Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 59 of 145
Found at i:19244542 original size:68 final size:68
Alignment explanation
Indices: 19244409--19244543 Score: 173
Period size: 68 Copynumber: 2.0 Consensus size: 68
19244399 TGGAGTTCAC
* * * *
19244409 TAGGACACTAAACATGGGTTAATAATGTGTAAGACCATAGCTAGGCTATGAGAACATATAGAGTC
1 TAGGACACTAAACATGGGTTAATAATGTGTAAAACCATAGCTAGGCTATGAGAACAGAAAAAGTC
19244474 TGG
66 TGG
* ** * *
19244477 TAGGACATTAAACATGGGTTCGTACTGTGTAAAACCATAGCT-GAGCTATGATAACAGAAAAAGT
1 TAGGACACTAAACATGGGTTAATAATGTGTAAAACCATAGCTAG-GCTATGAGAACAGAAAAAGT
19244541 CTG
65 CTG
19244544 CTAGAATGGT
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
67 1 0.02
68 56 0.98
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (68 bp):
TAGGACACTAAACATGGGTTAATAATGTGTAAAACCATAGCTAGGCTATGAGAACAGAAAAAGTC
TGG
Found at i:19248932 original size:17 final size:17
Alignment explanation
Indices: 19248912--19248957 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
19248902 TTAAACAAAG
19248912 AAAATAAATAAATAAGA
1 AAAATAAATAAATAAGA
* * *
19248929 AAAATAAACAAATGATA
1 AAAATAAATAAATAAGA
*
19248946 AAAATCAATAAA
1 AAAATAAATAAA
19248958 CTAATCAGGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.17
Consensus pattern (17 bp):
AAAATAAATAAATAAGA
Found at i:19250296 original size:16 final size:16
Alignment explanation
Indices: 19250251--19250297 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 16
19250241 TTTAATATCA
19250251 TATTTCACACGTTTATTC
1 TATTTCACA--TTTATTC
19250269 -ATCTTC-CATTTATTC
1 TAT-TTCACATTTATTC
19250284 TATTTCACATTTAT
1 TATTTCACATTTAT
19250298 CACATTAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
15 10 0.38
16 9 0.35
17 4 0.15
18 3 0.12
ACGTcount: A:0.23, C:0.21, G:0.02, T:0.53
Consensus pattern (16 bp):
TATTTCACATTTATTC
Found at i:19261413 original size:20 final size:21
Alignment explanation
Indices: 19261380--19261421 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
19261370 TTCTTTATAT
19261380 ATTTTTAGAA-TTTTTTAAAA
1 ATTTTTAGAATTTTTTTAAAA
* *
19261400 ATTTTTATAGTTTTTTTAAAA
1 ATTTTTAGAATTTTTTTAAAA
19261421 A
1 A
19261422 ATAAATTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (21 bp):
ATTTTTAGAATTTTTTTAAAA
Found at i:19261438 original size:22 final size:20
Alignment explanation
Indices: 19261413--19261458 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
19261403 TTTATAGTTT
19261413 TTTTAAAAAATAAATTTTGGAA
1 TTTTAAAAAAT--ATTTTGGAA
* *
19261435 TTTTTATAAATATTTTGGAA
1 TTTTAAAAAATATTTTGGAA
19261455 TTTT
1 TTTT
19261459 TAATATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 13 0.59
22 9 0.41
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (20 bp):
TTTTAAAAAATATTTTGGAA
Found at i:19264775 original size:45 final size:45
Alignment explanation
Indices: 19264706--19264794 Score: 124
Period size: 45 Copynumber: 2.0 Consensus size: 45
19264696 AATAGATACT
* * * *
19264706 CGGTGGATTCATCACATAGGAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
* *
19264751 CGGTGGAATCAGCAGATAGCAACCACCTTACTAATTAATGATGT
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
19264795 TCGATTCACA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:19264882 original size:51 final size:50
Alignment explanation
Indices: 19264806--19264936 Score: 174
Period size: 50 Copynumber: 2.6 Consensus size: 50
19264796 CGATTCACAA
* *
19264806 AGTAGCCTGCACATAGTACTACACATGTGACCATTACCA-TCTGACACACGT
1 AGTAGCCTGCAAATAGTACTACACATGTGACC--TACCATTCCGACACACGT
* * *
19264857 AGTAGCCTGCAAATAGTACTACACATGCGACCTATCATTCCGATACACGT
1 AGTAGCCTGCAAATAGTACTACACATGTGACCTACCATTCCGACACACGT
* *
19264907 AGTAGCCTGCATATAGTACTACACACGTGA
1 AGTAGCCTGCAAATAGTACTACACATGTGA
19264937 TCATCACTTT
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
49 4 0.06
50 37 0.52
51 30 0.42
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (50 bp):
AGTAGCCTGCAAATAGTACTACACATGTGACCTACCATTCCGACACACGT
Found at i:19275459 original size:21 final size:21
Alignment explanation
Indices: 19275418--19275459 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
19275408 TAGTGTCGTA
* *
19275418 TTAAAATTTGGTTCAGAAATT
1 TTAAAATTTAGATCAGAAATT
19275439 TTAAAATTTAGAT-AGATAATT
1 TTAAAATTTAGATCAGA-AATT
19275460 AAGTAAAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.43, C:0.02, G:0.12, T:0.43
Consensus pattern (21 bp):
TTAAAATTTAGATCAGAAATT
Found at i:19290921 original size:327 final size:326
Alignment explanation
Indices: 19290312--19291300 Score: 1556
Period size: 327 Copynumber: 3.0 Consensus size: 326
19290302 ATTTCCACAG
* * * ***
19290312 AGACAACATGAGACCTCATTGAATTACTCCAAGAATTTGAAGATTTCTTCTTTTGGTCATACCAG
1 AGACAATACGAGACCTCATTGAATTACTCCAAGAATTTGAAGATGTCTTCGCATGGTCATACCAG
* * *
19290377 GATATGCTCGAATTAAGCACTGACATTGTAGTGCATCGCCTACCTATAAGGGAGGATTGCAAGCC
66 GATATGCCCGGATTGAGCACTGACATTGTAGTGCATCGCCTACCTATAAGGGAGGATTGCAAGCC
*
19290442 AGTTCAACAGAAGCTCAGAAGAATGAGGCCTGATATTGTGTTTAAAATAAAAGAGGAAGCCAATA
131 AGTTCAACAGAAGCTCAGAAGAATGAGGCCTGATATTGTGTTTAAAATAAAAGAGGAAGTCAATA
* * * * *
19290507 AACAGTTTGATGTTGGGTTTTTATAGGAGGTCAAATATTCTGAGTTGGTGGCCAACATCATTCCA
196 AGCAGTTTGATGTTGGGTTTTTACAGGAGGTCAAATATTCTGAATGGGTGGCCAACATCGTTCCA
* * * *
19290572 GTCCCTCAAAAAA-AAGGAAAAGTACGAATGCATGTGGATGATAGAGATTT-AACAAAGCAAGCC
261 GT-CCTTAAAAAAGAAAGAAAAGTACGAATG--TGTGGATTACAGAGATTTGAACAAAGCAAGCC
19290635 CAAA
323 CAAA
19290639 AGACAATACGAGACCTCATTGAATTACTCCAAGAA-TTGAAAGATGTCTTCGCATGGTCATACCA
1 AGACAATACGAGACCTCATTGAATTACTCCAAGAATTTG-AAGATGTCTTCGCATGGTCATACCA
*
19290703 AGATATGCCCGGATTGAGCACTGACATTGTAGTGCATCGCCTACCTATAAGGGAGGATTGCAAGC
65 GGATATGCCCGGATTGAGCACTGACATTGTAGTGCATCGCCTACCTATAAGGGAGGATTGCAAGC
*
19290768 CAGTTCAACAGAAGCTCAGAAGAATGAGGCCTGATATTGTGCTTAAAATAAAAGAGGAAGTCAAT
130 CAGTTCAACAGAAGCTCAGAAGAATGAGGCCTGATATTGTGTTTAAAATAAAAGAGGAAGTCAAT
* * *
19290833 AAGCAGTTTGATGTTTGGTTTTTACAGGAGGTCAAATAGTCTAAATGGGTGGCCAACATCGTTCC
195 AAGCAGTTTGATGTTGGGTTTTTACAGGAGGTCAAATATTCTGAATGGGTGGCCAACATCGTTCC
*
19290898 AGTCTTTAAAAAAGAAAGAAAAGTACGAATGTGCGTGGATTACAGAGATTTGAACAAAGCAAGCC
260 AGTCCTTAAAAAAGAAAGAAAAGTACGAATGT--GTGGATTACAGAGATTTGAACAAAGCAAGCC
19290963 CAAA
323 CAAA
* * *
19290967 AGACAAGACGAGACCTCATTGGATTACTCTAAGAATTTGAAGATGTCTTCGCATGGTCATACCAG
1 AGACAATACGAGACCTCATTGAATTACTCCAAGAATTTGAAGATGTCTTCGCATGGTCATACCAG
19291032 GATATGCCCGGATTGAGCACTGACATTGTAGTGCATCGCCTACCTATAAGGGAGGATTGCAAGCC
66 GATATGCCCGGATTGAGCACTGACATTGTAGTGCATCGCCTACCTATAAGGGAGGATTGCAAGCC
*
19291097 AGTTCAATAGAAGCTCAGAAGAATGAGG-CTGATATTGTGTTTAAAATAAAAGAGGAAGTCAATA
131 AGTTCAACAGAAGCTCAGAAGAATGAGGCCTGATATTGTGTTTAAAATAAAAGAGGAAGTCAATA
*
19291161 AGCAGTTTGATGTTGGGTTTTTACAGGAGGTCAAATATTCTGAATGGGTGGCCAACGTCGTTCCA
196 AGCAGTTTGATGTTGGGTTTTTACAGGAGGTCAAATATTCTGAATGGGTGGCCAACATCGTTCCA
* * * *
19291226 GTCCCTAAAAAAG-ATGAAAAAGTACGAATGTGCATGGATTACAGAGATTTGAAGAAAGTAAGCC
261 GTCCTTAAAAAAGAAAG-AAAAGTACGAATGTG--TGGATTACAGAGATTTGAACAAAGCAAGCC
19291290 CAAA
323 CAAA
19291294 AGACAAT
1 AGACAAT
19291301 TTCCCATTGC
Statistics
Matches: 612, Mismatches: 41, Indels: 18
0.91 0.06 0.03
Matches are distributed among these distances:
325 2 0.00
326 13 0.02
327 428 0.70
328 166 0.27
329 3 0.00
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (326 bp):
AGACAATACGAGACCTCATTGAATTACTCCAAGAATTTGAAGATGTCTTCGCATGGTCATACCAG
GATATGCCCGGATTGAGCACTGACATTGTAGTGCATCGCCTACCTATAAGGGAGGATTGCAAGCC
AGTTCAACAGAAGCTCAGAAGAATGAGGCCTGATATTGTGTTTAAAATAAAAGAGGAAGTCAATA
AGCAGTTTGATGTTGGGTTTTTACAGGAGGTCAAATATTCTGAATGGGTGGCCAACATCGTTCCA
GTCCTTAAAAAAGAAAGAAAAGTACGAATGTGTGGATTACAGAGATTTGAACAAAGCAAGCCCAA
A
Found at i:19295433 original size:40 final size:39
Alignment explanation
Indices: 19295382--19295529 Score: 145
Period size: 40 Copynumber: 3.6 Consensus size: 39
19295372 GATTAAAGTA
* **
19295382 ATAGATCTTATCTCTCTGAAGTTCCAGAGAGCAGATCGCAT
1 ATAGATCTTATCTCCCTGAAGTTGTAGAGAGCAGAT--CAT
* * *
19295423 ATAG-TCTTATCTCCCTGAAGTTGTAGTGGAACAGATTAAAGT
1 ATAGATCTTATCTCCCTGAAGTTGTAG-AGAGCAGA-T-CA-T
*
19295465 GATAGATCTTATCTCTCTGAAGTTGTAGAGAGCAGATCAT
1 -ATAGATCTTATCTCCCTGAAGTTGTAGAGAGCAGATCAT
*
19295505 ATCAGGTCTTATCTCCCTGAAGTTG
1 AT-AGATCTTATCTCCCTGAAGTTG
19295530 CAGTGGAGCA
Statistics
Matches: 88, Mismatches: 13, Indels: 13
0.77 0.11 0.11
Matches are distributed among these distances:
39 2 0.02
40 40 0.45
41 12 0.14
42 3 0.03
43 10 0.11
44 21 0.24
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.32
Consensus pattern (39 bp):
ATAGATCTTATCTCCCTGAAGTTGTAGAGAGCAGATCAT
Found at i:19295462 original size:84 final size:84
Alignment explanation
Indices: 19295354--19295714 Score: 390
Period size: 84 Copynumber: 4.2 Consensus size: 84
19295344 CCTATATCCT
* * * *
19295354 TGAAGTTGCAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCTGAAGTTCCAGAGAGCAGATC
1 TGAAGTTGCAGTGGAGCAGATTAAAGTGATAGATCTTATCTCTCTAAAGTTGCAGAGAGCAGATC
19295419 GCATATAGTCTTATCTCCC
66 GCATATAGTCTTATCTCCC
* * * *
19295438 TGAAGTTGTAGTGGAACAGATTAAAGTGATAGATCTTATCTCTCTGAAGTTGTAGAGAGCAGAT-
1 TGAAGTTGCAGTGGAGCAGATTAAAGTGATAGATCTTATCTCTCTAAAGTTGCAGAGAGCAGATC
19295502 -CATATCAGGTCTTATCTCCC
66 GCATAT-A-GTCTTATCTCCC
*** ** * *
19295522 TGAAGTTGCAGTGGAGCAGACCCAAGATG-GCGAATCTTATCTCCCTAAAGTTGCA-ATGGAGTA
1 TGAAGTTGCAGTGGAGCAGATTAAAG-TGATAG-ATCTTATCTCTCTAAAGTTGCAGA--GAGCA
* * * *
19295585 AATTAAAGCCA-ATAATCCTATCTCCC
62 GA-T--CG-CATATAGTCTTATCTCCC
* * *
19295611 TAAAGTTGTAGTGGAGCAGATTAAAATGATAGATCTTATCTCTCTAAAGTTGCAGAGAGCAGATC
1 TGAAGTTGCAGTGGAGCAGATTAAAGTGATAGATCTTATCTCTCTAAAGTTGCAGAGAGCAGATC
*
19295676 GCATCTAGTCTTATCTCCC
66 GCATATAGTCTTATCTCCC
19295695 TGAAGTTGCAGTGGAGCAGA
1 TGAAGTTGCAGTGGAGCAGA
19295715 CCCAAGAAAG
Statistics
Matches: 225, Mismatches: 37, Indels: 30
0.77 0.13 0.10
Matches are distributed among these distances:
82 5 0.02
83 3 0.01
84 124 0.55
85 21 0.09
86 6 0.03
87 6 0.03
88 23 0.10
89 32 0.14
90 1 0.00
91 2 0.01
92 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (84 bp):
TGAAGTTGCAGTGGAGCAGATTAAAGTGATAGATCTTATCTCTCTAAAGTTGCAGAGAGCAGATC
GCATATAGTCTTATCTCCC
Found at i:19295478 original size:44 final size:44
Alignment explanation
Indices: 19295354--19295755 Score: 253
Period size: 44 Copynumber: 9.4 Consensus size: 44
19295344 CCTATATCCT
* * *
19295354 TGAAGTTGCAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTC
1 TGAAGTTGCAGTGGAGCAGATTAAAGTGATAGATCTTATCTCCC
* * ***
19295398 TGAAGTTCCAG-AGAGCAGATCGCA-T-ATAG-TCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTAAAGTGATAGATCTTATCTCCC
* * *
19295438 TGAAGTTGTAGTGGAACAGATTAAAGTGATAGATCTTATCTCTC
1 TGAAGTTGCAGTGGAGCAGATTAAAGTGATAGATCTTATCTCCC
* * * *
19295482 TGAAGTTGTAG-AGAGCAGA-T-CA-T-ATCAGGTCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTAAAGTGAT-AGATCTTATCTCCC
*** **
19295522 TGAAGTTGCAGTGGAGCAGACCCAAGATG-GCGAATCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTAAAG-TGATAG-ATCTTATCTCCC
* * * * ** *
19295567 TAAAGTTGCAATGGAGTAAATTAAAGCCAATA-ATCCTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTAAAG-TGATAGATCTTATCTCCC
* * * *
19295611 TAAAGTTGTAGTGGAGCAGATTAAAATGATAGATCTTATCTCTC
1 TGAAGTTGCAGTGGAGCAGATTAAAGTGATAGATCTTATCTCCC
* * *** *
19295655 TAAAGTTGCAG-AGAGCAGATCGCA-T-CTAG-TCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTAAAGTGATAGATCTTATCTCCC
*** *
19295695 TGAAGTTGCAGTGGAGCAGACCCAA--GAAAGCAAGTCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTAAAGTGATAG--A-TCTTATCTCCC
19295740 TGAAGTTGCAGTGGAG
1 TGAAGTTGCAGTGGAG
19295756 TAGACCCGAA
Statistics
Matches: 275, Mismatches: 63, Indels: 39
0.73 0.17 0.10
Matches are distributed among these distances:
39 2 0.01
40 62 0.23
41 34 0.12
42 4 0.01
43 31 0.11
44 84 0.31
45 58 0.21
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (44 bp):
TGAAGTTGCAGTGGAGCAGATTAAAGTGATAGATCTTATCTCCC
Found at i:19295562 original size:45 final size:44
Alignment explanation
Indices: 19295511--19295805 Score: 192
Period size: 45 Copynumber: 6.7 Consensus size: 44
19295501 TCATATCAGG
*
19295511 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGATGGCGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGAT-GCTAA
* * * * *** ****
19295556 TCTTATCTCCCTAAAGTTGCAATGGAGTAAATTAAAGCCAATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGATGCTAA
* * * ** * *
19295600 TCCTATCTCCCTAAAGTTGTAGTGGAGCAGA-TTAAAATGATAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGATGCTA-A
* * * * *
19295644 TCTTATCTCTCTAAAGTTGCAG-AGAGCAGA-TC--GCAT-CTAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAG-ATGCTAA
*
19295684 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGAAAGC-AA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAG-ATGCTAA
* * *
19295728 GTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACCCGAATAAGC-AA
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCC-AAGATGCTAA
* * *
19295773 GTCTTATCCCCCTGAAATTGCAGTGGGGCAGAC
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
19295806 TGAATAAACA
Statistics
Matches: 198, Mismatches: 43, Indels: 18
0.76 0.17 0.07
Matches are distributed among these distances:
40 20 0.10
41 9 0.05
42 3 0.02
43 14 0.07
44 51 0.26
45 99 0.50
46 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGATGCTAA
Found at i:19295643 original size:173 final size:173
Alignment explanation
Indices: 19295430--19295757 Score: 525
Period size: 173 Copynumber: 1.9 Consensus size: 173
19295420 CATATAGTCT
* * * *
19295430 TATCTCCCTGAAGTTGTAGTGGAACAGATTAAAGTGATAGATCTTATCTCTCTGAAGTTGTAGAG
1 TATCTCCCTAAAGTTGTAGTGGAACAGATTAAAATGATAGATCTTATCTCTCTAAAGTTGCAGAG
* **
19295495 AGCAGATCATATC-AGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGATGGCGAA-TC
66 AGCAGATCACATCTA-GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGAAAGC-AAGTC
19295558 TTATCTCCCTAAAGTTGCAATGGAGTAAATTAAAGCCAATAATCC
129 TTATCTCCCTAAAGTTGCAATGGAGTAAATTAAAGCCAATAATCC
*
19295603 TATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAATGATAGATCTTATCTCTCTAAAGTTGCAGAG
1 TATCTCCCTAAAGTTGTAGTGGAACAGATTAAAATGATAGATCTTATCTCTCTAAAGTTGCAGAG
*
19295668 AGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGAAAGCAAGTCTT
66 AGCAGATCACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGAAAGCAAGTCTT
* *
19295733 ATCTCCCTGAAGTTGCAGTGGAGTA
131 ATCTCCCTAAAGTTGCAATGGAGTA
19295758 GACCCGAATA
Statistics
Matches: 142, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
172 2 0.01
173 139 0.98
174 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (173 bp):
TATCTCCCTAAAGTTGTAGTGGAACAGATTAAAATGATAGATCTTATCTCTCTAAAGTTGCAGAG
AGCAGATCACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGAAAGCAAGTCTT
ATCTCCCTAAAGTTGCAATGGAGTAAATTAAAGCCAATAATCC
Found at i:19295794 original size:90 final size:89
Alignment explanation
Indices: 19295682--19295845 Score: 229
Period size: 90 Copynumber: 1.8 Consensus size: 89
19295672 GATCGCATCT
* * * * *
19295682 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGAAAGCAAGTCTTATCTCCCTGAAGTT
1 AGTCTTATCCCCCTGAAATTGCAGTGGAGCAGACCCAAGAAA-CAAATCCTATCTCCCTAAAGTT
19295747 GCAGTGGAGTAGACCCGAATAAGCA
65 GCAGTGGAGTAGACCCGAATAAGCA
* ** *
19295772 AGTCTTATCCCCCTGAAATTGCAGTGGGGCAGACTGAATAAACAAATCCTATCTCCCTAAAGTTG
1 AGTCTTATCCCCCTGAAATTGCAGTGGAGCAGACCCAAGAAACAAATCCTATCTCCCTAAAGTTG
*
19295837 TAGTGGAGT
66 CAGTGGAGT
19295846 GGATTAGAAT
Statistics
Matches: 64, Mismatches: 10, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
89 28 0.44
90 36 0.56
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (89 bp):
AGTCTTATCCCCCTGAAATTGCAGTGGAGCAGACCCAAGAAACAAATCCTATCTCCCTAAAGTTG
CAGTGGAGTAGACCCGAATAAGCA
Found at i:19303907 original size:25 final size:25
Alignment explanation
Indices: 19303882--19303935 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 25
19303872 TTCTCTCAAA
*
19303882 TTTCAATTTTATTTAATTATTTAAAT
1 TTTCAA-TTTATTGAATTATTTAAAT
19303908 TTTCAATTTATTGAATTA-TTAATAT
1 TTTCAATTTATTGAATTATTTAA-AT
19303933 TTT
1 TTT
19303936 ATACGAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 4 0.15
25 16 0.62
26 6 0.23
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (25 bp):
TTTCAATTTATTGAATTATTTAAAT
Found at i:19304841 original size:3 final size:3
Alignment explanation
Indices: 19304833--19304910 Score: 138
Period size: 3 Copynumber: 26.0 Consensus size: 3
19304823 AGGATCTCGG
* *
19304833 AGA AGA AGA AGA AGA AGA AGA AGG AGA AGA AGA AGA AGA AGA AAA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
19304881 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
19304911 TCCCACAGAG
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:19306239 original size:6 final size:5
Alignment explanation
Indices: 19306210--19306252 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
19306200 AAATGCTCGT
* * *
19306210 GAAAA AAAAA GAAAA GAAAA GAAAA TGAAAA AAAAA GAGAA GA
1 GAAAA GAAAA GAAAA GAAAA GAAAA -GAAAA GAAAA GAAAA GA
19306253 GCATACATAC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
5 27 0.84
6 5 0.16
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (5 bp):
GAAAA
Found at i:19315483 original size:15 final size:16
Alignment explanation
Indices: 19315465--19315497 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
19315455 AATTGTTTTG
*
19315465 TTGC-TAATTTTACTT
1 TTGCATAATTTCACTT
19315480 TTGCATAATTTCACTT
1 TTGCATAATTTCACTT
19315496 TT
1 TT
19315498 TCACTTTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.21, C:0.15, G:0.06, T:0.58
Consensus pattern (16 bp):
TTGCATAATTTCACTT
Found at i:19315791 original size:51 final size:50
Alignment explanation
Indices: 19315728--19315914 Score: 198
Period size: 51 Copynumber: 3.7 Consensus size: 50
19315718 CTGGTTCACA
* * * *
19315728 TAGTAGCCTGCACATAGTACTACACATGTGACCATCATTATTCGATACATG
1 TAGTAGCCTACACATAGTACTACACACGTGACCAT-ATTATTCGGTACACG
* * * * * * *
19315779 TAGTAGCATGCACATAGTACTACACACGTGATCGA-AGCTATCCGGTACGCA
1 TAGTAGCCTACACATAGTACTACACACGTGA-CCATA-TTATTCGGTACACG
* * *
19315830 TAGTAGCCTACACATAGTACTACACATGCGACC-TATCATTCTGGTACACG
1 TAGTAGCCTACACATAGTACTACACACGTGACCATATTATTC-GGTACACG
19315880 TAGTAGCCTACACATAGTACTACACACGTGACCAT
1 TAGTAGCCTACACATAGTACTACACACGTGACCAT
19315915 CACTTTCACT
Statistics
Matches: 110, Mismatches: 21, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
49 3 0.03
50 40 0.36
51 65 0.59
52 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTACACATAGTACTACACACGTGACCATATTATTCGGTACACG
Found at i:19315944 original size:101 final size:102
Alignment explanation
Indices: 19315720--19315910 Score: 269
Period size: 102 Copynumber: 1.9 Consensus size: 102
19315710 TAATGATACT
* * * *
19315720 GGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCATTATTCGATACATGTAGTAG
1 GGTTCACATAGTAGCCTACACATAGTACTACACATGCGACCATCATTACTCGATACACGTAGTAG
* *
19315785 CATGCACATAGTACTACACACGTGATCGAAGCTATCC
66 CATACACATAGTACTACACACGTGATCCAAGCTATCC
* * *
19315822 GGTACGCATAGTAGCCTACACATAGTACTACACATGCGACCTATCATT-CT-GGTACACGTAGTA
1 GGTTCACATAGTAGCCTACACATAGTACTACACATGCGACC-ATCATTACTCGATACACGTAGTA
*
19315885 GCCTACACATAGTACTACACACGTGA
65 GCATACACATAGTACTACACACGTGA
19315911 CCATCACTTT
Statistics
Matches: 79, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
101 35 0.44
102 38 0.48
103 6 0.08
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (102 bp):
GGTTCACATAGTAGCCTACACATAGTACTACACATGCGACCATCATTACTCGATACACGTAGTAG
CATACACATAGTACTACACACGTGATCCAAGCTATCC
Found at i:19325594 original size:14 final size:15
Alignment explanation
Indices: 19325575--19325606 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
19325565 GTGGTTATAG
19325575 TTAAAATA-ATAAAA
1 TTAAAATAGATAAAA
19325589 TTAAAATAGATAAAA
1 TTAAAATAGATAAAA
19325604 TTA
1 TTA
19325607 TGATGTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (15 bp):
TTAAAATAGATAAAA
Found at i:19334647 original size:75 final size:75
Alignment explanation
Indices: 19334557--19334707 Score: 302
Period size: 75 Copynumber: 2.0 Consensus size: 75
19334547 TTATAAACTG
19334557 TGTTGAACAACAGCAATTGGGTAACTTTGAAAAAAATCGCCATAAATGGTGGAAAATGAATGGGA
1 TGTTGAACAACAGCAATTGGGTAACTTTGAAAAAAATCGCCATAAATGGTGGAAAATGAATGGGA
19334622 AGCTGAATAA
66 AGCTGAATAA
19334632 TGTTGAACAACAGCAATTGGGTAACTTTGAAAAAAATCGCCATAAATGGTGGAAAATGAATGGGA
1 TGTTGAACAACAGCAATTGGGTAACTTTGAAAAAAATCGCCATAAATGGTGGAAAATGAATGGGA
19334697 AGCTGAATAA
66 AGCTGAATAA
19334707 T
1 T
19334708 ATATGAAATT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 76 1.00
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.23
Consensus pattern (75 bp):
TGTTGAACAACAGCAATTGGGTAACTTTGAAAAAAATCGCCATAAATGGTGGAAAATGAATGGGA
AGCTGAATAA
Found at i:19345783 original size:46 final size:46
Alignment explanation
Indices: 19345733--19345825 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
19345723 CAGATGAACT
19345733 TAGTGAGTTATGAAAACAACTTACCATTTTAACTTTTCTTTATAAG
1 TAGTGAGTTATGAAAACAACTTACCATTTTAACTTTTCTTTATAAG
*
19345779 TAGTGAGTTATGAACACAACTTACCATTTTAACTTTTCTTTATAAG
1 TAGTGAGTTATGAAAACAACTTACCATTTTAACTTTTCTTTATAAG
19345825 T
1 T
19345826 TTTTCTTTTT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (46 bp):
TAGTGAGTTATGAAAACAACTTACCATTTTAACTTTTCTTTATAAG
Found at i:19346468 original size:22 final size:22
Alignment explanation
Indices: 19346440--19346533 Score: 79
Period size: 20 Copynumber: 4.4 Consensus size: 22
19346430 AATGCCATAG
19346440 AGGCCATATCAGAATACCACAA
1 AGGCCATATCAGAATACCACAA
* *
19346462 AGGCCATATTAGAATACACCCAA
1 AGGCCATATCAGAATAC-CACAA
* * * *
19346485 AGG-C-TAACAAAATGCCATAA
1 AGGCCATATCAGAATACCACAA
* *
19346505 AGGCCA-A-CATAATGCCACAA
1 AGGCCATATCAGAATACCACAA
19346525 AGGCCATAT
1 AGGCCATAT
19346534 TAAAATACAT
Statistics
Matches: 57, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
20 23 0.40
21 10 0.18
22 17 0.30
23 7 0.12
ACGTcount: A:0.45, C:0.26, G:0.15, T:0.15
Consensus pattern (22 bp):
AGGCCATATCAGAATACCACAA
Found at i:19347681 original size:115 final size:111
Alignment explanation
Indices: 19347479--19347724 Score: 402
Period size: 115 Copynumber: 2.2 Consensus size: 111
19347469 ACGGGATACA
* *
19347479 TAAAAACTTTACTACTAATGGGTTTAATAATTTTGCTTAAAAACTTTACTCGGATACATAAAATG
1 TAAAAAATTTACTACTAATGGGTTTAATAATTTTCCTTAAAAACTTTACTCGGATACATAAAATG
* *
19347544 GACGCTCTGACTTCACTCGAATCTCAAGTATCTTTGATGTCCTTATTCCT
66 GACGCTATGACTTCACTCGAATCTCAAGTATCTTTG--GT--ATATTCCT
*
19347594 TAAAAAATTTACTACTAATGGGTTTAATAATTTTCCTTAAAAACTTTACTCGGATACATAAAGTG
1 TAAAAAATTTACTACTAATGGGTTTAATAATTTTCCTTAAAAACTTTACTCGGATACATAAAATG
*
19347659 GACGCTATGACTTCACTCGAATCTCAAGTATCTTTGGTATCTTCCT
66 GACGCTATGACTTCACTCGAATCTCAAGTATCTTTGGTATATTCCT
19347705 TAAAAAATTTACTACTAATG
1 TAAAAAATTTACTACTAATG
19347725 TATCATGTTT
Statistics
Matches: 125, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
111 26 0.21
113 2 0.02
115 97 0.78
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (111 bp):
TAAAAAATTTACTACTAATGGGTTTAATAATTTTCCTTAAAAACTTTACTCGGATACATAAAATG
GACGCTATGACTTCACTCGAATCTCAAGTATCTTTGGTATATTCCT
Found at i:19349654 original size:52 final size:52
Alignment explanation
Indices: 19349584--19349687 Score: 190
Period size: 52 Copynumber: 2.0 Consensus size: 52
19349574 TCATTAAGTG
* *
19349584 GTTATATGCATATATAATTTTCTCCAACTTAGATAGTTCATGGGTAAGTCCA
1 GTTAGATGCATATATAATTTTCCCCAACTTAGATAGTTCATGGGTAAGTCCA
19349636 GTTAGATGCATATATAATTTTCCCCAACTTAGATAGTTCATGGGTAAGTCCA
1 GTTAGATGCATATATAATTTTCCCCAACTTAGATAGTTCATGGGTAAGTCCA
19349688 TTCTACTGCG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (52 bp):
GTTAGATGCATATATAATTTTCCCCAACTTAGATAGTTCATGGGTAAGTCCA
Found at i:19354389 original size:27 final size:27
Alignment explanation
Indices: 19354085--19354388 Score: 387
Period size: 27 Copynumber: 11.2 Consensus size: 27
19354075 GGTATAACAG
*
19354085 TCATTTTACCCTATGGAGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGA
* *
19354112 TCATTTTACCCTATGAGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGA
19354139 TCATTTTACCCTATGGGGGTATTTCTG-
1 TCATTTTACCCTATGGGGGTATTTC-GA
* **
19354166 TCATTCTACCCTATAAGGGTATTTC-A
1 TCATTTTACCCTATGGGGGTATTTCGA
* * * *
19354192 GTTATTTAACCCTATGGGAGTATTTCGG
1 -TCATTTTACCCTATGGGGGTATTTCGA
*
19354220 TCATTTTACCCTATGGGGTTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGA
* *
19354247 TCAATTTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGA
19354274 TCATTTTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGA
* *
19354301 TCATTTTACCATATGGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGA
* * * *
19354328 TCATTCTACCTTATAGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGA
*
19354355 TCATTTTACCCTGTAGGGGGTATTTCGA
1 TCATTTTACCCTAT-GGGGGTATTTCGA
19354383 TCATTT
1 TCATTT
19354389 ATCGACCTCT
Statistics
Matches: 238, Mismatches: 34, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
27 220 0.92
28 18 0.08
ACGTcount: A:0.19, C:0.18, G:0.21, T:0.41
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTATTTCGA
Found at i:19370881 original size:29 final size:29
Alignment explanation
Indices: 19370839--19370927 Score: 169
Period size: 29 Copynumber: 3.1 Consensus size: 29
19370829 ACTCAAACTA
19370839 GACTTAAATTGGTATGTACCTCTAGACTC
1 GACTTAAATTGGTATGTACCTCTAGACTC
19370868 GACTTAAATTGGTATGTACCTCTAGACTC
1 GACTTAAATTGGTATGTACCTCTAGACTC
*
19370897 GACTTAAATTGGCATGTACCTCTAGACTC
1 GACTTAAATTGGTATGTACCTCTAGACTC
19370926 GA
1 GA
19370928 TTCTAAGCTG
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 59 1.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (29 bp):
GACTTAAATTGGTATGTACCTCTAGACTC
Found at i:19374236 original size:23 final size:23
Alignment explanation
Indices: 19374206--19374266 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
19374196 TTTGTCAAAA
*
19374206 AATATTTACTGTTCACGCCAGAG
1 AATATTTACTGTTCACACCAGAG
* *
19374229 AATATTTACTATTCACATCAGAG
1 AATATTTACTGTTCACACCAGAG
*
19374252 AATATTTATTGTTCA
1 AATATTTACTGTTCA
19374267 TTCGTCTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.38
Consensus pattern (23 bp):
AATATTTACTGTTCACACCAGAG
Found at i:19379813 original size:50 final size:50
Alignment explanation
Indices: 19379689--19379987 Score: 364
Period size: 50 Copynumber: 5.8 Consensus size: 50
19379679 ATTTGAGTAA
*
19379689 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA--C-TGAG---ATG
* * *
19379745 AGAGGTCCCCTGTAAGACCATTTCTGGGACATGGCGTTGGCACTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
*
19379795 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
* ** *
19379845 AGAGGTCTCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
* * * ** *
19379895 AGAGGTCCCAGGTAAAACCATGTCTGGGACATGGAAAGGGCACTGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
** * *
19379945 AGAACATCCCATGTAAGACCATGTATGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
19379988 TGCTATGATC
Statistics
Matches: 213, Mismatches: 29, Indels: 7
0.86 0.12 0.03
Matches are distributed among these distances:
50 139 0.65
51 31 0.15
53 4 0.02
54 1 0.00
56 38 0.18
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
Found at i:19398660 original size:23 final size:23
Alignment explanation
Indices: 19398628--19398722 Score: 136
Period size: 23 Copynumber: 4.1 Consensus size: 23
19398618 GATAAGATCA
* *
19398628 ATTCTGTGATGCCTTTTTGGCGT
1 ATTCTATGATGCCTTTGTGGCGT
19398651 ATTCTATGATGCCTTTGTGGCGT
1 ATTCTATGATGCCTTTGTGGCGT
** * *
19398674 ATTCTGCGATGCCTTTCTGGTGT
1 ATTCTATGATGCCTTTGTGGCGT
19398697 ATTCTATGATGCCTTTGTGGCGT
1 ATTCTATGATGCCTTTGTGGCGT
19398720 ATT
1 ATT
19398723 TTCTAACTCC
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 62 1.00
ACGTcount: A:0.12, C:0.18, G:0.25, T:0.45
Consensus pattern (23 bp):
ATTCTATGATGCCTTTGTGGCGT
Found at i:19398699 original size:46 final size:46
Alignment explanation
Indices: 19398628--19398722 Score: 163
Period size: 46 Copynumber: 2.1 Consensus size: 46
19398618 GATAAGATCA
* *
19398628 ATTCTGTGATGCCTTTTTGGCGTATTCTATGATGCCTTTGTGGCGT
1 ATTCTGCGATGCCTTTCTGGCGTATTCTATGATGCCTTTGTGGCGT
*
19398674 ATTCTGCGATGCCTTTCTGGTGTATTCTATGATGCCTTTGTGGCGT
1 ATTCTGCGATGCCTTTCTGGCGTATTCTATGATGCCTTTGTGGCGT
19398720 ATT
1 ATT
19398723 TTCTAACTCC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.12, C:0.18, G:0.25, T:0.45
Consensus pattern (46 bp):
ATTCTGCGATGCCTTTCTGGCGTATTCTATGATGCCTTTGTGGCGT
Found at i:19410563 original size:14 final size:14
Alignment explanation
Indices: 19410544--19410571 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
19410534 CCAATTTATT
19410544 AATGAATTATTAAA
1 AATGAATTATTAAA
19410558 AATGAATTATTAAA
1 AATGAATTATTAAA
19410572 TATAAATTTA
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:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (14 bp):
AATGAATTATTAAA
Found at i:19412743 original size:19 final size:19
Alignment explanation
Indices: 19412696--19412735 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
19412686 TTATTATTTT
*
19412696 TAAAATTT-ACTATTAAAA
1 TAAAATTTAAATATTAAAA
19412714 TAAAATTTAAATATT-AAA
1 TAAAATTTAAATATTAAAA
19412732 TAAA
1 TAAA
19412736 TTATTAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAAATTTAAATATTAAAA
Found at i:19420128 original size:14 final size:14
Alignment explanation
Indices: 19420109--19420138 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
19420099 TGTAATGACC
19420109 GAGGACAATGGATG
1 GAGGACAATGGATG
19420123 GAGGACAATGGATG
1 GAGGACAATGGATG
19420137 GA
1 GA
19420139 TTAAGGCCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.43, T:0.13
Consensus pattern (14 bp):
GAGGACAATGGATG
Found at i:19420563 original size:27 final size:26
Alignment explanation
Indices: 19420529--19420580 Score: 86
Period size: 27 Copynumber: 2.0 Consensus size: 26
19420519 AGAATATATG
*
19420529 ATGCGATGATTTTGTGAGAAATGTATA
1 ATGCGATGATTTTGT-AAAAATGTATA
19420556 ATGCGATGATTTTGTAAAAATGTAT
1 ATGCGATGATTTTGTAAAAATGTAT
19420581 GGTGTTTAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.04, G:0.23, T:0.38
Consensus pattern (26 bp):
ATGCGATGATTTTGTAAAAATGTATA
Found at i:19420848 original size:22 final size:22
Alignment explanation
Indices: 19420823--19420874 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
19420813 TGAGTACCAA
*
19420823 ACGATGAGGGGAAAACTTCACG
1 ACGATGAGGGGAAAACCTCACG
* *
19420845 ACGATAAGGGGAAAACCTCATG
1 ACGATGAGGGGAAAACCTCACG
*
19420867 GCGATGAG
1 ACGATGAG
19420875 TTTAAGCGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.37, C:0.17, G:0.33, T:0.13
Consensus pattern (22 bp):
ACGATGAGGGGAAAACCTCACG
Found at i:19420991 original size:29 final size:29
Alignment explanation
Indices: 19420946--19421001 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
19420936 CTTTGAAAGG
*
19420946 ACACCTTTATGACAATCTCTGTTAAAAAA
1 ACACCTTTATGACAATCTCTATTAAAAAA
* *
19420975 ACACCTTTGTGGA-AATCTTTATTAAAA
1 ACACCTTTAT-GACAATCTCTATTAAAA
19421002 GGAAGTCTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 21 0.91
30 2 0.09
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (29 bp):
ACACCTTTATGACAATCTCTATTAAAAAA
Found at i:19421039 original size:28 final size:28
Alignment explanation
Indices: 19420999--19421128 Score: 154
Period size: 28 Copynumber: 4.6 Consensus size: 28
19420989 ATCTTTATTA
19420999 AAAGGAAGTCTTTGTGGCGATCTCTGTT
1 AAAGGAAGTCTTTGTGGCGATCTCTGTT
*
19421027 AAAGGAA-TCCTTTGTGGTGATCTCTGTT
1 AAAGGAAGT-CTTTGTGGCGATCTCTGTT
* ** *
19421055 AAAGGAATTCTTTGTAACGATCTTTGTT
1 AAAGGAAGTCTTTGTGGCGATCTCTGTT
* *
19421083 AAAGGAAGTCTTTATGGCTATCTCTGTT
1 AAAGGAAGTCTTTGTGGCGATCTCTGTT
* *
19421111 AAAAGGATGACTTTGTGG
1 -AAAGGAAGTCTTTGTGG
19421129 TCTCAATTAA
Statistics
Matches: 85, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
27 1 0.01
28 69 0.81
29 15 0.18
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.38
Consensus pattern (28 bp):
AAAGGAAGTCTTTGTGGCGATCTCTGTT
Found at i:19422619 original size:14 final size:15
Alignment explanation
Indices: 19422592--19422627 Score: 65
Period size: 14 Copynumber: 2.5 Consensus size: 15
19422582 AGGTTTATGA
19422592 ATTATGGAATTAGGG
1 ATTATGGAATTAGGG
19422607 ATTATGG-ATTAGGG
1 ATTATGGAATTAGGG
19422621 ATTATGG
1 ATTATGG
19422628 TTTAAGGGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 14 0.67
15 7 0.33
ACGTcount: A:0.31, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
ATTATGGAATTAGGG
Found at i:19422784 original size:133 final size:132
Alignment explanation
Indices: 19422647--19422886 Score: 340
Period size: 133 Copynumber: 1.8 Consensus size: 132
19422637 TGTGATTTAG
* * * *
19422647 GGGTTAGGGGTTAGATATTAAGAGTTAGGGATTTAAGGTTTATG-GATTCAGTGTTAGGTTAGGG
1 GGGTTAGAGGTTAGATATTAAGAGTTAGGGATTTAAGATTTA-GAGATTCAGGGTCAGGTTAGGG
**
19422711 TTTAGGGTTTAGATTAATTAGTGT-TTTTTTAATTTATATATTAAATAAAGTTTAGGGGTTAGTA
65 TTTAAAGTTTAGATTAATTA-T-TATTTTTTAATTTATATATTAAATAAAGTTTAGGGGTTAGTA
19422775 GTTAA
128 GTTAA
* * ** *
19422780 GGGTTAGAGGTTAGATGTTAAGAGTTAGTGATTTAAGATTTAGAGATTTGGGGTCGGGTTAGGGT
1 GGGTTAGAGGTTAGATATTAAGAGTTAGGGATTTAAGATTTAGAGATTCAGGGTCAGGTTAGGGT
19422845 TTAAAGTTTAGATTAATTATTATTTTTTAATTTATATATTAA
66 TTAAAGTTTAGATTAATTATTATTTTTTAATTTATATATTAA
19422887 TTAAGTTAAA
Statistics
Matches: 94, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
131 1 0.01
132 22 0.23
133 71 0.76
ACGTcount: A:0.29, C:0.01, G:0.27, T:0.43
Consensus pattern (132 bp):
GGGTTAGAGGTTAGATATTAAGAGTTAGGGATTTAAGATTTAGAGATTCAGGGTCAGGTTAGGGT
TTAAAGTTTAGATTAATTATTATTTTTTAATTTATATATTAAATAAAGTTTAGGGGTTAGTAGTT
AA
Found at i:19422786 original size:21 final size:21
Alignment explanation
Indices: 19422762--19422807 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
19422752 TAAATAAAGT
* *
19422762 TTAGGGGTTAG-TAGTTAAGGG
1 TTAGAGGTTAGAT-GTTAAGAG
19422783 TTAGAGGTTAGATGTTAAGAG
1 TTAGAGGTTAGATGTTAAGAG
19422804 TTAG
1 TTAG
19422808 TGATTTAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (21 bp):
TTAGAGGTTAGATGTTAAGAG
Found at i:19424448 original size:3 final size:3
Alignment explanation
Indices: 19424440--19424472 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
19424430 ACACACCTAT
19424440 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
19424473 TTATTAGCCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:19427514 original size:43 final size:43
Alignment explanation
Indices: 19427442--19427726 Score: 326
Period size: 43 Copynumber: 6.7 Consensus size: 43
19427432 GGGAAGGGTT
* *
19427442 GCTAAAGGT-TTGTTCTATAGCGGCATTTGTGGGAAAAGCGCC
1 GCTAAAGGTATTGATCTATAGCGGCGTTTGTGGGAAAAGCGCC
* * * *
19427484 GCTAAAGGTATTGAGCTATAGCGACGTTTGTAGAAAAAGCGCC
1 GCTAAAGGTATTGATCTATAGCGGCGTTTGTGGGAAAAGCGCC
** *
19427527 GCTAAAGGTCGTGATCTATAGCGGCGTTTGTGGGAAAAACGCC
1 GCTAAAGGTATTGATCTATAGCGGCGTTTGTGGGAAAAGCGCC
* * * *
19427570 GCTAAAGGTCTTAAGCTATAGCGGCGTTTGTTGGAAAAGCGCC
1 GCTAAAGGTATTGATCTATAGCGGCGTTTGTGGGAAAAGCGCC
* **
19427613 GCTAAAGGTCA-TGATCTATAGCGCCGTTTGT-CCAAAAGCGCC
1 GCTAAAGGT-ATTGATCTATAGCGGCGTTTGTGGGAAAAGCGCC
** * * *
19427655 GCTAAAGGTCCTGATCTATAGCGGCATTTGTTGCAAAAGCGCC
1 GCTAAAGGTATTGATCTATAGCGGCGTTTGTGGGAAAAGCGCC
*
19427698 GCTAAAGGTCA-TGATCTATAGCAGCGTTT
1 GCTAAAGGT-ATTGATCTATAGCGGCGTTT
19427727 ATTTCTAAAA
Statistics
Matches: 207, Mismatches: 31, Indels: 9
0.84 0.13 0.04
Matches are distributed among these distances:
42 45 0.22
43 162 0.78
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.26
Consensus pattern (43 bp):
GCTAAAGGTATTGATCTATAGCGGCGTTTGTGGGAAAAGCGCC
Found at i:19427570 original size:86 final size:86
Alignment explanation
Indices: 19427442--19427726 Score: 394
Period size: 86 Copynumber: 3.3 Consensus size: 86
19427432 GGGAAGGGTT
* * * *
19427442 GCTAAAGGT-TTGTTCTATAGCGGCATTTGTGGGAAAAGCGCCGCTAAAGGTATTGAGCTATAGC
1 GCTAAAGGTCATGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGAGCTATAGC
* *
19427506 GACGTTTGTAGAAAAAGCGCC
66 GGCGTTTGTTGAAAAAGCGCC
* * *
19427527 GCTAAAGGTCGTGATCTATAGCGGCGTTTGTGGGAAAAACGCCGCTAAAGGTCTTAAGCTATAGC
1 GCTAAAGGTCATGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGAGCTATAGC
*
19427592 GGCGTTTGTTGGAAAAGCGCC
66 GGCGTTTGTTGAAAAAGCGCC
* ** * *
19427613 GCTAAAGGTCATGATCTATAGCGCCGTTTGT-CCAAAAGCGCCGCTAAAGGTCCTGATCTATAGC
1 GCTAAAGGTCATGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGAGCTATAGC
* *
19427677 GGCATTTGTTGCAAAAGCGCC
66 GGCGTTTGTTGAAAAAGCGCC
*
19427698 GCTAAAGGTCATGATCTATAGCAGCGTTT
1 GCTAAAGGTCATGATCTATAGCGGCGTTT
19427727 ATTTCTAAAA
Statistics
Matches: 178, Mismatches: 21, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
85 82 0.46
86 96 0.54
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.26
Consensus pattern (86 bp):
GCTAAAGGTCATGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGAGCTATAGC
GGCGTTTGTTGAAAAAGCGCC
Found at i:19442613 original size:42 final size:42
Alignment explanation
Indices: 19442566--19442747 Score: 213
Period size: 42 Copynumber: 4.4 Consensus size: 42
19442556 GGCTTAACGC
* *
19442566 CTAGCAGGCTTATTGGCAGTGAAACAATATCAGACTTTACGT
1 CTAGCAGGCTTAATGCCAGTGAAACAATATCAGACTTTACGT
* * * *
19442608 CTAGCAGGCTTAATGTCAGTGCAATAATTTCAGACTTTACGT
1 CTAGCAGGCTTAATGCCAGTGAAACAATATCAGACTTTACGT
* * *
19442650 CTAGCAGGCTTAATACCGGTGAAATAATATCAGACTTTACGT
1 CTAGCAGGCTTAATGCCAGTGAAACAATATCAGACTTTACGT
* * * * *
19442692 CTAGCAGACTTAATGCCGGTGAAAC-ATTTCAGACTATATGT
1 CTAGCAGGCTTAATGCCAGTGAAACAATATCAGACTTTACGT
* *
19442733 CTCGCAGGCTAAATG
1 CTAGCAGGCTTAATG
19442748 TCGGTGTTCT
Statistics
Matches: 121, Mismatches: 19, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
41 25 0.21
42 96 0.79
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (42 bp):
CTAGCAGGCTTAATGCCAGTGAAACAATATCAGACTTTACGT
Found at i:19442691 original size:84 final size:83
Alignment explanation
Indices: 19442550--19442742 Score: 235
Period size: 84 Copynumber: 2.3 Consensus size: 83
19442540 TGAAATTGAG
* * * * **
19442550 ATTTCAGGCTTAACGCCTAGCAGGCTTATTGGCAGTGAAACAATATCAGACTTTACGTCTAGCAG
1 ATTTCAGACTTTACGTCTAGCAGGCTTAATACCAGTGAAACAATATCAGACTTTACGTCTAGCAG
* *
19442615 GCTTAATGTCAGTGCAATA-
66 ACTTAATGCCAGTG-AA-AC
* *
19442634 ATTTCAGACTTTACGTCTAGCAGGCTTAATACCGGTGAAATAATATCAGACTTTACGTCTAGCAG
1 ATTTCAGACTTTACGTCTAGCAGGCTTAATACCAGTGAAACAATATCAGACTTTACGTCTAGCAG
*
19442699 ACTTAATGCCGGTGAAAC
66 ACTTAATGCCAGTGAAAC
* * *
19442717 ATTTCAGACTATATGTCTCGCAGGCT
1 ATTTCAGACTTTACGTCTAGCAGGCT
19442743 AAATGTCGGT
Statistics
Matches: 94, Mismatches: 14, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
82 1 0.01
83 25 0.27
84 68 0.72
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.30
Consensus pattern (83 bp):
ATTTCAGACTTTACGTCTAGCAGGCTTAATACCAGTGAAACAATATCAGACTTTACGTCTAGCAG
ACTTAATGCCAGTGAAAC
Found at i:19444175 original size:344 final size:344
Alignment explanation
Indices: 19443548--19444238 Score: 1364
Period size: 344 Copynumber: 2.0 Consensus size: 344
19443538 TCGTAATTTG
*
19443548 TTATATTGTATATGAATTTAATAGCCATACTAAATTGGTTTATTTCCTCATGGATTTGCTAGTTT
1 TTATATTGTATATGAATTTAATAGCCATACAAAATTGGTTTATTTCCTCATGGATTTGCTAGTTT
19443613 GTAATGTCTTTGTTTTGTTTTAAATGGTCAAAAGAGAAGCTTAAAATTTTGCATGTTTAATATTA
66 GTAATGTCTTTGTTTTGTTTTAAATGGTCAAAAGAGAAGCTTAAAATTTTGCATGTTTAATATTA
19443678 GACCTAGCTTATCATATGTAACTGTTATAATTATTGAACTTTAATGAATGTCTGTTCTGAGTTGT
131 GACCTAGCTTATCATATGTAACTGTTATAATTATTGAACTTTAATGAATGTCTGTTCTGAGTTGT
19443743 GTTTTGATTAGTAATGGCTCTTAACCCTAATTCGGCAACGGATACAGGTTAGGGGTGTTACAAAT
196 GTTTTGATTAGTAATGGCTCTTAACCCTAATTCGGCAACGGATACAGGTTAGGGGTGTTACAAAT
19443808 GGTATTTCTACAGAAGTTTTTTCTACTAATAACATAATGAAATTTTTATCAATAGAAAATGGTAA
261 GGTATTTCTACAGAAGTTTTTTCTACTAATAACATAATGAAATTTTTATCAATAGAAAATGGTAA
19443873 ATGTTGATATATAAAATTA
326 ATGTTGATATATAAAATTA
19443892 TTATATTGTATATGAATTTAATAGCCATACAAAATTGGTTTATTTCCTCATGGATTTGCTAGTTT
1 TTATATTGTATATGAATTTAATAGCCATACAAAATTGGTTTATTTCCTCATGGATTTGCTAGTTT
19443957 GTAATGTCTTTGTTTTGTTTTAAATGGTCAAAAGAGAAGCTTAAAATTTTGCATGTTTAATATTA
66 GTAATGTCTTTGTTTTGTTTTAAATGGTCAAAAGAGAAGCTTAAAATTTTGCATGTTTAATATTA
19444022 GACCTAGCTTATCATATGTAACTGTTATAATTATTGAACTTTAATGAATGTCTGTTCTGAGTTGT
131 GACCTAGCTTATCATATGTAACTGTTATAATTATTGAACTTTAATGAATGTCTGTTCTGAGTTGT
*
19444087 GTTTTGATTAGTAATGGCTCTTAACCCTAATTCGGCAACGGATACGGGTTAGGGGTGTTACAAAT
196 GTTTTGATTAGTAATGGCTCTTAACCCTAATTCGGCAACGGATACAGGTTAGGGGTGTTACAAAT
19444152 GGTATTTCTACAGAAGTTTTTTCTACTAATAACATAATGAAATTTTTATCAATAGAAAATGGTAA
261 GGTATTTCTACAGAAGTTTTTTCTACTAATAACATAATGAAATTTTTATCAATAGAAAATGGTAA
19444217 ATGTTGATATATAAAATTA
326 ATGTTGATATATAAAATTA
19444236 TTA
1 TTA
19444239 CCTAATAATA
Statistics
Matches: 345, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
344 345 1.00
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (344 bp):
TTATATTGTATATGAATTTAATAGCCATACAAAATTGGTTTATTTCCTCATGGATTTGCTAGTTT
GTAATGTCTTTGTTTTGTTTTAAATGGTCAAAAGAGAAGCTTAAAATTTTGCATGTTTAATATTA
GACCTAGCTTATCATATGTAACTGTTATAATTATTGAACTTTAATGAATGTCTGTTCTGAGTTGT
GTTTTGATTAGTAATGGCTCTTAACCCTAATTCGGCAACGGATACAGGTTAGGGGTGTTACAAAT
GGTATTTCTACAGAAGTTTTTTCTACTAATAACATAATGAAATTTTTATCAATAGAAAATGGTAA
ATGTTGATATATAAAATTA
Found at i:19461169 original size:15 final size:15
Alignment explanation
Indices: 19461149--19461177 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
19461139 GTCTTATAAC
19461149 AAGTTAAATAACAAT
1 AAGTTAAATAACAAT
19461164 AAGTTAAATAACAA
1 AAGTTAAATAACAA
19461178 GTAAACACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.07, G:0.07, T:0.24
Consensus pattern (15 bp):
AAGTTAAATAACAAT
Found at i:19463512 original size:26 final size:26
Alignment explanation
Indices: 19463483--19463554 Score: 117
Period size: 26 Copynumber: 2.8 Consensus size: 26
19463473 AACACACCAA
* *
19463483 TATCCCAGCAAAGCTGCCAGTAATAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
19463509 TATCGCAGCAAAGCTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
*
19463535 TATCGTAGCAAAGCTGCCAG
1 TATCGCAGCAAAGCTGCCAG
19463555 CATGTCATGT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.33, C:0.26, G:0.22, T:0.18
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAGTAACAG
Found at i:19467706 original size:11 final size:11
Alignment explanation
Indices: 19467690--19467720 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
19467680 GTGGAAGGAA
19467690 AATTGTTCATG
1 AATTGTTCATG
19467701 AATTGTTCATG
1 AATTGTTCATG
19467712 AATTGTTCA
1 AATTGTTCA
19467721 AGTGATAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.29, C:0.10, G:0.16, T:0.45
Consensus pattern (11 bp):
AATTGTTCATG
Found at i:19467992 original size:23 final size:23
Alignment explanation
Indices: 19467919--19467994 Score: 116
Period size: 23 Copynumber: 3.3 Consensus size: 23
19467909 AGTGTTATTG
*
19467919 ATCAGTGGTAGCTTCGGCTATAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * *
19467942 TTCAATGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
19467965 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
19467988 ATCAGTG
1 ATCAGTG
19467995 TGGCACTTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:19473399 original size:26 final size:26
Alignment explanation
Indices: 19473361--19473441 Score: 135
Period size: 26 Copynumber: 3.1 Consensus size: 26
19473351 AACACACCAA
19473361 TATCGCAGTAAAGCTGCTAGTAACAG
1 TATCGCAGTAAAGCTGCTAGTAACAG
* *
19473387 TATCGCAGCAAAGTTGCTAGTAACAG
1 TATCGCAGTAAAGCTGCTAGTAACAG
*
19473413 TATCGCAGTAAAGCTGCCAGTAACAG
1 TATCGCAGTAAAGCTGCTAGTAACAG
19473439 TAT
1 TAT
19473442 ACTTCCTCCA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 50 1.00
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (26 bp):
TATCGCAGTAAAGCTGCTAGTAACAG
Found at i:19473963 original size:12 final size:12
Alignment explanation
Indices: 19473931--19473957 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
19473921 TACGGCCAAA
19473931 GCCTATGGAAAT
1 GCCTATGGAAAT
19473943 GCCTATGGAAAT
1 GCCTATGGAAAT
19473955 GCC
1 GCC
19473958 CTTGGAGGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (12 bp):
GCCTATGGAAAT
Found at i:19477084 original size:33 final size:33
Alignment explanation
Indices: 19477018--19477086 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
19477008 ATCCTGCCAC
* * *
19477018 TGAGGAGAAGGCCACAAAAGGGCCGAAGGGAGA
1 TGAGCAGAAGGCCACAAAAGGACCGAAGCGAGA
*
19477051 TGAGCAGAAGGCCATAAAAGGACC-AGAGCGAGA
1 TGAGCAGAAGGCCACAAAAGGACCGA-AGCGAGA
19477084 TGA
1 TGA
19477087 AGAGAAGACT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 1 0.03
33 30 0.97
ACGTcount: A:0.41, C:0.16, G:0.38, T:0.06
Consensus pattern (33 bp):
TGAGCAGAAGGCCACAAAAGGACCGAAGCGAGA
Found at i:19481620 original size:2 final size:2
Alignment explanation
Indices: 19481613--19481637 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
19481603 GAGAATGGAA
19481613 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
19481638 CAAAAACACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:19482279 original size:5 final size:5
Alignment explanation
Indices: 19482269--19482302 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
19482259 CATACATACA
*
19482269 CATAT CATAT CATAT CATAA CATAT CATAT -ATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT
19482303 AATAAAATAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (5 bp):
CATAT
Found at i:19492300 original size:22 final size:22
Alignment explanation
Indices: 19492270--19492312 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
19492260 ACACCAAAAC
* *
19492270 AGGCTTTTAGCGGTGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
19492292 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
19492313 AGTGGCGCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.09, C:0.19, G:0.28, T:0.44
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:19492454 original size:43 final size:42
Alignment explanation
Indices: 19492406--19492716 Score: 298
Period size: 43 Copynumber: 7.1 Consensus size: 42
19492396 TTCTAGAAAT
** **
19492406 AAACGCCGCTAAAGGTCATGGTCTTTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTT-CAC
* * * *
19492449 AAACGCCGCTAAAAACTAAGACCTTTAGCGGCGCTTTTCCCACCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTT-----TCAC
* *
19492496 AAACACCGCTAAAGACCATGACCTTTAACGGCGCTTTTGTCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTT-TCAC
* *
19492539 AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTT-TCAC
* * * * *
19492582 AAACGCCGATAAAGACCATGACATTTTATCGGCGAATTTGTCAC
1 AAACGCCGCTAAAGACCATGAC-CTTTAGCGGCG-CTTTTTCAC
* * * *
19492626 AAACGCCGCTATAGAGCATGACCTTTAGGGGCGCTTTTGTCAA
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTT-TCAC
* *
19492669 AAACGCCGCTAAAGAACATGACTTTTAGCGGCGCTTTTTATCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGC-TTTT-TCAC
19492713 AAAC
1 AAAC
19492717 ACTGCTATAG
Statistics
Matches: 217, Mismatches: 42, Indels: 17
0.79 0.15 0.06
Matches are distributed among these distances:
42 3 0.01
43 133 0.61
44 42 0.19
45 3 0.01
47 36 0.17
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (42 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTCAC
Found at i:19492713 original size:87 final size:87
Alignment explanation
Indices: 19492406--19492767 Score: 351
Period size: 87 Copynumber: 4.1 Consensus size: 87
19492396 TTCTAGAAAT
** * * * *
19492406 AAACGCCGCTAAAGGTCATG-GTCTTTAGCGGCGCTTTTT-CCACAAACGCCGCTA-AAAACTAA
1 AAACGCCGCTAAAGACCATGACT-TTTAGCGGCGCTTTTTGTCACAAACGCCGCTATAGAAC-AT
19492468 GACCTTTAGCGGCGCTTTTCCCACCCA
64 GACCTTTAGCGGCGCTTTTCCCA---A
* * * *
19492495 CAAACACCGCTAAAGACCATGACCTTTAACGGCGC-TTTTGTCACAAACGCCGCTATAGACCATG
1 -AAACGCCGCTAAAGACCATGACTTTTAGCGGCGCTTTTTGTCACAAACGCCGCTATAGAACATG
*
19492559 ACCTTTAGCGGCGCTTTTCCCAC
65 ACCTTTAGCGGCGCTTTTCCCAA
* * ** *
19492582 AAACGCCGATAAAGACCATGACATTTTATCGGCG-AATTTGTCACAAACGCCGCTATAGAGCATG
1 AAACGCCGCTAAAGACCATGAC-TTTTAGCGGCGCTTTTTGTCACAAACGCCGCTATAGAACATG
* **
19492646 ACCTTTAGGGGCGCTTTTGTCAA
65 ACCTTTAGCGGCGCTTTTCCCAA
* * * * *
19492669 AAACGCCGCTAAAGAACATGACTTTTAGCGGCGCTTTTTATCACAAACACTGCTATAGAACA-AA
1 AAACGCCGCTAAAGACCATGACTTTTAGCGGCGCTTTTTGTCACAAACGCCGCTATAGAACATGA
* ** *
19492733 TCTTTAGCAACG-TTTCTCGCAA
66 CCTTTAGCGGCGCTTT-TCCCAA
19492755 AAACGCCGCTAAA
1 AAACGCCGCTAAA
19492768 AACATATCAT
Statistics
Matches: 228, Mismatches: 37, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
85 3 0.01
86 56 0.25
87 97 0.43
89 4 0.02
90 65 0.29
91 3 0.01
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (87 bp):
AAACGCCGCTAAAGACCATGACTTTTAGCGGCGCTTTTTGTCACAAACGCCGCTATAGAACATGA
CCTTTAGCGGCGCTTTTCCCAA
Found at i:19498138 original size:7 final size:7
Alignment explanation
Indices: 19498128--19498181 Score: 54
Period size: 7 Copynumber: 7.7 Consensus size: 7
19498118 CACTAAAATG
*
19498128 TAAACTC
1 TAAACCC
*
19498135 TAAACCT
1 TAAACCC
*
19498142 TAAACTC
1 TAAACCC
*
19498149 TAATCCC
1 TAAACCC
* *
19498156 CAAGCCC
1 TAAACCC
19498163 TAAACCC
1 TAAACCC
19498170 TAAACCC
1 TAAACCC
19498177 TAAAC
1 TAAAC
19498182 TCAAAACTGT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.41, C:0.37, G:0.02, T:0.20
Consensus pattern (7 bp):
TAAACCC
Found at i:19498510 original size:17 final size:15
Alignment explanation
Indices: 19498478--19498528 Score: 59
Period size: 17 Copynumber: 3.3 Consensus size: 15
19498468 CCGTTGAAAT
19498478 CCTAAACCCCTAACC
1 CCTAAACCCCTAACC
19498493 CCTAAATCCCCTTAACC
1 CCTAAA-CCCC-TAACC
* *
19498510 CCTAAA-GCATAACC
1 CCTAAACCCCTAACC
19498524 CCTAA
1 CCTAA
19498529 CCCTTAAACC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 10 0.31
15 7 0.22
16 4 0.12
17 11 0.34
ACGTcount: A:0.35, C:0.45, G:0.02, T:0.18
Consensus pattern (15 bp):
CCTAAACCCCTAACC
Found at i:19499101 original size:41 final size:41
Alignment explanation
Indices: 19499056--19499194 Score: 190
Period size: 41 Copynumber: 3.4 Consensus size: 41
19499046 ACGCTTTTTA
19499056 AAAAACGCCGCTAAAGGTACGAGCATTAGCGGTGCTTCTTC
1 AAAAACGCCGCTAAAGGTACGAGCATTAGCGGTGCTTCTTC
* * *
19499097 AAAAACGCTGCTAAAGGTAGGAGCATTAGCGGCT-CTTCTTA
1 AAAAACGCCGCTAAAGGTACGAGCATTAGCGG-TGCTTCTTC
* * *
19499138 AAAAACTCCGCTAAAGGTACGAGCATTAGCGGCGCTTTTTC
1 AAAAACGCCGCTAAAGGTACGAGCATTAGCGGTGCTTCTTC
* *
19499179 AAAAATGCCACTAAAG
1 AAAAACGCCGCTAAAG
19499195 ACCCCAAAAA
Statistics
Matches: 84, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
41 83 0.99
42 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (41 bp):
AAAAACGCCGCTAAAGGTACGAGCATTAGCGGTGCTTCTTC
Found at i:19499193 original size:82 final size:82
Alignment explanation
Indices: 19499039--19499194 Score: 231
Period size: 82 Copynumber: 1.9 Consensus size: 82
19499029 TGATTTTATT
* *
19499039 ATTAGCGACGCTTTTTAAAAAACGCCGCTAAAGGTACGAGCATTAGCGGTGCTTCTTCAAAAACG
1 ATTAGCGACGCTTCTTAAAAAACGCCGCTAAAGGTACGAGCATTAGCGGCGCTTCTTCAAAAACG
**
19499104 CTGCTAAAGGTAGGAGC
66 CCACTAAAGGTAGGAGC
* * * * *
19499121 ATTAGCGGCTCTTCTTAAAAAACTCCGCTAAAGGTACGAGCATTAGCGGCGCTTTTTCAAAAATG
1 ATTAGCGACGCTTCTTAAAAAACGCCGCTAAAGGTACGAGCATTAGCGGCGCTTCTTCAAAAACG
19499186 CCACTAAAG
66 CCACTAAAG
19499195 ACCCCAAAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
82 65 1.00
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (82 bp):
ATTAGCGACGCTTCTTAAAAAACGCCGCTAAAGGTACGAGCATTAGCGGCGCTTCTTCAAAAACG
CCACTAAAGGTAGGAGC
Found at i:19499385 original size:41 final size:40
Alignment explanation
Indices: 19499233--19499368 Score: 161
Period size: 40 Copynumber: 3.4 Consensus size: 40
19499223 TGGGCTTAGG
* **
19499233 TTTTTTGCGGCGCTTTTTGGAAAA-CGCCGCTAATGCTT-A
1 TTTTTAGCGGCG-TTTTTCTAAAAGCGCCGCTAATGCTTGA
* *
19499272 TTTTTAGCAGCG-TTTTCTAAAATGCGCCGCTAATGCTCGA
1 TTTTTAGCGGCGTTTTTCTAAAA-GCGCCGCTAATGCTTGA
* *
19499312 TCTTTAGCGGCGTTTTTCTAAAAGAGCCGCTAATGCTTGA
1 TTTTTAGCGGCGTTTTTCTAAAAGCGCCGCTAATGCTTGA
*
19499352 TTTTTAGTGGCGTTTTT
1 TTTTTAGCGGCGTTTTT
19499369 TGTCCAAACG
Statistics
Matches: 82, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
37 8 0.10
39 23 0.28
40 41 0.50
41 10 0.12
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.40
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTTCTAAAAGCGCCGCTAATGCTTGA
Found at i:19499869 original size:27 final size:27
Alignment explanation
Indices: 19499812--19499872 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
19499802 GACTTTTTTT
* * *
19499812 GGGTGTTGTTTTGCTTTTGTTTGGTTT
1 GGGTTTTGTTTTACTTTTGTTTGGTTC
*
19499839 GGGTTTTGTTTTATTTTTG-TTGTGTTC
1 GGGTTTTGTTTTACTTTTGTTTG-GTTC
19499866 GGGTTTT
1 GGGTTTT
19499873 ATTTGTAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 3 0.10
27 26 0.90
ACGTcount: A:0.02, C:0.03, G:0.31, T:0.64
Consensus pattern (27 bp):
GGGTTTTGTTTTACTTTTGTTTGGTTC
Found at i:19501369 original size:6 final size:6
Alignment explanation
Indices: 19501360--19501388 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
19501350 AAAAATAAAG
19501360 TATTTA TATTTA TATTTA TATTTA TATTT
1 TATTTA TATTTA TATTTA TATTTA TATTT
19501389 TTTTAACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
TATTTA
Found at i:19501736 original size:30 final size:31
Alignment explanation
Indices: 19501700--19501777 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
19501690 TTAATATAAC
*
19501700 ATTTGGTACCTGAACTTGACA-TTTTTCCTA
1 ATTTGGTACCTAAACTTGACACTTTTTCCTA
* *
19501730 ATTTGGTACCTAAACTTGATACTTTTTCTTA
1 ATTTGGTACCTAAACTTGACACTTTTTCCTA
* *
19501761 AGTTGGTACTTAAACTT
1 ATTTGGTACCTAAACTT
19501778 TTTTGGGTCT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 19 0.45
31 23 0.55
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.45
Consensus pattern (31 bp):
ATTTGGTACCTAAACTTGACACTTTTTCCTA
Found at i:19501827 original size:59 final size:59
Alignment explanation
Indices: 19501727--19501840 Score: 144
Period size: 59 Copynumber: 1.9 Consensus size: 59
19501717 GACATTTTTC
* * *
19501727 CTAATTTGGTACCTAAACTTGATACTTTTTCTTAAGTTGGTA-CTTAAACTTTTTTGGGT
1 CTAATTTGATACCTAAACTTGATACTTTCTCCTAAGTTGGTATC-TAAACTTTTTTGGGT
*
19501786 CTAATTTGATACCTAAACTTGACTA-TTTCTCCTAA-TCTGGTATCTAATCTTTTTT
1 CTAATTTGATACCTAAACTTGA-TACTTTCTCCTAAGT-TGGTATCTAAACTTTTTT
19501841 TTGTTTGTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
58 1 0.02
59 44 0.92
60 3 0.06
ACGTcount: A:0.25, C:0.17, G:0.11, T:0.47
Consensus pattern (59 bp):
CTAATTTGATACCTAAACTTGATACTTTCTCCTAAGTTGGTATCTAAACTTTTTTGGGT
Found at i:19502263 original size:6 final size:6
Alignment explanation
Indices: 19502254--19502282 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
19502244 AAAAATAAAG
19502254 TATTTA TATTTA TATTTA TATTTA TATTT
1 TATTTA TATTTA TATTTA TATTTA TATTT
19502283 TTTTAACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
TATTTA
Found at i:19502630 original size:30 final size:31
Alignment explanation
Indices: 19502594--19502671 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
19502584 TTAATATAAC
*
19502594 ATTTGGTACCTGAACTTGACA-TTTTTCCTA
1 ATTTGGTACCTAAACTTGACACTTTTTCCTA
* *
19502624 ATTTGGTACCTAAACTTGATACTTTTTCTTA
1 ATTTGGTACCTAAACTTGACACTTTTTCCTA
* *
19502655 AGTTGGTACTTAAACTT
1 ATTTGGTACCTAAACTT
19502672 TTTTGGGTCT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 19 0.45
31 23 0.55
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.45
Consensus pattern (31 bp):
ATTTGGTACCTAAACTTGACACTTTTTCCTA
Found at i:19502721 original size:59 final size:59
Alignment explanation
Indices: 19502621--19502734 Score: 144
Period size: 59 Copynumber: 1.9 Consensus size: 59
19502611 GACATTTTTC
* * *
19502621 CTAATTTGGTACCTAAACTTGATACTTTTTCTTAAGTTGGTA-CTTAAACTTTTTTGGGT
1 CTAATTTGATACCTAAACTTGATACTTTCTCCTAAGTTGGTATC-TAAACTTTTTTGGGT
*
19502680 CTAATTTGATACCTAAACTTGACTA-TTTCTCCTAA-TCTGGTATCTAATCTTTTTT
1 CTAATTTGATACCTAAACTTGA-TACTTTCTCCTAAGT-TGGTATCTAAACTTTTTT
19502735 TTGTTTGTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
58 1 0.02
59 44 0.92
60 3 0.06
ACGTcount: A:0.25, C:0.17, G:0.11, T:0.47
Consensus pattern (59 bp):
CTAATTTGATACCTAAACTTGATACTTTCTCCTAAGTTGGTATCTAAACTTTTTTGGGT
Found at i:19502843 original size:894 final size:894
Alignment explanation
Indices: 19501115--19502905 Score: 3582
Period size: 894 Copynumber: 2.0 Consensus size: 894
19501105 ATTTATTTAA
19501115 TTAAAAACCTATTTTCATCACAACAACTAGACATCCAAGTTGGCATTTAAAATCCATTTAGACTA
1 TTAAAAACCTATTTTCATCACAACAACTAGACATCCAAGTTGGCATTTAAAATCCATTTAGACTA
19501180 CCACGTAGGTCTGCGTTAGGGAGATAACAGAGTTTAACAGTAGAGCGGTCACTTCGTAACAAAAC
66 CCACGTAGGTCTGCGTTAGGGAGATAACAGAGTTTAACAGTAGAGCGGTCACTTCGTAACAAAAC
19501245 GATAACGTAAGTGACTAAAACGTAACATTTCAAACATAAGTGACTAAACTGTAATCTGAGGCAAA
131 GATAACGTAAGTGACTAAAACGTAACATTTCAAACATAAGTGACTAAACTGTAATCTGAGGCAAA
19501310 CAAAAGTGACTATTTTTGTAGATTATCCTAAATTAAAAATAAAAATAAAGTATTTATATTTATAT
196 CAAAAGTGACTATTTTTGTAGATTATCCTAAATTAAAAATAAAAATAAAGTATTTATATTTATAT
19501375 TTATATTTATATTTTTTTAACAAAAATTATTTTTCAAACTTTACAGATCTTAAAATTATTTTAGA
261 TTATATTTATATTTTTTTAACAAAAATTATTTTTCAAACTTTACAGATCTTAAAATTATTTTAGA
19501440 TTAATATAATTTAATAGACATATACAACAAACTCGTGCATTGCACAAGATAAAAAAAAATAGTAC
326 TTAATATAATTTAATAGACATATACAACAAACTCGTGCATTGCACAAGATAAAAAAAAATAGTAC
19501505 ATATACTATAGCAATTTCAAGTTACAATTAACAAAAGCATTCTAATGTGGCATAGTTAAAAAATT
391 ATATACTATAGCAATTTCAAGTTACAATTAACAAAAGCATTCTAATGTGGCATAGTTAAAAAATT
19501570 GTCATTTGGCATGGTAATTATTTGACATGTGTGTTTATTGACTAAAGTTTAAATTGAATATTTTT
456 GTCATTTGGCATGGTAATTATTTGACATGTGTGTTTATTGACTAAAGTTTAAATTGAATATTTTT
19501635 TCAATCTAATTTCCTTATAAAAATATATCAACATTGAATATCAATTCATATAGGCTTAATATAAC
521 TCAATCTAATTTCCTTATAAAAATATATCAACATTGAATATCAATTCATATAGGCTTAATATAAC
19501700 ATTTGGTACCTGAACTTGACATTTTTCCTAATTTGGTACCTAAACTTGATACTTTTTCTTAAGTT
586 ATTTGGTACCTGAACTTGACATTTTTCCTAATTTGGTACCTAAACTTGATACTTTTTCTTAAGTT
19501765 GGTACTTAAACTTTTTTGGGTCTAATTTGATACCTAAACTTGACTATTTCTCCTAATCTGGTATC
651 GGTACTTAAACTTTTTTGGGTCTAATTTGATACCTAAACTTGACTATTTCTCCTAATCTGGTATC
19501830 TAATCTTTTTTTTGTTTGTTTGTTTGATTTGGTACTTTTCAAATGTTTTACAAATTACTCCAATA
716 TAATCTTTTTTTTGTTTGTTTGTTTGATTTGGTACTTTTCAAATGTTTTACAAATTACTCCAATA
19501895 TACTAACAATGTTATTATTTTATGAGGTAGCAAAAATAATCAATGTATGACCGAAATGTGACAGA
781 TACTAACAATGTTATTATTTTATGAGGTAGCAAAAATAATCAATGTATGACCGAAATGTGACAGA
19501960 TGATATGATATTTTTTTATATTATATATGTTCAATTACTTTTAGTTTTC
846 TGATATGATATTTTTTTATATTATATATGTTCAATTACTTTTAGTTTTC
19502009 TTAAAAACCTATTTTCATCACAACAACTAGACATCCAAGTTGGCATTTAAAATCCATTTAGACTA
1 TTAAAAACCTATTTTCATCACAACAACTAGACATCCAAGTTGGCATTTAAAATCCATTTAGACTA
19502074 CCACGTAGGTCTGCGTTAGGGAGATAACAGAGTTTAACAGTAGAGCGGTCACTTCGTAACAAAAC
66 CCACGTAGGTCTGCGTTAGGGAGATAACAGAGTTTAACAGTAGAGCGGTCACTTCGTAACAAAAC
19502139 GATAACGTAAGTGACTAAAACGTAACATTTCAAACATAAGTGACTAAACTGTAATCTGAGGCAAA
131 GATAACGTAAGTGACTAAAACGTAACATTTCAAACATAAGTGACTAAACTGTAATCTGAGGCAAA
19502204 CAAAAGTGACTATTTTTGTAGATTATCCTAAATTAAAAATAAAAATAAAGTATTTATATTTATAT
196 CAAAAGTGACTATTTTTGTAGATTATCCTAAATTAAAAATAAAAATAAAGTATTTATATTTATAT
19502269 TTATATTTATATTTTTTTAACAAAAATTATTTTTCAAACTTTACAGATCTTAAAATTATTTTAGA
261 TTATATTTATATTTTTTTAACAAAAATTATTTTTCAAACTTTACAGATCTTAAAATTATTTTAGA
19502334 TTAATATAATTTAATAGACATATACAACAAACTCGTGCATTGCACAAGATAAAAAAAAATAGTAC
326 TTAATATAATTTAATAGACATATACAACAAACTCGTGCATTGCACAAGATAAAAAAAAATAGTAC
19502399 ATATACTATAGCAATTTCAAGTTACAATTAACAAAAGCATTCTAATGTGGCATAGTTAAAAAATT
391 ATATACTATAGCAATTTCAAGTTACAATTAACAAAAGCATTCTAATGTGGCATAGTTAAAAAATT
19502464 GTCATTTGGCATGGTAATTATTTGACATGTGTGTTTATTGACTAAAGTTTAAATTGAATATTTTT
456 GTCATTTGGCATGGTAATTATTTGACATGTGTGTTTATTGACTAAAGTTTAAATTGAATATTTTT
19502529 TCAATCTAATTTCCTTATAAAAATATATCAACATTGAATATCAATTCATATAGGCTTAATATAAC
521 TCAATCTAATTTCCTTATAAAAATATATCAACATTGAATATCAATTCATATAGGCTTAATATAAC
19502594 ATTTGGTACCTGAACTTGACATTTTTCCTAATTTGGTACCTAAACTTGATACTTTTTCTTAAGTT
586 ATTTGGTACCTGAACTTGACATTTTTCCTAATTTGGTACCTAAACTTGATACTTTTTCTTAAGTT
19502659 GGTACTTAAACTTTTTTGGGTCTAATTTGATACCTAAACTTGACTATTTCTCCTAATCTGGTATC
651 GGTACTTAAACTTTTTTGGGTCTAATTTGATACCTAAACTTGACTATTTCTCCTAATCTGGTATC
19502724 TAATCTTTTTTTTGTTTGTTTGTTTGATTTGGTACTTTTCAAATGTTTTACAAATTACTCCAATA
716 TAATCTTTTTTTTGTTTGTTTGTTTGATTTGGTACTTTTCAAATGTTTTACAAATTACTCCAATA
19502789 TACTAACAATGTTATTATTTTATGAGGTAGCAAAAATAATCAATGTATGACCGAAATGTGACAGA
781 TACTAACAATGTTATTATTTTATGAGGTAGCAAAAATAATCAATGTATGACCGAAATGTGACAGA
19502854 TGATATGATATTTTTTTATATTATATATGTTCAATTACTTTTAGTTTTC
846 TGATATGATATTTTTTTATATTATATATGTTCAATTACTTTTAGTTTTC
19502903 TTA
1 TTA
19502906 TTTAATTAAT
Statistics
Matches: 897, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
894 897 1.00
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (894 bp):
TTAAAAACCTATTTTCATCACAACAACTAGACATCCAAGTTGGCATTTAAAATCCATTTAGACTA
CCACGTAGGTCTGCGTTAGGGAGATAACAGAGTTTAACAGTAGAGCGGTCACTTCGTAACAAAAC
GATAACGTAAGTGACTAAAACGTAACATTTCAAACATAAGTGACTAAACTGTAATCTGAGGCAAA
CAAAAGTGACTATTTTTGTAGATTATCCTAAATTAAAAATAAAAATAAAGTATTTATATTTATAT
TTATATTTATATTTTTTTAACAAAAATTATTTTTCAAACTTTACAGATCTTAAAATTATTTTAGA
TTAATATAATTTAATAGACATATACAACAAACTCGTGCATTGCACAAGATAAAAAAAAATAGTAC
ATATACTATAGCAATTTCAAGTTACAATTAACAAAAGCATTCTAATGTGGCATAGTTAAAAAATT
GTCATTTGGCATGGTAATTATTTGACATGTGTGTTTATTGACTAAAGTTTAAATTGAATATTTTT
TCAATCTAATTTCCTTATAAAAATATATCAACATTGAATATCAATTCATATAGGCTTAATATAAC
ATTTGGTACCTGAACTTGACATTTTTCCTAATTTGGTACCTAAACTTGATACTTTTTCTTAAGTT
GGTACTTAAACTTTTTTGGGTCTAATTTGATACCTAAACTTGACTATTTCTCCTAATCTGGTATC
TAATCTTTTTTTTGTTTGTTTGTTTGATTTGGTACTTTTCAAATGTTTTACAAATTACTCCAATA
TACTAACAATGTTATTATTTTATGAGGTAGCAAAAATAATCAATGTATGACCGAAATGTGACAGA
TGATATGATATTTTTTTATATTATATATGTTCAATTACTTTTAGTTTTC
Found at i:19503115 original size:61 final size:59
Alignment explanation
Indices: 19503016--19503203 Score: 252
Period size: 60 Copynumber: 3.1 Consensus size: 59
19503006 ATTTAATACA
* * *
19503016 TTCAGGTACCATATTGGGCCCAAAAAAAGTTTAGGTACCAAATTAAGAAAAAAATGTCAAG
1 TTCAGGTACCATATTGGGCCCAAAAAAAATTT-TGTACCAAATTAAG-AAAAAGTGTCAAG
* *
19503077 TTCAGGTACCATATTGGGCCCAAAAAATACTTTTGTACCAAATTAGGAAAAAGTGTCAAG
1 TTCAGGTACCATATTGGGCCCAAAAAA-AATTTTGTACCAAATTAAGAAAAAGTGTCAAG
* * *
19503137 TTCAGGTACCAAATTGGGCCGAAAAAAAGATTAAT-TACCAAATTAAGAAAAAGTGTCAAG
1 TTCAGGTACCATATTGGGCCCAAAAAAA-ATT-TTGTACCAAATTAAGAAAAAGTGTCAAG
19503197 TTCAGGT
1 TTCAGGT
19503204 CCTAAATGTA
Statistics
Matches: 115, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
59 1 0.01
60 70 0.61
61 40 0.35
62 4 0.03
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.24
Consensus pattern (59 bp):
TTCAGGTACCATATTGGGCCCAAAAAAAATTTTGTACCAAATTAAGAAAAAGTGTCAAG
Found at i:19508357 original size:47 final size:46
Alignment explanation
Indices: 19508302--19508392 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
19508292 TAGGATTCTG
**
19508302 CTACTGCATAACTGTTACTGCTACTGATACTATGATGGGCTAAGGTC
1 CTACTGCATAACTGACACTG-TACTGATACTATGATGGGCTAAGGTC
*** *
19508349 CTACTGCATTTTTGACACTGTACTGATACTGTGATGGGCTAAGG
1 CTACTGCATAACTGACACTGTACTGATACTATGATGGGCTAAGG
19508393 CCCAAACTGT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
46 23 0.61
47 15 0.39
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (46 bp):
CTACTGCATAACTGACACTGTACTGATACTATGATGGGCTAAGGTC
Found at i:19509178 original size:26 final size:26
Alignment explanation
Indices: 19509147--19509208 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
19509137 CCTGTAAGTG
19509147 TTCTGAAACTGATACATGCTATGATA
1 TTCTGAAACTGATACATGCTATGATA
* *
19509173 TTCTGAAACTGATATATGTTATGATA
1 TTCTGAAACTGATACATGCTATGATA
*
19509199 TTTTGAAACT
1 TTCTGAAACT
19509209 ACTGTAGGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (26 bp):
TTCTGAAACTGATACATGCTATGATA
Found at i:19516123 original size:34 final size:35
Alignment explanation
Indices: 19516080--19516146 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
19516070 TGTTACTGCT
** *
19516080 ACTGATACTGTGATGGGCTAAGGCCCAA-ACTGGC
1 ACTGATACTGAAAAGGGCTAAGGCCCAATACTGGC
*
19516114 ACTGATACTGAAAAGGGCTTAGGCCCAATACTG
1 ACTGATACTGAAAAGGGCTAAGGCCCAATACTG
19516147 TTTAACTGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 24 0.86
35 4 0.14
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.21
Consensus pattern (35 bp):
ACTGATACTGAAAAGGGCTAAGGCCCAATACTGGC
Found at i:19538136 original size:14 final size:14
Alignment explanation
Indices: 19538113--19538150 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
19538103 GTTTGCCAGT
*
19538113 AAAATGATTTCTAG
1 AAAATGATTTCTAA
*
19538127 AAAATAATTTCTAA
1 AAAATGATTTCTAA
19538141 AAAATGATTT
1 AAAATGATTT
19538151 ACTTTTCTGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.37
Consensus pattern (14 bp):
AAAATGATTTCTAA
Found at i:19538166 original size:19 final size:19
Alignment explanation
Indices: 19538142--19538179 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
19538132 AATTTCTAAA
19538142 AAATGATTTACTTTTCTGG
1 AAATGATTTACTTTTCTGG
19538161 AAATGATTTACTTTTCTGG
1 AAATGATTTACTTTTCTGG
19538180 TGTTTGAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.16, T:0.47
Consensus pattern (19 bp):
AAATGATTTACTTTTCTGG
Found at i:19540403 original size:20 final size:20
Alignment explanation
Indices: 19540378--19540417 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
19540368 AATATTTTCT
*
19540378 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
19540398 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
19540418 TCATTTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:19540420 original size:34 final size:35
Alignment explanation
Indices: 19540366--19540432 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
19540356 CAAACAGCAG
* *
19540366 AAAATATTTTCTAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
19540401 AAAACATTTTCCAG-AAATCATTTTATAGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
19540433 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.48, C:0.10, G:0.07, T:0.34
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:19540424 original size:14 final size:14
Alignment explanation
Indices: 19540401--19540440 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
19540391 ACAGAAAAGT
*
19540401 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
19540415 AAATCATTTTATAG
1 AAAACATTTTACAG
19540429 AAAACATTTTAC
1 AAAACATTTTAC
19540441 TGGCAATCAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.35
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:19541807 original size:30 final size:31
Alignment explanation
Indices: 19541761--19541823 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 31
19541751 TAAATATTTT
19541761 AATATGTAATTTTTTTATTTCATGTAGTTTC
1 AATATGTAATTTTTTTATTTCATGTAGTTTC
19541792 AATATGTAA-TTTTTTATTTCATGTAGTTTC
1 AATATGTAATTTTTTTATTTCATGTAGTTTC
19541822 AA
1 AA
19541824 ACTTTTTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 23 0.72
31 9 0.28
ACGTcount: A:0.29, C:0.06, G:0.10, T:0.56
Consensus pattern (31 bp):
AATATGTAATTTTTTTATTTCATGTAGTTTC
Found at i:19543515 original size:30 final size:31
Alignment explanation
Indices: 19543469--19543531 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 31
19543459 TAAATATTTT
19543469 AATATGTAATTTTTTTATTTCATGTAGTTTC
1 AATATGTAATTTTTTTATTTCATGTAGTTTC
19543500 AATATGTAA-TTTTTTATTTCATGTAGTTTC
1 AATATGTAATTTTTTTATTTCATGTAGTTTC
19543530 AA
1 AA
19543532 ACTTTTTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 23 0.72
31 9 0.28
ACGTcount: A:0.29, C:0.06, G:0.10, T:0.56
Consensus pattern (31 bp):
AATATGTAATTTTTTTATTTCATGTAGTTTC
Found at i:19549300 original size:33 final size:33
Alignment explanation
Indices: 19549263--19549328 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
19549253 TTAATAATTG
* *
19549263 AGTATTATTATATATTTAATTTGATTTATTTAT
1 AGTATTATTATAAATTTAATTAGATTTATTTAT
19549296 AGTATTATTATAAATTTAATTAGATTTATTTAT
1 AGTATTATTATAAATTTAATTAGATTTATTTAT
19549329 TTATAAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (33 bp):
AGTATTATTATAAATTTAATTAGATTTATTTAT
Found at i:19549391 original size:18 final size:18
Alignment explanation
Indices: 19549370--19549412 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
19549360 ACAATTTAAA
19549370 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
19549388 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
*
19549406 ATGTAAA
1 ATATAAA
19549413 AACAGCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
ATATAAATTTATTAATAT
Found at i:19549516 original size:19 final size:20
Alignment explanation
Indices: 19549492--19549533 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
19549482 CAAACACCAA
*
19549492 AAAAGTAAATCATT-TCCAG
1 AAAAGTAAAACATTCTCCAG
19549511 AAAAGTAAAACATTCTCCAG
1 AAAAGTAAAACATTCTCCAG
19549531 AAA
1 AAA
19549534 TCATTTTCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.52, C:0.17, G:0.10, T:0.21
Consensus pattern (20 bp):
AAAAGTAAAACATTCTCCAG
Found at i:19552154 original size:24 final size:25
Alignment explanation
Indices: 19552098--19552154 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 25
19552088 TATTTCAAAC
* *
19552098 ATTATAAAAGAAGAGAAATAATATA
1 ATTAGAAAAAAAGAGAAATAATATA
* *
19552123 A-AAGAAAAAAAGAGAAATAATTTA
1 ATTAGAAAAAAAGAGAAATAATATA
19552147 ATTA-AAAA
1 ATTAGAAAA
19552155 TATTTTTAAG
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
24 24 0.92
25 2 0.08
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (25 bp):
ATTAGAAAAAAAGAGAAATAATATA
Found at i:19558480 original size:13 final size:13
Alignment explanation
Indices: 19558451--19558479 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
19558441 AACAAGTTGC
19558451 TTTTGGCTGAAAT
1 TTTTGGCTGAAAT
19558464 TTTTGGCT-AAAT
1 TTTTGGCTGAAAT
19558476 TTTT
1 TTTT
19558480 TAATTTTTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.21, C:0.07, G:0.17, T:0.55
Consensus pattern (13 bp):
TTTTGGCTGAAAT
Found at i:19562072 original size:23 final size:22
Alignment explanation
Indices: 19562019--19562072 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
19562009 TTTTCTGGAT
*
19562019 AATATATATTAATTAAATGAAAA
1 AATAT-TATTAATTAAATAAAAA
* *
19562042 TATAATTATTAATTACTATAAAAA
1 AAT-ATTATTAATTA-AATAAAAA
19562066 AATATTA
1 AATATTA
19562073 GTATGATAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
23 15 0.60
24 10 0.40
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (22 bp):
AATATTATTAATTAAATAAAAA
Found at i:19567160 original size:11 final size:11
Alignment explanation
Indices: 19567138--19567181 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
19567128 TGAATGTTTG
19567138 AATAACTTTAAA
1 AATAA-TTTAAA
19567150 AATAATTT-AA
1 AATAATTTAAA
*
19567160 AATCATTTAAA
1 AATAATTTAAA
*
19567171 AATAGTTTAAA
1 AATAATTTAAA
19567182 GTGAATTAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 9 0.32
11 14 0.50
12 5 0.18
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (11 bp):
AATAATTTAAA
Found at i:19569308 original size:54 final size:54
Alignment explanation
Indices: 19569178--19569328 Score: 144
Period size: 54 Copynumber: 2.8 Consensus size: 54
19569168 AGCCCACCAA
* * * * ****
19569178 GACAATAAACATTAGATAGTCCACCAGGATAGGAAAAACATTATAGTCCGCTGG
1 GACAGTAAACATGAGATAGTCCACAAGGATAGTAAAAACGGGGTAGTCCGCTGG
* * * *
19569232 GACAGTAAATATGATATTGTCCAC-TGTGATAGTAAAAACGGGGTAGTCCG-TGAG
1 GACAGTAAACATGAGATAGTCCACAAG-GATAGTAAAAACGGGGTAGTCCGCTG-G
* *
19569286 GACAGTAAACATGGGATAGTCCACAAGGATAGTAAAAATGGGG
1 GACAGTAAACATGAGATAGTCCACAAGGATAGTAAAAACGGGG
19569329 CAACCTGCCA
Statistics
Matches: 77, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
53 3 0.04
54 73 0.95
55 1 0.01
ACGTcount: A:0.38, C:0.15, G:0.26, T:0.21
Consensus pattern (54 bp):
GACAGTAAACATGAGATAGTCCACAAGGATAGTAAAAACGGGGTAGTCCGCTGG
Found at i:19571717 original size:34 final size:35
Alignment explanation
Indices: 19571674--19571757 Score: 136
Period size: 34 Copynumber: 2.5 Consensus size: 35
19571664 CATTCACATT
*
19571674 AATCACATATTCAATAGTCCTCCTGCATAGTG-AA
1 AATCACATATTCAATAGTCCTCCTACATAGTGAAA
*
19571708 AATCACATATTCAATGGTCCTCCTACATAGTGAAA
1 AATCACATATTCAATAGTCCTCCTACATAGTGAAA
19571743 AATCACATATT-AATA
1 AATCACATATTCAATA
19571758 AATTAGCATG
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
34 33 0.72
35 13 0.28
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (35 bp):
AATCACATATTCAATAGTCCTCCTACATAGTGAAA
Found at i:19591961 original size:71 final size:71
Alignment explanation
Indices: 19591845--19592035 Score: 203
Period size: 71 Copynumber: 2.7 Consensus size: 71
19591835 ATCATATCAT
* *
19591845 CCTACAATTATATACAAAAAGTTATATTACTCCACCACCACACCCAAT-TACACATACAAAAAAG
1 CCTACAATTACATACAAAAAGTGATATTACTCCACCACCACACCC-ATCTACACATACAAAAAAG
19591909 TGCAAAA
65 TGCAAAA
* * **
19591916 CCTACAATTACATACAAAAAGTGATATTAGTTCACCACTGCACCCATCTACACATAC-AAAAAGT
1 CCTACAATTACATACAAAAAGTGATATTACTCCACCACCACACCCATCTACACATACAAAAAAGT
*
19591980 GACGAAA
66 G-CAAAA
* * * *
19591987 -CT-CTATGACATACAAAATGTTATATT-CATCCACCACCACAGCCACATCT
1 CCTACAATTACATACAAAAAGTGATATTAC-TCCACCACCACA-CC-CATCT
19592036 TTAATGGGTA
Statistics
Matches: 100, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
69 29 0.29
70 14 0.14
71 57 0.57
ACGTcount: A:0.43, C:0.28, G:0.07, T:0.23
Consensus pattern (71 bp):
CCTACAATTACATACAAAAAGTGATATTACTCCACCACCACACCCATCTACACATACAAAAAAGT
GCAAAA
Found at i:19594855 original size:40 final size:40
Alignment explanation
Indices: 19594779--19594855 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
19594769 ATTTGAAAAA
* * * * *
19594779 GATTTAAATCGATTGTAACTGGTTTAAATTGCTTGTAACT
1 GATTTAAATCAATTGAAACTGATTTAAATCGATTGTAACT
19594819 GATTTAAATCAATTGAAACAT-ATTTAAATCGATTGTA
1 GATTTAAATCAATTGAAAC-TGATTTAAATCGATTGTA
19594856 GCATATTTGG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
40 30 0.97
41 1 0.03
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.40
Consensus pattern (40 bp):
GATTTAAATCAATTGAAACTGATTTAAATCGATTGTAACT
Found at i:19594860 original size:20 final size:20
Alignment explanation
Indices: 19594740--19594863 Score: 83
Period size: 20 Copynumber: 6.2 Consensus size: 20
19594730 GATGAAATAA
** *
19594740 ATTTAAATCGATTGTAGTAG
1 ATTTAAATCGATTGTAACAT
* * * *
19594760 ATTTAAAT-AATTTGAAAAAG
1 ATTTAAATCGA-TTGTAACAT
19594780 ATTTAAATCGATTGTAAC-T
1 ATTTAAATCGATTGTAACAT
* * *
19594799 GGTTTAAATTGCTTGTAAC-T
1 -ATTTAAATCGATTGTAACAT
* *
19594819 GATTTAAATCAATTGAAACAT
1 -ATTTAAATCGATTGTAACAT
*
19594840 ATTTAAATCGATTGTAGCAT
1 ATTTAAATCGATTGTAACAT
19594860 ATTT
1 ATTT
19594864 GGATCGAGTG
Statistics
Matches: 81, Mismatches: 19, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
19 1 0.01
20 78 0.96
21 2 0.02
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.40
Consensus pattern (20 bp):
ATTTAAATCGATTGTAACAT
Found at i:19596819 original size:16 final size:18
Alignment explanation
Indices: 19596788--19596820 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
19596778 TAATTTTAGC
19596788 TCTCTATTTAAATTTTTA
1 TCTCTATTTAAATTTTTA
19596806 TCTCT-TTT-AATTTTT
1 TCTCTATTTAAATTTTT
19596821 GAACTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.21, C:0.12, G:0.00, T:0.67
Consensus pattern (18 bp):
TCTCTATTTAAATTTTTA
Found at i:19598007 original size:41 final size:39
Alignment explanation
Indices: 19597962--19598053 Score: 103
Period size: 40 Copynumber: 2.3 Consensus size: 39
19597952 ACTTGAACTC
* *
19597962 TTAGCGGCGTTTGGATAAAAAATGCCGCTAAAGATCTAGCA
1 TTAGCGGCGTTT-GATAAAAAATGCCGCTAAAAAT-AAGCA
** ** *
19598003 TTAGCGGCGTTTTTTGGAAAATGCCGCTAAAAATAAGTA
1 TTAGCGGCGTTTGATAAAAAATGCCGCTAAAAATAAGCA
19598042 TTAGCGGCGTTT
1 TTAGCGGCGTTT
19598054 TCTAAAAAGA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
39 15 0.34
40 17 0.39
41 12 0.27
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.29
Consensus pattern (39 bp):
TTAGCGGCGTTTGATAAAAAATGCCGCTAAAAATAAGCA
Found at i:19598228 original size:41 final size:41
Alignment explanation
Indices: 19598113--19598433 Score: 378
Period size: 41 Copynumber: 7.9 Consensus size: 41
19598103 CTTTCGGGGT
* *
19598113 TTTAGCGACGTTTTTGAGAAAGCGCAGCT-ATGCTCAGGGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
* * *
19598153 TTTAGCGACG-TTTTGAGAAAGTGCCGCTAGTGCTCAGGGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
* * *
19598193 TTTAGCGGCGTTTCTGAGAAAGCGTCGCTAATGCTCAGGGT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
* * *
19598234 TTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGATCAAGGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
* * * * *
19598275 TTTAGTGGCATTTTTGAGGAAGCGCTGCTAATGTTCAGGGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
* * * *
19598316 TTTAGCGGCGTTTTTGAGGAAGCCCCGCTAATGATCAGGGA
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
** *
19598357 TTTAGCGGCGTTTTTGAGTTAGCGCCACTAATGCTCAGGGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
* * *
19598398 TTTAGCAGTGTTTTTGA-AGTAGCGCCGCTAATGCTC
1 TTTAGCGGCGTTTTTGAGA-AAGCGCCGCTAATGCTC
19598434 TATTTTTAGC
Statistics
Matches: 242, Mismatches: 36, Indels: 5
0.86 0.13 0.02
Matches are distributed among these distances:
39 16 0.07
40 29 0.12
41 197 0.81
ACGTcount: A:0.20, C:0.19, G:0.31, T:0.30
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
Found at i:19598462 original size:40 final size:40
Alignment explanation
Indices: 19598398--19598473 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
19598388 TGCTCAGGGC
**
19598398 TTTAGCAGTGTTTTTGAAGTAGCGCCGCTAATGCTCTATT
1 TTTAGCAGTGTTTTTGAAAAAGCGCCGCTAATGCTCTATT
*
19598438 TTTAGCAGTGTTTTCT-AAAAAGCGCCGCTCATGCTC
1 TTTAGCAGTGTTTT-TGAAAAAGCGCCGCTAATGCTC
19598474 AGAGATTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
40 31 0.97
41 1 0.03
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (40 bp):
TTTAGCAGTGTTTTTGAAAAAGCGCCGCTAATGCTCTATT
Found at i:19599313 original size:60 final size:61
Alignment explanation
Indices: 19599218--19599348 Score: 228
Period size: 60 Copynumber: 2.1 Consensus size: 61
19599208 ACTCCATTGA
*
19599218 AATTTCGAAAGCCGAATGTTGAAACAATATGGTGATTCATTTATATAGGACTGAAATTTAAC
1 AATTTC-AAAGCCGAATGTTGAAACAAGATGGTGATTCATTTATATAGGACTGAAATTTAAC
*
19599280 AATTTCAAA-CCGAATGTTGAAACAGGATGGTGATTCATTTATATAGGACTGAAATTTAAC
1 AATTTCAAAGCCGAATGTTGAAACAAGATGGTGATTCATTTATATAGGACTGAAATTTAAC
19599340 AATTTCAAA
1 AATTTCAAA
19599349 AAATATATAT
Statistics
Matches: 67, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
60 58 0.87
61 3 0.04
62 6 0.09
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.32
Consensus pattern (61 bp):
AATTTCAAAGCCGAATGTTGAAACAAGATGGTGATTCATTTATATAGGACTGAAATTTAAC
Found at i:19599536 original size:14 final size:15
Alignment explanation
Indices: 19599517--19599568 Score: 63
Period size: 14 Copynumber: 3.6 Consensus size: 15
19599507 AGGACAGTTA
19599517 TAAGGGTT-GGGGTT
1 TAAGGGTTAGGGGTT
*
19599531 TAAGGGTTAAGGG-T
1 TAAGGGTTAGGGGTT
*
19599545 TAGGGGTTAGGGGTT
1 TAAGGGTTAGGGGTT
*
19599560 TAGGGGTTA
1 TAAGGGTTA
19599569 TGCTTTATGA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
14 20 0.61
15 13 0.39
ACGTcount: A:0.19, C:0.00, G:0.48, T:0.33
Consensus pattern (15 bp):
TAAGGGTTAGGGGTT
Found at i:19599564 original size:8 final size:7
Alignment explanation
Indices: 19599520--19599568 Score: 55
Period size: 7 Copynumber: 6.9 Consensus size: 7
19599510 ACAGTTATAA
19599520 GGGTT-G
1 GGGTTAG
*
19599526 GGGTTTAA
1 GGG-TTAG
*
19599534 GGGTTAA
1 GGGTTAG
19599541 GGGTTAG
1 GGGTTAG
19599548 GGGTTAG
1 GGGTTAG
19599555 GGGTTTAG
1 GGG-TTAG
19599563 GGGTTA
1 GGGTTA
19599569 TGCTTTATGA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
6 3 0.08
7 25 0.66
8 10 0.26
ACGTcount: A:0.16, C:0.00, G:0.51, T:0.33
Consensus pattern (7 bp):
GGGTTAG
Found at i:19603598 original size:43 final size:43
Alignment explanation
Indices: 19603550--19603722 Score: 265
Period size: 43 Copynumber: 4.0 Consensus size: 43
19603540 GATAAAAACA
* * *
19603550 CCGCTAAAGATCATGTTCTTTAACGGCGTTTGTGGGTAAAGAG
1 CCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGTAAAGCG
* *
19603593 TCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGTTAAAGCG
1 CCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGTAAAGCG
* *
19603636 CCGCTAAAGGTCAGGTTCTTTAGCGACGTTTGTGGGTAAAGCG
1 CCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGTAAAGCG
* *
19603679 CCGCTAAATGTCATGTTCTTTAGCGGCGTTTGTAGGTAAAGCG
1 CCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGTAAAGCG
19603722 C
1 C
19603723 AGAGGCGTTT
Statistics
Matches: 117, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 117 1.00
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.31
Consensus pattern (43 bp):
CCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGTAAAGCG
Found at i:19616122 original size:19 final size:19
Alignment explanation
Indices: 19616100--19616144 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
19616090 ATAAATATTT
19616100 TGATGTATAATATTAAATA
1 TGATGTATAATATTAAATA
* *
19616119 TGATATATTATATTAAATA
1 TGATGTATAATATTAAATA
*
19616138 TAATGTA
1 TGATGTA
19616145 ATATTTTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (19 bp):
TGATGTATAATATTAAATA
Found at i:19616153 original size:19 final size:19
Alignment explanation
Indices: 19616109--19616156 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
19616099 TTGATGTATA
* *
19616109 ATATTAAATATGATATATT
1 ATATTAAATATAATATAAT
*
19616128 ATATTAAATATAATGTAAT
1 ATATTAAATATAATATAAT
*
19616147 ATTTTAAATA
1 ATATTAAATA
19616157 CTTCGTTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (19 bp):
ATATTAAATATAATATAAT
Found at i:19630259 original size:18 final size:18
Alignment explanation
Indices: 19630236--19630274 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
19630226 TATGGGTAAG
*
19630236 CCACACTGGCATGTGGGC
1 CCACACGGGCATGTGGGC
19630254 CCACACGGGCATGTGGGC
1 CCACACGGGCATGTGGGC
19630272 CCA
1 CCA
19630275 TAGTTTTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.18, C:0.36, G:0.33, T:0.13
Consensus pattern (18 bp):
CCACACGGGCATGTGGGC
Found at i:19630495 original size:13 final size:13
Alignment explanation
Indices: 19630477--19630501 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19630467 AGCATGATAT
19630477 TTCTGTATCTATC
1 TTCTGTATCTATC
19630490 TTCTGTATCTAT
1 TTCTGTATCTAT
19630502 GATTGGGGTA
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:0.16, C:0.20, G:0.08, T:0.56
Consensus pattern (13 bp):
TTCTGTATCTATC
Found at i:19642163 original size:25 final size:25
Alignment explanation
Indices: 19642135--19642256 Score: 95
Period size: 25 Copynumber: 4.9 Consensus size: 25
19642125 AGCTCTTCCA
*
19642135 AGCTGAATAACGGGAAGCTCATGTG
1 AGCTGAATATCGGGAAGCTCATGTG
* **
19642160 AGCT-AAGTAACGGGAAGCTCATACG
1 AGCTGAA-TATCGGGAAGCTCATGTG
* * * **
19642185 AGATGTATATCGAGAAGCTCATAAG
1 AGCTGAATATCGGGAAGCTCATGTG
* * *
19642210 AGCTGAA-ATTGGAAAGCTCGTGTG
1 AGCTGAATATCGGGAAGCTCATGTG
* *
19642234 AGCTAAATATCAGGAAGCTCATG
1 AGCTGAATATCGGGAAGCTCATG
19642257 AGAACTTTGG
Statistics
Matches: 74, Mismatches: 20, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
24 19 0.26
25 54 0.73
26 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.28, T:0.21
Consensus pattern (25 bp):
AGCTGAATATCGGGAAGCTCATGTG
Found at i:19649751 original size:25 final size:25
Alignment explanation
Indices: 19649723--19649804 Score: 119
Period size: 25 Copynumber: 3.3 Consensus size: 25
19649713 ATGTAAACAT
19649723 GAAGCTCTTCTGAGCTAAATAACGA
1 GAAGCTCTTCTGAGCTAAATAACGA
19649748 GAAGCTCTTCTGAGCTAAATAACGA
1 GAAGCTCTTCTGAGCTAAATAACGA
* * * * *
19649773 GAAGCTCATGTTAGCTAAGTAACGG
1 GAAGCTCTTCTGAGCTAAATAACGA
19649798 GAAGCTC
1 GAAGCTC
19649805 ATACGAGATG
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 52 1.00
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (25 bp):
GAAGCTCTTCTGAGCTAAATAACGA
Found at i:19649911 original size:37 final size:35
Alignment explanation
Indices: 19649854--19649924 Score: 90
Period size: 37 Copynumber: 2.0 Consensus size: 35
19649844 CGGGAATCAT
*
19649854 ATTAAATTAATAAAATACTATTAATATAAGTATTAA
1 ATTAAATTAATAAAATACTATTAAGATAA-TATTAA
*
19649890 ATTAAATTTAATATTAA-ACTATTAAGATAATATTA
1 ATTAAA-TTAATA-AAATACTATTAAGATAATATTA
19649925 CTTTTGGAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 11 0.35
37 18 0.58
38 2 0.06
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (35 bp):
ATTAAATTAATAAAATACTATTAAGATAATATTAA
Found at i:19657043 original size:12 final size:12
Alignment explanation
Indices: 19657028--19657060 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
19657018 ATTTTTATTC
*
19657028 TTATAATTACAT
1 TTATAAATACAT
19657040 TTATAAATACAT
1 TTATAAATACAT
19657052 TTATAAATA
1 TTATAAATA
19657061 AAATTTTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (12 bp):
TTATAAATACAT
Found at i:19657326 original size:73 final size:73
Alignment explanation
Indices: 19657206--19657351 Score: 274
Period size: 73 Copynumber: 2.0 Consensus size: 73
19657196 AAAACCTTAC
19657206 CAGGAAAACTCAATGGGACAAAATCTCGGTTAAGGGAAAAAGAGTACAGTGTGTATTTACTCCCC
1 CAGGAAAACTCAATGGGACAAAATCTCGGTTAAGGGAAAAAGAGTACAGTGTGTATTTACTCCCC
19657271 CTCATGAA
66 CTCATGAA
* *
19657279 CAGGAAAACTCAATGGGACAAAATTTCGGTTAAGGGAAAAAGCGTACAGTGTGTATTTACTCCCC
1 CAGGAAAACTCAATGGGACAAAATCTCGGTTAAGGGAAAAAGAGTACAGTGTGTATTTACTCCCC
19657344 CTCATGAA
66 CTCATGAA
19657352 AACATCACAT
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (73 bp):
CAGGAAAACTCAATGGGACAAAATCTCGGTTAAGGGAAAAAGAGTACAGTGTGTATTTACTCCCC
CTCATGAA
Found at i:19666291 original size:11 final size:11
Alignment explanation
Indices: 19666274--19666310 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
19666264 ATAGGTATAC
19666274 GAAGTATAAAT
1 GAAGTATAAAT
*
19666285 AAAGTAT-AA-
1 GAAGTATAAAT
19666294 GAAGTATAAAT
1 GAAGTATAAAT
19666305 GAAGTA
1 GAAGTA
19666311 GATGTCTACT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 6 0.27
10 4 0.18
11 12 0.55
ACGTcount: A:0.57, C:0.00, G:0.19, T:0.24
Consensus pattern (11 bp):
GAAGTATAAAT
Found at i:19666297 original size:20 final size:20
Alignment explanation
Indices: 19666268--19666310 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
19666258 CTATTTATAG
*
19666268 GTATACGAAGTATAAATAAA
1 GTATAAGAAGTATAAATAAA
*
19666288 GTATAAGAAGTATAAATGAA
1 GTATAAGAAGTATAAATAAA
19666308 GTA
1 GTA
19666311 GATGTCTACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.53, C:0.02, G:0.19, T:0.26
Consensus pattern (20 bp):
GTATAAGAAGTATAAATAAA
Found at i:19666570 original size:13 final size:13
Alignment explanation
Indices: 19666552--19666579 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
19666542 TACGCGTTTA
19666552 ATTTTTAATTATT
1 ATTTTTAATTATT
19666565 ATTTTTAATTATT
1 ATTTTTAATTATT
19666578 AT
1 AT
19666580 AATCATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
ATTTTTAATTATT
Found at i:19667119 original size:17 final size:18
Alignment explanation
Indices: 19667097--19667134 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
19667087 ATCACAAATT
19667097 TTATTAAA-TTATAAGTA
1 TTATTAAATTTATAAGTA
*
19667114 TTATTAAATTTATAATTA
1 TTATTAAATTTATAAGTA
19667132 TTA
1 TTA
19667135 AAAAATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
TTATTAAATTTATAAGTA
Found at i:19667165 original size:58 final size:58
Alignment explanation
Indices: 19667043--19667162 Score: 143
Period size: 58 Copynumber: 2.1 Consensus size: 58
19667033 ATAATAAATG
* * * **
19667043 TAAATTATAATTATTTTTAAATATATGATTATTAAATTATAATTATCACAAATTTTAT
1 TAAATTATAAGTATTATTAAATATATAATTATTAAAAAATAATTATCACAAATTTTAT
* * *
19667101 TAAATTATAAGTATTATTAAATTTATAATTATTAAAAAATTATTTTACATCAAATTTT-T
1 TAAATTATAAGTATTATTAAATATATAATTATTAAAAAATAATTAT-CA-CAAATTTTAT
19667160 TAA
1 TAA
19667163 TTAATAATTC
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
58 38 0.73
59 6 0.12
60 8 0.15
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (58 bp):
TAAATTATAAGTATTATTAAATATATAATTATTAAAAAATAATTATCACAAATTTTAT
Found at i:19669391 original size:16 final size:16
Alignment explanation
Indices: 19669370--19669400 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19669360 TATATTAGTG
19669370 CATATAAATTTGAAAT
1 CATATAAATTTGAAAT
*
19669386 CATATATATTTGAAA
1 CATATAAATTTGAAA
19669401 ATTTTTTCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (16 bp):
CATATAAATTTGAAAT
Done.