACCCTATAGGGGTATTTCGGTATTCCTACAAGG
Found at i:22654729 original size:76 final size:76
Alignment explanation
Indices: 22654613--22654900 Score: 282
Period size: 76 Copynumber: 3.7 Consensus size: 76
22654603 TGTATTTCTA
* * * ** *
22654613 TCCTACAGGGGTATTTTGGTAATTTTACCCTACAGGGGTATTTCAATAATCCTACCCTATAGGGG
1 TCCTACAAGGGTATTTCGGT-ATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGG
22654678 TATTTCGGT-AT
65 TATTTCGGTAAT
22654689 TCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGG
1 TCCTACAAGGGTATTTCGGTATTT-TACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGG
**
22654754 TATTTCAATAAT
65 TATTTCGGTAAT
* * *
22654766 T-CTACCCTATAGGGGTATTTCGGTA--TT--CCTACAAGGGTATTTTGGTATTTCTACCCTACA
1 TCCTA--C-A-A-GGGTATTTCGGTATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTATA
*
22654826 AGGGTATTTCGGTAATT
61 GGGGTATTTCGGTAA-T
* * * *
22654843 CTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
1 -T--CCTACAAGGGTATTTCGGT-ATTTTACCCTACAAGGGTATTTCGGTAATTCTAC
22654901 AACTTATCCA
Statistics
Matches: 175, Mismatches: 20, Indels: 29
0.78 0.09 0.13
Matches are distributed among these distances:
75 4 0.02
76 117 0.67
77 5 0.03
78 4 0.02
79 4 0.02
80 1 0.01
81 40 0.23
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (76 bp):
TCCTACAAGGGTATTTCGGTATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGT
ATTTCGGTAAT
Found at i:22654742 original size:130 final size:128
Alignment explanation
Indices: 22654565--22654900 Score: 410
Period size: 130 Copynumber: 2.6 Consensus size: 128
22654555 TTTACCCCGT
* * * * *
22654565 AAGGGTATCTCGGTAATTCTACCCTA-TAGGAGTATTTCTGTATTTCTATCCTACAGGGGTATTT
1 AAGGGTATTTCGGTAATTCTACCCTACAAGG-GTATTTCGGTAATTCTACCCTACAGGGGTATTT
* *
22654629 TGGTAATTTTACCCTACAGGGGTATTTCAATAATCCTACCCTATAGGGGTATTTCGGTA-T-T-C
65 CGGTAATTCTACCCTACAGGGGTATTTCAATAATCCTA--C-A-A-GGGTATTTCGGTATTCTAC
22654691 CTAC
125 CTAC
* *
22654695 AAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTC
1 AAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
** * ** * *
22654760 AATAATTCTACCCTATAGGGGTATTTCGGTATTCCTACAAGGGTATTTTGGTATTTCTACCCTAC
66 GGTAATTCTACCCTACAGGGGTATTTCAATAATCCTACAAGGGTATTTCGGTA-TTCTA-CCTAC
* *
22654825 AAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTC
1 AAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
22654890 GGTAATTCTAC
66 GGTAATTCTAC
22654901 AACTTATCCA
Statistics
Matches: 178, Mismatches: 22, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
125 12 0.07
126 1 0.01
127 2 0.01
128 2 0.01
130 158 0.89
131 3 0.02
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (128 bp):
AAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
GGTAATTCTACCCTACAGGGGTATTTCAATAATCCTACAAGGGTATTTCGGTATTCTACCTAC
Found at i:22660931 original size:16 final size:17
Alignment explanation
Indices: 22660899--22660931 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
22660889 CATCAAGAAA
22660899 GGTTTTCAATGAAAACAT
1 GGTTTTCAA-GAAAACAT
22660917 GGTTTTCAA-AAAACA
1 GGTTTTCAAGAAAACA
22660932 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (17 bp):
GGTTTTCAAGAAAACAT
Found at i:22663701 original size:16 final size:16
Alignment explanation
Indices: 22663677--22663707 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22663667 GAATAATAGT
22663677 AAATACATGAATTTAG
1 AAATACATGAATTTAG
*
22663693 AAATCCATGAATTTA
1 AAATACATGAATTTA
22663708 AACTACCAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.32
Consensus pattern (16 bp):
AAATACATGAATTTAG
Found at i:22668512 original size:21 final size:20
Alignment explanation
Indices: 22668488--22668526 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
22668478 CCGAGTTGAT
22668488 TTCGTACTTTGGCCCATTTTC
1 TTCGT-CTTTGGCCCATTTTC
* *
22668509 TTCGTTTTTGGCTCATTT
1 TTCGTCTTTGGCCCATTT
22668527 CTCGTTCCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.08, C:0.23, G:0.15, T:0.54
Consensus pattern (20 bp):
TTCGTCTTTGGCCCATTTTC
Found at i:22670280 original size:40 final size:40
Alignment explanation
Indices: 22670226--22670360 Score: 216
Period size: 40 Copynumber: 3.4 Consensus size: 40
22670216 CGAATGTAAC
*
22670226 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* * *
22670266 AACACGCACGAATGCCTTTGGAACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* *
22670306 AACCCGCACGAATGCCTTCGGGACTTCACCCGGTTGTAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
22670346 AACCCGCACGAATGC
1 AACCCGCACGAATGC
22670361 TATGCACATA
Statistics
Matches: 86, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 86 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:22683937 original size:40 final size:40
Alignment explanation
Indices: 22683699--22683929 Score: 290
Period size: 40 Copynumber: 5.8 Consensus size: 40
22683689 TTGAATGATG
* * * *
22683699 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
22683739 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
22683779 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
22683818 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
22683858 TCCGGGTTAAGTCCCGGAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
22683899 -CCGGGCTATGTCCCGAAGGCATTTGAGCGAG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
22683930 GAGCTATATC
Statistics
Matches: 168, Mismatches: 18, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 34 0.20
40 124 0.74
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:22683945 original size:119 final size:119
Alignment explanation
Indices: 22683699--22683956 Score: 283
Period size: 119 Copynumber: 2.2 Consensus size: 119
22683689 TTGAATGATG
* *
22683699 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* * *
22683764 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAGCGAGTGACTAAA
* * * ** *
22683818 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGGAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
22683881 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAGCGAG-GAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAGCGAGTGA-CTAAA
* *
22683938 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
22683957 TACGTGATTT
Statistics
Matches: 117, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 82 0.70
120 32 0.27
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAGCGAGTGACTAAA
Found at i:22688244 original size:39 final size:40
Alignment explanation
Indices: 22688184--22688277 Score: 145
Period size: 39 Copynumber: 2.4 Consensus size: 40
22688174 CGGATGTAAC
* *
22688184 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCAGTTATAAT
*
22688224 AACCCGCACGAAT-CCTTCGGGACTTAACCCAGTTGTAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCAGTTATAAT
*
22688263 AACTCGCACGAATGC
1 AACCCGCACGAATGC
22688278 TATGCACATA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
39 36 0.73
40 13 0.27
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCAGTTATAAT
Found at i:22691059 original size:22 final size:21
Alignment explanation
Indices: 22691020--22691060 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
22691010 GAACATTTTC
*
22691020 AGATTAAATCAAAGAAAAGAA
1 AGATTAAACCAAAGAAAAGAA
*
22691041 AGATTAAACCCAAATAAAAG
1 AGATTAAA-CCAAAGAAAAG
22691061 TGGATGCCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.63, C:0.10, G:0.12, T:0.15
Consensus pattern (21 bp):
AGATTAAACCAAAGAAAAGAA
Found at i:22693568 original size:54 final size:54
Alignment explanation
Indices: 22693504--22693610 Score: 187
Period size: 54 Copynumber: 2.0 Consensus size: 54
22693494 GAGGAGTAGA
*
22693504 AATGAGGGGTCTTAGCAACTTCATGAAGGTTCGGCCATGGTGCTTCAATATTGC
1 AATGAGGGGTCTTAGCAACTTCATGAAGGTTCGGCCATGGTGCTTAAATATTGC
* *
22693558 AATGATGGGTCTTCGCAACTTCATGAAGGTTCGGCCATGGTGCTTAAATATTG
1 AATGAGGGGTCTTAGCAACTTCATGAAGGTTCGGCCATGGTGCTTAAATATTG
22693611 TACTTGTGTT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (54 bp):
AATGAGGGGTCTTAGCAACTTCATGAAGGTTCGGCCATGGTGCTTAAATATTGC
Found at i:22694458 original size:29 final size:29
Alignment explanation
Indices: 22694425--22694498 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
22694415 GTTGTGAGAT
*
22694425 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAGGTGTGCG-ACTTGAAAGTACA
* *
22694454 TGGCACT-GAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAG-GTGTGCGACTTGAAAGTACA
*
22694483 TGGCACTAAGTGTGCG
1 TGGCACTAGGTGTGCG
22694499 TGGTTGATGA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
28 7 0.18
29 31 0.82
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAGGTGTGCGACTTGAAAGTACA
Found at i:22696267 original size:29 final size:29
Alignment explanation
Indices: 22696225--22696334 Score: 157
Period size: 29 Copynumber: 3.8 Consensus size: 29
22696215 AGAGGTGCAT
22696225 AACTTGTTCGTTGAGAGTTCGTGATGAAG
1 AACTTGTTCGTTGAGAGTTCGTGATGAAG
* *
22696254 AACTTGTTCGTTGAGAGTTTGTGATAAAG
1 AACTTGTTCGTTGAGAGTTCGTGATGAAG
* *
22696283 AACTTGTTCTTTGAGAGTTTGTGATGAAG
1 AACTTGTTCGTTGAGAGTTCGTGATGAAG
* * *
22696312 ATCTTGTCCGTTGAGAATTCGTG
1 AACTTGTTCGTTGAGAGTTCGTG
22696335 GCAAGGTGGA
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 72 1.00
ACGTcount: A:0.24, C:0.10, G:0.28, T:0.38
Consensus pattern (29 bp):
AACTTGTTCGTTGAGAGTTCGTGATGAAG
Found at i:22705312 original size:27 final size:27
Alignment explanation
Indices: 22705254--22705353 Score: 157
Period size: 27 Copynumber: 3.7 Consensus size: 27
22705244 CGTACCTGAA
* *
22705254 CCCTCATGTGATAAAATGAC-ATTTTA
1 CCCTTATGTGATAAAATGACGATTTTG
*
22705280 CCCTTATGTAATAAAATGACGATTTTG
1 CCCTTATGTGATAAAATGACGATTTTG
*
22705307 CCCTTATGTGATAAAATGATGATTTTG
1 CCCTTATGTGATAAAATGACGATTTTG
22705334 CCCTTATGTGATAAAATGAC
1 CCCTTATGTGATAAAATGAC
22705354 AAAAATACCC
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
26 18 0.27
27 49 0.73
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (27 bp):
CCCTTATGTGATAAAATGACGATTTTG
Found at i:22705385 original size:28 final size:28
Alignment explanation
Indices: 22705345--22705435 Score: 105
Period size: 27 Copynumber: 3.3 Consensus size: 28
22705335 CCTTATGTGA
22705345 TAAAATGA-CAAAAATACCCCTATAGGG
1 TAAAATGACCAAAAATACCCCTATAGGG
*
22705372 TAAAATGACCAAAAATACCCCCATAGGG
1 TAAAATGACCAAAAATACCCCTATAGGG
* * * * * *
22705400 TAGAATGAAC-GAAATAACCTTGTAGGG
1 TAAAATGACCAAAAATACCCCTATAGGG
22705427 TAAAATGAC
1 TAAAATGAC
22705436 TGTAATACCC
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
27 27 0.51
28 26 0.49
ACGTcount: A:0.46, C:0.18, G:0.18, T:0.19
Consensus pattern (28 bp):
TAAAATGACCAAAAATACCCCTATAGGG
Found at i:22705899 original size:34 final size:33
Alignment explanation
Indices: 22705853--22705948 Score: 111
Period size: 34 Copynumber: 2.8 Consensus size: 33
22705843 CTGCATTGAT
* *
22705853 TACTATTACTGAAATGGGCTAGGGCCCAGATTAC
1 TACTGTTACTGAAATGGGCTA-GGCCCAGACTAC
* * *
22705887 TACTGTTACTGAAATGAGCTAAGGCCTAGACTGC
1 TACTGTTACTGAAATGGGCT-AGGCCCAGACTAC
*
22705921 TACTGTTACTGATATGGGCTTAGGCCCA
1 TACTGTTACTGAAATGGGC-TAGGCCCA
22705949 AAATGTATTC
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
34 50 0.96
35 2 0.04
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (33 bp):
TACTGTTACTGAAATGGGCTAGGCCCAGACTAC
Found at i:22713261 original size:30 final size:30
Alignment explanation
Indices: 22713227--22713286 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
22713217 GAAGGGTTTT
*
22713227 CCTTGGTCGCAGCTCCATTTACTAAGCTTC
1 CCTTGATCGCAGCTCCATTTACTAAGCTTC
22713257 CCTTGATCGCAGCTCCATTTACTAAGCTTC
1 CCTTGATCGCAGCTCCATTTACTAAGCTTC
22713287 TGAGTAAGGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.18, C:0.33, G:0.15, T:0.33
Consensus pattern (30 bp):
CCTTGATCGCAGCTCCATTTACTAAGCTTC
Found at i:22724802 original size:18 final size:18
Alignment explanation
Indices: 22724763--22724815 Score: 79
Period size: 18 Copynumber: 2.8 Consensus size: 18
22724753 TGCCCTCAAT
*
22724763 GTATAAAAATAGATGTTAGG
1 GTATAAAAATA-A-GATAGG
22724783 GTATAAAAATAAGATAGG
1 GTATAAAAATAAGATAGG
22724801 GTATAAAAATAAGAT
1 GTATAAAAATAAGAT
22724816 TGGCGAGGTC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 20 0.62
19 1 0.03
20 11 0.34
ACGTcount: A:0.53, C:0.00, G:0.21, T:0.26
Consensus pattern (18 bp):
GTATAAAAATAAGATAGG
Found at i:22730642 original size:19 final size:19
Alignment explanation
Indices: 22730620--22730656 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
22730610 CTACCAAAAG
22730620 AAATAAAAAGTAA-ATTAAT
1 AAATAAAAA-TAATATTAAT
22730639 AAATAAAAATAATATTAA
1 AAATAAAAATAATATTAA
22730657 AATTAAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (19 bp):
AAATAAAAATAATATTAAT
Found at i:22737505 original size:25 final size:25
Alignment explanation
Indices: 22737471--22737521 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
22737461 CTTGGTTAAA
22737471 AGAAAAATATAGAATGTGTTTTTTT
1 AGAAAAATATAGAATGTGTTTTTTT
22737496 AGAAAAATATAGAATGTGTTTTTTT
1 AGAAAAATATAGAATGTGTTTTTTT
22737521 A
1 A
22737522 CTTCCCCTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.43
Consensus pattern (25 bp):
AGAAAAATATAGAATGTGTTTTTTT
Found at i:22742728 original size:269 final size:269
Alignment explanation
Indices: 22742249--22742786 Score: 1024
Period size: 269 Copynumber: 2.0 Consensus size: 269
22742239 ATCTAAAAAC
*
22742249 GATTTTTTGTCACAGTGAAAAATTAAAATTTTTGAAAATCAAGTCAGTTTGTAATATTATAGTAA
1 GATTTTTTGTCACACTGAAAAATTAAAATTTTTGAAAATCAAGTCAGTTTGTAATATTATAGTAA
22742314 TAAATTTTTATCGAAAAGTACATATGCTTTGTGCGAGATGGACTTAAACATTCCTGGCTTTCAAC
66 TAAATTTTTATCGAAAAGTACATATGCTTTGTGCGAGATGGACTTAAACATTCCTGGCTTTCAAC
* *
22742379 TGAATGACTTTCTCTATTATTCTTGTATCACAAATTGCTTCGAGTCTGGGCTTGAACAATCACAA
131 TGAACGACTTTCTCTATTATTCTTGTATCACAAATCGCTTCGAGTCTGGGCTTGAACAATCACAA
22742444 ATAAAATACAGAACCAAAAACAATTTCGTACTTTCAGTAGGAAAAAAATTCTCTCTCAATAAAAA
196 ATAAAATACAGAACCAAAAACAATTTCGTACTTTCAGTAGGAAAAAAATTCTCTCTCAATAAAAA
22742509 CAAGTAGAA
261 CAAGTAGAA
22742518 GATTTTTTGTCACACTGAAAAATTAAAATTTTTGAAAATCAAGTCAGTTTGTAATATTATAGTAA
1 GATTTTTTGTCACACTGAAAAATTAAAATTTTTGAAAATCAAGTCAGTTTGTAATATTATAGTAA
22742583 TAAATTTTTA-CTGAAAAGTACATATGCTTTGTGCGAGATGGACTTAAACATTCCTGGCTTTCAA
66 TAAATTTTTATC-GAAAAGTACATATGCTTTGTGCGAGATGGACTTAAACATTCCTGGCTTTCAA
22742647 CTGAACGACTTTCTCTATTATTCTTGTATCACAAATCGCTTCGAGTCTGGGCTTGAACAATCACA
130 CTGAACGACTTTCTCTATTATTCTTGTATCACAAATCGCTTCGAGTCTGGGCTTGAACAATCACA
*
22742712 AATAAAATACAGAACCAAAAATAATTTCGTACTTTCAGTAGGAAAAAAATTCTCTCTCAATAAAA
195 AATAAAATACAGAACCAAAAACAATTTCGTACTTTCAGTAGGAAAAAAATTCTCTCTCAATAAAA
22742777 ACAAGTAGAA
260 ACAAGTAGAA
22742787 TTGTTATTTC
Statistics
Matches: 264, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
268 1 0.00
269 263 1.00
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (269 bp):
GATTTTTTGTCACACTGAAAAATTAAAATTTTTGAAAATCAAGTCAGTTTGTAATATTATAGTAA
TAAATTTTTATCGAAAAGTACATATGCTTTGTGCGAGATGGACTTAAACATTCCTGGCTTTCAAC
TGAACGACTTTCTCTATTATTCTTGTATCACAAATCGCTTCGAGTCTGGGCTTGAACAATCACAA
ATAAAATACAGAACCAAAAACAATTTCGTACTTTCAGTAGGAAAAAAATTCTCTCTCAATAAAAA
CAAGTAGAA
Found at i:22742827 original size:15 final size:15
Alignment explanation
Indices: 22742807--22742851 Score: 90
Period size: 15 Copynumber: 3.0 Consensus size: 15
22742797 CATAAAATAG
22742807 AATAAATTCTCACAA
1 AATAAATTCTCACAA
22742822 AATAAATTCTCACAA
1 AATAAATTCTCACAA
22742837 AATAAATTCTCACAA
1 AATAAATTCTCACAA
22742852 TTTTCAGGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.27
Consensus pattern (15 bp):
AATAAATTCTCACAA
Found at i:22750294 original size:30 final size:30
Alignment explanation
Indices: 22750259--22750327 Score: 129
Period size: 30 Copynumber: 2.3 Consensus size: 30
22750249 ATGGGGCTAT
22750259 CCGTGTGTCACACACGGCCTAGACACATAC
1 CCGTGTGTCACACACGGCCTAGACACATAC
*
22750289 CCGTGTGTCACACACGGCCTAGACACATGC
1 CCGTGTGTCACACACGGCCTAGACACATAC
22750319 CCGTGTGTC
1 CCGTGTGTC
22750328 TACCCTTGTG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.22, C:0.36, G:0.23, T:0.19
Consensus pattern (30 bp):
CCGTGTGTCACACACGGCCTAGACACATAC
Found at i:22754733 original size:20 final size:20
Alignment explanation
Indices: 22754710--22754755 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 20
22754700 TCAATTTGGT
*
22754710 CCTTATTTTCCAATTGGACA
1 CCTTAATTTCCAATTGGACA
22754730 CCTTTAATTTCCAATTGGACA
1 CC-TTAATTTCCAATTGGACA
22754751 CCTTA
1 CCTTA
22754756 CTCATAGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 5 0.21
21 19 0.79
ACGTcount: A:0.26, C:0.26, G:0.09, T:0.39
Consensus pattern (20 bp):
CCTTAATTTCCAATTGGACA
Found at i:22760647 original size:36 final size:36
Alignment explanation
Indices: 22760600--22760675 Score: 134
Period size: 36 Copynumber: 2.1 Consensus size: 36
22760590 CATTCATCTT
*
22760600 TTCTAAGTTCTCACAAAAGCTGAAAACGCAAATTCC
1 TTCTAAGTTCTCACAAAAGCCGAAAACGCAAATTCC
*
22760636 TTCTAAGTTCTCATAAAAGCCGAAAACGCAAATTCC
1 TTCTAAGTTCTCACAAAAGCCGAAAACGCAAATTCC
22760672 TTCT
1 TTCT
22760676 CCTTGGTGCC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.37, C:0.25, G:0.11, T:0.28
Consensus pattern (36 bp):
TTCTAAGTTCTCACAAAAGCCGAAAACGCAAATTCC
Found at i:22761592 original size:46 final size:46
Alignment explanation
Indices: 22761525--22761615 Score: 164
Period size: 46 Copynumber: 2.0 Consensus size: 46
22761515 GAAATGATGG
*
22761525 GTCTTCGCAACTTCATGAAGGTTCGGCCATGGTGCTTAAATATTGT
1 GTCTTAGCAACTTCATGAAGGTTCGGCCATGGTGCTTAAATATTGT
*
22761571 GTCTTAGCAACTTCATGAAGGTTCGGCCATGGTGCTTCAATATTG
1 GTCTTAGCAACTTCATGAAGGTTCGGCCATGGTGCTTAAATATTG
22761616 CACTTGTGTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (46 bp):
GTCTTAGCAACTTCATGAAGGTTCGGCCATGGTGCTTAAATATTGT
Found at i:22762557 original size:29 final size:30
Alignment explanation
Indices: 22762524--22762597 Score: 98
Period size: 29 Copynumber: 2.5 Consensus size: 30
22762514 GTTGTGAGAT
* *
22762524 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAACTTGAAAGTACA
* *
22762553 TGGCACTAAGTGTGC-AAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAACTTGAAAGTACA
22762582 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
22762598 CGGTTGATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
28 7 0.18
29 32 0.82
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (30 bp):
TGGCACTAAGTGTGCGAACTTGAAAGTACA
Found at i:22782046 original size:45 final size:45
Alignment explanation
Indices: 22781952--22782121 Score: 206
Period size: 45 Copynumber: 3.8 Consensus size: 45
22781942 TTCATCCACT
* ** *
22781952 GGCATT-TCGCCTGCTAGGCTTGAA-GCCC-AATA-TCATTTCACC
1 GGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATCTCACC
* * *
22781994 GGCATTATAGCCTACTAGGCTCGAAA-GCCCAAATAGTATCTCACT
1 GGCATTATAGCCTGCTAGGCTC-AAAGGCCCGAATAGTATCTCACC
22782039 GGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACC
1 GGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACC
* *
22782084 AGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
1 GGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
22782122 CCGTACGATA
Statistics
Matches: 112, Mismatches: 11, Indels: 7
0.86 0.08 0.05
Matches are distributed among these distances:
42 6 0.05
43 12 0.11
44 9 0.08
45 84 0.75
46 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (45 bp):
GGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACC
Found at i:22786882 original size:27 final size:26
Alignment explanation
Indices: 22786851--22787028 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 26
22786841 TAAATTGTAC
22786851 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * * *
22786878 TGCACTGAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
22786904 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
22786932 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* *
22786960 GGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
22786987 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
22787014 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
22787029 GACTCGATAT
Statistics
Matches: 129, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.01
27 102 0.79
28 26 0.20
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:22786971 original size:82 final size:81
Alignment explanation
Indices: 22786852--22787007 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
22786842 AAATTGTACA
* *
22786852 GCACTAAGTGTGCGATTCGACTATGTTGCACTGAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
22786916 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
22786933 GCACTAAGTGTGCGAGTTTGACTATGTGGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
22786998 TGCGAGTTGA
65 TGCGAATTGA
22787008 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:22787019 original size:82 final size:81
Alignment explanation
Indices: 22786848--22787028 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
22786838 GATTAAATTG
* *
22786848 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTGAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGATGCACTAA
22786913 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
22786929 TGCGGCACTAAGTGTGCGAGTTTGACTATGTGGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
22786993 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
22787011 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
22787029 GACTCGATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:22788418 original size:22 final size:24
Alignment explanation
Indices: 22788390--22788433 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
22788380 AACCCGCACT
22788390 TTAAAATAGTTT-TTT-TTTGTCC
1 TTAAAATAGTTTGTTTCTTTGTCC
*
22788412 TTAAAATTGTTTGTTTCTTTGT
1 TTAAAATAGTTTGTTTCTTTGT
22788434 GCACAAGCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 11 0.58
23 3 0.16
24 5 0.26
ACGTcount: A:0.20, C:0.07, G:0.11, T:0.61
Consensus pattern (24 bp):
TTAAAATAGTTTGTTTCTTTGTCC
Found at i:22793441 original size:49 final size:49
Alignment explanation
Indices: 22793369--22793467 Score: 171
Period size: 49 Copynumber: 2.0 Consensus size: 49
22793359 ACCACTTATT
* *
22793369 TGACATTTCCCAGACAAGCTGCCAATCTGCGTACTAGTCGCTTTAAAAA
1 TGACATTCCCCAGACAACCTGCCAATCTGCGTACTAGTCGCTTTAAAAA
*
22793418 TGACATTCCCCAGCCAACCTGCCAATCTGCGTACTAGTCGCTTTAAAAA
1 TGACATTCCCCAGACAACCTGCCAATCTGCGTACTAGTCGCTTTAAAAA
22793467 T
1 T
22793468 CATATCTTGA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (49 bp):
TGACATTCCCCAGACAACCTGCCAATCTGCGTACTAGTCGCTTTAAAAA
Found at i:22797363 original size:322 final size:322
Alignment explanation
Indices: 22796778--22797421 Score: 1288
Period size: 322 Copynumber: 2.0 Consensus size: 322
22796768 CAAAGCTTCT
22796778 TGCAATTTCTTCCAAAATCGCGAGGTGAATCTCGGATCTCTATCCGACACGATATAAATAGGTAC
1 TGCAATTTCTTCCAAAATCGCGAGGTGAATCTCGGATCTCTATCCGACACGATATAAATAGGTAC
22796843 TCCATGTAATCTCACAATCTGAGAAACATACAATTCGGCTAGTTTATCCAATGAAAAATCTGTAC
66 TCCATGTAATCTCACAATCTGAGAAACATACAATTCGGCTAGTTTATCCAATGAAAAATCTGTAC
22796908 GCACGGGGATAAAGTGAACCGACTTAGTCAATCTATCAACAACAACCCAAATCGCATCCTTCTTA
131 GCACGGGGATAAAGTGAACCGACTTAGTCAATCTATCAACAACAACCCAAATCGCATCCTTCTTA
22796973 CTTGCTGACAATGGCAGTCCGGACACAAAGTCTATTGTGACTCGATCCCATTTCCACTCAGGTAT
196 CTTGCTGACAATGGCAGTCCGGACACAAAGTCTATTGTGACTCGATCCCATTTCCACTCAGGTAT
22797038 CATGATCGACTGAAGTAATCCTGAAGGCACTTGATGTTTCGCTTTCACTTGTTGACATATTA
261 CATGATCGACTGAAGTAATCCTGAAGGCACTTGATGTTTCGCTTTCACTTGTTGACATATTA
22797100 TGCAATTTCTTCCAAAATCGCGAGGTGAATCTCGGATCTCTATCCGACACGATATAAATAGGTAC
1 TGCAATTTCTTCCAAAATCGCGAGGTGAATCTCGGATCTCTATCCGACACGATATAAATAGGTAC
22797165 TCCATGTAATCTCACAATCTGAGAAACATACAATTCGGCTAGTTTATCCAATGAAAAATCTGTAC
66 TCCATGTAATCTCACAATCTGAGAAACATACAATTCGGCTAGTTTATCCAATGAAAAATCTGTAC
22797230 GCACGGGGATAAAGTGAACCGACTTAGTCAATCTATCAACAACAACCCAAATCGCATCCTTCTTA
131 GCACGGGGATAAAGTGAACCGACTTAGTCAATCTATCAACAACAACCCAAATCGCATCCTTCTTA
22797295 CTTGCTGACAATGGCAGTCCGGACACAAAGTCTATTGTGACTCGATCCCATTTCCACTCAGGTAT
196 CTTGCTGACAATGGCAGTCCGGACACAAAGTCTATTGTGACTCGATCCCATTTCCACTCAGGTAT
22797360 CATGATCGACTGAAGTAATCCTGAAGGCACTTGATGTTTCGCTTTCACTTGTTGACATATTA
261 CATGATCGACTGAAGTAATCCTGAAGGCACTTGATGTTTCGCTTTCACTTGTTGACATATTA
22797422 AACATCTCGA
Statistics
Matches: 322, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
322 322 1.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (322 bp):
TGCAATTTCTTCCAAAATCGCGAGGTGAATCTCGGATCTCTATCCGACACGATATAAATAGGTAC
TCCATGTAATCTCACAATCTGAGAAACATACAATTCGGCTAGTTTATCCAATGAAAAATCTGTAC
GCACGGGGATAAAGTGAACCGACTTAGTCAATCTATCAACAACAACCCAAATCGCATCCTTCTTA
CTTGCTGACAATGGCAGTCCGGACACAAAGTCTATTGTGACTCGATCCCATTTCCACTCAGGTAT
CATGATCGACTGAAGTAATCCTGAAGGCACTTGATGTTTCGCTTTCACTTGTTGACATATTA
Found at i:22806183 original size:58 final size:59
Alignment explanation
Indices: 22806093--22806211 Score: 231
Period size: 58 Copynumber: 2.0 Consensus size: 59
22806083 AATAAAATGT
22806093 AACACCCCGAACCCGAGACCGACACCGGAGTCGGACACGAGATGTTAAC-AACTTTGAA
1 AACACCCCGAACCCGAGACCGACACCGGAGTCGGACACGAGATGTTAACAAACTTTGAA
22806151 AACACCCCGAACCCGAGACCGACACCGGAGTCGGACACGAGATGTTAACAAACTTTGAA
1 AACACCCCGAACCCGAGACCGACACCGGAGTCGGACACGAGATGTTAACAAACTTTGAA
22806210 AA
1 AA
22806212 ATTTTTCCAG
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
58 49 0.82
59 11 0.18
ACGTcount: A:0.36, C:0.30, G:0.22, T:0.12
Consensus pattern (59 bp):
AACACCCCGAACCCGAGACCGACACCGGAGTCGGACACGAGATGTTAACAAACTTTGAA
Found at i:22807624 original size:40 final size:40
Alignment explanation
Indices: 22807530--22807739 Score: 269
Period size: 40 Copynumber: 5.3 Consensus size: 40
22807520 TCCTCGTTCA
* * ** *
22807530 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
*
22807569 AATGCCTTCGGGACATAACCCGGATTTAACAATTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
22807609 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
* * *
22807649 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
* * ** * *
22807689 AATGCCTTCGGGACTTAACTCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
*
22807729 AAGGCCTTCGG
1 AATGCCTTCGG
22807740 ATCTTAATCC
Statistics
Matches: 154, Mismatches: 16, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 33 0.21
40 121 0.79
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
Found at i:22807746 original size:40 final size:40
Alignment explanation
Indices: 22807528--22807792 Score: 239
Period size: 40 Copynumber: 6.7 Consensus size: 40
22807518 GCTCCTCGTT
* * * * * *
22807528 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* * * *
22807568 C-AATGCCTTCGGGACATAACCCGGATTTAACAATTCGCA
1 CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* * * *
22807607 CGAATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* **
22807647 CGACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* * * * *
22807687 CGAATGCCTTCGGGACTTAACTCGGATTTAGTATCTCGCA
1 CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* * * * *
22807727 CAAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCA
1 CAAAGGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCA
*
22807768 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAAGGCCTTCGGGACTTAACCCGGA
22807793 CAGCATTCAA
Statistics
Matches: 196, Mismatches: 25, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
39 36 0.18
40 149 0.76
41 11 0.06
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
Found at i:22807776 original size:120 final size:118
Alignment explanation
Indices: 22807528--22807792 Score: 284
Period size: 120 Copynumber: 2.2 Consensus size: 118
22807518 GCTCCTCGTT
* * *
22807528 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAA-GCCTTCGGGACTTAGCCCGGATTTAATAACTCACACAATGCCTTCGGGACATAACCCGGA
* * * *
22807593 TTTAACAATTCGCACGAATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
65 TTTAACAATTCGCACAAAGGCCTTCGGGACATAACCCGGATATAACAACTAGCA
** * * * *
22807647 CGACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACTCGG
1 C-AAAGCCTTCGGGACTTAGCCCGGATTTAATAACTCACAC-AATGCCTTCGGGACATAACCCGG
** * * *
22807712 ATTT-AGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCA
64 ATTTAACAAT-TCGCACAAAGGCCTTCGGGA-CATAACCCGGATATA-ACAAC-TAGCA
22807768 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
22807793 CAGCATTCAA
Statistics
Matches: 119, Mismatches: 21, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
119 38 0.32
120 75 0.63
121 6 0.05
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (118 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAATAACTCACACAATGCCTTCGGGACATAACCCGGAT
TTAACAATTCGCACAAAGGCCTTCGGGACATAACCCGGATATAACAACTAGCA
Found at i:22808072 original size:44 final size:44
Alignment explanation
Indices: 22808009--22808096 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
22807999 TTGTCGAACG
*
22808009 ATTCCGCTAGCTATTCAACCACTTTTTCCTTCCTTTTATCGGTT
1 ATTCCGCTAGCTATTCAACCACTTTTTCCTTCCCTTTATCGGTT
22808053 ATTCCGCTAGCTATTCAACCACTTTTTCCTTCCCTTTATCGGTT
1 ATTCCGCTAGCTATTCAACCACTTTTTCCTTCCCTTTATCGGTT
22808097 TTATTTCCCC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.16, C:0.31, G:0.09, T:0.44
Consensus pattern (44 bp):
ATTCCGCTAGCTATTCAACCACTTTTTCCTTCCCTTTATCGGTT
Found at i:22808866 original size:71 final size:71
Alignment explanation
Indices: 22808750--22808891 Score: 275
Period size: 71 Copynumber: 2.0 Consensus size: 71
22808740 ACCATGGGTT
*
22808750 AGGTAGAACTCAAGCTAACAACTAAAACATGCATGCCTCTCATGGAACATCATCAAACATACCTT
1 AGGTAGAACTCAAGCTAACAACTAAAACATGCATGCATCTCATGGAACATCATCAAACATACCTT
22808815 AGCCTA
66 AGCCTA
22808821 AGGTAGAACTCAAGCTAACAACTAAAACATGCATGCATCTCATGGAACATCATCAAACATACCTT
1 AGGTAGAACTCAAGCTAACAACTAAAACATGCATGCATCTCATGGAACATCATCAAACATACCTT
22808886 AGCCTA
66 AGCCTA
22808892 GCTACATGCA
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.40, C:0.26, G:0.13, T:0.21
Consensus pattern (71 bp):
AGGTAGAACTCAAGCTAACAACTAAAACATGCATGCATCTCATGGAACATCATCAAACATACCTT
AGCCTA
Found at i:22823027 original size:21 final size:21
Alignment explanation
Indices: 22823001--22823041 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
22822991 TATGTGGCAG
22823001 TTTATCTG-CAATTATGTGGTC
1 TTTATC-GACAATTATGTGGTC
*
22823022 TTTATCGATAATTATGTGGT
1 TTTATCGACAATTATGTGGT
22823042 GGCTTATCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.22, C:0.10, G:0.20, T:0.49
Consensus pattern (21 bp):
TTTATCGACAATTATGTGGTC
Found at i:22823054 original size:22 final size:21
Alignment explanation
Indices: 22823010--22823054 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
22823000 GTTTATCTGC
*
22823010 AATTATGTGGTCTTTATCGAT
1 AATTATGTGGTCTTTATCCAT
22823031 AATTATGTGGTGGC-TTATCCAT
1 AATTATGTGGT--CTTTATCCAT
22823053 AA
1 AA
22823055 ATGGTGTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 11 0.52
22 9 0.43
23 1 0.05
ACGTcount: A:0.27, C:0.11, G:0.20, T:0.42
Consensus pattern (21 bp):
AATTATGTGGTCTTTATCCAT
Done.