Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold32
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: 5587194
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.26
Warning! 895791 characters in sequence are not A, C, G, or T
File 13 of 33
Found at i:1704547 original size:34 final size:33
Alignment explanation
Indices: 1704506--1704575 Score: 106
Period size: 33 Copynumber: 2.1 Consensus size: 33
1704496 CCGTTACAAG
1704506 CAATGTATCGATACAATT-TCATCATGTATCGATA
1 CAATGTATCGATAC-ATTGTCAT-ATGTATCGATA
*
1704540 CAATGTATCGATACATTGTCCTATGTATCGATA
1 CAATGTATCGATACATTGTCATATGTATCGATA
1704573 CAA
1 CAA
1704576 ATAGTGATAG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
33 17 0.50
34 17 0.50
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (33 bp):
CAATGTATCGATACATTGTCATATGTATCGATA
Found at i:1704652 original size:19 final size:19
Alignment explanation
Indices: 1704603--1704659 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
1704593 ACTGCCAATC
*
1704603 TCATGTATCGATACAATTG
1 TCATGTATCGATACAATAG
*
1704622 TCCATGTCTCGATACAATGAG
1 T-CATGTATCGATACAAT-AG
1704643 T-ATGTATCGATACAATA
1 TCATGTATCGATACAATA
1704660 TATCGATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
18 1 0.03
19 15 0.45
20 15 0.45
21 2 0.06
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (19 bp):
TCATGTATCGATACAATAG
Found at i:1705282 original size:88 final size:88
Alignment explanation
Indices: 1705120--1705446 Score: 326
Period size: 88 Copynumber: 3.7 Consensus size: 88
1705110 AATAAAAAGA
* * *
1705120 CAAATGCACATGAAATGATGC-AA-ACCTAATGTCATCTAAAGTGCAGATGTGA-ATGAAACA-A
1 CAAATGCATATGAAATGATGCAAATACC-AATGTCATCTAAAATGCAGATAT-ACATGAAA-AGA
* * * *
1705181 AGCAAATGCAAGCATTAATTAAGTGG
63 TGTAAGTGCAAGCATAAATTAAGTGG
* * * *
1705207 CAAATGCATATAAAATGTTGCAAATACCAATGTCATCTAAAATGCAGATATGCGT-AAAAGA-GT
1 CAAATGCATATGAAATGATGCAAATACCAATGTCATCTAAAATGCAGATATACATGAAAAGATGT
*
1705270 ACAAGTGTAAGCATAAATTAAGTGG
66 --AAGTGCAAGCATAAATTAAGTGG
** * * * *
1705295 CAAATGCATATGAAATGATGCAAATAATAATGTCATCTAAAGTGGAGATGTACATGAAACGATGT
1 CAAATGCATATGAAATGATGCAAATACCAATGTCATCTAAAATGCAGATATACATGAAAAGATGT
*
1705360 AAGTGCAAGCATCAATT-AGATGG
66 AAGTGCAAGCATAAATTAAG-TGG
* * * * * *
1705383 CAAATGCATAGGAAATGATGCAAATACCAATGTCATTTAAAGTGTAGATGTACATGAAACGATG
1 CAAATGCATATGAAATGATGCAAATACCAATGTCATCTAAAATGCAGATATACATGAAAAGATG
1705447 CAAATATGCC
Statistics
Matches: 203, Mismatches: 28, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
86 2 0.01
87 24 0.12
88 167 0.82
89 8 0.04
90 2 0.01
ACGTcount: A:0.43, C:0.13, G:0.20, T:0.24
Consensus pattern (88 bp):
CAAATGCATATGAAATGATGCAAATACCAATGTCATCTAAAATGCAGATATACATGAAAAGATGT
AAGTGCAAGCATAAATTAAGTGG
Found at i:1705353 original size:44 final size:44
Alignment explanation
Indices: 1705304--1705452 Score: 117
Period size: 44 Copynumber: 3.4 Consensus size: 44
1705294 GCAAATGCAT
* *
1705304 ATGAAATGATGCAAATAATAATGTCATCTAAAGTGGAGATGTAC
1 ATGAAACGATGCAAATAACAATGTCATCTAAAGTGGAGATGTAC
* * * * * *
1705348 ATGAAACGATGTAAGT-GCAA-G-CATC-AATTAGATGGCAAATGCAT
1 ATGAAACGATGCAAATAACAATGTCATCTAA--AG-TGG-AGATGTAC
* * * * *
1705392 AGGAAATGATGCAAATACCAATGTCATTTAAAGTGTAGATGTAC
1 ATGAAACGATGCAAATAACAATGTCATCTAAAGTGGAGATGTAC
1705436 ATGAAACGATGCAAATA
1 ATGAAACGATGCAAATA
1705453 TGCCCTTTAA
Statistics
Matches: 77, Mismatches: 20, Indels: 16
0.68 0.18 0.14
Matches are distributed among these distances:
40 2 0.03
41 4 0.05
42 3 0.04
43 5 0.06
44 50 0.65
45 5 0.06
46 3 0.04
47 3 0.04
48 2 0.03
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.25
Consensus pattern (44 bp):
ATGAAACGATGCAAATAACAATGTCATCTAAAGTGGAGATGTAC
Found at i:1705882 original size:112 final size:112
Alignment explanation
Indices: 1705668--1705924 Score: 295
Period size: 112 Copynumber: 2.3 Consensus size: 112
1705658 AAAAACTTTG
* * * ** *
1705668 GTTGGCTCAAAAATTTT--AAACTAATAGGACATATGCCCTATTTTCCTAGGCACAAAAGGATCA
1 GTTGGCTC-AAAATTTTCAAAACTGATAGGATACACACCCCATTTTCCTAGGCACAAAAGGATCA
* *
1705731 AGTTGTATAAAACATGAATTTTTTTGAAAGTCAAACAAATTTGAT-ATT
65 AGTTGTATAAAACATGAATTTCTTTGAAAATCAAACAAATTTGATGA-T
* * *
1705779 GTTGGCTCAAAATTTTCAAAACTGATAGGATACACACCCCATTTTCTTAGGCACGAAGGGATCAA
1 GTTGGCTCAAAATTTTCAAAACTGATAGGATACACACCCCATTTTCCTAGGCACAAAAGGATCAA
* ***
1705844 GTTGTATAAAACTTGAATTTCTTTGAAAATTTGACAAATTTGATGAT
66 GTTGTATAAAACATGAATTTCTTTGAAAATCAAACAAATTTGATGAT
* * * * *
1705891 ATTGGCTTAAAAATTTCAACACTGATAAGATACA
1 GTTGGCTCAAAATTTTCAAAACTGATAGGATACA
1705925 TGCCTTTTTT
Statistics
Matches: 123, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
110 8 0.07
111 8 0.07
112 106 0.86
113 1 0.01
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.33
Consensus pattern (112 bp):
GTTGGCTCAAAATTTTCAAAACTGATAGGATACACACCCCATTTTCCTAGGCACAAAAGGATCAA
GTTGTATAAAACATGAATTTCTTTGAAAATCAAACAAATTTGATGAT
Found at i:1705936 original size:112 final size:112
Alignment explanation
Indices: 1705707--1706004 Score: 312
Period size: 112 Copynumber: 2.7 Consensus size: 112
1705697 CATATGCCCT
* * * * *
1705707 ATTTTCCTAGGCACAAAAGGATCAAGTTGTATAAAACATGAATTTTTTTGAAAGTCAAACAAATT
1 ATTTTCTTAGGCACGAAAGGATCAAGTTGTATAAAACATGAATTTCTTTGAAAATCAGACAAATT
* * *
1705772 TGAT-ATTGTTGGCTCAAAATTTTCAAAACTGATAGGATACACACCCC
66 TGATGA-TATTGGCTCAAAAATTTCAAAACTGATAAGATACACACCCC
* * **
1705819 ATTTTCTTAGGCACGAAGGGATCAAGTTGTATAAAACTTGAATTTCTTTGAAAATTTGACAAATT
1 ATTTTCTTAGGCACGAAAGGATCAAGTTGTATAAAACATGAATTTCTTTGAAAATCAGACAAATT
* * ** **
1705884 TGATGATATTGGCTTAAAAATTTCAACACTGATAAGATACATGCCTT
66 TGATGATATTGGCTCAAAAATTTCAAAACTGATAAGATACACACCCC
* * * * * * * * *
1705931 TTTTTCTTATGCATGAATGAATTAGGTTATAT-AAACATGAATTTCTTTAAAAATCAGACAAATT
1 ATTTTCTTAGGCACGAAAGGATCAAGTTGTATAAAACATGAATTTCTTTGAAAATCAGACAAATT
* *
1705995 TTATGTTATT
66 TGATGATATT
1706005 TCAAGTCCTC
Statistics
Matches: 153, Mismatches: 32, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
111 36 0.24
112 116 0.76
113 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.36
Consensus pattern (112 bp):
ATTTTCTTAGGCACGAAAGGATCAAGTTGTATAAAACATGAATTTCTTTGAAAATCAGACAAATT
TGATGATATTGGCTCAAAAATTTCAAAACTGATAAGATACACACCCC
Found at i:1710643 original size:307 final size:306
Alignment explanation
Indices: 1710091--1710758 Score: 760
Period size: 307 Copynumber: 2.2 Consensus size: 306
1710081 GCCTCTAAGC
* * * *
1710091 ATACTTTCGACATGAAAATATCTTGATAACCCTAAAGGACATAAAAATGA-AACTAAGAGGGTGA
1 ATACTTTTGACATGAAAATATCTTGATAACCCTAAA-GACACAAAAATGATAACTAAAAGGATGA
** *
1710155 ACCTATTCTAAACACACACTTTTGGCATAAAAGCAACTCAGTGACTACCTAAAATTCAGTTCTAA
65 ACC---TCTAAACACACACCATTGGCATAAAAGCAACTCAGTGACTACCTAAAACTCAGTTCTAA
* * *
1710220 AAAAATTACCAAAATGACCCTAAGTTAGACATTCAACGTAAAGTATCCAGTAACCCTAAAGGACA
127 AAAAATTACCAAAATAACCCTAAGGTAGACATTCAACGTAAAGTATCCAGCAACCCTAAAGGACA
* * *
1710285 CGAAAATGAAAAGTAAAAGGATGAACTTATCCTAAATGTACAACTTTGGCATAAAAGTG-GCCCG
192 CGAAAATGAAAAGTAAAAGGATGAACATATCCTAAATGCACAACTTTGGCATAAAAGCGAG-CCG
** * * **
1710349 GTGATGACCTAAGACTTGATTTTAAGAAAATT-ACTAAAATGCCCTTGGGGT
256 GTGATGACCTAAGACTCAATTCTAAGAAAATTAAC-AAAATACCCTTAAGGT
* *
1710400 ATACTTTTGACATGAAAATATCTTGGTAACCCTAGAAGACACAAAAATGATAAGTAAAAGGATGA
1 ATACTTTTGACATGAAAATATCTTGATAACCCTA-AAGACACAAAAATGATAACTAAAAGGATGA
* * * **
1710465 TCC-C-AAACACACACCATTGGCATAAAAGTAA-TATAGTGA-TGACCTAAGGCTC-GATTCTAA
65 ACCTCTAAACACACACCATTGGCATAAAAGCAACT-CAGTGACT-ACCTAAAACTCAG-TTCTAA
* * * * **
1710525 TAAAATTACGAAAATAACCCTAAGGTATACCTTCAACGTCAAAGTATCTTGGCAACCCTAAAGGA
127 AAAAATTACCAAAATAACCCTAAGGTAGACATTCAACGT-AAAGTATC-CAGCAACCCTAAAGGA
* * *
1710590 CAC-AAAATTGAAAAGTAAAAGGATGAACATATCCTAAATGCATACCTTTGGCATAAAAGCGAGT
190 CACGAAAA-TGAAAAGTAAAAGGATGAACATATCCTAAATGCACAACTTTGGCATAAAAGCGAGC
* * *
1710654 TGGTGATGACCTAGGACTCAATTCTAGGAAAATTAACAAAATACCCTTAAGGT
254 CGGTGATGACCTAAGACTCAATTCTAAGAAAATTAACAAAATACCCTTAAGGT
* * * * *
1710707 ATACCTTTGACATGAAAGTATCTCGATAACCATAAGGGACACAAAAATGATA
1 ATACTTTTGACATGAAAATATCTTGATAACCCTAA-AGACACAAAAATGATA
1710759 CAAAAATGAC
Statistics
Matches: 304, Mismatches: 44, Indels: 24
0.82 0.12 0.06
Matches are distributed among these distances:
304 3 0.01
305 76 0.25
306 14 0.05
307 149 0.49
308 3 0.01
309 44 0.14
310 15 0.05
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.24
Consensus pattern (306 bp):
ATACTTTTGACATGAAAATATCTTGATAACCCTAAAGACACAAAAATGATAACTAAAAGGATGAA
CCTCTAAACACACACCATTGGCATAAAAGCAACTCAGTGACTACCTAAAACTCAGTTCTAAAAAA
ATTACCAAAATAACCCTAAGGTAGACATTCAACGTAAAGTATCCAGCAACCCTAAAGGACACGAA
AATGAAAAGTAAAAGGATGAACATATCCTAAATGCACAACTTTGGCATAAAAGCGAGCCGGTGAT
GACCTAAGACTCAATTCTAAGAAAATTAACAAAATACCCTTAAGGT
Found at i:1710705 original size:156 final size:152
Alignment explanation
Indices: 1710109--1710752 Score: 452
Period size: 156 Copynumber: 4.2 Consensus size: 152
1710099 GACATGAAAA
* * * * * * **
1710109 TATCTTGATAACCCTAAAGGACATAAAAATG-AAACTAAGAGGGTGAACCTATTCTAAACACACA
1 TATCTTGGTAACCCTAAAGGACA-CAAAATGAAAAGTAAAAGGATGAA-CTATCCTAAATGCACA
* * * ** ** * * * *
1710173 CTTTTGGCATAAAAGCAACTCAGTGACT-ACCTAAAATTC-AGTTCTAAAAAAATTACCAAAATG
64 CCTTTGGCATAAAAG-GAGTTGGTGA-TGACCTAGGACTCGA-TTCTAAGAAAATTACGAAAATA
* * *
1710236 ACCCTAAGTTAGACATTCAACGTAAAG
126 ACCCTAAGGTATACCTTCAACGTAAAG
** *
1710263 TATC-CAGTAACCCTAAAGGACACGAAAATGAAAAGTAAAAGGATGAACTTATCCTAAATGTACA
1 TATCTTGGTAACCCTAAAGGACAC-AAAATGAAAAGTAAAAGGATGAAC-TATCCTAAATGCACA
* ** * * * * *
1710327 ACTTTGGCATAAAAGTG-GCCCGGTGATGACCTAAGACTTGATTTTAAGAAAATTACTAAAAT-G
64 CCTTTGGCATAAAAG-GAG-TTGGTGATGACCTAGGACTCGATTCTAAGAAAATTACGAAAATAA
** * ** * *
1710390 CCCTTGGGGTATACTTTTGACATGAAAA
127 CCC-TAAGGTATACCTTCAACGT-AAAG
* * **
1710418 TATCTTGGTAACCCTAGAA-GACACAAAAATGATAAGTAAAAGGATG----ATCCCAAACACACA
1 TATCTTGGTAACCCTA-AAGGACAC-AAAATGAAAAGTAAAAGGATGAACTATCCTAAATGCACA
* * * * *
1710478 CCATTGGCATAAAAGTAATATAGTGATGACCTAAGG-CTCGATTCTAATAAAATTACGAAAATAA
64 CCTTTGGCATAAAAGGAGT-TGGTGATGACCT-AGGACTCGATTCTAAGAAAATTACGAAAATAA
1710542 CCCTAAGGTATACCTTCAACGTCAAAG
127 CCCTAAGGTATACCTTCAACGT-AAAG
* *
1710569 TATCTTGGCAACCCTAAAGGACACAAAATTGAAAAGTAAAAGGATGAACATATCCTAAATGCATA
1 TATCTTGGTAACCCTAAAGGACACAAAA-TGAAAAGTAAAAGGATGAAC-TATCCTAAATGCACA
* *
1710634 CCTTTGGCATAAAAGCGAGTTGGTGATGACCTAGGACTCAATTCTAGGAAAATTAAC-AAAAT-A
64 CCTTTGGCATAAAAG-GAGTTGGTGATGACCTAGGACTCGATTCTAAGAAAATT-ACGAAAATAA
** *
1710697 CCCTTAAGGTATACCTTTGACATGAAAG
127 CCC-TAAGGTATACCTTCAACGT-AAAG
* * * *
1710725 TATCTCGATAACCATAAGGGACACAAAA
1 TATCTTGGTAACCCTAAAGGACACAAAA
1710753 ATGATACAAA
Statistics
Matches: 380, Mismatches: 85, Indels: 48
0.74 0.17 0.09
Matches are distributed among these distances:
150 6 0.02
151 107 0.28
152 5 0.01
153 26 0.07
154 83 0.22
155 15 0.04
156 132 0.35
157 6 0.02
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.24
Consensus pattern (152 bp):
TATCTTGGTAACCCTAAAGGACACAAAATGAAAAGTAAAAGGATGAACTATCCTAAATGCACACC
TTTGGCATAAAAGGAGTTGGTGATGACCTAGGACTCGATTCTAAGAAAATTACGAAAATAACCCT
AAGGTATACCTTCAACGTAAAG
Found at i:1713542 original size:12 final size:12
Alignment explanation
Indices: 1713522--1713551 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1713512 AAAGCATACT
*
1713522 ACTACTCCTATG
1 ACTAATCCTATG
1713534 ACTAATCCTATG
1 ACTAATCCTATG
1713546 ACTAAT
1 ACTAAT
1713552 TATCACTCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.33, C:0.27, G:0.07, T:0.33
Consensus pattern (12 bp):
ACTAATCCTATG
Found at i:1716918 original size:52 final size:52
Alignment explanation
Indices: 1716769--1716897 Score: 249
Period size: 52 Copynumber: 2.5 Consensus size: 52
1716759 CAAAATATGA
*
1716769 AAATTTGCCTGTATGTATCGATACATTTTATAGTGTATCAATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCAATACATCTGGGC
1716821 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCAATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCAATACATCTGGGC
1716873 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1716898 AAGATCAGTG
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 76 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCAATACATCTGGGC
Found at i:1717868 original size:13 final size:13
Alignment explanation
Indices: 1717846--1717894 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 13
1717836 ACATAAGTGT
*
1717846 TGTATTGATACAA
1 TGTATCGATACAA
1717859 TGTATCGATACAA
1 TGTATCGATACAA
1717872 GTGCTGTATCGATACAA
1 ----TGTATCGATACAA
1717889 TGTATC
1 TGTATC
1717895 ACTACAAAGC
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
13 18 0.58
17 13 0.42
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1717880 original size:30 final size:31
Alignment explanation
Indices: 1717827--1717903 Score: 104
Period size: 30 Copynumber: 2.5 Consensus size: 31
1717817 AAACAGTAAC
* *
1717827 TGTATCGATACATAAGTGTTGTATTGATACAA
1 TGTATCGATACA-AAGTGCTGTATCGATACAA
1717859 TGTATCGATAC-AAGTGCTGTATCGATACAA
1 TGTATCGATACAAAGTGCTGTATCGATACAA
1717889 TGTATC-ACTACAAAG
1 TGTATCGA-TACAAAG
1717904 CTACTGCCAA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
29 1 0.02
30 26 0.63
31 3 0.07
32 11 0.27
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.32
Consensus pattern (31 bp):
TGTATCGATACAAAGTGCTGTATCGATACAA
Found at i:1717881 original size:17 final size:17
Alignment explanation
Indices: 1717826--1717888 Score: 62
Period size: 17 Copynumber: 3.8 Consensus size: 17
1717816 CAAACAGTAA
1717826 CTGTATCGATACATAAGTG
1 CTGTATCGATAC--AAGTG
* *
1717845 TTGTATTGATACAA---
1 CTGTATCGATACAAGTG
1717859 -TGTATCGATACAAGTG
1 CTGTATCGATACAAGTG
1717875 CTGTATCGATACAA
1 CTGTATCGATACAA
1717889 TGTATCACTA
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
13 12 0.32
17 15 0.41
19 10 0.27
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (17 bp):
CTGTATCGATACAAGTG
Found at i:1722439 original size:21 final size:20
Alignment explanation
Indices: 1722410--1722448 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1722400 GGCTAGTGTG
*
1722410 GGGACTGCCCGGTTGCGACTT
1 GGGACTG-CCGGTCGCGACTT
*
1722431 GGGAGTGCCGGTCGCGAC
1 GGGACTGCCGGTCGCGAC
1722449 CTGGTGGGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.10, C:0.28, G:0.44, T:0.18
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACTT
Found at i:1722751 original size:21 final size:21
Alignment explanation
Indices: 1722727--1722773 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
1722717 TTTGAGGCTG
1722727 ATTTTG-A-TGAAAAACGAAGT
1 ATTTTGAACTGAAAAAC-AAGT
*
1722747 AATTTGAACTGAAAAACAAGT
1 ATTTTGAACTGAAAAACAAGT
1722768 ATTTTG
1 ATTTTG
1722774 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 5 0.22
21 10 0.43
22 8 0.35
ACGTcount: A:0.45, C:0.06, G:0.17, T:0.32
Consensus pattern (21 bp):
ATTTTGAACTGAAAAACAAGT
Found at i:1722925 original size:13 final size:13
Alignment explanation
Indices: 1722894--1722932 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
1722884 ATAATCCCCC
* *
1722894 TGTATCGATATAG
1 TGTATCGATACAA
*
1722907 TATATCGATACAA
1 TGTATCGATACAA
1722920 TGTATCGATACAA
1 TGTATCGATACAA
1722933 AGAAAAATGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1726869 original size:20 final size:20
Alignment explanation
Indices: 1726844--1726889 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
1726834 CAAGTTTTTA
1726844 ATTTTCTTAGCTAACTCATT
1 ATTTTCTTAGCTAACTCATT
*
1726864 ATTTTCTTAGTTAACTCATT
1 ATTTTCTTAGCTAACTCATT
1726884 ATTTTC
1 ATTTTC
1726890 CTCGTAGGCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.24, C:0.17, G:0.04, T:0.54
Consensus pattern (20 bp):
ATTTTCTTAGCTAACTCATT
Found at i:1728847 original size:13 final size:13
Alignment explanation
Indices: 1728829--1728854 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1728819 ATTTTTTTGG
1728829 TGTATCGATACAT
1 TGTATCGATACAT
1728842 TGTATCGATACAT
1 TGTATCGATACAT
1728855 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1733851 original size:21 final size:20
Alignment explanation
Indices: 1733805--1733857 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 20
1733795 GTAGCCAAAC
**
1733805 TTGTATCGATACACAAAGTA
1 TTGTATCGATACACAAAAAA
1733825 -TGTATCGATACACAAAAAAA
1 TTGTATCGATACAC-AAAAAA
1733845 TTGTATCGATACA
1 TTGTATCGATACA
1733858 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 13 0.45
20 4 0.14
21 12 0.41
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.28
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:1737621 original size:15 final size:15
Alignment explanation
Indices: 1737603--1737632 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1737593 CCAAATTGAG
1737603 GAAGCTCAAAATGAA
1 GAAGCTCAAAATGAA
*
1737618 GAAGCTCCAAATGAA
1 GAAGCTCAAAATGAA
1737633 ATCGATGAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.17, G:0.20, T:0.13
Consensus pattern (15 bp):
GAAGCTCAAAATGAA
Found at i:1737628 original size:16 final size:16
Alignment explanation
Indices: 1737592--1737632 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
1737582 GATAAAAATG
* *
1737592 TCCAAATTGAGGAAGC
1 TCCAAAATGAAGAAGC
1737608 T-CAAAATGAAGAAGC
1 TCCAAAATGAAGAAGC
1737623 TCC-AAATGAA
1 TCCAAAATGAA
1737633 ATCGATGAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 20 0.91
16 2 0.09
ACGTcount: A:0.46, C:0.17, G:0.20, T:0.17
Consensus pattern (16 bp):
TCCAAAATGAAGAAGC
Found at i:1739722 original size:13 final size:13
Alignment explanation
Indices: 1739704--1739742 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1739694 ACATTTTTCT
1739704 TTGTATCGATACA
1 TTGTATCGATACA
1739717 TTGTATCGATACA
1 TTGTATCGATACA
*
1739730 CTGTATCGATACA
1 TTGTATCGATACA
1739743 GGGGGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1739906 original size:20 final size:20
Alignment explanation
Indices: 1739863--1739908 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
1739853 AAATCTTTTG
1739863 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
1739884 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
1739904 CAAAA
1 CAAAA
1739909 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:1742341 original size:21 final size:20
Alignment explanation
Indices: 1742295--1742347 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 20
1742285 GTAGCCAAAC
**
1742295 TTGTATCGATACACAAAGTA
1 TTGTATCGATACACAAAAAA
1742315 -TGTATCGATACACAAAAAAA
1 TTGTATCGATACAC-AAAAAA
1742335 TTGTATCGATACA
1 TTGTATCGATACA
1742348 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 13 0.45
20 4 0.14
21 12 0.41
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.28
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:1745003 original size:20 final size:20
Alignment explanation
Indices: 1744929--1745024 Score: 104
Period size: 20 Copynumber: 4.8 Consensus size: 20
1744919 TCTTGAAAGG
***
1744929 AAATGTATCGATACATAAGT
1 AAATGTATCGATACATTCTT
*
1744949 -AATGTATCGATACATGCTT
1 AAATGTATCGATACATTCTT
*
1744968 AAAATGTATTGATACATTCTT
1 -AAATGTATCGATACATTCTT
* *
1744989 CAATATATCGATACATTCTT
1 AAATGTATCGATACATTCTT
*
1745009 TAATGTATCGATACAT
1 AAATGTATCGATACAT
1745025 GCAGGCAATT
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
19 16 0.25
20 31 0.48
21 17 0.27
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (20 bp):
AAATGTATCGATACATTCTT
Found at i:1750821 original size:53 final size:53
Alignment explanation
Indices: 1750711--1750812 Score: 138
Period size: 50 Copynumber: 2.0 Consensus size: 53
1750701 AAATTTCTAA
* * *
1750711 ATTTTTCCTTCCAAAAGCATTGAATTTTTCGTCTTAGGGGATACTCCGACCCC
1 ATTTTTACTTCCAAAAGCATTGAATTTTTCATCTTAGGGGATACTCCAACCCC
* *
1750764 ATTTTTACTTCCAAAA-TATTG-ATTTTTCATC-TCGGGGATACTCCAACCC
1 ATTTTTACTTCCAAAAGCATTGAATTTTTCATCTTAGGGGATACTCCAACCC
1750813 TGTTATTTTC
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
50 16 0.36
51 9 0.20
52 4 0.09
53 15 0.34
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.37
Consensus pattern (53 bp):
ATTTTTACTTCCAAAAGCATTGAATTTTTCATCTTAGGGGATACTCCAACCCC
Found at i:1754789 original size:27 final size:27
Alignment explanation
Indices: 1754748--1754955 Score: 188
Period size: 27 Copynumber: 7.6 Consensus size: 27
1754738 GAGAAAACGT
*
1754748 AGTTGTGGACTTAAAAGGGTGCCTCAA
1 AGTTGTGGACTTAAAAGGGTGCCTCGA
** * * *
1754775 AGTTGTGGAGATAAAAAGGTGCCACGG
1 AGTTGTGGACTTAAAAGGGTGCCTCGA
* *
1754802 AGTTGTGGACTTAAAATGATGCCAT-GA
1 AGTTGTGGACTTAAAAGGGTGCC-TCGA
*
1754829 AGTTGTGGACTTAAAAGGGTGCCAT-GG
1 AGTTGTGGACTTAAAAGGGTGCC-TCGA
* * * *
1754856 AGTTGTGGACTTAAAAAGATGCCACGG
1 AGTTGTGGACTTAAAAGGGTGCCTCGA
* *
1754883 AGTTGTGGACTT-AAAGGGTGCCACGG
1 AGTTGTGGACTTAAAAGGGTGCCTCGA
* *
1754909 AGTTGTGGACTTAAAAGGGAAGGTGCCACGG
1 AGTTGTGGACTTAAAA--G--GGTGCCTCGA
1754940 AGTTGTGGACTTAAAA
1 AGTTGTGGACTTAAAA
1754956 AGGAAAGGTG
Statistics
Matches: 154, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
26 24 0.16
27 103 0.67
29 1 0.01
31 26 0.17
ACGTcount: A:0.30, C:0.12, G:0.33, T:0.24
Consensus pattern (27 bp):
AGTTGTGGACTTAAAAGGGTGCCTCGA
Found at i:1754812 original size:54 final size:53
Alignment explanation
Indices: 1754748--1754926 Score: 225
Period size: 54 Copynumber: 3.3 Consensus size: 53
1754738 GAGAAAACGT
* * *
1754748 AGTTGTGGACTTAAAAGGGTGCCTCAAAGTTGTGGAGATAAAAAGGTGCCACGG
1 AGTTGTGGACTTAAAAGGATGCCTCGAAGTTGTGGA-ATAAAAGGGTGCCACGG
* * *
1754802 AGTTGTGGACTTAAAATGATGCCAT-GAAGTTGTGGACTTAAAAGGGTGCCATGG
1 AGTTGTGGACTTAAAAGGATGCC-TCGAAGTTGTGGA-ATAAAAGGGTGCCACGG
* * * * *
1754856 AGTTGTGGACTTAAAAAGATGCCACGGAGTTGTGGACTTAAAGGGTGCCACGG
1 AGTTGTGGACTTAAAAGGATGCCTCGAAGTTGTGGAATAAAAGGGTGCCACGG
1754909 AGTTGTGGACTTAAAAGG
1 AGTTGTGGACTTAAAAGG
1754927 GAAGGTGCCA
Statistics
Matches: 109, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
53 31 0.28
54 77 0.71
55 1 0.01
ACGTcount: A:0.30, C:0.12, G:0.33, T:0.25
Consensus pattern (53 bp):
AGTTGTGGACTTAAAAGGATGCCTCGAAGTTGTGGAATAAAAGGGTGCCACGG
Found at i:1754883 original size:81 final size:81
Alignment explanation
Indices: 1754748--1755012 Score: 284
Period size: 81 Copynumber: 3.1 Consensus size: 81
1754738 GAGAAAACGT
** ** *
1754748 AGTTGTGGACTTAAAAGGGTGCC-TCAAAGTTGTGGAGATAAAAAGGTGCCACGGAGTTGTGGAC
1 AGTTGTGGACTTAAAAGGGTGCCAT-GGAGTTGTGGACTTAAAAAGATGCCACGGAGTTGTGGAC
*
1754812 TTAAAATGATGCCATGA
65 TTAAAAAGATGCCATGA
1754829 AGTTGTGGACTTAAAAGGGTGCCATGGAGTTGTGGACTTAAAAAGATGCCACGGAGTTGTGGACT
1 AGTTGTGGACTTAAAAGGGTGCCATGGAGTTGTGGACTTAAAAAGATGCCACGGAGTTGTGGACT
* * * *
1754894 T-AAAGGGTGCCACGG
66 TAAAAAGATGCCATGA
* *
1754909 AGTTGTGGACTTAAAAGGGAAGGTGCCACGGAGTTGTGGACTTAAAAAGGAAAGGTGTCACGGAG
1 AGTTGTGGACTTAAAA--G--GGTGCCATGGAGTTGTGGACTTAAAAA-G--A--TGCCACGGAG
1754974 TTGTGGACTTAAAAAGAAATGCCATTGA
57 TTGTGGACTTAAAAAG--ATGCCA-TGA
1755002 A-TTGTGGACTT
1 AGTTGTGGACTT
1755013 TGAAAAGGTT
Statistics
Matches: 155, Mismatches: 15, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
80 26 0.17
81 59 0.38
82 2 0.01
84 26 0.17
85 1 0.01
87 1 0.01
89 19 0.12
90 4 0.03
92 15 0.10
93 2 0.01
ACGTcount: A:0.31, C:0.12, G:0.32, T:0.25
Consensus pattern (81 bp):
AGTTGTGGACTTAAAAGGGTGCCATGGAGTTGTGGACTTAAAAAGATGCCACGGAGTTGTGGACT
TAAAAAGATGCCATGA
Found at i:1754964 original size:32 final size:32
Alignment explanation
Indices: 1754899--1754989 Score: 157
Period size: 32 Copynumber: 2.9 Consensus size: 32
1754889 GGACTTAAAG
*
1754899 GGTGCCACGGAGTTGTGGACTT-AAAAGGGAA
1 GGTGCCACGGAGTTGTGGACTTAAAAAGGAAA
1754930 GGTGCCACGGAGTTGTGGACTTAAAAAGGAAA
1 GGTGCCACGGAGTTGTGGACTTAAAAAGGAAA
*
1754962 GGTGTCACGGAGTTGTGGACTTAAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAAG
1754990 AAATGCCATT
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
31 22 0.39
32 35 0.61
ACGTcount: A:0.31, C:0.12, G:0.36, T:0.21
Consensus pattern (32 bp):
GGTGCCACGGAGTTGTGGACTTAAAAAGGAAA
Found at i:1766047 original size:13 final size:13
Alignment explanation
Indices: 1766029--1766053 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1766019 CTATTTATAG
1766029 TGTATCGATACAA
1 TGTATCGATACAA
1766042 TGTATCGATACA
1 TGTATCGATACA
1766054 TGAATAGTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1766440 original size:13 final size:13
Alignment explanation
Indices: 1766422--1766447 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1766412 ACAAAGATCC
1766422 ATGTATCGATACA
1 ATGTATCGATACA
1766435 ATGTATCGATACA
1 ATGTATCGATACA
1766448 TTGAGTAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1767303 original size:13 final size:13
Alignment explanation
Indices: 1767285--1767310 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1767275 CAATTTTTTG
1767285 TGTATCGATACAT
1 TGTATCGATACAT
1767298 TGTATCGATACAT
1 TGTATCGATACAT
1767311 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1769686 original size:21 final size:21
Alignment explanation
Indices: 1769662--1769708 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
1769652 TTTATTGCTG
1769662 ATTTTG-A-TGAAAAACGAAGT
1 ATTTTGAAGTGAAAAAC-AAGT
1769682 -TATTTGAAGTGAAAAACAAGT
1 AT-TTTGAAGTGAAAAACAAGT
1769703 ATTTTG
1 ATTTTG
1769709 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
19 1 0.04
20 4 0.17
21 9 0.39
22 9 0.39
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAACAAGT
Found at i:1769854 original size:20 final size:20
Alignment explanation
Indices: 1769829--1769905 Score: 73
Period size: 20 Copynumber: 3.6 Consensus size: 20
1769819 ATAATCACCC
1769829 TGTATCGATACAAAGAAAAA
1 TGTATCGATACAAAGAAAAA
* *
1769849 TGTATCGATACATAGAATTTCCAGA
1 TGTATCGATACAAAGAA-----AAA
* *
1769874 TGTATCGATACACAGAAACA
1 TGTATCGATACAAAGAAAAA
1769894 TGTATCGATACA
1 TGTATCGATACA
1769906 TTTTGGACAT
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
20 30 0.62
25 18 0.38
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.26
Consensus pattern (20 bp):
TGTATCGATACAAAGAAAAA
Found at i:1771942 original size:15 final size:15
Alignment explanation
Indices: 1771922--1771952 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1771912 ATTTCGTTTG
*
1771922 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1771937 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1771952 G
1 G
1771953 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1773785 original size:21 final size:21
Alignment explanation
Indices: 1773756--1773800 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
1773746 AAGTTTTCGT
*
1773756 TTTTCTTAGCTAA-TTCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1773776 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1773798 TTT
1 TTT
1773801 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 7 0.33
22 9 0.43
ACGTcount: A:0.22, C:0.18, G:0.04, T:0.56
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1777327 original size:49 final size:49
Alignment explanation
Indices: 1777125--1778261 Score: 963
Period size: 49 Copynumber: 23.9 Consensus size: 49
1777115 GATAAAGGGA
* * * * ** *
1777125 CCAATACGCTGATTCACGGTCAACGATATTGGGTTTCAAAGATGTAAAGAATG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AAAGATG--AAG-GTG
* * * * * * * * *
1777178 TCAATGTGCTGATTCACGGTCAGCGACATTAGTCTTGAAGATGAGAAGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGA-AGGTG
* * * * * ** *
1777228 CCAATGTGCTGATTCAAAGCAAACGACATTGGGTTTCAAAGATGATGAAGATG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--AA-A-GATGAAGGTG
* *
1777281 CCAATATGTTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTG
* * * * *
1777330 CTAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGACGAAGGCG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT---GAAGGTG
*
1777382 CCAATATACTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTG
** * * * *
1777431 CTGATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATG-ATGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTG
*
1777479 CCAATATGCTGATTCAAGGCCAGCGATATTGGGC-T-----T----GTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTG
* * * * *
1777518 CCAATGTGCTGAGTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTG
** *
1777567 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-GTGA-CAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTG
* *
1777614 CCAATATGCTGATTCAAAGCCAGCGATATTGGGCTT----A--AAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTG
* * **
1777657 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGATGAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTG
1777706 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTG
* * * *
1777749 CCAATGTGCTGATTCAAGGCCAGCGAAATTGGTCTTAAAGATAAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTG
* * **
1777798 CGAATATGCTGATTCAAGGCCAGCGATATTGGGCTT-GTGAT-AAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTG
*
1777845 CCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT----A--AAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTG
* * *
1777888 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTG
* *
1777937 CCAATATGCCGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTA
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTG
* * * * * *
1777980 CCAATGTGCTAATTCAAGGCCAGTGACAATGGTCTTAAAGATGAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTG
*
1778029 CCAATATGTTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTG
* * *
1778072 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAAGATTAGAAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AAAGA-T-G-AAGGTG
* * * * * *
1778125 CTAATATGTTGATTCAAGGCCAGCAATATTGGACTCAAGAGGGTAAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAA-A-GATGAAGGTG
* *
1778176 CCAATATGCTGATTCAAGGCCAGTGTTATTGGACTT----A--AAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTG
* * *
1778219 CCAATATGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
1778262 CCACGGAGTG
Statistics
Matches: 888, Mismatches: 136, Indels: 124
0.77 0.12 0.11
Matches are distributed among these distances:
39 33 0.04
40 1 0.00
42 1 0.00
43 224 0.25
44 2 0.00
45 4 0.00
47 87 0.10
48 39 0.04
49 273 0.31
50 31 0.03
51 39 0.04
52 51 0.06
53 97 0.11
54 6 0.01
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (49 bp):
CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTG
Found at i:1777743 original size:92 final size:90
Alignment explanation
Indices: 1777515--1778256 Score: 662
Period size: 92 Copynumber: 7.9 Consensus size: 90
1777505 TATTGGGCTT
* * * *
1777515 GTGCCAATGTGCTGAGTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A-AAAGGTGCCAATATGCTGAT
**
1777580 TCAAGGCCAGCGATATTGGACTTGTGACAAG
61 TCAAGGCCAGCGATATTGGACTTAAGA-AAG
* * *
1777611 GTGCCAATATGCTGATTCAAAGCCAGCGATATTGGGCTT-AAAGGTGCCAATGTGCTGATTCAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAGGTGCCAATATGCTGATTCAAG
* **
1777675 GCCAGCGACATTGGTTTTAAAGATGAAG
66 GCCAGCGATATTGGACTT-AAGA--AAG
*
1777703 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AAAGGTGCCAATGTGCTGATTCAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAGGTGCCAATATGCTGATTCAAG
* *
1777767 GCCAGCGAAATTGGTCTTAAAGATAAAG
66 GCCAGCGATATTGGACTT-AAG--AAAG
* * *
1777795 GTGCGAATATGCTGATTCAAGGCCAGCGATATTGGGCTTGTGATAAGGTGCCAATATGCTGATTC
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-T-AAAAGGTGCCAATATGCTGATTC
*
1777860 AAGGCCAGCGATATTGGGCTT---AAAG
63 AAGGCCAGCGATATTGGACTTAAGAAAG
* * * *
1777885 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGCCGAT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A-A--AAGGTGCCAATATGCTGAT
1777950 TCAAGGCCAGCGATATTGGACTT---AAAG
61 TCAAGGCCAGCGATATTGGACTTAAGAAAG
* * * * * * * *
1777977 GTACCAATGTGCTAATTCAAGGCCAGTGACAATGGTCTTAAAGATGAAGGTGCCAATATGTTGAT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A-A--AAGGTGCCAATATGCTGAT
1778042 TCAAGGCCAGCGATATTGGACTT---AAAG
61 TCAAGGCCAGCGATATTGGACTTAAGAAAG
* * * * *
1778069 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAAGATTAGAAAGGTGCTAATATGT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGG-------A-CTTA-AAAGGTGCCAATATGC
* *
1778134 TGATTCAAGGCCAGCAATATTGGACTCAAGAGGGTAAAG
57 TGATTCAAGGCCAGCGATATTGGACT-TA-A--G-AAAG
* *
1778173 GTGCCAATATGCTGATTCAAGGCCAGTGTTATTGGACTT-AAAGGTGCCAATATGCTGATTCAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAGGTGCCAATATGCTGATTCAAG
* * *
1778237 GCCAACGACATTGGTCTTAA
66 GCCAGCGATATTGGACTTAA
1778257 AGATGCCACG
Statistics
Matches: 561, Mismatches: 57, Indels: 60
0.83 0.08 0.09
Matches are distributed among these distances:
88 1 0.00
89 2 0.00
90 76 0.14
91 2 0.00
92 285 0.51
93 2 0.00
94 38 0.07
96 114 0.20
97 1 0.00
98 3 0.01
100 2 0.00
104 35 0.06
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.26
Consensus pattern (90 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAGGTGCCAATATGCTGATTCAAG
GCCAGCGATATTGGACTTAAGAAAG
Found at i:1777794 original size:231 final size:232
Alignment explanation
Indices: 1777279--1778260 Score: 1259
Period size: 231 Copynumber: 4.2 Consensus size: 232
1777269 ATGATGAAGA
* * * * * * * *
1777279 TGCCAATATGTTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCTAATGTGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAGCGAAATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
* * * *
1777344 CAAGGCCAGCAACATTGGACTTAAAGATGACGAAGGCGCCAATATACTGATTCAAGGCCAGCGAT
66 CAAGGCCAGCGATATTGGACTT---G-TGAC-AAGGTGCCAATATGCTGATTCAAGGCCAGCGAT
* **
1777409 ATTGGACTTAAAGATGAAGGTGCTGATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATG
126 ATTGGGCTT--A-A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATG
* *
1777474 -ATGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT----G
186 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGG
* *
1777516 TGCCAATGTGCTGAGTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAGCGAAATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
*
1777581 CAAGGCCAGCGATATTGGACTTGTGACAAGGTGCCAATATGCTGATTCAAAGCCAGCGATATTGG
66 CAAGGCCAGCGATATTGGACTTGTGACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGG
*
1777646 GCTT-AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGATGAAGGTGCCAA
131 GCTTAAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAA
1777710 TATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGG
196 TATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGG
*
1777747 TGCCAATGTGCTGATTCAAGGCCAGCGAAATTGGTCTTAAAGATAAAGGTGCGAATATGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAGCGAAATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
* *
1777812 CAAGGCCAGCGATATTGGGCTTGTGATAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGG
66 CAAGGCCAGCGATATTGGACTTGTGACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGG
1777877 GCTT-AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAA
131 GCTTAAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAA
*
1777941 TATGCCGATTCAAGGCCAGCGATATTGGACTTAAAGG
196 TATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGG
* * * * *
1777978 TACCAATGTGCTAATTCAAGGCCAGTGACAA-TGGTCTTAAAGATGAAGGTGCCAATATGTTGAT
1 TGCCAATGTGCTGATTCAAGGCCAGCGA-AATTGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
* *
1778042 TCAAGGCCAGCGATATTGGAC-T-T-A-AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTG
65 TCAAGGCCAGCGATATTGGACTTGTGACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
* * * * * * * * *
1778103 GTCTTAAAAGATTAGAAAGGTGCTAATATGTTGATTCAAGGCCAGCAATATTGGACTCAAGAGGG
130 G--------GCTTA-AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAA-A-GA
* * *
1778168 TAAAGGTGCCAATATGCTGATTCAAGGCCAGTGTTATTGGACTTAAAGG
184 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGG
* * *
1778217 TGCCAATATGCTGATTCAAGGCCAACGACATTGGTCTTAAAGAT
1 TGCCAATGTGCTGATTCAAGGCCAGCGAAATTGGTCTTAAAGAT
1778261 GCCACGGAGT
Statistics
Matches: 670, Mismatches: 56, Indels: 36
0.88 0.07 0.05
Matches are distributed among these distances:
226 46 0.07
227 75 0.11
228 2 0.00
229 1 0.00
230 1 0.00
231 299 0.45
232 40 0.06
233 4 0.01
234 1 0.00
235 3 0.00
237 114 0.17
238 2 0.00
239 82 0.12
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (232 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGAAATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
CAAGGCCAGCGATATTGGACTTGTGACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGG
GCTTAAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAA
TATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGG
Found at i:1778145 original size:53 final size:51
Alignment explanation
Indices: 1778064--1778198 Score: 162
Period size: 53 Copynumber: 2.6 Consensus size: 51
1778054 ATATTGGACT
* * * * *
1778064 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAAGAT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCAACATTGGACTCAAAAGAG
* * * * *
1778115 TAGAAAGGTGCTAATATGTTGATTCAAGGCCAGCAATATTGGACTCAAGAGGG
1 T--AAAGGTGCCAATATGCTGATTCAAGGCCAGCAACATTGGACTCAAAAGAG
1778168 TAAAGGTGCCAATATGCTGATTCAAGGCCAG
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAG
1778199 TGTTATTGGA
Statistics
Matches: 70, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
51 29 0.41
53 41 0.59
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (51 bp):
TAAAGGTGCCAATATGCTGATTCAAGGCCAGCAACATTGGACTCAAAAGAG
Found at i:1778190 original size:51 final size:47
Alignment explanation
Indices: 1777515--1778250 Score: 673
Period size: 43 Copynumber: 15.7 Consensus size: 47
1777505 TATTGGGCTT
* * * *
1777515 GTGCCAATGTGCTGAGTCAAGGCCAGCGACATTGGTCTTAAAGATAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-TAAAG-TAAAG
*
1777564 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACT--TGTGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTAAAGT-A-AAG
* *
1777611 GTGCCAATATGCTGATTCAAAGCCAGCGATATTGGGCT----TAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTAAAGTAAAG
* * ** *
1777654 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGATGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGG-ACTAAAG-TAAAG
1777703 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACT----TAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTAAAGTAAAG
* * *
1777746 GTGCCAATGTGCTGATTCAAGGCCAGCGAAATTGGTCTTAAAGATAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-TAAAG-TAAAG
* * *
1777795 GTGCGAATATGCTGATTCAAGGCCAGCGATATTGGGCT--TGTGATAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTAAAGT-A-AAG
*
1777842 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCT----TAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTAAAGTAAAG
* * * *
1777885 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-TAAAG-TAAAG
*
1777934 GTGCCAATATGCCGATTCAAGGCCAGCGATATTGGACT----TAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTAAAGTAAAG
* * * * * * * *
1777977 GTACCAATGTGCTAATTCAAGGCCAGTGACAATGGTCTTAAAGATGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-TAAAG-TAAAG
*
1778026 GTGCCAATATGTTGATTCAAGGCCAGCGATATTGGACT----TAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTAAAGTAAAG
* * *
1778069 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAAGATTAGAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-AAAG--T--AAAG
* * *
1778122 GTGCTAATATGTTGATTCAAGGCCAGCAATATTGGACTCAAGAGGGTAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACT-AA-A--GTAAAG
* *
1778173 GTGCCAATATGCTGATTCAAGGCCAGTGTTATTGGACT----TAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTAAAGTAAAG
* *
1778216 GTGCCAATATGCTGATTCAAGGCCAACGACATTGG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGG
1778251 TCTTAAAGAT
Statistics
Matches: 572, Mismatches: 74, Indels: 88
0.78 0.10 0.12
Matches are distributed among these distances:
43 216 0.38
44 7 0.01
45 4 0.01
46 4 0.01
47 79 0.14
48 5 0.01
49 178 0.31
51 38 0.07
52 3 0.01
53 37 0.06
55 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (47 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTAAAGTAAAG
Found at i:1778237 original size:21 final size:21
Alignment explanation
Indices: 1778170--1778237 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
1778160 CAAGAGGGTA
1778170 AAGGTGCCAATATGCTGATTC
1 AAGGTGCCAATATGCTGATTC
* * ** *
1778191 AA-G-GCCAGTGTTATTGGACTTA
1 AAGGTGCCAAT-ATGCT-GA-TTC
1778213 AAGGTGCCAATATGCTGATTC
1 AAGGTGCCAATATGCTGATTC
1778234 AAGG
1 AAGG
1778238 CCAACGACAT
Statistics
Matches: 32, Mismatches: 10, Indels: 10
0.62 0.19 0.19
Matches are distributed among these distances:
19 5 0.16
20 3 0.09
21 10 0.31
22 6 0.19
23 3 0.09
24 5 0.16
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.28
Consensus pattern (21 bp):
AAGGTGCCAATATGCTGATTC
Found at i:1778250 original size:43 final size:43
Alignment explanation
Indices: 1778168--1778264 Score: 140
Period size: 43 Copynumber: 2.3 Consensus size: 43
1778158 CTCAAGAGGG
** **
1778168 TAAAGGTGCCAATATGCTGATTCAAGGCCAGTGTTATTGGACT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAACGACATTGGACT
*
1778211 TAAAGGTGCCAATATGCTGATTCAAGGCCAACGACATTGGTCT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAACGACATTGGACT
*
1778254 TAAAGATGCCA
1 TAAAGGTGCCA
1778265 CGGAGTGGTG
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (43 bp):
TAAAGGTGCCAATATGCTGATTCAAGGCCAACGACATTGGACT
Found at i:1778438 original size:31 final size:31
Alignment explanation
Indices: 1778400--1778548 Score: 183
Period size: 31 Copynumber: 4.7 Consensus size: 31
1778390 GCTTAAAGAA
1778400 ATGCCACTGAGTCGTGGACTTTGAAGAAAAG
1 ATGCCACTGAGTCGTGGACTTTGAAGAAAAG
* * *
1778431 ACGCCACTGAGTCGTGGACTTTG-GGAAGAG
1 ATGCCACTGAGTCGTGGACTTTGAAGAAAAG
* *
1778461 ATTGCCAGTGAGACGTGGACTTTGAAGAAAAAAAG
1 A-TGCCACTGAGTCGTGGACTTTGAAG---AAAAG
* *
1778496 ATGCCACTAAGTCGTGGACTTGGAAGAAAAGG
1 ATGCCACTGAGTCGTGGACTTTGAAGAAAA-G
1778528 ATGCCACTGAGTCGTGGACTT
1 ATGCCACTGAGTCGTGGACTT
1778549 CGAGAAGAGA
Statistics
Matches: 99, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
30 6 0.06
31 45 0.45
32 22 0.22
34 21 0.21
35 5 0.05
ACGTcount: A:0.31, C:0.17, G:0.31, T:0.21
Consensus pattern (31 bp):
ATGCCACTGAGTCGTGGACTTTGAAGAAAAG
Found at i:1779831 original size:14 final size:14
Alignment explanation
Indices: 1779812--1779851 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
1779802 CTTTGCACTC
1779812 TTTTTTGTGTTTT-T
1 TTTTTTGT-TTTTGT
1779826 TTTTTTGTTTTTGT
1 TTTTTTGTTTTTGT
*
1779840 TGTTTTGTTTTT
1 TTTTTTGTTTTT
1779852 ACTTTTGATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 4 0.17
14 20 0.83
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (14 bp):
TTTTTTGTTTTTGT
Found at i:1779843 original size:21 final size:20
Alignment explanation
Indices: 1779813--1779851 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
1779803 TTTGCACTCT
*
1779813 TTTTTGTGTTTTTTTTTTTG
1 TTTTTGTGTTTTGTTTTTTG
1779833 TTTTTGTTGTTTTGTTTTT
1 TTTTTG-TGTTTTGTTTTT
1779852 ACTTTTGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (20 bp):
TTTTTGTGTTTTGTTTTTTG
Found at i:1779857 original size:21 final size:20
Alignment explanation
Indices: 1779813--1779857 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
1779803 TTTGCACTCT
* **
1779813 TTTTTGTGTTTTTTTTTTTG
1 TTTTTGTGTTTTGTTTTTAC
1779833 TTTTTGTTGTTTTGTTTTTAC
1 TTTTTG-TGTTTTGTTTTTAC
1779854 TTTT
1 TTTT
1779858 GATTTTTCAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.02, C:0.02, G:0.13, T:0.82
Consensus pattern (20 bp):
TTTTTGTGTTTTGTTTTTAC
Found at i:1784608 original size:26 final size:26
Alignment explanation
Indices: 1784551--1784609 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
1784541 GGCATCCTAT
* * **
1784551 GTCAAAAAAAATCAAATCAAATCAAA
1 GTCAAAAAAAACCAAAACAAAAAAAA
1784577 -TGCAAAAAAAACCAAAACAAAAAAAA
1 GT-CAAAAAAAACCAAAACAAAAAAAA
1784603 GTCAAAA
1 GTCAAAA
1784610 TTTTCCAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
25 1 0.04
26 25 0.93
27 1 0.04
ACGTcount: A:0.69, C:0.15, G:0.05, T:0.10
Consensus pattern (26 bp):
GTCAAAAAAAACCAAAACAAAAAAAA
Found at i:1784656 original size:16 final size:13
Alignment explanation
Indices: 1784635--1784670 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 13
1784625 AAAATCAATC
1784635 AAAAAAAAGAAGAAG
1 AAAAAAAA-AAG-AG
1784650 AAAAAAAAAAGAG
1 AAAAAAAAAAGAG
1784663 AAAAAAAA
1 AAAAAAAA
1784671 GGTCAGGATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 10 0.48
14 3 0.14
15 8 0.38
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAGAG
Found at i:1786023 original size:28 final size:28
Alignment explanation
Indices: 1785983--1786955 Score: 785
Period size: 28 Copynumber: 33.8 Consensus size: 28
1785973 CTCCAAATCT
* *
1785983 CCTTTCATAGCCCACAAGTTAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* * *
1786011 CCTTTCAAAGCCCACAAGTTAGTAGCAT
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
*
1786039 CCTCTCAAAGCCCACAAGTCAGTGGCATCC
1 CCTTTCAAAGCCCACAAGTCAGTGGCA--C
* * *
1786069 CCTTTCAAGGCCCATAAGTCAATGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* * * *
1786097 CCTCTCAAAGCCCATAACTCAATGGCATCC
1 CCTTTCAAAGCCCACAAGTCAGTGGCA--C
*
1786127 CCTTTTAAAGCCCACAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* * *
1786155 CCTTTTAAAGCCCATAAGTCAGTGGCGTC
1 CCTTTCAAAGCCCACAAGTCAGTGGC-AC
* **
1786184 CCATCTCAAAGCCCACAAGTTGGTGGCATC
1 CC-TTTCAAAGCCCACAAGTCAGTGGCA-C
*
1786214 TCTTTTCAAAGCCCACAAGTCAGTGGCAC
1 -CCTTTCAAAGCCCACAAGTCAGTGGCAC
*
1786243 CCTCTCAAAG-CCAGCAAGTC-GATGGCATC
1 CCTTTCAAAGCCCA-CAAGTCAG-TGGCA-C
*
1786272 CTCTTTCAAAGCCCACAATTCAGTGGCAC
1 C-CTTTCAAAGCCCACAAGTCAGTGGCAC
*
1786301 CCTTTTAAAGCCCACAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
*
1786329 CCTTTCAAAGCCTACAAGTC-GATGGCATC
1 CCTTTCAAAGCCCACAAGTCAG-TGGCA-C
*
1786358 CTCTTTCAAAG-CCACAATTCAGTGGCAC
1 C-CTTTCAAAGCCCACAAGTCAGTGGCAC
*
1786386 CCTTTTAAAGCCCACAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* *
1786414 CCTTTCAAAGCCTACAAGTCGGTGGCATCC
1 CCTTTCAAAGCCCACAAGTCAGTGGCA--C
* * **
1786444 CCTCTCAAAGCCCATAAGTTGGTGGCATC
1 CCTTTCAAAGCCCACAAGTCAGTGGCA-C
* * *
1786473 TCTTTTCAAAACCCACAAGTCAATGGCAC
1 -CCTTTCAAAGCCCACAAGTCAGTGGCAC
*
1786502 CCTCTCAAAGCCCACAAGTC-GATGGCATCC
1 CCTTTCAAAGCCCACAAGTCAG-TGGCA--C
* * *
1786532 CCTTTTAAAGCCCACAGGTCAATGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* ** * *
1786560 CCTCTCAAAGCTTACAAGT-TGATGGAATC
1 CCTTTCAAAGCCCACAAGTCAG-TGGCA-C
* *
1786589 CCTTTTCAAAGCCCACAAGTCA-AGCCAC
1 CC-TTTCAAAGCCCACAAGTCAGTGGCAC
* * * *
1786617 CATTTTAAAGCCCATAAGTGAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* *
1786645 CCTCTCAAAGCCCACAAGCCAGTGG-AGTCC
1 CCTTTCAAAGCCCACAAGTCAGTGGCA---C
* * * *
1786675 CCTTTTAAAGCTCACAAGTCAGTGGTAG
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* * * *
1786703 CCTTACAAAGCCCAAAAG-CCGATGGTATCC
1 CCTTTCAAAGCCCACAAGTCAG-TGGCA--C
*
1786733 CCTTTCAAAGCCCATAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* * * **
1786761 CCTCTCAAACCCCATAAGTTGGTGGCATC
1 CCTTTCAAAGCCCACAAGTCAGTGGCA-C
* * *
1786790 CCTTCTTAAAGCCCATAAGTTAGTGGCATC
1 CCTT-TCAAAGCCCACAAGTCAGTGGCA-C
**
1786820 TCCTTTTGAAGCCCACAAGTCAGTGGCAC
1 -CCTTTCAAAGCCCACAAGTCAGTGGCAC
* * * **
1786849 CCTCTCAAAACACACAAGTTGGTGGCATCC
1 CCTTTCAAAGCCCACAAGTCAGTGGCA--C
* * *
1786879 CCTTTTAAAGCCCACAATTCAATGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* * * *
1786907 CTTTTTAAAGCCCACAAGTTAATGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
*
1786935 CCTCTCAAAGCCCACAAGTCA
1 CCTTTCAAAGCCCACAAGTCA
1786956 ATATCATCCC
Statistics
Matches: 760, Mismatches: 141, Indels: 88
0.77 0.14 0.09
Matches are distributed among these distances:
27 32 0.04
28 381 0.50
29 34 0.04
30 301 0.40
31 12 0.02
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.22
Consensus pattern (28 bp):
CCTTTCAAAGCCCACAAGTCAGTGGCAC
Found at i:1786101 original size:58 final size:58
Alignment explanation
Indices: 1785983--1786955 Score: 790
Period size: 58 Copynumber: 16.9 Consensus size: 58
1785973 CTCCAAATCT
* * * * *
1785983 CCTTTCATAGCCCACAAGTTAGTGGCA--CCCTTTCAAAGCCCACAAGTTAGTAGCAT
1 CCTTTCAAAGCCCACAAGTCAGTGGCATCCCCTTTCAAAGCCCACAAGTCAGTGGCAC
* * * *
1786039 CCTCTCAAAGCCCACAAGTCAGTGGCATCCCCTTTCAAGGCCCATAAGTCAATGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCATCCCCTTTCAAAGCCCACAAGTCAGTGGCAC
* * * * *
1786097 CCTCTCAAAGCCCATAACTCAATGGCATCCCCTTTTAAAGCCCACAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCATCCCCTTTCAAAGCCCACAAGTCAGTGGCAC
* * * * * **
1786155 CCTTTTAAAGCCCATAAGTCAGTGGCGTCCCATCTCAAAGCCCACAAGTTGGTGGCATC
1 CCTTTCAAAGCCCACAAGTCAGTGGCATCCCCTTTCAAAGCCCACAAGTCAGTGGCA-C
* *
1786214 TCTTTTCAAAGCCCACAAGTCAGTGGCA--CCCTCTCAAAG-CCAGCAAGTC-GATGGCATC
1 -CCTTTCAAAGCCCACAAGTCAGTGGCATCCCCTTTCAAAGCCCA-CAAGTCAG-TGGCA-C
* *
1786272 CTCTTTCAAAGCCCACAATTCAGTGGCA--CCCTTTTAAAGCCCACAAGTCAGTGGCAC
1 C-CTTTCAAAGCCCACAAGTCAGTGGCATCCCCTTTCAAAGCCCACAAGTCAGTGGCAC
* * *
1786329 CCTTTCAAAGCCTACAAGTC-GATGGCATCCTCTTTCAAAG-CCACAATTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAG-TGGCATCCCCTTTCAAAGCCCACAAGTCAGTGGCAC
* * *
1786386 CCTTTTAAAGCCCACAAGTCAGTGGCA--CCCTTTCAAAGCCTACAAGTCGGTGGCATCC
1 CCTTTCAAAGCCCACAAGTCAGTGGCATCCCCTTTCAAAGCCCACAAGTCAGTGGCA--C
* * ** * * * *
1786444 CCTCTCAAAGCCCATAAGTTGGTGGCATCTCTTTTCAAAACCCACAAGTCAATGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCATCCCCTTTCAAAGCCCACAAGTCAGTGGCAC
* * * *
1786502 CCTCTCAAAGCCCACAAGTC-GATGGCATCCCCTTTTAAAGCCCACAGGTCAATGGCAC
1 CCTTTCAAAGCCCACAAGTCAG-TGGCATCCCCTTTCAAAGCCCACAAGTCAGTGGCAC
* ** * * * * *
1786560 CCTCTCAAAGCTTACAAGT-TGATGGAATCCCTTTTCAAAGCCCACAAGTCA-AGCCAC
1 CCTTTCAAAGCCCACAAGTCAG-TGGCATCCCCTTTCAAAGCCCACAAGTCAGTGGCAC
* * * * * *
1786617 CATTTTAAAGCCCATAAGTGAGTGGCA--CCCTCTCAAAGCCCACAAGCCAGTGG-AGTCC
1 CCTTTCAAAGCCCACAAGTCAGTGGCATCCCCTTTCAAAGCCCACAAGTCAGTGGCA---C
* * ** * * * *
1786675 CCTTTTAAAGCTCACAAGTCAGTGG--TAGCCTTACAAAGCCCAAAAG-CCGATGGTATCC
1 CCTTTCAAAGCCCACAAGTCAGTGGCATCCCCTTTCAAAGCCCACAAGTCAG-TGGCA--C
* * * * **
1786733 CCTTTCAAAGCCCATAAGTCAGTGGCA--CCCTCTCAAACCCCATAAGTTGGTGGCATC
1 CCTTTCAAAGCCCACAAGTCAGTGGCATCCCCTTTCAAAGCCCACAAGTCAGTGGCA-C
* * * * **
1786790 CCTTCTTAAAGCCCATAAGTTAGTGGCATCTCCTTTTGAAGCCCACAAGTCAGTGGCAC
1 CCTT-TCAAAGCCCACAAGTCAGTGGCATCCCCTTTCAAAGCCCACAAGTCAGTGGCAC
* * * ** * * *
1786849 CCTCTCAAAACACACAAGTTGGTGGCATCCCCTTTTAAAGCCCACAATTCAATGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCATCCCCTTTCAAAGCCCACAAGTCAGTGGCAC
* * * * *
1786907 CTTTTTAAAGCCCACAAGTTAATGGCA--CCCTCTCAAAGCCCACAAGTCA
1 CCTTTCAAAGCCCACAAGTCAGTGGCATCCCCTTTCAAAGCCCACAAGTCA
1786956 ATATCATCCC
Statistics
Matches: 745, Mismatches: 137, Indels: 70
0.78 0.14 0.07
Matches are distributed among these distances:
55 31 0.04
56 79 0.11
57 75 0.10
58 484 0.65
59 11 0.01
60 65 0.09
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.22
Consensus pattern (58 bp):
CCTTTCAAAGCCCACAAGTCAGTGGCATCCCCTTTCAAAGCCCACAAGTCAGTGGCAC
Found at i:1786474 original size:259 final size:257
Alignment explanation
Indices: 1786005--1786955 Score: 983
Period size: 259 Copynumber: 3.7 Consensus size: 257
1785995 CACAAGTTAG
* *
1786005 TGGCA-CCCTTTCAAAGCCCACAAGTTAGTAGCATCCTCTCAAAGCCCACAAGTCAGTGGCATCC
1 TGGCATCCCTTTCAAAGCCCACAAGTTAGTGGCACCCTCTCAAAGCCCACAAGTCAGTGGCAT-C
* * * * * *
1786069 CCTTTCAAGGCCCATAAGTCAATGGCACC-CTCTCAAAGCCCATAACTCAATGGCATCCCCTTTT
65 CCTTTCAAAGCCCACAAGTCGATGGCACCTCTTTCAAAGCCCACAATTCAATGGCA--CCCTTTT
* * *
1786133 AAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCATAAGTCAGTGGCGTCCCATCTCAAAGCCC
128 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGC-TCCCCTCTCAAAGCCC
*
1786198 ACAAGTTGGTGGCATCTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTCTCAAAGCCAGCAAGTC
192 AAAAGTTGGTGGCATCTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTCTCAAAGCCA-CAAGTC
1786263 GA
256 GA
* *
1786265 TGGCATCCTCTTTCAAAGCCCACAA-TTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCA-
1 TGGCATCC-CTTTCAAAGCCCACAAGTT-AGTGGCACCCTCTCAAAGCCCACAAGTCAGTGGCAT
* *
1786328 CCCTTTCAAAGCCTACAAGTCGATGGCATCCTCTTTCAAAG-CCACAATTCAGTGGCACCCTTTT
64 CCCTTTCAAAGCCCACAAGTCGATGGCA-CCTCTTTCAAAGCCCACAATTCAATGGCACCCTTTT
* *
1786392 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCTACAAGTCGGTGGCATCCCCTCTCAAAGCCC
128 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGC-TCCCCTCTCAAAGCCC
* * *
1786457 ATAAGTTGGTGGCATCTCTTTTCAAAACCCACAAGTCAATGGCACCCTCTCAAAGCCCACAAGTC
192 AAAAGTTGGTGGCATCTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTCTCAAAG-CCACAAGTC
1786522 GA
256 GA
* * * * ** * *
1786524 TGGCATCCCCTTTTAAAGCCCACAGGTCAATGGCACCCTCTCAAAGCTTACAAGT-TGATGGAAT
1 TGGCAT-CCCTTTCAAAGCCCACAAGTTAGTGGCACCCTCTCAAAGCCCACAAGTCAG-TGGCAT
* * * * * * *
1786588 CCCTTTTCAAAGCCCACAAGTC-AAGCCACCAT-TTT-AAAGCCCATAAGTGAGTGGCACCCTCT
64 CCC-TTTCAAAGCCCACAAGTCGATGGCACC-TCTTTCAAAGCCCACAATTCAATGGCACCCTTT
* * * * **
1786650 CAAAGCCCACAAGCCAGTGG-AGTCCCCTTTTAAAGCTCACAAGTCAGTGG-TAGCCT-TACAAA
127 TAAAGCCCACAAGTCAGTGGCA---CCCTTTCAAAGCCCACAAGTCAGTGGCTCCCCTCT-CAAA
** * * * * * * *
1786712 GCCCAAAAGCCGATGGTATCCCCTTTCAAAGCCCATAAGTCAGTGGCACCCTCTCAAACCCCATA
188 GCCCAAAAGTTGGTGGCATCTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTCTCAAA-GCCACA
* *
1786777 AGTTGG
252 AGTCGA
* * * **
1786783 TGGCATCCCTTCTTAAAGCCCATAAGTTAGTGGCATCTCCTTTTGAAGCCCACAAGTCAGTGGCA
1 TGGCATCCCTT-TCAAAGCCCACAAGTTAGTGGCA-C-CCTCTCAAAGCCCACAAGTCAGTGGCA
* * * * * * * *
1786848 -CCCTCTCAAAACACACAAGTTGGTGGCATCCCCTTTTAAAGCCCACAATTCAATGGCACCTTTT
63 TCCCTTTCAAAGCCCACAAGTCGATGGCA-CCTCTTTCAAAGCCCACAATTCAATGGCACCCTTT
* * *
1786912 TAAAGCCCACAAGTTAATGGCACCCTCTCAAAGCCCACAAGTCA
127 TAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCA
1786956 ATATCATCCC
Statistics
Matches: 572, Mismatches: 92, Indels: 54
0.80 0.13 0.08
Matches are distributed among these distances:
258 12 0.02
259 316 0.55
260 69 0.12
261 81 0.14
262 93 0.16
263 1 0.00
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.22
Consensus pattern (257 bp):
TGGCATCCCTTTCAAAGCCCACAAGTTAGTGGCACCCTCTCAAAGCCCACAAGTCAGTGGCATCC
CTTTCAAAGCCCACAAGTCGATGGCACCTCTTTCAAAGCCCACAATTCAATGGCACCCTTTTAAA
GCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCTCCCCTCTCAAAGCCCAAAA
GTTGGTGGCATCTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTCTCAAAGCCACAAGTCGA
Found at i:1787637 original size:20 final size:20
Alignment explanation
Indices: 1787612--1787649 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1787602 TGTCGATACA
*
1787612 ATAAGTGAATGTATCGATGC
1 ATAAGTGAATGTACCGATGC
1787632 ATAAGTGAATGTACCGAT
1 ATAAGTGAATGTACCGAT
1787650 ACATGTCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.11, G:0.24, T:0.29
Consensus pattern (20 bp):
ATAAGTGAATGTACCGATGC
Found at i:1787782 original size:51 final size:52
Alignment explanation
Indices: 1787718--1787815 Score: 162
Period size: 51 Copynumber: 1.9 Consensus size: 52
1787708 AAAATGTATT
* *
1787718 GATACATTTTTCATTGTATCGATACATTCTGGG-TTTTGACCCAAATAAAAC
1 GATACATTCTTCATTGTATCAATACATTCTGGGTTTTTGACCCAAATAAAAC
*
1787769 GATACATTCTTCATTGTATCAATACATTTTGGGTTTTTGACCCAAAT
1 GATACATTCTTCATTGTATCAATACATTCTGGGTTTTTGACCCAAAT
1787816 GTATCGATAT
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
51 30 0.70
52 13 0.30
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (52 bp):
GATACATTCTTCATTGTATCAATACATTCTGGGTTTTTGACCCAAATAAAAC
Found at i:1795190 original size:20 final size:21
Alignment explanation
Indices: 1795165--1795203 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
1795155 TTCCCGTGTG
1795165 AATGTATCGATACA-ATTTTT
1 AATGTATCGATACATATTTTT
1795185 AATGTATCGATACATATTT
1 AATGTATCGATACATATTT
1795204 GAAAATATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.44
Consensus pattern (21 bp):
AATGTATCGATACATATTTTT
Found at i:1795276 original size:13 final size:13
Alignment explanation
Indices: 1795258--1795283 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1795248 CAATTTTTTG
1795258 TGTATCGATACAT
1 TGTATCGATACAT
1795271 TGTATCGATACAT
1 TGTATCGATACAT
1795284 ATTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1795294 original size:32 final size:33
Alignment explanation
Indices: 1795238--1795301 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
1795228 TACAAGCCAA
*
1795238 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATATTTTGTGTATCGATACAT
1795271 TGTATCGATAC-ATATTTTGTGTATCGATACA
1 TGTATCGATACAATATTTTGTGTATCGATACA
1795302 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.63
33 11 0.37
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (33 bp):
TGTATCGATACAATATTTTGTGTATCGATACAT
Found at i:1795295 original size:19 final size:19
Alignment explanation
Indices: 1795238--1795301 Score: 68
Period size: 19 Copynumber: 3.6 Consensus size: 19
1795228 TACAAGCCAA
*
1795238 TGTATCGATACAATTTTTTG
1 TGTATCGATAC-ATATTTTG
1795258 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
1795271 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
1795290 TGTATCGATACA
1 TGTATCGATACA
1795302 AGTTTGGCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.30
14 1 0.03
15 1 0.03
18 1 0.03
19 12 0.32
20 11 0.30
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:1797819 original size:13 final size:13
Alignment explanation
Indices: 1797801--1797838 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1797791 CTAATCCCCC
1797801 TGTATCGATACAG
1 TGTATCGATACAG
*
1797814 TGTATCGATACAT
1 TGTATCGATACAG
1797827 TGTATCGATACA
1 TGTATCGATACA
1797839 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1803447 original size:20 final size:21
Alignment explanation
Indices: 1803422--1803460 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
1803412 TTCCCGTGTG
1803422 AATGTATCGATACA-ATTTTT
1 AATGTATCGATACATATTTTT
1803442 AATGTATCGATACATATTT
1 AATGTATCGATACATATTT
1803461 GAAAATATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.44
Consensus pattern (21 bp):
AATGTATCGATACATATTTTT
Found at i:1803533 original size:13 final size:13
Alignment explanation
Indices: 1803515--1803540 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1803505 CAATTTTTTG
1803515 TGTATCGATACAT
1 TGTATCGATACAT
1803528 TGTATCGATACAT
1 TGTATCGATACAT
1803541 ATTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1803551 original size:32 final size:33
Alignment explanation
Indices: 1803495--1803558 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
1803485 TACAAGCCAA
*
1803495 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATATTTTGTGTATCGATACAT
1803528 TGTATCGATAC-ATATTTTGTGTATCGATACA
1 TGTATCGATACAATATTTTGTGTATCGATACA
1803559 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.63
33 11 0.37
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (33 bp):
TGTATCGATACAATATTTTGTGTATCGATACAT
Found at i:1803552 original size:19 final size:19
Alignment explanation
Indices: 1803495--1803558 Score: 68
Period size: 19 Copynumber: 3.6 Consensus size: 19
1803485 TACAAGCCAA
*
1803495 TGTATCGATACAATTTTTTG
1 TGTATCGATAC-ATATTTTG
1803515 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
1803528 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
1803547 TGTATCGATACA
1 TGTATCGATACA
1803559 AGTTTGGCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.30
14 1 0.03
15 1 0.03
18 1 0.03
19 12 0.32
20 11 0.30
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:1803663 original size:20 final size:20
Alignment explanation
Indices: 1803610--1803665 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
1803600 ACATCTTTTT
*
1803610 CATGTATCGATACATTGCAA
1 CATGTATCGATACTTTGCAA
1803630 CATGTATCGATACTTTG-AA
1 CATGTATCGATACTTTGCAA
*
1803649 CTGTGTATCGATACTTT
1 C-ATGTATCGATACTTT
1803666 TAAGGGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (20 bp):
CATGTATCGATACTTTGCAA
Found at i:1804890 original size:58 final size:58
Alignment explanation
Indices: 1804782--1804894 Score: 149
Period size: 58 Copynumber: 1.9 Consensus size: 58
1804772 TAGGTTGTTG
* * *
1804782 TTCATCATCCTTAAAAAAAAGTAAAAAAAAAAGTGTTTTAGTGTTCTAACCCTTTACTC
1 TTCATCATCCATAAAAAAAAG-AAAAAAAAAAGTGTTCTAGTGTTATAACCCTTTACTC
*
1804841 TTCATCATCCAT-AAAAAAAGAGCAAAAAAAAGTGTTCTAGAT-TTATAACCCTTT
1 TTCATCATCCATAAAAAAAAGA-AAAAAAAAAGTGTTCTAG-TGTTATAACCCTTT
1804895 TCCATCTTTA
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
57 1 0.02
58 35 0.73
59 12 0.25
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.32
Consensus pattern (58 bp):
TTCATCATCCATAAAAAAAAGAAAAAAAAAAGTGTTCTAGTGTTATAACCCTTTACTC
Found at i:1805055 original size:28 final size:27
Alignment explanation
Indices: 1804970--1805051 Score: 78
Period size: 28 Copynumber: 3.0 Consensus size: 27
1804960 TGCTTCATTG
*
1804970 ATTTCACTTCCTTTGATATTTCTTGCTT-
1 ATTTCACTTCC-TTGATATTTCTT-ATTA
* *
1804998 ATTTCA-TTCCCCTTCATATTTTTTATTA
1 ATTTCACTT--CCTTGATATTTCTTATTA
*
1805026 ATTTCACTTCCTTGATCTTTCTTATT
1 ATTTCACTTCCTTGATATTTCTTATT
1805052 TAATAATCAA
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
27 18 0.41
28 22 0.50
29 4 0.09
ACGTcount: A:0.17, C:0.22, G:0.04, T:0.57
Consensus pattern (27 bp):
ATTTCACTTCCTTGATATTTCTTATTA
Found at i:1811394 original size:20 final size:20
Alignment explanation
Indices: 1811371--1811415 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
1811361 AATTGTATTA
**
1811371 ATACATAAGTAAATGTATCG
1 ATACATAACCAAATGTATCG
**
1811391 ATACATTTCCAAATGTATCG
1 ATACATAACCAAATGTATCG
1811411 ATACA
1 ATACA
1811416 ATTTGCTTTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.31
Consensus pattern (20 bp):
ATACATAACCAAATGTATCG
Found at i:1811477 original size:30 final size:31
Alignment explanation
Indices: 1811424--1811499 Score: 127
Period size: 30 Copynumber: 2.5 Consensus size: 31
1811414 CAATTTGCTT
1811424 TGTATCGATACATTATGGGTTTTTGATCCAAA
1 TGTATCGATACATTA-GGGTTTTTGATCCAAA
*
1811456 TGTATCGATACATTA-GGTTTTTTATCCAAA
1 TGTATCGATACATTAGGGTTTTTGATCCAAA
1811486 TGTATCGATACATT
1 TGTATCGATACATT
1811500 CTTCAATGTA
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
30 28 0.65
32 15 0.35
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (31 bp):
TGTATCGATACATTAGGGTTTTTGATCCAAA
Found at i:1815795 original size:13 final size:13
Alignment explanation
Indices: 1815763--1815831 Score: 69
Period size: 13 Copynumber: 5.8 Consensus size: 13
1815753 ACTCAATATT
*
1815763 GATACAGTGTATC
1 GATACATTGTATC
1815776 GATACATTGTATC
1 GATACATTGTATC
*
1815789 GATACA-TG-GT-
1 GATACATTGTATC
1815799 GA-A-A-TGTATC
1 GATACATTGTATC
*
1815809 GATACATTATATC
1 GATACATTGTATC
1815822 GATACATTGT
1 GATACATTGT
1815832 GAGATCAACG
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
8 3 0.07
9 2 0.04
10 4 0.09
11 2 0.04
12 3 0.07
13 32 0.70
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (13 bp):
GATACATTGTATC
Found at i:1815812 original size:33 final size:33
Alignment explanation
Indices: 1815770--1815833 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
1815760 ATTGATACAG
*
1815770 TGTATCGATACATTGTATCGATACATGGTGAAA
1 TGTATCGATACATTATATCGATACATGGTGAAA
*
1815803 TGTATCGATACATTATATCGATACATTGTGA
1 TGTATCGATACATTATATCGATACATGGTGA
1815834 GATCAACGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATTATATCGATACATGGTGAAA
Found at i:1825671 original size:19 final size:19
Alignment explanation
Indices: 1825626--1825674 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
1825616 ACTGCCAGTT
*
1825626 TCATGTATCGATACAATTG
1 TCATGTATCGAAACAATTG
1825645 TCCATGTATCGAAACAA-TG
1 T-CATGTATCGAAACAATTG
1825664 ATCATGTATCG
1 -TCATGTATCG
1825675 GTATAATGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (19 bp):
TCATGTATCGAAACAATTG
Found at i:1826708 original size:33 final size:32
Alignment explanation
Indices: 1826666--1826769 Score: 102
Period size: 39 Copynumber: 3.0 Consensus size: 32
1826656 CACACACAGA
1826666 TGTATCGATACAT-TATGCTTTGTATAGATACAT
1 TGTATCGATACATGT-T-CTTTGTATAGATACAT
*
1826699 TGTATCGATACATGTTCTTTGTATCGATACATGGACAAT
1 TGTATCGATACATGTTCTTTG--T--ATAGAT--AC-AT
*
1826738 TGTATCGATACATGTTCTTTGTATCGATACAT
1 TGTATCGATACATGTTCTTTGTATAGATACAT
1826770 GGACAATTGT
Statistics
Matches: 60, Mismatches: 3, Indels: 17
0.75 0.04 0.21
Matches are distributed among these distances:
32 7 0.12
33 16 0.27
34 2 0.03
35 4 0.07
36 5 0.08
37 1 0.02
38 2 0.03
39 23 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.41
Consensus pattern (32 bp):
TGTATCGATACATGTTCTTTGTATAGATACAT
Found at i:1826722 original size:19 final size:20
Alignment explanation
Indices: 1826697--1826790 Score: 120
Period size: 19 Copynumber: 4.8 Consensus size: 20
1826687 GTATAGATAC
**
1826697 ATTGTATCGATACATGTTC-
1 ATTGTATCGATACATGGACA
*
1826716 TTTGTATCGATACATGGACA
1 ATTGTATCGATACATGGACA
**
1826736 ATTGTATCGATACATGTTC-
1 ATTGTATCGATACATGGACA
*
1826755 TTTGTATCGATACATGGACA
1 ATTGTATCGATACATGGACA
1826775 ATTGTATCGATACATG
1 ATTGTATCGATACATG
1826791 AGATTGGTAG
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
19 32 0.51
20 31 0.49
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (20 bp):
ATTGTATCGATACATGGACA
Found at i:1826751 original size:39 final size:39
Alignment explanation
Indices: 1826697--1826790 Score: 188
Period size: 39 Copynumber: 2.4 Consensus size: 39
1826687 GTATAGATAC
1826697 ATTGTATCGATACATGTTCTTTGTATCGATACATGGACA
1 ATTGTATCGATACATGTTCTTTGTATCGATACATGGACA
1826736 ATTGTATCGATACATGTTCTTTGTATCGATACATGGACA
1 ATTGTATCGATACATGTTCTTTGTATCGATACATGGACA
1826775 ATTGTATCGATACATG
1 ATTGTATCGATACATG
1826791 AGATTGGTAG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (39 bp):
ATTGTATCGATACATGTTCTTTGTATCGATACATGGACA
Found at i:1826853 original size:13 final size:13
Alignment explanation
Indices: 1826835--1826888 Score: 73
Period size: 13 Copynumber: 4.5 Consensus size: 13
1826825 CGATACATGG
1826835 TACATTGTATCGA
1 TACATTGTATCGA
1826848 TACATTGTATCGA
1 TACATTGTATCGA
1826861 TACA-TG-AT-GA
1 TACATTGTATCGA
1826871 -A-ATTGTATCGA
1 TACATTGTATCGA
1826882 TACATTG
1 TACATTG
1826889 CTTGTAACGA
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
8 1 0.03
9 3 0.08
10 4 0.11
11 4 0.11
12 3 0.08
13 21 0.58
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:1826881 original size:34 final size:33
Alignment explanation
Indices: 1826819--1826888 Score: 113
Period size: 34 Copynumber: 2.1 Consensus size: 33
1826809 CTACCACTGT
* *
1826819 TTGTATCGATACATGGTACATTGTATCGATACA
1 TTGTATCGATACATGATAAATTGTATCGATACA
1826852 TTGTATCGATACATGATGAAATTGTATCGATACA
1 TTGTATCGATACATGAT-AAATTGTATCGATACA
1826886 TTG
1 TTG
1826889 CTTGTAACGA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
33 16 0.47
34 18 0.53
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (33 bp):
TTGTATCGATACATGATAAATTGTATCGATACA
Found at i:1828461 original size:3 final size:3
Alignment explanation
Indices: 1828453--1828489 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
1828443 TGAAGAGGAA
1828453 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1828490 GTGACTCGGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:1835687 original size:20 final size:19
Alignment explanation
Indices: 1835637--1835693 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
1835627 TTGTATCGAT
* *
1835637 ACATTGTATCAATACATGT
1 ACATTGTATCGATACATGG
* *
1835656 TCATTTTATCGATACATGG
1 ACATTGTATCGATACATGG
1835675 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
1835694 AGATTGGCAG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:1838246 original size:12 final size:12
Alignment explanation
Indices: 1838229--1838263 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
1838219 CCCGAGTGAT
1838229 GATTAGTCGTAG
1 GATTAGTCGTAG
*
1838241 GATTAGTCATAG
1 GATTAGTCGTAG
*
1838253 GAGTAGTCGTA
1 GATTAGTCGTA
1838264 TGCTAGTTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.29, C:0.09, G:0.31, T:0.31
Consensus pattern (12 bp):
GATTAGTCGTAG
Found at i:1839308 original size:13 final size:13
Alignment explanation
Indices: 1839276--1839309 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
1839266 ACTTATTATT
*
1839276 GATACAGTATATC
1 GATACATTATATC
1839289 GATACATTATATC
1 GATACATTATATC
1839302 GATACATT
1 GATACATT
1839310 GAGACCAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (13 bp):
GATACATTATATC
Found at i:1841306 original size:19 final size:19
Alignment explanation
Indices: 1841262--1841308 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
1841252 CTTATTTTTA
* *
1841262 AAGAGAAAATAACTGGTTG
1 AAGATAAAATAAATGGTTG
*
1841281 AAAATAAAATAAATGGTCT-
1 AAGATAAAATAAATGGT-TG
1841300 AAGATAAAA
1 AAGATAAAA
1841309 GAATGAGTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 22 0.96
20 1 0.04
ACGTcount: A:0.57, C:0.04, G:0.17, T:0.21
Consensus pattern (19 bp):
AAGATAAAATAAATGGTTG
Found at i:1845330 original size:54 final size:54
Alignment explanation
Indices: 1845248--1845355 Score: 198
Period size: 54 Copynumber: 2.0 Consensus size: 54
1845238 TGGCTTTGAC
*
1845248 TGTTAGTCATTCGTTGTCTGTCAATTCTGATGTTAAGGCTCAAATTATAGGTTA
1 TGTTAGTCATTCGTTGTCTGTCAATTCTGATGTTAAGACTCAAATTATAGGTTA
*
1845302 TGTTAGTCATTCGTTGTTTGTCAATTCTGATGTTAAGACTCAAATTATAGGTTA
1 TGTTAGTCATTCGTTGTCTGTCAATTCTGATGTTAAGACTCAAATTATAGGTTA
1845356 CTTATGGGGC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (54 bp):
TGTTAGTCATTCGTTGTCTGTCAATTCTGATGTTAAGACTCAAATTATAGGTTA
Found at i:1857964 original size:13 final size:13
Alignment explanation
Indices: 1857948--1857972 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1857938 TTTTTCTCCC
1857948 TTTTCTTTCTTTT
1 TTTTCTTTCTTTT
1857961 TTTTCTTTCTTT
1 TTTTCTTTCTTT
1857973 CCTTTCTCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTCTTTCTTTT
Found at i:1857972 original size:22 final size:22
Alignment explanation
Indices: 1857933--1857979 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
1857923 CAAATATTTC
*
1857933 TCTTTTTTTTCTCCCTTTTCTT
1 TCTTTTTTTTCTCCCTTTCCTT
**
1857955 TCTTTTTTTTCTTTCTTTCCTT
1 TCTTTTTTTTCTCCCTTTCCTT
1857977 TCT
1 TCT
1857980 CCTTTTGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (22 bp):
TCTTTTTTTTCTCCCTTTCCTT
Found at i:1865883 original size:20 final size:20
Alignment explanation
Indices: 1865858--1865909 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
1865848 TGCCTGCATT
1865858 TATCGATACATTATTCAATG
1 TATCGATACATTATTCAATG
1865878 TATCGATACATTATTCAATG
1 TATCGATACATTATTCAATG
1865898 TATCGATACATT
1 TATCGATACATT
1865910 TCCTTGACAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (20 bp):
TATCGATACATTATTCAATG
Found at i:1865950 original size:13 final size:13
Alignment explanation
Indices: 1865934--1865959 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1865924 TAGGGTAGTT
1865934 TTGTATCGATACA
1 TTGTATCGATACA
1865947 TTGTATCGATACA
1 TTGTATCGATACA
1865960 AAACTTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1866314 original size:21 final size:20
Alignment explanation
Indices: 1866285--1866343 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 20
1866275 TGAGGTGTCT
1866285 ACAATATATAATAAAAATCAA
1 ACAA-ATATAATAAAAATCAA
*
1866306 GACAAATATAACAAAAATCAA
1 -ACAAATATAATAAAAATCAA
1866327 AC--ATATCAATAAAAATC
1 ACAAATAT-AATAAAAATC
1866344 CCTAAACTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 4 0.12
19 9 0.26
20 2 0.06
21 15 0.44
22 4 0.12
ACGTcount: A:0.64, C:0.14, G:0.02, T:0.20
Consensus pattern (20 bp):
ACAAATATAATAAAAATCAA
Found at i:1866695 original size:108 final size:108
Alignment explanation
Indices: 1866506--1866721 Score: 423
Period size: 108 Copynumber: 2.0 Consensus size: 108
1866496 AAGAACAAAC
*
1866506 ACCGGATTTATAGAGGTTTGGTCCAAACACGGCACCTACGTCCTCTCTCCTTGGCACTTCCTTGC
1 ACCGGATTTATAGAGGTTTGGTCCAAACACGGCACCAACGTCCTCTCTCCTTGGCACTTCCTTGC
1866571 CAAGTGGTTTCCACAATTCACTACTCGAATTGTTTACCTTTAA
66 CAAGTGGTTTCCACAATTCACTACTCGAATTGTTTACCTTTAA
1866614 ACCGGATTTATAGAGGTTTGGTCCAAACACGGCACCAACGTCCTCTCTCCTTGGCACTTCCTTGC
1 ACCGGATTTATAGAGGTTTGGTCCAAACACGGCACCAACGTCCTCTCTCCTTGGCACTTCCTTGC
1866679 CAAGTGGTTTCCACAATTCACTACTCGAATTGTTTACCTTTAA
66 CAAGTGGTTTCCACAATTCACTACTCGAATTGTTTACCTTTAA
1866722 GGCTAAGGTA
Statistics
Matches: 107, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
108 107 1.00
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.32
Consensus pattern (108 bp):
ACCGGATTTATAGAGGTTTGGTCCAAACACGGCACCAACGTCCTCTCTCCTTGGCACTTCCTTGC
CAAGTGGTTTCCACAATTCACTACTCGAATTGTTTACCTTTAA
Found at i:1867471 original size:13 final size:13
Alignment explanation
Indices: 1867453--1867477 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1867443 CTTCCAGTTT
1867453 ATGTATCGATACA
1 ATGTATCGATACA
1867466 ATGTATCGATAC
1 ATGTATCGATAC
1867478 TAAGCAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1867869 original size:34 final size:35
Alignment explanation
Indices: 1867831--1867897 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 35
1867821 CCTTACAACA
1867831 CTATC-TTTCAA-GGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAGGGCTAAGATAG-AACCTCTCTCT
1867865 CTATCTTTTTCAAGGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAGGGCTAAGATAGAACCTCTC
1867898 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 14 0.47
37 11 0.37
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAGGGCTAAGATAGAACCTCTCTCT
Found at i:1868373 original size:13 final size:13
Alignment explanation
Indices: 1868355--1868380 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1868345 CAATTTTTTG
1868355 TGTATCGATACAT
1 TGTATCGATACAT
1868368 TGTATCGATACAT
1 TGTATCGATACAT
1868381 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1870915 original size:14 final size:15
Alignment explanation
Indices: 1870892--1870923 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
1870882 AAAAAGGACT
1870892 AAATTATAAAAATTA
1 AAATTATAAAAATTA
1870907 AAATT-TAAAAATTA
1 AAATTATAAAAATTA
1870921 AAA
1 AAA
1870924 GAAAATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATTATAAAAATTA
Found at i:1871394 original size:166 final size:167
Alignment explanation
Indices: 1871087--1871717 Score: 548
Period size: 166 Copynumber: 3.8 Consensus size: 167
1871077 GTAAATTCAG
* * * * * * *
1871087 TTTTGCAAAACTAATTTAAT-TAGAGTTTAATAATAATATTAGATGAATTTTAAAAATT-TAAAT
1 TTTTTCAAAAATAATTTAATATA-AATTAAATGATAATATTTGATGAATTTTAAAAATTACAAAT
* * * * * * * * *
1871150 AGAGAAAAAT-CTCCTCGAACATATTTATAGAGTA-AACAACTCGGT-TTTTTAG-AAATAGGAT
65 AAAGAAAAATCCCCCTCAAAAATATTTATGGAGTAGAA-AACTC--TATATTTCGAAAATAGAAA
*
1871211 ATTTTAAGGAAAAAAATGAAAAACTCATGAAAATAAATGAA
127 ATTTCAAGGAAAAAAATGAAAAACTCATGAAAATAAATGAA
* *
1871252 TTTTTCAAAAATAATTTAATATAAATTAAATGATGATATTTGATGAATTTTAAAAATTACAAAAA
1 TTTTTCAAAAATAATTTAATATAAATTAAATGATAATATTTGATGAATTTTAAAAATTACAAATA
**
1871317 AAGAAAAATCTTCC-CAAAAATATTTATGGAGTAGAAAACTCTATATTTCGAAAATAGAAAAATT
66 AAGAAAAATCCCCCTCAAAAATATTTATGGAGTAGAAAACTCTATATTTCGAAAATAG-AAAATT
* * *
1871381 TCAAGG-AAAAAATGAAGACCTCATGAAAATAATTGAA
130 TCAAGGAAAAAAATGAAAAACTCATGAAAATAAATGAA
* *** * * * * * * ** **
1871418 TTTTTTAAAAATGGCTTAATATGAGTTAAATGATGATATTTTATGAATATTAAAAATTTCGGACC
1 TTTTTCAAAAATAATTTAATATAAATTAAATGATAATATTTGATGAATTTTAAAAATTACAAATA
* ** * * * * *
1871483 GAGAAAAA-CCCCCTCGAAAACCA-TTATGGAATAGAAAA-TTTGATTTTTCGAAAAAATGAGAA
66 AAGAAAAATCCCCCTC-AAAAATATTTATGGAGTAGAAAACTCT-ATATTTCGAAAATA-GAAAA
* * *
1871545 TTTAAAGGAAAAAAAATGAAAAAGTCATGAAAATGAATGAA
128 TTTCAAGG-AAAAAAATGAAAAACTCATGAAAATAAATGAA
* * * * * *
1871586 TTTTTCAAAACTAATTTAATATGAATTAAATTATAATATTTTATGAATTTTAAAAATTATAAATC
1 TTTTTCAAAAATAATTTAATATAAATTAAATGATAATATTTGATGAATTTTAAAAATTACAAATA
* * * *
1871651 AAGAAAAATCCCCC-CGAAAATATTTATGAAGTAAAAAAACTCCATATTTCGAAAATAGAAAAAT
66 AAGAAAAATCCCCCTCAAAAATATTTATGGAGT-AGAAAACTCTATATTTCGAAAATAG-AAAAT
1871715 TTC
129 TTC
1871718 TATAAAAAAT
Statistics
Matches: 370, Mismatches: 78, Indels: 32
0.77 0.16 0.07
Matches are distributed among these distances:
164 1 0.00
165 58 0.16
166 165 0.45
167 24 0.06
168 93 0.25
169 28 0.08
170 1 0.00
ACGTcount: A:0.49, C:0.08, G:0.11, T:0.32
Consensus pattern (167 bp):
TTTTTCAAAAATAATTTAATATAAATTAAATGATAATATTTGATGAATTTTAAAAATTACAAATA
AAGAAAAATCCCCCTCAAAAATATTTATGGAGTAGAAAACTCTATATTTCGAAAATAGAAAATTT
CAAGGAAAAAAATGAAAAACTCATGAAAATAAATGAA
Found at i:1874089 original size:112 final size:112
Alignment explanation
Indices: 1873885--1874108 Score: 340
Period size: 112 Copynumber: 2.0 Consensus size: 112
1873875 GAATTTGATA
*
1873885 TAACAAAATAATCCAATATTGTGTAGATATGAATAAGGCATAAAATATATGACATGAGTTAACTA
1 TAACAAAATAATCCAATATGGTGTAGATATGAATAAGGCATAAAATATATGACATGAGTTAACTA
* ** *
1873950 TAAATGAAAAAATAGGACTTTTTTGGAATGTGTCTTATGAAAGTCTT
66 TAAATGAAAAAATAGGACCTTGCTGGAATATGTCTTATGAAAGTCTT
* * * *
1873997 TAACAGAATAATCCAGTATGGTGTAGATATGAATGAGGCATAACATATATGACATGAGTTAACTA
1 TAACAAAATAATCCAATATGGTGTAGATATGAATAAGGCATAAAATATATGACATGAGTTAACTA
* * *
1874062 TAAATGAAAAAGTGGGACCTTGCTGGAATATGTGTTATGAAAGTCTT
66 TAAATGAAAAAATAGGACCTTGCTGGAATATGTCTTATGAAAGTCTT
1874109 AGTTATGTAA
Statistics
Matches: 100, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
112 100 1.00
ACGTcount: A:0.41, C:0.09, G:0.19, T:0.31
Consensus pattern (112 bp):
TAACAAAATAATCCAATATGGTGTAGATATGAATAAGGCATAAAATATATGACATGAGTTAACTA
TAAATGAAAAAATAGGACCTTGCTGGAATATGTCTTATGAAAGTCTT
Found at i:1874531 original size:14 final size:14
Alignment explanation
Indices: 1874512--1874539 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1874502 CTAATTTGAG
1874512 ACATTCAAATATCT
1 ACATTCAAATATCT
1874526 ACATTCAAATATCT
1 ACATTCAAATATCT
1874540 CAAAGATTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.21, G:0.00, T:0.36
Consensus pattern (14 bp):
ACATTCAAATATCT
Found at i:1877465 original size:13 final size:13
Alignment explanation
Indices: 1877447--1877472 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1877437 TACAGCAAGT
1877447 ATGTATCGATACA
1 ATGTATCGATACA
1877460 ATGTATCGATACA
1 ATGTATCGATACA
1877473 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1879722 original size:21 final size:21
Alignment explanation
Indices: 1879689--1879733 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1879679 TTGCAAGTTG
*
1879689 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
1879711 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
1879731 AAA
1 AAA
1879734 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:1881557 original size:15 final size:15
Alignment explanation
Indices: 1881537--1881567 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1881527 TAAAAATGTC
*
1881537 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1881552 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1881567 C
1 C
1881568 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1883806 original size:20 final size:20
Alignment explanation
Indices: 1883763--1883808 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
1883753 AAATCTTTTG
1883763 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
1883784 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
1883804 CAAAA
1 CAAAA
1883809 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:1886205 original size:13 final size:13
Alignment explanation
Indices: 1886187--1886212 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1886177 TACAGCAAGT
1886187 ATGTATCGATACA
1 ATGTATCGATACA
1886200 ATGTATCGATACA
1 ATGTATCGATACA
1886213 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1888157 original size:21 final size:21
Alignment explanation
Indices: 1888133--1888187 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
1888123 ACAATAAGTT
**
1888133 AATGTATCGATACATGTTTGA
1 AATGTATCGATACATGCCTGA
*
1888154 AATGTATTGATACATGCCTGA
1 AATGTATCGATACATGCCTGA
1888175 AATGTATCGATAC
1 AATGTATCGATAC
1888188 TAGACCATGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.35
Consensus pattern (21 bp):
AATGTATCGATACATGCCTGA
Found at i:1893509 original size:31 final size:32
Alignment explanation
Indices: 1893453--1893512 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
1893443 AGCCAAAAGT
*
1893453 ATCGATACATATTGCTTTGTATCGATACACGA
1 ATCGATACATATTGCTTGGTATCGATACACGA
1893485 ATCGATACATGA-T-CTTGGTATCGATACA
1 ATCGATACAT-ATTGCTTGGTATCGATACA
1893513 TAACGAATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 14 0.54
32 11 0.42
33 1 0.04
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (32 bp):
ATCGATACATATTGCTTGGTATCGATACACGA
Found at i:1899740 original size:31 final size:30
Alignment explanation
Indices: 1899702--1899779 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 30
1899692 GGTTTTGATC
*
1899702 TCAAATTTCATCAATTCTTTTTCAAATTTCA
1 TCAAATTTCATCAATTC-TTCTCAAATTTCA
* **
1899733 TCAAATTTACATCATTTCTTCTCATTTTTCA
1 TCAAATTT-CATCAATTCTTCTCAAATTTCA
1899764 TCAAAATCTTCATCAA
1 TC-AAAT-TTCATCAA
1899780 AAACTGTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
31 20 0.51
32 17 0.44
33 2 0.05
ACGTcount: A:0.32, C:0.22, G:0.00, T:0.46
Consensus pattern (30 bp):
TCAAATTTCATCAATTCTTCTCAAATTTCA
Found at i:1901246 original size:16 final size:16
Alignment explanation
Indices: 1901225--1901260 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
1901215 ACTTTTGGTT
**
1901225 CTTTGCTTGTTTTTAA
1 CTTTGCTTGTACTTAA
1901241 CTTTGCTTGTACTTAA
1 CTTTGCTTGTACTTAA
1901257 CTTT
1 CTTT
1901261 CCTTAATGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.14, C:0.17, G:0.11, T:0.58
Consensus pattern (16 bp):
CTTTGCTTGTACTTAA
Found at i:1902337 original size:13 final size:13
Alignment explanation
Indices: 1902319--1902349 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1902309 CGATACATGG
*
1902319 TACATTGTATCGA
1 TACATTGTATCAA
1902332 TACATTGTATCAA
1 TACATTGTATCAA
1902345 TACAT
1 TACAT
1902350 AGTGAAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (13 bp):
TACATTGTATCAA
Found at i:1906325 original size:166 final size:165
Alignment explanation
Indices: 1906043--1906575 Score: 615
Period size: 157 Copynumber: 3.3 Consensus size: 165
1906033 TTTGAACATC
* * * *
1906043 AAAATTCTTTAAATATCATCATTTAATTCACATTAAATCAATTTTAAAAATTTATTTATTTTCAT
1 AAAATTCATCAAATATCATCATTTAATTCACATTAAATCAGTTTTAAAAAATTATTTATTTTCAT
* ** * *
1906108 AAGTTTTTCATTTTTTCTTTGAAATTCCCCTATTTTTGAAATACGGAGTTTTCTACTCTGTAAAT
66 AAGTTTTTTATTTTTTCTTTGAAATTTTCCTATTTTTGAAATACAGAGTTTTCTACTCCGTAAAT
*
1906173 TTTTTCGGGGGGATTTTTCTTGGTTTATAATTTTT
131 ATTTTCGGGGGGATTTTTCTTGGTTTATAATTTTT
1906208 AAAATTCATCAAATATCATCATTTAATTCACATTAAATCAGTTTTAAAAAATTCATTTATTTTCG
1 AAAATTCATCAAATATCATCATTTAATTCACATTAAATCAGTTTTAAAAAATT-ATTTATTTTC-
* *
1906273 A-AAGTTTTTTATTTTTTCTTTAAAATTTTCCTATTTTCGAAATACAGAGTTTTCTACTCCGTAA
64 ATAAGTTTTTTATTTTTTCTTTGAAATTTTCCTATTTTTGAAATACAGAGTTTTCTACTCCGTAA
* *
1906337 ATATTTTCGAGCGGATTTTTCTTGG-TT-T-A----T
129 ATATTTTCGGGGGGATTTTTCTTGGTTTATAATTTTT
* * * *
1906367 --AATTCATCAAATATCATCATTTGATTCATAGTAAATCAGTTTTGAAAAAATTATTTATTGTCA
1 AAAATTCATCAAATATCATCATTTAATTCACATTAAATCAGTTTT-AAAAAATTATTTATTTTCA
* * * *
1906430 TAAGTTTTTCT-TTTTTTCTTTGAAATTTTCTTATTTTTGAAAAATCA-AGTTTTCTATTCCATA
65 TAAGTTTTT-TATTTTTTCTTTGAAATTTTCCTATTTTTGAAATA-CAGAGTTTTCTACTCCGTA
* * *** *
1906493 AATATTTTCGGAGGAATTTTTCTCAATTTAAAATTTTT
128 AATATTTTCGGGGGGATTTTTCTTGGTTTATAATTTTT
* * ** * *
1906531 AAAATTCATCTAACATTGTCA-TTAGACTCCCATTAAATCAGTTTT
1 AAAATTCATCAAATATCATCATTTA-ATTCACATTAAATCAGTTTT
1906576 GAATTTTTTT
Statistics
Matches: 311, Mismatches: 41, Indels: 31
0.81 0.11 0.08
Matches are distributed among these distances:
156 1 0.00
157 119 0.38
158 13 0.04
159 1 0.00
160 1 0.00
163 1 0.00
164 2 0.01
165 53 0.17
166 119 0.38
167 1 0.00
ACGTcount: A:0.31, C:0.12, G:0.08, T:0.48
Consensus pattern (165 bp):
AAAATTCATCAAATATCATCATTTAATTCACATTAAATCAGTTTTAAAAAATTATTTATTTTCAT
AAGTTTTTTATTTTTTCTTTGAAATTTTCCTATTTTTGAAATACAGAGTTTTCTACTCCGTAAAT
ATTTTCGGGGGGATTTTTCTTGGTTTATAATTTTT
Found at i:1906736 original size:31 final size:30
Alignment explanation
Indices: 1906698--1906757 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
1906688 TTATGGTCAA
* *
1906698 TAAAAATTAATTCTAATTTTATTTTGATTTTT
1 TAAAATTTAATT-TAATTTAATTTT-ATTTTT
*
1906730 TAAAATTTTATTTAATTTAATTTTATTT
1 TAAAATTTAATTTAATTTAATTTTATTT
1906758 ATTTTTTCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 4 0.16
31 11 0.44
32 10 0.40
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (30 bp):
TAAAATTTAATTTAATTTAATTTTATTTTT
Found at i:1908792 original size:156 final size:155
Alignment explanation
Indices: 1908238--1909055 Score: 772
Period size: 156 Copynumber: 5.2 Consensus size: 155
1908228 TTTCATATCG
* * * *
1908238 AAGGTATCCCTTAAGGGCATTTTCATAATTTTTTAAAATCGAGTCCTAAGTTGTTACTAGGTTCG
1 AAGGTATCCCTTAGGGGCATTTTCATAATTTTTTAAAATCGAGTCCTAGGTTGTCACTAGGTTCA
* * * *
1908303 TTTTTACG-TCGAAGGTGGGTATTTAGGATAGG-T--TCCCATCTAAAATCCTTTTTAAGTCCTT
66 CTTTTATGCT-GAAAGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCCTTTTTAAGTCCTT
* *
1908364 TA-AGGGTATCAAGCACTTTTAAGTCA
130 TAGA-GGTATCGAGCACTTCTAAGTCA
* * * *** * *
1908390 AAAGTATCCTTTAGGGGCATTTTTATAATTTGCCAAAA-CTAAGTCTTAGGTTGTCACTAGG-TC
1 AAGGTATCCCTTAGGGGCATTTTCATAATTTTTTAAAATC-GAGTCCTAGGTTGTCACTAGGTTC
* *
1908453 TACTTTTATGCT-AAATGTGCGTATTTAGGATAGGTTCATCCCATCTATAATCCTTTTTAAGT-T
65 -ACTTTTATGCTGAAA-GTGGGTATTTAGGATAGGTTCATCCCATCTATAATCCTTTTTAAGTCC
* * * *
1908516 TTTAAAGTGTATCGGGCATTTCTAAGTCG
128 TTTAGAG-GTATCGAGCACTTCTAAGTCA
* * * *
1908545 AAGATATCAAACC-TAAGGGCATTTTCATAATTTTTTCAAAACCGAGTCTTCA-GTTGTCATCT-
1 AAGGTATC---CCTTAGGGGCATTTTCATAATTTTTT-AAAATCGAGTCCT-AGGTTGTCA-CTA
* * * *
1908607 GGTCCACTTTTATGCCGCAAA-TGGGTATTTAGGATGGGTTCATCCCATCTATAATCCTTTTCAA
60 GGTTCACTTTTATGCTG-AAAGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCCTTTTTAA
* *
1908671 GTCCTTTAGAGGTATTGAGCACTTCTAAGTTA
124 GTCCTTTAGAGGTATCGAGCACTTCTAAGTCA
** * *
1908703 AAGGTATCCCTTAGGGGCATTTTTGTAATTTTCTTAGAATTGAGTCCTAGGTTGTCACTAGGTTC
1 AAGGTATCCCTTAGGGGCATTTTCATAATTTT-TTAAAATCGAGTCCTAGGTTGTCACTAGGTTC
* * * *
1908768 GCTTTTATGCTGAAAGTAGGTATTTAGGATAGGTTTATCCCATCTATAATCCTTTTTAATTACCT
65 ACTTTTATGCTGAAAGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCCTTTTTAAGT-CCT
* *
1908833 TTAGGGGTATCGAGCACTTTTAAGTC-
129 TTAGAGGTATCGAGCACTTCTAAGTCA
* * * * ** *
1908859 AAGGTATCCCCTAGGGGCATTTTCGT-ATTTTTTAAAAAATCGAGTCCTAGGTTATTACCGGGTC
1 AAGGTATCCCTTAGGGGCATTTTCATAATTTTTT--AAAATCGAGTCCTAGGTTGTCACTAGGTT
* * * * *
1908923 CATTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTTATCCCATCTATAACCCTTTTTAAGTCCT
64 CACTTTTATGCTGAAAGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCCTTTTTAAGTCCT
* *
1908988 TTA-AGGGTATC-AGGCACTTTTAAGTCG
129 TTAGA-GGTATCGA-GCACTTCTAAGTCA
*
1909015 AAGGTATCAAACC-TAGGTGCATTTTCATAATTTTTTCAAAA
1 AAGGTATC---CCTTAGGGGCATTTTCATAATTTTTT-AAAA
1909056 CCTAGTCTTA
Statistics
Matches: 547, Mismatches: 84, Indels: 64
0.79 0.12 0.09
Matches are distributed among these distances:
151 5 0.01
152 71 0.13
153 2 0.00
154 8 0.01
155 84 0.15
156 197 0.36
157 45 0.08
158 112 0.20
159 20 0.04
160 3 0.01
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (155 bp):
AAGGTATCCCTTAGGGGCATTTTCATAATTTTTTAAAATCGAGTCCTAGGTTGTCACTAGGTTCA
CTTTTATGCTGAAAGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCCTTTTTAAGTCCTTT
AGAGGTATCGAGCACTTCTAAGTCA
Found at i:1909022 original size:312 final size:309
Alignment explanation
Indices: 1908235--1909022 Score: 920
Period size: 312 Copynumber: 2.5 Consensus size: 309
1908225 TACTTTCATA
* *
1908235 TCGAAGGTATCCCTTAAGGGCATTTTCATAATTTTTTAAAATCGAGTCCTAAGTTGTTACTAGGT
1 TCGAAGGTATCCCCTAAGGGCATTTTCATAATTTTTTAAAATCGAGTCCT-AGTTGTTACCAGGT
* * * * *
1908300 TCGTTTTTACGTCGAAGGTGGGTATTTAGGATAGG--T-TCCCATCTAAAATCCTTTTTAAGTCC
65 CCATTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTTATCCCATCTATAATCCTTTTTAAGTCC
* * *
1908362 TTTAAGGGTATCAAGCACTTTTAAGTCAAAAGTATCCTTTAGGGGCATTTTTATAATTTGCCAAA
130 TTTAAGGGTATCAGGCACTTTTAAGTCAAAGGTATCCCTTAGGGGCATTTTTATAATTTGCCAAA
*
1908427 ACTAAGTCTTAGGTTGTCACTAGGTCTACTTTTATGCTAAATGTGCGTATTTAGGATAGGTTCAT
195 ACTAAGTCCTAGGTTGTCACTAGGTCTACTTTTATGCTAAATGTGCGTATTTAGGATAGGTTCAT
* *
1908492 CCCATCTATAATCCTTTTTAAGTTTTTAAAGTGTATCGGGCATTTCTAAG
260 CCCATCTATAATCCTTTTTAAGTTTTTAAAGGGTATCGAGCATTTCTAAG
* * * * * * *
1908542 TCGAAGATATCAAACCTAAGGGCATTTTCATAATTTTTTCAAAACCGAGTCTTCAGTTGTCATCT
1 TCGAAGGTATC--CCCTAAGGGCATTTTCATAATTTTTT-AAAATCGAGTCCT-AGTTGTTACCA
* * * * *
1908607 GGTCCACTTTTATGCCGCAA-ATGGGTATTTAGGATGGGTTCATCCCATCTATAATCCTTTTCAA
62 GGTCCATTTTTATGCCG-AAGGTGGGTATTTAGGATAGGTTTATCCCATCTATAATCCTTTTTAA
* * * *
1908671 GTCCTTT-AGAGGTAT-TGAGCACTTCTAAGTTAAAGGTATCCCTTAGGGGCATTTTTGTAATTT
126 GTCCTTTAAG-GGTATCAG-GCACTTTTAAGTCAAAGGTATCCCTTAGGGGCATTTTTATAATTT
* * * * * *
1908734 TCTTAGAATTGAGTCCTAGGTTGTCACTAGGT-TCGCTTTTATGCTGAAA-GTAG-GTATTTAGG
189 GC-CAAAACTAAGTCCTAGGTTGTCACTAGGTCT-ACTTTTATGCT-AAATGT-GCGTATTTAGG
* *
1908796 ATAGGTTTATCCCATCTATAATCCTTTTTAA-TTACCTTT-AGGGGTATCGAGCACTTT-TAAG
250 ATAGGTTCATCCCATCTATAATCCTTTTTAAGTT---TTTAAAGGGTATCGAGCA-TTTCTAAG
* * * *
1908857 TC-AAGGTATCCCCTAGGGGCATTTTCGT-ATTTTTTAAAAAATCGAGTCCTAGGTTATTACCGG
1 TCGAAGGTATCCCCTAAGGGCATTTTCATAATTTTTT--AAAATCGAGTCCTA-GTTGTTACCAG
*
1908920 GTCCATTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTTATCCCATCTATAACCCTTTTTAAGT
63 GTCCATTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTTATCCCATCTATAATCCTTTTTAAGT
*
1908985 CCTTTAAGGGTATCAGGCACTTTTAAGTCGAAGGTATC
128 CCTTTAAGGGTATCAGGCACTTTTAAGTCAAAGGTATC
1909023 AAACCTAGGT
Statistics
Matches: 400, Mismatches: 59, Indels: 39
0.80 0.12 0.08
Matches are distributed among these distances:
307 10 0.03
309 24 0.06
310 46 0.12
311 12 0.03
312 120 0.30
313 79 0.20
314 82 0.20
315 21 0.05
316 6 0.01
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (309 bp):
TCGAAGGTATCCCCTAAGGGCATTTTCATAATTTTTTAAAATCGAGTCCTAGTTGTTACCAGGTC
CATTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTTATCCCATCTATAATCCTTTTTAAGTCCT
TTAAGGGTATCAGGCACTTTTAAGTCAAAGGTATCCCTTAGGGGCATTTTTATAATTTGCCAAAA
CTAAGTCCTAGGTTGTCACTAGGTCTACTTTTATGCTAAATGTGCGTATTTAGGATAGGTTCATC
CCATCTATAATCCTTTTTAAGTTTTTAAAGGGTATCGAGCATTTCTAAG
Found at i:1910438 original size:13 final size:13
Alignment explanation
Indices: 1910420--1910444 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1910410 CATTATGCTT
1910420 TGTATCGATACAA
1 TGTATCGATACAA
1910433 TGTATCGATACA
1 TGTATCGATACA
1910445 TGTTTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1910457 original size:19 final size:19
Alignment explanation
Indices: 1910429--1910600 Score: 83
Period size: 20 Copynumber: 8.9 Consensus size: 19
1910419 TTGTATCGAT
1910429 ACAA-TGTATCGATACATG
1 ACAATTGTATCGATACATG
***
1910447 TTTATTGTATCGATACATGG
1 ACAATTGTATCGATACAT-G
1910467 ACAATTGTATCGATACATG
1 ACAATTGTATCGATACATG
* * *
1910486 A-AACTGGTAGTAGCTACCAT-
1 ACAA-TTGTA-TCGATA-CATG
*
1910506 ACCACTGTTTGTATCGATACATG
1 A-CA---ATTGTATCGATACATG
*
1910529 GCACATTGTATCGATACATG
1 ACA-ATTGTATCGATACATG
* *
1910549 ATGAATTGTAT---T-GAT-
1 A-CAATTGTATCGATACATG
1910564 A-AATTGTATCGATACATG
1 ACAATTGTATCGATACATG
*
1910582 ATAAATTGTATCGATACAT
1 A-CAATTGTATCGATACAT
1910601 TGCTTCTAAC
Statistics
Matches: 115, Mismatches: 20, Indels: 36
0.67 0.12 0.21
Matches are distributed among these distances:
13 8 0.07
15 1 0.01
16 3 0.03
17 3 0.03
18 4 0.03
19 19 0.17
20 59 0.51
21 4 0.03
22 6 0.05
23 4 0.03
24 4 0.03
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (19 bp):
ACAATTGTATCGATACATG
Found at i:1910556 original size:20 final size:20
Alignment explanation
Indices: 1910514--1910600 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
1910504 ATACCACTGT
** *
1910514 TTGTATCGATACATGGCACA
1 TTGTATCGATACATGATAAA
*
1910534 TTGTATCGATACATGATGAA
1 TTGTATCGATACATGATAAA
1910554 TTG--T--AT---TGATAAA
1 TTGTATCGATACATGATAAA
1910567 TTGTATCGATACATGATAAA
1 TTGTATCGATACATGATAAA
1910587 TTGTATCGATACAT
1 TTGTATCGATACAT
1910601 TGCTTCTAAC
Statistics
Matches: 55, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
13 9 0.16
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
20 40 0.73
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGATAAA
Found at i:1910575 original size:33 final size:33
Alignment explanation
Indices: 1910533--1910602 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
1910523 TACATGGCAC
* *
1910533 ATTGTATCGATACATGATGAATTGTATTGATAA
1 ATTGTATCGATACATGATAAATTGTATCGATAA
*
1910566 ATTGTATCGATACATGATAAATTGTATCGATAC
1 ATTGTATCGATACATGATAAATTGTATCGATAA
1910599 ATTG
1 ATTG
1910603 CTTCTAACGG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.39
Consensus pattern (33 bp):
ATTGTATCGATACATGATAAATTGTATCGATAA
Found at i:1914940 original size:13 final size:13
Alignment explanation
Indices: 1914922--1914946 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1914912 ATATTGCACA
1914922 GTATCGATACATT
1 GTATCGATACATT
1914935 GTATCGATACAT
1 GTATCGATACAT
1914947 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:1914959 original size:20 final size:20
Alignment explanation
Indices: 1914934--1914986 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
1914924 ATCGATACAT
*
1914934 TGTATCGATACATG-ACCAAA
1 TGTATCGATACATGTA-AAAA
*
1914954 TGTATCGATACTTGTTAAAAA
1 TGTATCGATACATG-TAAAAA
1914975 TGTATCGATACA
1 TGTATCGATACA
1914987 GGTGATTGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 13 0.46
21 14 0.50
22 1 0.04
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (20 bp):
TGTATCGATACATGTAAAAA
Found at i:1915064 original size:13 final size:13
Alignment explanation
Indices: 1915046--1915071 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1915036 TACACACAAG
1915046 ATGTATCGATACA
1 ATGTATCGATACA
1915059 ATGTATCGATACA
1 ATGTATCGATACA
1915072 TCCCAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1915088 original size:33 final size:32
Alignment explanation
Indices: 1915028--1915091 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
1915018 CTTAATTGTT
*
1915028 TGTATCGATACACACAAGATGTATCGATACAA
1 TGTATCGATACACACAAAATGTATCGATACAA
*
1915060 TGTATCGATACATCCCAAAATGTATCGATACA
1 TGTATCGATACA-CACAAAATGTATCGATACA
1915092 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (32 bp):
TGTATCGATACACACAAAATGTATCGATACAA
Found at i:1923681 original size:13 final size:13
Alignment explanation
Indices: 1923663--1923687 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1923653 ATATTGCACA
1923663 GTATCGATACATT
1 GTATCGATACATT
1923676 GTATCGATACAT
1 GTATCGATACAT
1923688 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:1923700 original size:20 final size:20
Alignment explanation
Indices: 1923675--1923727 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
1923665 ATCGATACAT
*
1923675 TGTATCGATACATG-ACCAAA
1 TGTATCGATACATGTA-AAAA
* *
1923695 TGTATCAATACTTGTTAAAAA
1 TGTATCGATACATG-TAAAAA
1923716 TGTATCGATACA
1 TGTATCGATACA
1923728 GGTGATTGGC
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 12 0.46
21 13 0.50
22 1 0.04
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (20 bp):
TGTATCGATACATGTAAAAA
Done.