Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 188 of 318
Found at i:58699877 original size:20 final size:20
Alignment explanation
Indices: 58699865--58699973 Score: 78
Period size: 21 Copynumber: 5.3 Consensus size: 20
58699855 TTTTATGATT
58699865 TTTTTATAA--TTTTTATAA
1 TTTTTATAATTTTTTTATAA
** * *
58699883 CATTTGTGATTTTTTTATAA
1 TTTTTATAATTTTTTTATAA
* *
58699903 GTTTTTGTATTTTTTTTATAA
1 -TTTTTATAATTTTTTTATAA
*
58699924 TTTTGTCTAAATATTTTTTATAA
1 TTTT-TAT-AAT-TTTTTTATAA
**
58699947 TTTTTATAATCCTTTTATAAA
1 TTTTTATAATTTTTTTAT-AA
58699968 TTTTTA
1 TTTTTA
58699974 ATATTTTAAT
Statistics
Matches: 71, Mismatches: 13, Indels: 11
0.75 0.14 0.12
Matches are distributed among these distances:
18 5 0.07
20 19 0.27
21 29 0.41
22 4 0.06
23 14 0.20
ACGTcount: A:0.28, C:0.04, G:0.05, T:0.64
Consensus pattern (20 bp):
TTTTTATAATTTTTTTATAA
Found at i:58699927 original size:19 final size:20
Alignment explanation
Indices: 58699874--58699929 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
58699864 TTTTTTATAA
*
58699874 TTTTTATAACATTTGTGATT
1 TTTTTATAACTTTTGTGATT
*
58699894 TTTTTATAAGTTTT-TGTATTT
1 TTTTTATAACTTTTGTG-A-TT
58699915 TTTTTATAA-TTTTGT
1 TTTTTATAACTTTTGT
58699930 CTAAATATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 2 0.06
20 17 0.55
21 12 0.39
ACGTcount: A:0.21, C:0.02, G:0.09, T:0.68
Consensus pattern (20 bp):
TTTTTATAACTTTTGTGATT
Found at i:58700316 original size:9 final size:9
Alignment explanation
Indices: 58700302--58700366 Score: 64
Period size: 9 Copynumber: 7.3 Consensus size: 9
58700292 TACGTTTGTG
58700302 ATTTTTATA
1 ATTTTTATA
58700311 ATTTTTATA
1 ATTTTTATA
58700320 ATATTTTATA
1 AT-TTTTATA
*
58700330 AATTTT-TA
1 ATTTTTATA
58700338 ATATTTT-TA
1 AT-TTTTATA
* *
58700347 ATATTTA-G
1 ATTTTTATA
58700355 ATTTTTATA
1 ATTTTTATA
58700364 ATT
1 ATT
58700367 CTATTTCTAA
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
8 12 0.26
9 26 0.57
10 8 0.17
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (9 bp):
ATTTTTATA
Found at i:58703593 original size:29 final size:27
Alignment explanation
Indices: 58703559--58703661 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
58703549 TACTCAATCA
*
58703559 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
58703588 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
58703617 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
58703646 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
58703662 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:58711395 original size:29 final size:27
Alignment explanation
Indices: 58711361--58711463 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
58711351 TACTCAATCA
*
58711361 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
58711390 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
58711419 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
58711448 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
58711464 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:58719193 original size:29 final size:27
Alignment explanation
Indices: 58719159--58719261 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
58719149 TACTCAATCA
*
58719159 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
58719188 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
58719217 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
58719246 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
58719262 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:58722537 original size:18 final size:18
Alignment explanation
Indices: 58722516--58722557 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
58722506 CAAGTTCAGC
58722516 TTCTGGCTCATCTTCACA
1 TTCTGGCTCATCTTCACA
* *
58722534 TTCTAGTTCATCTTCACA
1 TTCTGGCTCATCTTCACA
58722552 TTCTGG
1 TTCTGG
58722558 ATCTTTTAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.17, C:0.29, G:0.12, T:0.43
Consensus pattern (18 bp):
TTCTGGCTCATCTTCACA
Found at i:58722757 original size:165 final size:164
Alignment explanation
Indices: 58722586--58722944 Score: 567
Period size: 165 Copynumber: 2.2 Consensus size: 164
58722576 TTCATTTAAA
* *
58722586 GGTTCTAGCTC-TCCCATAGATTCTAATAATTCTAAAGACTCCGGTTTAGGTCATGGGGATTCTA
1 GGTTCTAGCTCAT-CCA-AGATTCTAACAATTCTAAAGACTCCAGTTTAGGTCATGGGGATTCTA
* * *
58722650 GTTCCTCTACAACTTCTAGTTCTTTATCGGGTTCTAGCCATTCTAAATCTTCTAACTCATTGTCA
64 GATCCTCTACAACTTCTAGTTCTTTATCAGGTTCTAGCCATTCCAAATCTTCTAACTCATTGTCA
58722715 CATTCTAGTTCATCTTCACATTCTGGTTCTTGGAAG
129 CATTCTAGTTCATCTTCACATTCTGGTTCTTGGAAG
** * * *
58722751 GGTTCTAGCTCATTCGGAGATTCTAACAATTCTAAGGATTCTAGTTTAGGTCATGGGGATTCTAG
1 GGTTCTAGCTCA-TCCAAGATTCTAACAATTCTAAAGACTCCAGTTTAGGTCATGGGGATTCTAG
* *
58722816 ATCCTCTGCAACTTCTAGTTCTTTATCAGGTTCTAGCCATTCCAAATCTTCTAGCTCATTGTCAC
65 ATCCTCTACAACTTCTAGTTCTTTATCAGGTTCTAGCCATTCCAAATCTTCTAACTCATTGTCAC
58722881 ATTCTAGTTCATCTTCACATTCTGGTTCTTGGAAG
130 ATTCTAGTTCATCTTCACATTCTGGTTCTTGGAAG
58722916 GGTTCTAGCTCATTCCAAGATTCTAACAA
1 GGTTCTAGCTCA-TCCAAGATTCTAACAA
58722945 GCCTAAGGAT
Statistics
Matches: 178, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
165 176 0.99
166 1 0.01
167 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (164 bp):
GGTTCTAGCTCATCCAAGATTCTAACAATTCTAAAGACTCCAGTTTAGGTCATGGGGATTCTAGA
TCCTCTACAACTTCTAGTTCTTTATCAGGTTCTAGCCATTCCAAATCTTCTAACTCATTGTCACA
TTCTAGTTCATCTTCACATTCTGGTTCTTGGAAG
Found at i:58722885 original size:18 final size:18
Alignment explanation
Indices: 58722864--58722903 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
58722854 ATTCCAAATC
58722864 TTCTAGCTCAT-TGTCACA
1 TTCTAGCTCATCT-TCACA
*
58722882 TTCTAGTTCATCTTCACA
1 TTCTAGCTCATCTTCACA
58722900 TTCT
1 TTCT
58722904 GGTTCTTGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 19 0.95
19 1 0.05
ACGTcount: A:0.20, C:0.28, G:0.07, T:0.45
Consensus pattern (18 bp):
TTCTAGCTCATCTTCACA
Found at i:58722953 original size:165 final size:165
Alignment explanation
Indices: 58722629--58722961 Score: 585
Period size: 165 Copynumber: 2.0 Consensus size: 165
58722619 AAAGACTCCG
* * *
58722629 GTTTAGGTCATGGGGATTCTAGTTCCTCTACAACTTCTAGTTCTTTATCGGGTTCTAGCCATTCT
1 GTTTAGGTCATGGGGATTCTAGATCCTCTACAACTTCTAGTTCTTTATCAGGTTCTAGCCATTCC
58722694 AAATCTTCTAACTCATTGTCACATTCTAGTTCATCTTCACATTCTGGTTCTTGGAAGGGTTCTAG
66 AAATCTTCTAACTCATTGTCACATTCTAGTTCATCTTCACATTCTGGTTCTTGGAAGGGTTCTAG
** **
58722759 CTCATTCGGAGATTCTAACAATTCTAAGGATTCTA
131 CTCATTCCAAGATTCTAACAAGCCTAAGGATTCTA
*
58722794 GTTTAGGTCATGGGGATTCTAGATCCTCTGCAACTTCTAGTTCTTTATCAGGTTCTAGCCATTCC
1 GTTTAGGTCATGGGGATTCTAGATCCTCTACAACTTCTAGTTCTTTATCAGGTTCTAGCCATTCC
*
58722859 AAATCTTCTAGCTCATTGTCACATTCTAGTTCATCTTCACATTCTGGTTCTTGGAAGGGTTCTAG
66 AAATCTTCTAACTCATTGTCACATTCTAGTTCATCTTCACATTCTGGTTCTTGGAAGGGTTCTAG
58722924 CTCATTCCAAGATTCTAACAAGCCTAAGGATTCTA
131 CTCATTCCAAGATTCTAACAAGCCTAAGGATTCTA
58722959 GTT
1 GTT
58722962 CTGCTATGAC
Statistics
Matches: 159, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
165 159 1.00
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (165 bp):
GTTTAGGTCATGGGGATTCTAGATCCTCTACAACTTCTAGTTCTTTATCAGGTTCTAGCCATTCC
AAATCTTCTAACTCATTGTCACATTCTAGTTCATCTTCACATTCTGGTTCTTGGAAGGGTTCTAG
CTCATTCCAAGATTCTAACAAGCCTAAGGATTCTA
Found at i:58723351 original size:18 final size:18
Alignment explanation
Indices: 58723330--58723385 Score: 76
Period size: 18 Copynumber: 3.1 Consensus size: 18
58723320 AGCTTCAGGC
*
58723330 TCATCTTCACATTCCAGT
1 TCATCTTCACATTCAAGT
* *
58723348 TCATATTCACATTCTAGT
1 TCATCTTCACATTCAAGT
*
58723366 TCTTCTTCACATTCAAGT
1 TCATCTTCACATTCAAGT
58723384 TC
1 TC
58723386 TTTTAAGCAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.23, C:0.29, G:0.05, T:0.43
Consensus pattern (18 bp):
TCATCTTCACATTCAAGT
Found at i:58723396 original size:18 final size:18
Alignment explanation
Indices: 58723333--58723404 Score: 56
Period size: 18 Copynumber: 4.0 Consensus size: 18
58723323 TTCAGGCTCA
* * *
58723333 TCTTCACATTCCAGTTCA
1 TCTTAACATTCAAGTTCT
* * *
58723351 TATTCACATTCTAGTTCT
1 TCTTAACATTCAAGTTCT
*
58723369 TCTTCACATTCAAGTTCT
1 TCTTAACATTCAAGTTCT
*
58723387 T-TTAAGCATTCAAATTCT
1 TCTTAA-CATTCAAGTTCT
58723405 GGTTCTTCTA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
17 3 0.07
18 43 0.93
ACGTcount: A:0.25, C:0.25, G:0.06, T:0.44
Consensus pattern (18 bp):
TCTTAACATTCAAGTTCT
Found at i:58723961 original size:192 final size:192
Alignment explanation
Indices: 58723594--58724427 Score: 760
Period size: 192 Copynumber: 4.2 Consensus size: 192
58723584 TTCAAGTTCA
* * * * * * * *
58723594 GCTTCTGGATCATCCTCAAAATCTAGTTTATCTCCACATTCCGGTTCTAGTGCTACTAACTCATC
1 GCTTCAGGCTCATCCTCAAATTCCAGTTCATCTTCACATTCTGGTTCTAGTGCTGCTAACTCATC
* * * * * *
58723659 CACATACTTGGGTTCTGACAATTCTAAGGATACTGATTCTACTACAACTTCTCAGTCTTCATTAA
66 CAAAAACTTAGGTTCTAACAATTCTAAGGATTCTGATTCTACTACAGCTTCTCAGTCTTCATTAA
* ** * *
58723724 ATCATAAGGCTTCTAGTTCCTCTGCAAGTTCT-AGTTCTCTATCAGGTACTAGCAATTATAAG
131 ATCATAAGGCTTCTAATTCCTCCACAAGTTCTGA-TTCTTTATCAGGTTCTAGCAATTATAAG
* **
58723786 GCTTCAGGCTTATCCAAAAATTCCAGTTCATCTTCACATTCTGGTTCTAGTGCTGCTAACTCATC
1 GCTTCAGGCTCATCCTCAAATTCCAGTTCATCTTCACATTCTGGTTCTAGTGCTGCTAACTCATC
* * *
58723851 CAAAAACTCAGGTTCTAACCATTCTAAGGATTCTTATTCTAC-AGCAGCTTCTCAGTCTTCATTA
66 CAAAAACTTAGGTTCTAACAATTCTAAGGATTCTGATTCTACTA-CAGCTTCTCAGTCTTCATTA
** * * ** *
58723915 AATCATGGGGCTTCTAGTTCCTCCATAAGTTCTGATTCTTTATCAGGTTCTAATAATTCTAAG
130 AATCATAAGGCTTCTAATTCCTCCACAAGTTCTGATTCTTTATCAGGTTCTAGCAATTATAAG
** * * * * * * * *
58723978 GCTTTTGGCTCATCTTCAGACTCCAGTTC-TTTTAAGCATTCTGGTTCTGGTGCTTCTAACTCTT
1 GCTTCAGGCTCATCCTCAAATTCCAGTTCATCTTCA-CATTCTGGTTCTAGTGCTGCTAACTCAT
* * * * * *** *
58724042 CCACAAA-TATAGGTTCCAACAATTCTAATGATTCTGCTCCTACTGTGGCTTCTCAGTCTACATT
65 CCAAAAACT-TAGGTTCTAACAATTCTAAGGATTCTGATTCTACTACAGCTTCTCAGTCTTCATT
*** ** *
58724106 AAATCACGGGGCTTCTAATTCCTCTTCAAGTTCTGGTTCTTTATCAGGTTCTAGCAATTATAAG
129 AAATCATAAGGCTTCTAATTCCTCCACAAGTTCTGATTCTTTATCAGGTTCTAGCAATTATAAG
* * * *
58724170 GCTTCCGGGTCATCCTCAAATTCTATTTCATCTTCACATTCTGGTTCTTTTAATCACTTTGGTCC
1 GCTTCAGGCTCATCCTCAAATTCCAGTTCATCTTCACATTCTGGTTC------T-A-----G---
* * * * * * *
58724235 TATTGCTGGTAACTCCTCCACAAACTTAGGTTCTAACAGTTCTAAGGGTTCTAATTCTACTACGG
51 ---TGCTGCTAACTCATCCAAAAACTTAGGTTCTAACAATTCTAAGGATTCTGATTCTACTACAG
* * *
58724300 CTTCTCAGTCTTCATTAAA-CTATAAGGCTTCTAATTCCTCTACAAGTTCTGGTTCTTTATCAAG
113 CTTCTCAGTCTTCATTAAATC-ATAAGGCTTCTAATTCCTCCACAAGTTCTGATTCTTTATCAGG
*
58724364 TTCTAGAAATTATAAG
177 TTCTAGCAATTATAAG
* *
58724380 GCTTCGGGCTCATCCTCAAATTCTAGTTCATCTTCACATTCTGGTTCT
1 GCTTCAGGCTCATCCTCAAATTCCAGTTCATCTTCACATTCTGGTTCT
58724428 TTTAAGCATT
Statistics
Matches: 519, Mismatches: 97, Indels: 40
0.79 0.15 0.06
Matches are distributed among these distances:
191 6 0.01
192 340 0.66
193 5 0.01
198 1 0.00
204 2 0.00
209 1 0.00
210 163 0.31
211 1 0.00
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (192 bp):
GCTTCAGGCTCATCCTCAAATTCCAGTTCATCTTCACATTCTGGTTCTAGTGCTGCTAACTCATC
CAAAAACTTAGGTTCTAACAATTCTAAGGATTCTGATTCTACTACAGCTTCTCAGTCTTCATTAA
ATCATAAGGCTTCTAATTCCTCCACAAGTTCTGATTCTTTATCAGGTTCTAGCAATTATAAG
Found at i:58724349 original size:210 final size:210
Alignment explanation
Indices: 58724003--58724594 Score: 719
Period size: 210 Copynumber: 2.8 Consensus size: 210
58723993 TCAGACTCCA
* ** * * * *
58724003 GTTCTTTTAAGCATTCTGGTTCTGGTGCTTCTAACTCTTCCACAAATATAGGTTCCAACAATTCT
1 GTTCTTTTAAGCATTCTGGTCCTACTACTGCTAACTCATCCACAAAT-TAGGTTCTAACAATTCT
* ** ** * * * *
58724068 AATGATTCTGCTCCTACTGTGGCTTCTCAGTCTACATTAAA-TCACGGGGCTTCTAATTCCTCTT
65 AAGGATTCTAATCCTACTACGGCTTCTCAGTCTTCATTAAACT-ATGAGGCTTCTAATTCCTCTA
* *
58724132 CAAGTTCTGGTTCTTTATCAGGTTCTAGCAATTATAAGGCTTCCGGG-TCATCCTCAAATTCTAT
129 CAAGTTCTGGTTCTTTATCAGGTTCTAGAAATTATAAGGCTTCCGGGCTCATCCTCAAATTCTAG
58724196 TTCATCTTCACATTCTG
194 TTCATCTTCACATTCTG
* * * * * *
58724213 GTTCTTTTAATCACTT-TGGTCCTATTGCTGGTAACTCCTCCACAAACTTAGGTTCTAACAGTTC
1 GTTCTTTTAAGCA-TTCTGGTCCTACTACTGCTAACTCATCCACAAA-TTAGGTTCTAACAATTC
* * *
58724277 TAAGGGTTCTAATTCTACTACGGCTTCTCAGTCTTCATTAAACTATAAGGCTTCTAATTCCTCTA
64 TAAGGATTCTAATCCTACTACGGCTTCTCAGTCTTCATTAAACTATGAGGCTTCTAATTCCTCTA
*
58724342 CAAGTTCTGGTTCTTTATCAAGTTCTAGAAATTATAAGGCTT-CGGGCTCATCCTCAAATTCTAG
129 CAAGTTCTGGTTCTTTATCAGGTTCTAGAAATTATAAGGCTTCCGGGCTCATCCTCAAATTCTAG
58724406 TTCATCTTCACATTCTG
194 TTCATCTTCACATTCTG
* * *
58724423 GTTCTTTTAAGCATTCTGGTTCTACTACTGCTAACTTATCCACAAATTCTGGTT-TGAACAATTC
1 GTTCTTTTAAGCATTCTGGTCCTACTACTGCTAACTCATCCACAAATT-AGGTTCT-AACAATTC
* * * **
58724487 TAAGGATTCTAGTCCTACTACGGCTTCTAAGTCTTCTTTAGAAC-ATGAGGCTTCTGGTTCCTCT
64 TAAGGATTCTAATCCTACTACGGCTTCTCAGTCTTCATTA-AACTATGAGGCTTCTAATTCCTCT
* ** *
58724551 ACAAGTTCTGGTTCTTTGTCAGGTTCTAGTGATTCTAAGGCTTC
128 ACAAGTTCTGGTTCTTTATCAGGTTCTAGAAATTATAAGGCTTC
58724595 TGGCTTGTCA
Statistics
Matches: 327, Mismatches: 46, Indels: 17
0.84 0.12 0.04
Matches are distributed among these distances:
209 9 0.03
210 311 0.95
211 7 0.02
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.39
Consensus pattern (210 bp):
GTTCTTTTAAGCATTCTGGTCCTACTACTGCTAACTCATCCACAAATTAGGTTCTAACAATTCTA
AGGATTCTAATCCTACTACGGCTTCTCAGTCTTCATTAAACTATGAGGCTTCTAATTCCTCTACA
AGTTCTGGTTCTTTATCAGGTTCTAGAAATTATAAGGCTTCCGGGCTCATCCTCAAATTCTAGTT
CATCTTCACATTCTG
Found at i:58725481 original size:18 final size:18
Alignment explanation
Indices: 58725458--58725493 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
58725448 AAAGGATTTG
58725458 GTTCTGATAATTCTCAAA
1 GTTCTGATAATTCTCAAA
**
58725476 GTTCTGATTCTTCTCAAA
1 GTTCTGATAATTCTCAAA
58725494 CTTCACAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.19, G:0.11, T:0.42
Consensus pattern (18 bp):
GTTCTGATAATTCTCAAA
Found at i:58725903 original size:19 final size:19
Alignment explanation
Indices: 58725879--58725917 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
58725869 GAATTTTTAC
58725879 TTTATTTTTATTATTATGT
1 TTTATTTTTATTATTATGT
58725898 TTTATTTTTATTATTATGT
1 TTTATTTTTATTATTATGT
58725917 T
1 T
58725918 CTAACCGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (19 bp):
TTTATTTTTATTATTATGT
Found at i:58729920 original size:198 final size:197
Alignment explanation
Indices: 58729458--58729923 Score: 657
Period size: 198 Copynumber: 2.4 Consensus size: 197
58729448 GCAATAGTTT
* *
58729458 TGGTTCCAAAACTTCAAGCTCTTCCACAAACATTGGTTCTACTTCGACTGATGGCCATACAACTA
1 TGGTTCCAAAACTTCAAGCTCTTCCAC-AACACTGGTTCTACTACGACTGATGGCCATACAACTA
* * *
58729523 CCGGTTCTACTTTGAGTGCCTCTTCAGGTTCTAGTTCTCGTAAGACTAATAGTCACATGACTTCT
65 CTGGTTCTACTTTGAGTCCCTCTTCAGGTTCTAGTTCTCATAAGACTAATAGTCACATGACTTCT
* * * * *
58729588 AGTCATACAAAATCTAGTTCTTCCACACACACCGATTCTTCCAATCACGCTGGTTCTTTGACAAC
130 AGTCATACAAAATCTAGCTCTTCCACACACACAGATTCTTCCAAACACACTGGTTCTTTCACAAC
58729653 ATC
195 ATC
* * ** *
58729656 TGGTTCCAAAACTTCAGGCTCTTCTACTAACACTGGTTCCGCTACGACTGATGGCAATACAACTA
1 TGGTTCCAAAACTTCAAGCTCTTCCAC-AACACTGGTTCTACTACGACTGATGGCCATACAACTA
* * *
58729721 CTGGTTCTATTTTGAG-CCACTCTTCAGGTTCTAGTTCTCATAAGACTAATAGTCACATGAGTTT
65 CTGGTTCTACTTTGAGTCC-CTCTTCAGGTTCTAGTTCTCATAAGACTAATAGTCACATGACTTC
* * *
58729785 TGGTCATACAAAATC-AGGCTCTTCTACACACACAGGTTCTTCCAAACACACTGGTTCTTTCACA
129 TAGTCATACAAAATCTA-GCTCTTCCACACACACAGATTCTTCCAAACACACTGGTTCTTTCACA
58729849 ACATC
193 ACATC
* * *
58729854 TGGTTCCAAAACTTCAAGCTCTTCCACAAGCCCTGGTTCTACTACGACTAATGGCCATGCAACTA
1 TGGTTCCAAAACTTCAAGCTCTTCCACAA-CACTGGTTCTACTACGACTGATGGCCATACAACTA
58729919 CTGGT
65 CTGGT
58729924 CCTGCTATGA
Statistics
Matches: 235, Mismatches: 30, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
197 4 0.02
198 231 0.98
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (197 bp):
TGGTTCCAAAACTTCAAGCTCTTCCACAACACTGGTTCTACTACGACTGATGGCCATACAACTAC
TGGTTCTACTTTGAGTCCCTCTTCAGGTTCTAGTTCTCATAAGACTAATAGTCACATGACTTCTA
GTCATACAAAATCTAGCTCTTCCACACACACAGATTCTTCCAAACACACTGGTTCTTTCACAACA
TC
Found at i:58730396 original size:198 final size:198
Alignment explanation
Indices: 58730069--58730439 Score: 589
Period size: 198 Copynumber: 1.9 Consensus size: 198
58730059 TCTTCCAATC
* *
58730069 ACACTGGTTCTGCTACAACTGATGGCCATACAACTACTGGTTCTATTTCGAGCTACTCTTCAGGT
1 ACACTGGTGCTGCTACAACTGATGGCCATACAACTACTGGTTCTATTTCGAGCCACTCTTCAGGT
* * *
58730134 TCTAGTTCTCATAAGACTAATAGTCACACGACATCTGCTCATACAAAATCTGGCTCTTCTACACA
66 TCTACTTCTCATAACACTAATAGTCACACGACATCTACTCATACAAAATCTGGCTCTTCTACACA
* *
58730199 CACAAGTTCCTCTAAATACACAGGTTCTTTCACAACCTCTGGTTCTAAAATTTCGGGCTCTTCCA
131 CACAAGTTCCTCCAAACACACAGGTTCTTTCACAACCTCTGGTTCTAAAATTTCGGGCTCTTCCA
58730264 CAA
196 CAA
* * * *
58730267 ACACTGGTGCTGCTACGATTGGTGGCCATACAACTACTGGTTCTATTTCGAGCCACTCTTTAGGT
1 ACACTGGTGCTGCTACAACTGATGGCCATACAACTACTGGTTCTATTTCGAGCCACTCTTCAGGT
* * *
58730332 TCTACTTCTCATAACAGTAATAGTCACACGACTTCTACTCATACAAAATTTGGCTCTTCTACACA
66 TCTACTTCTCATAACACTAATAGTCACACGACATCTACTCATACAAAATCTGGCTCTTCTACACA
* * *
58730397 CACAGGTTCTTCCAAACACACTGGTTCTTTCACAACCTCTGGT
131 CACAAGTTCCTCCAAACACACAGGTTCTTTCACAACCTCTGGT
58730440 CACTCTTCCA
Statistics
Matches: 156, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
198 156 1.00
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.31
Consensus pattern (198 bp):
ACACTGGTGCTGCTACAACTGATGGCCATACAACTACTGGTTCTATTTCGAGCCACTCTTCAGGT
TCTACTTCTCATAACACTAATAGTCACACGACATCTACTCATACAAAATCTGGCTCTTCTACACA
CACAAGTTCCTCCAAACACACAGGTTCTTTCACAACCTCTGGTTCTAAAATTTCGGGCTCTTCCA
CAA
Found at i:58739531 original size:41 final size:41
Alignment explanation
Indices: 58739486--58739603 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
58739476 TGAAAGATAA
58739486 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
58739527 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
58739557 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
58739598 ATGTAG
1 ATGTAG
58739604 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:58739542 original size:71 final size:71
Alignment explanation
Indices: 58739454--58739617 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
58739444 GAGATGTATC
58739454 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
58739519 AGGACA
66 AGGACA
58739525 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
58739590 AGGACA
66 AGGACA
58739596 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
58739618 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:58743288 original size:40 final size:40
Alignment explanation
Indices: 58743233--58743436 Score: 275
Period size: 40 Copynumber: 5.1 Consensus size: 40
58743223 TGAATGATAC
* * * *
58743233 CCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
* *
58743273 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
58743313 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * *
58743353 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* ** *
58743393 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
58743433 CCGG
1 CCGG
58743437 CTAAATTCCG
Statistics
Matches: 145, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
40 143 0.99
41 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:58743363 original size:80 final size:80
Alignment explanation
Indices: 58743229--58743440 Score: 329
Period size: 80 Copynumber: 2.7 Consensus size: 80
58743219 CAATTGAATG
* * * *
58743229 ATACCCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATATCCGGGTTAAGACCCGAAGGC
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATATCCGGGCTAAGACCCGAAGGC
58743293 ATTTGTGCGAGTTGCT
65 ATTTGTGCGAGTTGCT
*
58743309 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
58743374 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGCT
* * *
58743389 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAA
58743441 ATTCCGAAGA
Statistics
Matches: 122, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
79 6 0.05
80 114 0.93
81 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGCT
Found at i:58744194 original size:111 final size:111
Alignment explanation
Indices: 58744000--58744222 Score: 446
Period size: 111 Copynumber: 2.0 Consensus size: 111
58743990 ATTAGACCAT
58744000 TTGTGTTTATGTATATATGTATGGTTTCATGATCTGACTATGGACTGGAATGGAAGTGTTGGGCA
1 TTGTGTTTATGTATATATGTATGGTTTCATGATCTGACTATGGACTGGAATGGAAGTGTTGGGCA
58744065 AATGATCAGCCATTGGAATGGCTAAATATGATTATATGTGGACCTA
66 AATGATCAGCCATTGGAATGGCTAAATATGATTATATGTGGACCTA
58744111 TTGTGTTTATGTATATATGTATGGTTTCATGATCTGACTATGGACTGGAATGGAAGTGTTGGGCA
1 TTGTGTTTATGTATATATGTATGGTTTCATGATCTGACTATGGACTGGAATGGAAGTGTTGGGCA
58744176 AATGATCAGCCATTGGAATGGCTAAATATGATTATATGTGGACCTA
66 AATGATCAGCCATTGGAATGGCTAAATATGATTATATGTGGACCTA
58744222 T
1 T
58744223 GTATGACAAA
Statistics
Matches: 112, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
111 112 1.00
ACGTcount: A:0.28, C:0.10, G:0.26, T:0.36
Consensus pattern (111 bp):
TTGTGTTTATGTATATATGTATGGTTTCATGATCTGACTATGGACTGGAATGGAAGTGTTGGGCA
AATGATCAGCCATTGGAATGGCTAAATATGATTATATGTGGACCTA
Found at i:58745310 original size:32 final size:33
Alignment explanation
Indices: 58745261--58745323 Score: 110
Period size: 32 Copynumber: 1.9 Consensus size: 33
58745251 GGGCACGGGT
*
58745261 TTGAGCATTTAAGGCTTGAATTCAACCTAGGGC
1 TTGAGCATTTAAAGCTTGAATTCAACCTAGGGC
58745294 TTGAGC-TTTAAAGCTTGAATTCAACCTAGG
1 TTGAGCATTTAAAGCTTGAATTCAACCTAGG
58745324 TCATTTTCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 23 0.79
33 6 0.21
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (33 bp):
TTGAGCATTTAAAGCTTGAATTCAACCTAGGGC
Found at i:58747081 original size:33 final size:33
Alignment explanation
Indices: 58747041--58747106 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
58747031 TTTGTACAAG
*
58747041 AATTAAATCATAAAAGTTGGACTAATTTGAATA
1 AATTAAATCATAAAAGTTGGACTAAATTGAATA
58747074 AATTAAATCATAAAAGTTGGACTAAATTGAATA
1 AATTAAATCATAAAAGTTGGACTAAATTGAATA
58747107 GACTCCAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.32
Consensus pattern (33 bp):
AATTAAATCATAAAAGTTGGACTAAATTGAATA
Found at i:58755802 original size:40 final size:40
Alignment explanation
Indices: 58755747--58755924 Score: 209
Period size: 40 Copynumber: 4.5 Consensus size: 40
58755737 TGGATGATAA
** * *
58755747 CCGGGCTAAGTCCCGAAGGCATTTGCACTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
58755787 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
58755827 CTGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
58755867 CCGGGCTATGTCCCGAAGGCATTCGAGTGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
58755907 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
58755925 TACTTGGCTT
Statistics
Matches: 121, Mismatches: 15, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
39 16 0.13
40 105 0.87
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:58760512 original size:20 final size:20
Alignment explanation
Indices: 58760452--58760513 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 20
58760442 ATTAAAATTT
58760452 TGGTGGCTTGTCCACATTAC
1 TGGTGGCTTGTCCACATTAC
**** * *
58760472 TGGCAATTTATCTACATTAC
1 TGGTGGCTTGTCCACATTAC
*
58760492 TGGTGGCTTGTCCACAATAC
1 TGGTGGCTTGTCCACATTAC
58760512 TG
1 TG
58760514 TCATGTTGTC
Statistics
Matches: 29, Mismatches: 13, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (20 bp):
TGGTGGCTTGTCCACATTAC
Found at i:58761906 original size:27 final size:26
Alignment explanation
Indices: 58761876--58761958 Score: 94
Period size: 27 Copynumber: 3.1 Consensus size: 26
58761866 AGGCATCCCT
* *
58761876 TTTCACAGACTGCTACAGAGGCTTCCA
1 TTTCACAGA-TGCCACAAAGGCTTCCA
* * *
58761903 TTTCAGATATGCCACAAAGACTTCCA
1 TTTCACAGATGCCACAAAGGCTTCCA
*
58761929 TTTCATAGATGGCCACAAAGGCTTCCA
1 TTTCACAGAT-GCCACAAAGGCTTCCA
58761956 TTT
1 TTT
58761959 TCTGACATGT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 22 0.47
27 25 0.53
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (26 bp):
TTTCACAGATGCCACAAAGGCTTCCA
Found at i:58764930 original size:93 final size:93
Alignment explanation
Indices: 58764822--58764993 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
58764812 GCCTATAAGT
*
58764822 GAACTCGGACTCAACTCAACGAGCTCAGG-CATTCACATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCAGACTCAACTCAACGAGCTC-GGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
58764886 ACGAGCTCGGATGCCTAGTTACATCTCTC
65 ACGAGCTCGGATGCCTAGTTACATCTCTC
* **
58764915 GAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
*
58764980 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
58764994 CAAACATCCT
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:58764989 original size:46 final size:46
Alignment explanation
Indices: 58764816--58764989 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
58764806 TAACCCGCCT
*
58764816 ATAAGTGAACTCGGACTCAACTCAACGAGCTCAGG-CATTCACATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGACATTTACATCC
*
58764862 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTACATC-C
* * * *
58764913 -T---CGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTACATCC
*
58764955 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
58764990 TGCCCAAACA
Statistics
Matches: 109, Mismatches: 9, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 1 0.01
45 2 0.02
46 60 0.55
47 27 0.25
49 1 0.01
50 8 0.07
51 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTACATCC
Found at i:58768305 original size:49 final size:49
Alignment explanation
Indices: 58768234--58768333 Score: 164
Period size: 49 Copynumber: 2.0 Consensus size: 49
58768224 TGTAACTCTC
*
58768234 GTAATGTAACCTTTAAAGACCTACAGGGAACCGTGCCACATGTCCGTGT
1 GTAATGTAACCTTTAAAGACCTACAGGGAACCGTGCCACATGGCCGTGT
* * *
58768283 GTAATGTAACCTTTAAAGACCTACAGGGGACCGTGTCGCATGGCCGTGT
1 GTAATGTAACCTTTAAAGACCTACAGGGAACCGTGCCACATGGCCGTGT
58768332 GT
1 GT
58768334 CACACACGGC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (49 bp):
GTAATGTAACCTTTAAAGACCTACAGGGAACCGTGCCACATGGCCGTGT
Found at i:58782336 original size:344 final size:344
Alignment explanation
Indices: 58781319--58782337 Score: 1939
Period size: 344 Copynumber: 3.0 Consensus size: 344
58781309 CTACCTTTTC
58781319 CTTTTAATCGAATGTCTACAAAGACTTATAATGTATTTTTCCTCGTGTATTAACATATCATACTC
1 CTTTTAATCGAATGTCTACAAAGACTTATAATGTATTTTTCCTCGTGTATTAACATATCATACTC
*
58781384 TATTTTTAATGAAGGGTCGATCGAGACCATTCTAAAAAGCTCCTAGTTTTGGGAATGAAACCATT
66 TATTTTTAATGAAGGGTCGATCGAGACCATTCCAAAAAGCTCCTAGTTTTGGGAATGAAACCATT
*
58781449 GTACGGGTGATTATTTATAAGATTAAGTTCTAAACGGATGATTTAAATTAAGTGATTAATCACAA
131 GTACGGGTGATTATTTATAAGATTAAGTTCTAAATGGATGATTTAAATTAAGTGATTAATCACAA
58781514 AAAGTATTTAAAGACTATTCATTAATAAAAAGTCACCTTGATAACAGATCGGTATTCCATTAGCT
196 AAAGTATTTAAAGACTATTCATTAATAAAAAGTCACCTTGATAACAGATCGGTATTCCATTAGCT
* *
58781579 AAGATTTGAGTGTAGATATTCTTTAGAGTGGAGTTTCACACCGGATTTACTATCAGGTATGGGTC
261 AAGATTTGAGTGTAGACATTCTTTAGAGTGGAGTTTCACACCGGATTTACTATCAGGTGTGGGTC
*
58781644 TAATACAAGTTATATATAT
326 TAATGCAAGTTATATATAT
*
58781663 CTTTTAATCGAATGTCTACAAAGACTTATAATGTATTTTTCCTTGTGTATTAACATATCATACTC
1 CTTTTAATCGAATGTCTACAAAGACTTATAATGTATTTTTCCTCGTGTATTAACATATCATACTC
*
58781728 TATTTTTAATGAAGGGTCGATCGAGACCATTCCAAAAAGCTCCTAGTTTTGGGAATGAAATCATT
66 TATTTTTAATGAAGGGTCGATCGAGACCATTCCAAAAAGCTCCTAGTTTTGGGAATGAAACCATT
*
58781793 GTACGGGTGATTATTTATAAGATTAAGTTCTAAATGGATGATTTAAATTAATTGATTAATCACAA
131 GTACGGGTGATTATTTATAAGATTAAGTTCTAAATGGATGATTTAAATTAAGTGATTAATCACAA
*
58781858 AAAGTATTTAAAGACTATTCATTAATAAAAAGTCACCTTGATAACAGATCAGTATTCCATTAGCT
196 AAAGTATTTAAAGACTATTCATTAATAAAAAGTCACCTTGATAACAGATCGGTATTCCATTAGCT
58781923 AAGATTTGAGTGTAGACATTCTTTAGAGTGGAGTTTCACACCGGATTTACTATCAGGTGTGGGTC
261 AAGATTTGAGTGTAGACATTCTTTAGAGTGGAGTTTCACACCGGATTTACTATCAGGTGTGGGTC
58781988 TAATGCAAGTTATATATAT
326 TAATGCAAGTTATATATAT
*
58782007 CTTTTAATCGAATGTCTACAAAGACTTATAATGTATTTTTCCTCGTGTATTAACATATCATATTC
1 CTTTTAATCGAATGTCTACAAAGACTTATAATGTATTTTTCCTCGTGTATTAACATATCATACTC
58782072 TATTTTTAATGAAGGGTCGATCGAGACCATTCCAAAAAGCTCCTAGTTTTGGGAATGAAACCATT
66 TATTTTTAATGAAGGGTCGATCGAGACCATTCCAAAAAGCTCCTAGTTTTGGGAATGAAACCATT
58782137 GTACGGGTGATTATTTATAAGATTAAGTTCTAAATGGATGATTTAAATTAAGTGATTAATCACAA
131 GTACGGGTGATTATTTATAAGATTAAGTTCTAAATGGATGATTTAAATTAAGTGATTAATCACAA
58782202 AAAGTATTTAAAGACTATTCATTAATAAAAAGTCACCTTGATAACAGATCGGTATTCCATTAGCT
196 AAAGTATTTAAAGACTATTCATTAATAAAAAGTCACCTTGATAACAGATCGGTATTCCATTAGCT
*
58782267 AAGATTTGAGTGTAGACATTCTTTAGAGTGGAGTTTCACACCGGATTTACAATCAGGTGTGGGTC
261 AAGATTTGAGTGTAGACATTCTTTAGAGTGGAGTTTCACACCGGATTTACTATCAGGTGTGGGTC
58782332 TAATGC
326 TAATGC
58782338 TTGATTTATG
Statistics
Matches: 660, Mismatches: 15, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
344 660 1.00
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (344 bp):
CTTTTAATCGAATGTCTACAAAGACTTATAATGTATTTTTCCTCGTGTATTAACATATCATACTC
TATTTTTAATGAAGGGTCGATCGAGACCATTCCAAAAAGCTCCTAGTTTTGGGAATGAAACCATT
GTACGGGTGATTATTTATAAGATTAAGTTCTAAATGGATGATTTAAATTAAGTGATTAATCACAA
AAAGTATTTAAAGACTATTCATTAATAAAAAGTCACCTTGATAACAGATCGGTATTCCATTAGCT
AAGATTTGAGTGTAGACATTCTTTAGAGTGGAGTTTCACACCGGATTTACTATCAGGTGTGGGTC
TAATGCAAGTTATATATAT
Found at i:58782488 original size:37 final size:37
Alignment explanation
Indices: 58782441--58782526 Score: 145
Period size: 37 Copynumber: 2.3 Consensus size: 37
58782431 CTATTTTGTG
*
58782441 AAAGCATGTTGTGTGGTAATGTTTATTACTGATTTGA
1 AAAGCATGTTGTATGGTAATGTTTATTACTGATTTGA
*
58782478 AAAGCATGTTGTATGGTTATGTTTATTACTGATTTGA
1 AAAGCATGTTGTATGGTAATGTTTATTACTGATTTGA
*
58782515 AAAACATGTTGT
1 AAAGCATGTTGT
58782527 TCTCATTCTC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.29, C:0.06, G:0.22, T:0.43
Consensus pattern (37 bp):
AAAGCATGTTGTATGGTAATGTTTATTACTGATTTGA
Found at i:58782926 original size:20 final size:20
Alignment explanation
Indices: 58782811--58782927 Score: 60
Period size: 20 Copynumber: 5.8 Consensus size: 20
58782801 CATATTACTA
**
58782811 GAAGCTTGTCTATATTATTG
1 GAAGCTTGTCTGCATTATTG
* * * *
58782831 GTAGCTTATTTGCAATATT-
1 GAAGCTTGTCTGCATTATTG
* *
58782850 GACAGCTTGTCTGCACTACTG
1 GA-AGCTTGTCTGCATTATTG
* *
58782871 GCAA-TTTATCTGCATTATTG
1 G-AAGCTTGTCTGCATTATTG
* * **
58782891 G-TGACTTGACCACATTATTG
1 GAAG-CTTGTCTGCATTATTG
58782911 GAAGCTTGTCTGCATTA
1 GAAGCTTGTCTGCATTA
58782928 CTGGTGGCTT
Statistics
Matches: 66, Mismatches: 25, Indels: 12
0.64 0.24 0.12
Matches are distributed among these distances:
19 1 0.02
20 61 0.92
21 3 0.05
22 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (20 bp):
GAAGCTTGTCTGCATTATTG
Found at i:58788202 original size:2 final size:2
Alignment explanation
Indices: 58788195--58788225 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
58788185 TGTATGGGAT
58788195 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
58788226 GAGAATGTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:58789304 original size:20 final size:20
Alignment explanation
Indices: 58789279--58789317 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
58789269 TTAAATTAAA
58789279 TTTAATATTAAAATAATAAC
1 TTTAATATTAAAATAATAAC
*
58789299 TTTAATATTAAATTAATAA
1 TTTAATATTAAAATAATAA
58789318 AATACTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (20 bp):
TTTAATATTAAAATAATAAC
Found at i:58789321 original size:25 final size:26
Alignment explanation
Indices: 58789280--58789329 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
58789270 TAAATTAAAT
58789280 TTAATATTAAAATAATAACT-TTAATA
1 TTAATATTAAAATAAT-ACTATTAATA
58789306 TTAA-ATTAATAA-AATACTATTAAT
1 TTAATATTAA-AATAATACTATTAAT
58789330 CTAAGTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
24 3 0.14
25 13 0.59
26 6 0.27
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (26 bp):
TTAATATTAAAATAATACTATTAATA
Found at i:58789362 original size:37 final size:35
Alignment explanation
Indices: 58789268--58789365 Score: 100
Period size: 37 Copynumber: 2.9 Consensus size: 35
58789258 CGAGATAAAC
*
58789268 ATTAAATTAAATTTAATATTAAA--A-TAATAACT
1 ATTAAATTAAATTTAATATAAAACTATTAATAACT
*
58789300 -TTAATATTAAA-TTAATA-AAATACTATTAATCTAAGT
1 ATTAA-ATTAAATTTAATATAAA-ACTATTAA--TAACT
58789336 ATTAAATTAAATTTAATATAAAACTATTAA
1 ATTAAATTAAATTTAATATAAAACTATTAA
58789366 AATGATATTC
Statistics
Matches: 54, Mismatches: 2, Indels: 15
0.76 0.03 0.21
Matches are distributed among these distances:
30 2 0.04
31 11 0.20
32 6 0.11
33 1 0.02
34 3 0.06
36 10 0.19
37 18 0.33
38 3 0.06
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (35 bp):
ATTAAATTAAATTTAATATAAAACTATTAATAACT
Found at i:58795190 original size:28 final size:29
Alignment explanation
Indices: 58795150--58795248 Score: 105
Period size: 28 Copynumber: 3.5 Consensus size: 29
58795140 GTAATAAGCC
*
58795150 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
58795178 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * * *
58795206 TGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
58795235 CGCACACTTAGTGC
1 CGCACACTTAGTGC
58795249 CAATTTGTGA
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
27 2 0.03
28 36 0.61
29 18 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:58795369 original size:2 final size:2
Alignment explanation
Indices: 58795362--58795386 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
58795352 TACATACATG
58795362 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
58795387 TTATCATTCC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:58802178 original size:23 final size:23
Alignment explanation
Indices: 58802148--58802304 Score: 135
Period size: 23 Copynumber: 6.7 Consensus size: 23
58802138 GACTCACCAA
58802148 AGCTC-ATATGAGCTTACTGATTC
1 AGCTCAATA-GAGCTTACTGATTC
58802171 AGCTC-ATAAGAGCTTACT-ATTTC
1 AGCTCAAT-AGAGCTTACTGA-TTC
* * *
58802194 AGCTCATTGGAGCTTATTGATTC
1 AGCTCAATAGAGCTTACTGATTC
*
58802217 AGCTGAA-AGAGCTTACTG-TTC
1 AGCTCAATAGAGCTTACTGATTC
* * *
58802238 AGCTTAATAGAGCTTACCGTTTTC
1 AGCTCAATAGAGCTTACTG-ATTC
*
58802262 AGCTCAATAGAGCTTACTGTTTATC
1 AGCTCAATAGAGCTTACTG-AT-TC
*
58802287 AGCTCAAGAGAAGCTTAC
1 AGCTCAATAG-AGCTTAC
58802305 CGACCATGAA
Statistics
Matches: 113, Mismatches: 12, Indels: 15
0.81 0.09 0.11
Matches are distributed among these distances:
21 9 0.08
22 20 0.18
23 40 0.35
24 26 0.23
25 11 0.10
26 7 0.06
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.33
Consensus pattern (23 bp):
AGCTCAATAGAGCTTACTGATTC
Found at i:58806847 original size:40 final size:39
Alignment explanation
Indices: 58806756--58806856 Score: 130
Period size: 40 Copynumber: 2.5 Consensus size: 39
58806746 TATATCACGT
* *
58806756 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAACAACTA
* * *
58806796 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAACAACTA
58806836 GCACAATTGCCTTCGGGTCTT
1 GCACAA-TGCCTTCGGGTCTT
58806857 CAACTAAGAA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
39 2 0.04
40 52 0.96
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.25
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAACAACTA
Found at i:58809424 original size:40 final size:40
Alignment explanation
Indices: 58809379--58809545 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
58809369 CGGAATATAA
58809379 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
58809419 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
58809459 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
58809499 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
58809538 CCGGATAT
1 CCGGATAT
58809546 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:58817435 original size:40 final size:40
Alignment explanation
Indices: 58817390--58817556 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
58817380 CGGAATATAA
*
58817390 CCGGATATAATCAC-ATGCACAAACGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTA-GCACAAATGCCTTCGGGTCTTAGC
* * * *
58817430 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** ** *
58817470 CCGGATATAGCCACTAGCACATTTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
58817510 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
58817549 CCGGATAT
1 CCGGATAT
58817557 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
39 13 0.13
40 90 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:58829712 original size:20 final size:20
Alignment explanation
Indices: 58829687--58829726 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
58829677 CCGGATGGTA
58829687 ATCAATATCAAGCTCGTAGT
1 ATCAATATCAAGCTCGTAGT
58829707 ATCAATATCAAGCTCGTAGT
1 ATCAATATCAAGCTCGTAGT
58829727 CTTTTAGCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (20 bp):
ATCAATATCAAGCTCGTAGT
Found at i:58834399 original size:43 final size:42
Alignment explanation
Indices: 58834332--58834445 Score: 124
Period size: 43 Copynumber: 2.7 Consensus size: 42
58834322 AGCTCGTACA
* ** ***
58834332 ATGCCAACGTCCCAGATGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACATCCCAGACATGGTCTTACACAAAATCAAATAT-G
58834375 ATGCC-ACAGTCCCAGACA-GAGTCTTACACAAAATCAAATATG
1 ATGCCAACA-TCCCAGACATG-GTCTTACACAAAATCAAATATG
*
58834417 ATGCCAACATTCCAGACATGGTCTTACAC
1 ATGCCAACATCCCAGACATGGTCTTACAC
58834446 GAGAACACAT
Statistics
Matches: 60, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
42 26 0.43
43 34 0.57
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (42 bp):
ATGCCAACATCCCAGACATGGTCTTACACAAAATCAAATATG
Found at i:58847158 original size:34 final size:34
Alignment explanation
Indices: 58847088--58847164 Score: 100
Period size: 34 Copynumber: 2.3 Consensus size: 34
58847078 CCTCATTCGT
* *
58847088 TTATAAGCATGATATTCGTATATGTTTTGTTCTG
1 TTATAAGCATGATATTCGTATATATTTTATTCTG
* * *
58847122 TTATAAGCATGATATTTGTATCTATTTTATTTTG
1 TTATAAGCATGATATTCGTATATATTTTATTCTG
*
58847156 TTAGAAGCA
1 TTATAAGCA
58847165 CGACATATTT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.27, C:0.08, G:0.16, T:0.49
Consensus pattern (34 bp):
TTATAAGCATGATATTCGTATATATTTTATTCTG
Found at i:58847649 original size:17 final size:17
Alignment explanation
Indices: 58847627--58847659 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
58847617 TGCAAGTTAC
58847627 TATATG-TAATGTGATTT
1 TATATGCTAAT-TGATTT
58847644 TATATGCTAATTGATT
1 TATATGCTAATTGATT
58847660 GCACTGATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.30, C:0.03, G:0.15, T:0.52
Consensus pattern (17 bp):
TATATGCTAATTGATTT
Found at i:58855751 original size:39 final size:40
Alignment explanation
Indices: 58855586--58855757 Score: 249
Period size: 40 Copynumber: 4.3 Consensus size: 40
58855576 ACTACTCGTT
* * *
58855586 CAAATGCCTTCGGGACATAGCCCGG-TTATAGCAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
58855626 CAAATGCCTTCGGGATTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
58855666 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
58855706 CCAATGCCTTCGGG-CTTAGCCCGAAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
58855745 CAAATGCCTTCGG
1 CAAATGCCTTCGG
58855758 ATCTTAGTCC
Statistics
Matches: 121, Mismatches: 10, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
39 34 0.28
40 85 0.70
41 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:58855794 original size:79 final size:79
Alignment explanation
Indices: 58855586--58855807 Score: 225
Period size: 79 Copynumber: 2.8 Consensus size: 79
58855576 ACTACTCGTT
* * ** * * * * *
58855586 CAAATGCCTTCGGGACATAGCCCGGTTATAGCAACTCGCACAAATGCCTTCGGGATTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGAATATAGTAACTAGCACAAA-GCCTTCGGGACTTAGCCCGA
*
58855651 ATTTAGTAACTCGCA
65 AATTAGTAACTCGCA
* * * *
58855666 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGA
1 CAAATGCCTTCGGGACTTAACCCGAATATAGTAACTAGCA-CAAAGCCTTCGGGACTTAGCCCGA
58855730 AATTAGTAACTCGCA
65 AATTAGTAACTCGCA
** * *
58855745 CAAATGCCTTC-GGATCTTAGTCCGAATATGGTCACTTAGCACAAAGCCTT-GGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAACCCGAATATAGTAAC-TAGCACAAAGCCTTCGGGACTTAGCCCG
58855808 GACATCATTC
Statistics
Matches: 120, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
78 6 0.05
79 63 0.52
80 48 0.40
81 3 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAACCCGAATATAGTAACTAGCACAAAGCCTTCGGGACTTAGCCCGAA
ATTAGTAACTCGCA
Found at i:58861907 original size:26 final size:26
Alignment explanation
Indices: 58861877--58861982 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
58861867 TGAAATTCCC
58861877 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
58861903 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
58861929 ATCGTGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
58861955 ATCATGGAACATTTA-CTAA-CTATT
1 ATCATGGAACATTTACCTAACCCATT
58861979 ATCA
1 ATCA
58861983 ATTTGTATCA
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
24 8 0.11
25 4 0.05
26 63 0.84
ACGTcount: A:0.36, C:0.25, G:0.08, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:58875769 original size:40 final size:40
Alignment explanation
Indices: 58875724--58875891 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
58875714 CGGAATATAA
58875724 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
58875764 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
58875804 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
58875844 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
58875884 CCGGATAT
1 CCGGATAT
58875892 TATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:58888036 original size:15 final size:15
Alignment explanation
Indices: 58887994--58888041 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 15
58887984 AATCACCCTA
58887994 TTTTTT-TCTTCTTT
1 TTTTTTCTCTTCTTT
*
58888008 TTACATTTCTTCTTCTTT
1 TT--TTTTC-TCTTCTTT
58888026 TTTTTTCTCTTCTTT
1 TTTTTTCTCTTCTTT
58888041 T
1 T
58888042 CTCCATCTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
14 2 0.07
15 9 0.32
16 7 0.25
18 10 0.36
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTTTCTCTTCTTT
Found at i:58895102 original size:25 final size:25
Alignment explanation
Indices: 58895060--58895191 Score: 90
Period size: 25 Copynumber: 5.3 Consensus size: 25
58895050 ATGCCCATAC
* * *
58895060 GAGCTGTA-AATGGTAAGCTCCTCT
1 GAGCTGAATAATGGGAAGCTCATCT
*
58895084 GAGCTGAATAATGGGAAGCTCATGT
1 GAGCTGAATAATGGGAAGCTCATCT
* *
58895109 GAGCTAAATAACGGGAAGCTCATGC-
1 GAGCTGAATAATGGGAAGCTCAT-CT
* * * *
58895134 AAGCTGAGTATTGGGAAGCTTATGC-
1 GAGCTGAATAATGGGAAGCTCAT-CT
* * * **
58895159 AAGCTGAGTATTGGGAAGCTCATAA
1 GAGCTGAATAATGGGAAGCTCATCT
58895184 GAGCTGAA
1 GAGCTGAA
58895192 ATCAGTGACC
Statistics
Matches: 88, Mismatches: 17, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
24 7 0.08
25 81 0.92
ACGTcount: A:0.32, C:0.15, G:0.30, T:0.23
Consensus pattern (25 bp):
GAGCTGAATAATGGGAAGCTCATCT
Found at i:58897255 original size:26 final size:26
Alignment explanation
Indices: 58897196--58897256 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 26
58897186 TATAATCACC
*
58897196 CTATTTTTTTTCTTCTTTCTACATTT
1 CTATTTTTTTTCTTCTTTCTACATAT
58897222 CTTCATTTTTTTCTCTTCTTTTCT-C-TAT
1 C-T-ATTTTTTT-TCTTC-TTTCTACATAT
58897250 CTATTTT
1 CTATTTT
58897257 CCTTAGCAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
26 6 0.20
27 2 0.07
28 11 0.37
29 6 0.20
30 5 0.17
ACGTcount: A:0.10, C:0.21, G:0.00, T:0.69
Consensus pattern (26 bp):
CTATTTTTTTTCTTCTTTCTACATAT
Found at i:58900785 original size:40 final size:40
Alignment explanation
Indices: 58900715--58900958 Score: 343
Period size: 40 Copynumber: 6.2 Consensus size: 40
58900705 CAGATGATAA
* *
58900715 CGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCC
58900755 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
*
58900795 CGAAGGCATTTGTGCGAGTTACTATATCCGAGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* * *
58900835 CAAAGGCATTTGTGCGAGTTACTATAACCGGGTTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
*
58900875 CGAAGGCATTTGTGCGAGTTACTATAACCGGGCT-AGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* * * *
58900914 CGAAGACATTTGAGCGAG-TAGCTATATCC-GGTTAAATCC
1 CGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCC
58900953 CGAAGG
1 CGAAGG
58900959 TACTTGGTTT
Statistics
Matches: 186, Mismatches: 15, Indels: 7
0.89 0.07 0.03
Matches are distributed among these distances:
38 5 0.03
39 37 0.20
40 143 0.77
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
Found at i:58907695 original size:40 final size:40
Alignment explanation
Indices: 58907625--58907854 Score: 340
Period size: 40 Copynumber: 5.8 Consensus size: 40
58907615 CGGATGATAA
* *
58907625 CGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCC
58907665 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
58907705 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* * *
58907745 CGAAGGCATTTGTGCGAGTTACTATAACTGGGTTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
*
58907785 CGAAGGCATTTGTGCGAGTTACTATAACCGGGCT-AGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
** *
58907824 CGAAAACATTTGAGCGAG-TAGCTATATCCGG
1 CGAAGGCATTTGTGCGAGTTA-CTATATCCGG
58907855 TTAAATCTCG
Statistics
Matches: 177, Mismatches: 11, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
38 2 0.01
39 29 0.16
40 145 0.82
41 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
Found at i:58927027 original size:37 final size:37
Alignment explanation
Indices: 58926977--58927051 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
58926967 AACCTTGATA
58926977 AACCGTAATTTATACATATTTTTATCCCATGCTTAGC
1 AACCGTAATTTATACATATTTTTATCCCATGCTTAGC
58927014 AACCGTAATTTATACATATTTTTATCCCATGCTTAGC
1 AACCGTAATTTATACATATTTTTATCCCATGCTTAGC
58927051 A
1 A
58927052 CATTTATGGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.40
Consensus pattern (37 bp):
AACCGTAATTTATACATATTTTTATCCCATGCTTAGC
Found at i:58944503 original size:47 final size:47
Alignment explanation
Indices: 58944434--58944654 Score: 191
Period size: 47 Copynumber: 4.6 Consensus size: 47
58944424 GTAGAATGCC
58944434 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-CATCAAGTT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCACATCAAGTT
* * * * *
58944481 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCGAAATCGAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-ACATC-AAGTT
* * ***
58944530 GATGCCATGTCCTAAACATGGTCTTACACTGGCTCTCACATCTCCTT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATCAAGTT
* * * * * *
58944577 GCAGATGCCATGTCCCAAACATGATCCTACACTGGCTCTCATAAT-ATGGTC
1 ---GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA-CATCA-AGTT
58944628 GATG-CAT-TCCCAGACAT-GTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
58944655 AGCACACAAT
Statistics
Matches: 141, Mismatches: 25, Indels: 18
0.77 0.14 0.10
Matches are distributed among these distances:
45 8 0.06
46 11 0.08
47 37 0.26
48 11 0.08
49 36 0.26
50 35 0.25
51 3 0.02
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATCAAGTT
Found at i:58946384 original size:2 final size:2
Alignment explanation
Indices: 58946377--58946401 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
58946367 ATGAAATGTA
58946377 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
58946402 ACATATGGTA
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:58947188 original size:18 final size:18
Alignment explanation
Indices: 58947149--58947193 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
58947139 TTCATAGTTT
*
58947149 TATCGATACCTTTTTTGA
1 TATCGATACCTTTTTAGA
58947167 TATCGATACCTTTTTCAG-
1 TATCGATACCTTTTT-AGA
58947185 TATCGATAC
1 TATCGATAC
58947194 AAAAATGTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 24 0.96
19 1 0.04
ACGTcount: A:0.24, C:0.20, G:0.11, T:0.44
Consensus pattern (18 bp):
TATCGATACCTTTTTAGA
Found at i:58948187 original size:33 final size:32
Alignment explanation
Indices: 58948148--58948450 Score: 178
Period size: 33 Copynumber: 9.6 Consensus size: 32
58948138 TAAAATATTT
58948148 AAAATATTTTAATATAATTTAATATAAAACTAA
1 AAAATATTTTAATATAATTTAATATAAAA-TAA
58948181 AAAATATTTTAATATAA--T--T-TAAAAT--
1 AAAATATTTTAATATAATTTAATATAAAATAA
58948206 AAAATATTTTAATAT-ATTTAATATAAGAAT-A
1 AAAATATTTTAATATAATTTAATATAA-AATAA
** ** * * * *
58948237 ATTATATTAAAATGTTATTAAATTATAAAAATATTT
1 AAAATATTTTAATATAATTTAA-TAT-AAAATA--A
*
58948273 GAAATATTTTAATATAATTTAATATAAAACTAA
1 AAAATATTTTAATATAATTTAATATAAAA-TAA
*
58948306 AAAATATTTTAACATAA--T--T-TAAAAT--
1 AAAATATTTTAATATAATTTAATATAAAATAA
*
58948331 AAAATATTTTAATAT-ACTTAATATAAAAATAA
1 AAAATATTTTAATATAATTTAATAT-AAAATAA
* * * *
58948363 ATATATTAATTTT-TTATTAAATT-ATA-AAAATATTT
1 A-A-AAT-ATTTTAATA-TAATTTAATATAAAATA--A
*
58948398 GAAATATTTTAATATAATTTAATATAAAACTAA
1 AAAATATTTTAATATAATTTAATATAAAA-TAA
*
58948431 AAAATATTTTAATATGATTT
1 AAAATATTTTAATATAATTT
58948451 TAAATAATAT
Statistics
Matches: 207, Mismatches: 30, Indels: 66
0.68 0.10 0.22
Matches are distributed among these distances:
24 2 0.01
25 29 0.14
26 2 0.01
27 2 0.01
28 12 0.06
29 6 0.03
30 8 0.04
31 12 0.06
32 16 0.08
33 70 0.34
34 15 0.07
35 16 0.08
36 17 0.08
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (32 bp):
AAAATATTTTAATATAATTTAATATAAAATAA
Found at i:58948209 original size:25 final size:24
Alignment explanation
Indices: 58948181--58948236 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 24
58948171 ATAAAACTAA
58948181 AAAATATTTTAATATAATTTAAAAT
1 AAAATATTTTAATAT-ATTTAAAAT
*
58948206 AAAATATTTTAATATATTTAATAT
1 AAAATATTTTAATATATTTAAAAT
58948230 AAGAATA
1 AA-AATA
58948237 ATTATATTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 10 0.34
25 19 0.66
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
AAAATATTTTAATATATTTAAAAT
Found at i:58948279 original size:125 final size:125
Alignment explanation
Indices: 58948139--58948471 Score: 567
Period size: 125 Copynumber: 2.7 Consensus size: 125
58948129 ATATAAAAAT
*
58948139 AAAATATTTAAAATATTTTAATATAATTTAATATAAAACTAAAAAATATTTTAATATAATTTAAA
1 AAAATATTTGAAATATTTTAATATAATTTAATATAAAACTAAAAAATATTTTAATATAATTTAAA
* * *
58948204 ATAAAATATTTTAATATATTTAATATAAGAATAATTATATTAAAATGTTATTAAATTATA
66 ATAAAATATTTTAATATACTTAATATAAAAATAAATATATTAAAATGTTATTAAATTATA
*
58948264 AAAATATTTGAAATATTTTAATATAATTTAATATAAAACTAAAAAATATTTTAACATAATTTAAA
1 AAAATATTTGAAATATTTTAATATAATTTAATATAAAACTAAAAAATATTTTAATATAATTTAAA
** *
58948329 ATAAAATATTTTAATATACTTAATATAAAAATAAATATATTAATTTTTTATTAAATTATA
66 ATAAAATATTTTAATATACTTAATATAAAAATAAATATATTAAAATGTTATTAAATTATA
* *
58948389 AAAATATTTGAAATATTTTAATATAATTTAATATAAAACTAAAAAATATTTTAATATGATTTTAA
1 AAAATATTTGAAATATTTTAATATAATTTAATATAAAACTAAAAAATATTTTAATATAATTTAAA
*
58948454 ATAATATATTTTAATATA
66 ATAAAATATTTTAATATA
58948472 AAAATAATTG
Statistics
Matches: 196, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
125 196 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (125 bp):
AAAATATTTGAAATATTTTAATATAATTTAATATAAAACTAAAAAATATTTTAATATAATTTAAA
ATAAAATATTTTAATATACTTAATATAAAAATAAATATATTAAAATGTTATTAAATTATA
Found at i:58948359 original size:25 final size:26
Alignment explanation
Indices: 58948305--58948361 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 26
58948295 TATAAAACTA
*
58948305 AAAAATATTTTAACATAATTTAAAAT
1 AAAAATATTTTAACATAACTTAAAAT
* *
58948331 -AAAATATTTTAATAT-ACTTAATAT
1 AAAAATATTTTAACATAACTTAAAAT
58948355 AAAAATA
1 AAAAATA
58948362 AATATATTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 7 0.26
25 20 0.74
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.39
Consensus pattern (26 bp):
AAAAATATTTTAACATAACTTAAAAT
Found at i:58948442 original size:23 final size:25
Alignment explanation
Indices: 58948407--58948474 Score: 77
Period size: 23 Copynumber: 2.8 Consensus size: 25
58948397 TGAAATATTT
*
58948407 TAATATAATTTAATATAAAACTAAA
1 TAATATATTTTAATATAAAACTAAA
* ***
58948432 -AA-ATATTTTAATATGATTTTAAA
1 TAATATATTTTAATATAAAACTAAA
58948455 TAATATATTTTAATATAAAA
1 TAATATATTTTAATATAAAA
58948475 ATAATTGTAT
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
23 16 0.48
24 4 0.12
25 13 0.39
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (25 bp):
TAATATATTTTAATATAAAACTAAA
Found at i:58948460 original size:15 final size:15
Alignment explanation
Indices: 58948440--58948472 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
58948430 AAAAATATTT
58948440 TAATATGATTTTAA-A
1 TAATAT-ATTTTAATA
58948455 TAATATATTTTAATA
1 TAATATATTTTAATA
58948470 TAA
1 TAA
58948473 AAATAATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (15 bp):
TAATATATTTTAATA
Found at i:58949985 original size:18 final size:19
Alignment explanation
Indices: 58949948--58949988 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
58949938 CATACAGCAA
* *
58949948 TTGTAGTAACGAAATTTAT
1 TTGTAGTAAAGAAATATAT
58949967 TTGTAG-AAAGAAATATAT
1 TTGTAGTAAAGAAATATAT
58949985 TTGT
1 TTGT
58949989 CTAAAATTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.39, C:0.02, G:0.17, T:0.41
Consensus pattern (19 bp):
TTGTAGTAAAGAAATATAT
Found at i:58952709 original size:30 final size:30
Alignment explanation
Indices: 58952673--58952732 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
58952663 TAATTTCTGA
58952673 AACAGATTTTGCCCCTAAAAGATTGTTTAT
1 AACAGATTTTGCCCCTAAAAGATTGTTTAT
58952703 AACAGATTTTGCCCCTAAAAGATTGTTTAT
1 AACAGATTTTGCCCCTAAAAGATTGTTTAT
58952733 CTCTAGGCTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (30 bp):
AACAGATTTTGCCCCTAAAAGATTGTTTAT
Found at i:58953917 original size:26 final size:26
Alignment explanation
Indices: 58953835--58953938 Score: 86
Period size: 26 Copynumber: 4.0 Consensus size: 26
58953825 ATTATATATT
* *
58953835 ATTTTATTAAATTATATTTAATAATA
1 ATTTTATTAAAATATATTTAACAATA
* * ** *
58953861 ATTATGTTAAAATATGGTTAA-ATTA
1 ATTTTATTAAAATATATTTAACAATA
* *
58953886 TTTTTTAATAAAATATATTTAACAATA
1 -ATTTTATTAAAATATATTTAACAATA
* *
58953913 ATTTTATTAAAATTTA-ATAACAATA
1 ATTTTATTAAAATATATTTAACAATA
58953938 A
1 A
58953939 CAATAATCAT
Statistics
Matches: 59, Mismatches: 17, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
25 12 0.20
26 44 0.75
27 3 0.05
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (26 bp):
ATTTTATTAAAATATATTTAACAATA
Found at i:58954114 original size:16 final size:16
Alignment explanation
Indices: 58954093--58954163 Score: 97
Period size: 16 Copynumber: 4.4 Consensus size: 16
58954083 TGAATTACTT
* *
58954093 ATTACAGCTTTATTCC
1 ATTACAGCTCTATTCA
*
58954109 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCA
*
58954125 ATCACAGCTCTATTCA
1 ATTACAGCTCTATTCA
*
58954141 ATTACAGCCCTATTCA
1 ATTACAGCTCTATTCA
58954157 ATTACAG
1 ATTACAG
58954164 TGAACCAAAC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.35
Consensus pattern (16 bp):
ATTACAGCTCTATTCA
Found at i:58955183 original size:28 final size:28
Alignment explanation
Indices: 58955132--58955185 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
58955122 TGTTCACTTA
** * *
58955132 TTCCAGATTGGTACTTATAGTTTTTTTG
1 TTCCAGATTGGTACCCAAACTTTTTTTG
58955160 TTCCAGATTGGTACCCAAACTTTTTT
1 TTCCAGATTGGTACCCAAACTTTTTT
58955186 ATCAACTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.48
Consensus pattern (28 bp):
TTCCAGATTGGTACCCAAACTTTTTTTG
Found at i:58957082 original size:101 final size:104
Alignment explanation
Indices: 58956947--58957166 Score: 284
Period size: 101 Copynumber: 2.1 Consensus size: 104
58956937 CATGGCCTTG
* * * * * *
58956947 CCATAGTCTTACGTTCATAGTGCCCTAACCCAGTTATGGTCTTATCACCAGAATGTCATAGCCCA
1 CCATGGTCTTACGTCCATAGTGCCATAACCCAGTTATGATCTTATCACCAGAATGCCATAACCCA
*
58957012 ACTATGGTCTTAC-ATATA-A-ACAATGCCATAGTCCAA
66 ACTATGATCTTACAATATATATACAATGCCATAGTCCAA
* * *
58957048 CCATGGTCTTATGTCCATAGTGCCATAACCCAGTTATGATCTTATCATCAGAATGCCATAACCTA
1 CCATGGTCTTACGTCCATAGTGCCATAACCCAGTTATGATCTTATCACCAGAATGCCATAACCCA
* * * *
58957113 GCTATGATCTTACATATATATATACACTGTCATGGTCCAA
66 ACTATGATCTTACA-ATATATATACAATGCCATAGTCCAA
58957153 CCATGGTCTTACGT
1 CCATGGTCTTACGT
58957167 TTGAATAATT
Statistics
Matches: 100, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
101 67 0.67
103 5 0.05
104 1 0.01
105 27 0.27
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (104 bp):
CCATGGTCTTACGTCCATAGTGCCATAACCCAGTTATGATCTTATCACCAGAATGCCATAACCCA
ACTATGATCTTACAATATATATACAATGCCATAGTCCAA
Found at i:58961607 original size:69 final size:69
Alignment explanation
Indices: 58961496--58961624 Score: 231
Period size: 69 Copynumber: 1.9 Consensus size: 69
58961486 ATGTCTCTGA
58961496 ACATTTTCTTTAAATCTTTATACATTTTGGTACTTCAAGGATGAATAGACAAACGGCTATTCCAC
1 ACATTTTCTTTAAATCTTTATACATTTTGGTACTTCAAGGATGAATAGACAAACGGCTATTCCAC
58961561 CAGT
66 CAGT
* * *
58961565 ACATTTTCTTTAAATTTTTATGCATTTTGGTACTTCCAGGATGAATAGACAAACGGCTAT
1 ACATTTTCTTTAAATCTTTATACATTTTGGTACTTCAAGGATGAATAGACAAACGGCTAT
58961625 CATGTGCCTC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
69 57 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (69 bp):
ACATTTTCTTTAAATCTTTATACATTTTGGTACTTCAAGGATGAATAGACAAACGGCTATTCCAC
CAGT
Found at i:58966130 original size:40 final size:40
Alignment explanation
Indices: 58966036--58966260 Score: 229
Period size: 40 Copynumber: 5.6 Consensus size: 40
58966026 TATTCGAATG
* * * * *
58966036 ATATCCGGGATAAGTCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCTA-GCGACT
* ** * * * *
58966077 ATAACTAGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCTAG-CGACT
* *
58966117 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCTAGCGACT
* *
58966157 ATATCCAGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCTAGCGACT
* * * *
58966197 ATATCCGGGCTAGGTCCCGAAGGCA-TCTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTC-GTGCTAGCGACT
58966237 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
58966261 CTTGTGCAAG
Statistics
Matches: 152, Mismatches: 29, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
39 2 0.01
40 124 0.82
41 26 0.17
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCTAGCGACT
Found at i:58966205 original size:80 final size:80
Alignment explanation
Indices: 58966036--58966296 Score: 294
Period size: 80 Copynumber: 3.3 Consensus size: 80
58966026 TATTCGAATG
* * * * * *
58966036 ATATCCGGGATAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACTAGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCAGGCTAAGACCCGAAGGC
*
58966101 ATTCGTGCGAGTTGCT
65 ATTCGTGCGAGTCGCT
* * *
58966117 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCAGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCAGGCTAAGACCCGAAGGCA
* *
58966182 TTTGTGCTAG-CGACT
66 TTCGTGCGAGTCG-CT
* * * * *
58966197 ATATCCGGGCTAGGTCCCGAAGGCATCTGTGCTAGTGACCATATCCGGGCTAAGACCCGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCAGGCTAAGACCCGAAGGCA
* * *
58966262 TT-GTGCAAGTAGTT
66 TTCGTGCGAGTCGCT
*
58966276 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
58966297 ATTACTTGAG
Statistics
Matches: 153, Mismatches: 25, Indels: 7
0.83 0.14 0.04
Matches are distributed among these distances:
78 13 0.08
79 14 0.09
80 95 0.62
81 31 0.20
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCAGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCGCT
Found at i:58974392 original size:32 final size:32
Alignment explanation
Indices: 58974356--58974422 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 32
58974346 GCTATGTATA
*
58974356 TATATTTTATG-AAATTTTTAT-ATTTTATATTT
1 TATATTTT-TGTAAATTTTTATAATTTT-TAATT
*
58974388 TATATTTTTGTATATTTTTATAATTTTTAATT
1 TATATTTTTGTAAATTTTTATAATTTTTAATT
58974420 TAT
1 TAT
58974423 TTGTTGACGC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
31 2 0.06
32 24 0.77
33 5 0.16
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (32 bp):
TATATTTTTGTAAATTTTTATAATTTTTAATT
Found at i:58974403 original size:10 final size:10
Alignment explanation
Indices: 58974352--58974416 Score: 51
Period size: 10 Copynumber: 6.2 Consensus size: 10
58974342 TCCCGCTATG
58974352 TATATATATTT
1 TATATAT-TTT
*
58974363 TATGAAATTTT
1 TAT-ATATTTT
*
58974374 TATATTTTATAT
1 TATATATT-T-T
*
58974386 TTTATATTTT
1 TATATATTTT
*
58974396 TGTATATTTT
1 TATATATTTT
58974406 TATA-ATTTT
1 TATATATTTT
58974415 TA
1 TA
58974417 ATTTATTTGT
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
9 7 0.16
10 16 0.36
11 11 0.25
12 10 0.23
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (10 bp):
TATATATTTT
Found at i:58974406 original size:25 final size:24
Alignment explanation
Indices: 58974356--58974414 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 24
58974346 GCTATGTATA
58974356 TATATTTTATGAAATTTTTATATTT
1 TATATTTTAT-AAATTTTTATATTT
*
58974381 TATATTTTAT-ATTTTTGTATATTTT
1 TATATTTTATAAATTTT-TATA-TTT
58974406 TATAATTTT
1 TAT-ATTTT
58974415 TAATTTATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 5 0.17
24 4 0.13
25 16 0.53
26 5 0.17
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (24 bp):
TATATTTTATAAATTTTTATATTT
Found at i:58974413 original size:9 final size:8
Alignment explanation
Indices: 58974369--58974420 Score: 56
Period size: 7 Copynumber: 6.5 Consensus size: 8
58974359 ATTTTATGAA
58974369 ATTTTTAT
1 ATTTTTAT
58974377 A-TTTTAT
1 ATTTTTAT
58974384 A-TTTTAT
1 ATTTTTAT
58974391 ATTTTTGTAT
1 A-TTTT-TAT
58974401 ATTTTTAT
1 ATTTTTAT
58974409 AATTTTTA-
1 -ATTTTTAT
58974417 ATTT
1 ATTT
58974421 ATTTGTTGAC
Statistics
Matches: 40, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
7 18 0.45
8 4 0.10
9 14 0.35
10 4 0.10
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (8 bp):
ATTTTTAT
Found at i:58975654 original size:23 final size:25
Alignment explanation
Indices: 58975617--58975667 Score: 79
Period size: 23 Copynumber: 2.1 Consensus size: 25
58975607 AAATTTAACT
58975617 AAAAAATAAATTAATTAAAGTGAAA
1 AAAAAATAAATTAATTAAAGTGAAA
*
58975642 AAAAAAT-AA-TAATTAAATTGAAA
1 AAAAAATAAATTAATTAAAGTGAAA
58975665 AAA
1 AAA
58975668 TTTATCATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 16 0.64
24 2 0.08
25 7 0.28
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.24
Consensus pattern (25 bp):
AAAAAATAAATTAATTAAAGTGAAA
Found at i:58984754 original size:28 final size:29
Alignment explanation
Indices: 58984700--58984754 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 29
58984690 TAAATACACT
* * *
58984700 TCAAGATTCAAGAGAGAGATGTCCAAACA
1 TCAAGATTCAAGAGAAAAATATCCAAACA
*
58984729 TCAAGATT-AAGAGAAAAATATTCAAA
1 TCAAGATTCAAGAGAAAAATATCCAAA
58984755 TATTTTTTCT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 14 0.64
29 8 0.36
ACGTcount: A:0.51, C:0.13, G:0.16, T:0.20
Consensus pattern (29 bp):
TCAAGATTCAAGAGAAAAATATCCAAACA
Found at i:58990903 original size:2 final size:2
Alignment explanation
Indices: 58990896--58990930 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
58990886 AATAGATTAT
*
58990896 TC TC TC TC TC CC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
58990931 GGTTTATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:58991298 original size:16 final size:17
Alignment explanation
Indices: 58991266--58991305 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
58991256 AATCATTATC
58991266 AAATAATTACTAAAATAA
1 AAATAATTAC-AAAATAA
58991284 AAATAATTA-AAAATAA
1 AAATAATTACAAAATAA
*
58991300 TAATAA
1 AAATAA
58991306 ATGGTAGGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 12 0.57
18 9 0.43
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (17 bp):
AAATAATTACAAAATAA
Found at i:58994726 original size:21 final size:21
Alignment explanation
Indices: 58994702--58994786 Score: 89
Period size: 21 Copynumber: 4.0 Consensus size: 21
58994692 CTAACAAAAA
58994702 CCCGTAAGGGTTGAATAGAAG
1 CCCGTAAGGGTTGAATAGAAG
*
58994723 CCCGTAAGGGTTGAACAGAAG
1 CCCGTAAGGGTTGAATAGAAG
* * * *
58994744 CTCGTAAGAGCTGAATAGAAA
1 CCCGTAAGGGTTGAATAGAAG
* * * *
58994765 CACATAAGGGTTAAATTGAAG
1 CCCGTAAGGGTTGAATAGAAG
58994786 C
1 C
58994787 TCAAAAGAGC
Statistics
Matches: 51, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 51 1.00
ACGTcount: A:0.38, C:0.15, G:0.28, T:0.19
Consensus pattern (21 bp):
CCCGTAAGGGTTGAATAGAAG
Found at i:58994786 original size:42 final size:42
Alignment explanation
Indices: 58994704--58994797 Score: 98
Period size: 42 Copynumber: 2.2 Consensus size: 42
58994694 AACAAAAACC
* * * * * *
58994704 CGTAAGGGTTGAATAGAAGCCCGTAAGGGTTGAACAGAAGCT
1 CGTAAGAGCTGAATAGAAACACATAAGGGTTAAACAGAAGCT
**
58994746 CGTAAGAGCTGAATAGAAACACATAAGGGTTAAATTGAAGCT
1 CGTAAGAGCTGAATAGAAACACATAAGGGTTAAACAGAAGCT
**
58994788 CAAAAGAGCT
1 CGTAAGAGCT
58994798 AAACGGAAAC
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.39, C:0.14, G:0.28, T:0.19
Consensus pattern (42 bp):
CGTAAGAGCTGAATAGAAACACATAAGGGTTAAACAGAAGCT
Found at i:58996338 original size:17 final size:17
Alignment explanation
Indices: 58996316--58996357 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
58996306 TACTATAATG
58996316 GCAAAAGAACGAAGAGT
1 GCAAAAGAACGAAGAGT
*
58996333 GCAAAAGAACGAATAGT
1 GCAAAAGAACGAAGAGT
*
58996350 ACAAAAGA
1 GCAAAAGA
58996358 TGGAGATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.57, C:0.12, G:0.24, T:0.07
Consensus pattern (17 bp):
GCAAAAGAACGAAGAGT
Found at i:58997330 original size:27 final size:27
Alignment explanation
Indices: 58997300--58997353 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
58997290 GCTCGGAACA
58997300 ATCGCTTGCTGACACTAACAAGAAATC
1 ATCGCTTGCTGACACTAACAAGAAATC
*
58997327 ATCGCTTGCTGACATTAACAAGAAATC
1 ATCGCTTGCTGACACTAACAAGAAATC
58997354 TTCACTGCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.24
Consensus pattern (27 bp):
ATCGCTTGCTGACACTAACAAGAAATC
Found at i:59001136 original size:34 final size:34
Alignment explanation
Indices: 59001093--59001162 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
59001083 AATTTAATCA
59001093 TGGATTTGGATATTGGAATAATTTAAATGTATTT
1 TGGATTTGGATATTGGAATAATTTAAATGTATTT
59001127 TGGATTTGGATATTGGAATAATTTAAATGTATTT
1 TGGATTTGGATATTGGAATAATTTAAATGTATTT
59001161 TG
1 TG
59001163 CTGTATGCTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.47
Consensus pattern (34 bp):
TGGATTTGGATATTGGAATAATTTAAATGTATTT
Found at i:59015043 original size:18 final size:17
Alignment explanation
Indices: 59015012--59015059 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
59015002 TATTCTAAAC
*
59015012 ATTTTTTCATAAATTTT
1 ATTTTTTCAAAAATTTT
*
59015029 ATTTTTTCAAAAAATTT
1 ATTTTTTCAAAAATTTT
**
59015046 AAATTTT-AAAAATT
1 ATTTTTTCAAAAATT
59015060 CAAAACAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 6 0.23
17 20 0.77
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTTTCAAAAATTTT
Found at i:59015172 original size:20 final size:20
Alignment explanation
Indices: 59015149--59015217 Score: 58
Period size: 19 Copynumber: 3.5 Consensus size: 20
59015139 TTTTTTAAAA
59015149 TTTAAATACTTTTTTT-ATTT
1 TTTAAATA-TTTTTTTCATTT
*
59015169 TTTATAAT-TTTTTTTCAATT
1 TTTA-AATATTTTTTTCATTT
*
59015189 TTT--ATATTTATTTTGATTT
1 TTTAAATATTT-TTTTCATTT
59015208 TTTAAA-ATTT
1 TTTAAATATTT
59015218 ATATTTACAT
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
17 2 0.05
18 3 0.08
19 17 0.43
20 14 0.35
21 4 0.10
ACGTcount: A:0.26, C:0.03, G:0.01, T:0.70
Consensus pattern (20 bp):
TTTAAATATTTTTTTCATTT
Found at i:59015180 original size:19 final size:19
Alignment explanation
Indices: 59015158--59015217 Score: 68
Period size: 19 Copynumber: 3.1 Consensus size: 19
59015148 ATTTAAATAC
59015158 TTTTTTTATTTTTTATAAT
1 TTTTTTTATTTTTTATAAT
*
59015177 TTTTTTTCAATTTTTAT-AT
1 TTTTTTT-ATTTTTTATAAT
* *
59015196 TTATTTTGATTTTTTAAAAT
1 TT-TTTTTATTTTTTATAAT
59015216 TT
1 TT
59015218 ATATTTACAT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
19 18 0.53
20 16 0.47
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (19 bp):
TTTTTTTATTTTTTATAAT
Found at i:59015218 original size:20 final size:20
Alignment explanation
Indices: 59015160--59015242 Score: 69
Period size: 20 Copynumber: 4.0 Consensus size: 20
59015150 TTAAATACTT
* * *
59015160 TTTTTATTTTTTATAATTTT
1 TTTTCATTTTTTAAAATTTA
* *
59015180 TTTTCAATTTTT-ATATTTA
1 TTTTCATTTTTTAAAATTTA
*
59015199 TTTTGATTTTTTAAAATTTA
1 TTTTCATTTTTTAAAATTTA
*
59015219 TATTTACATATTTTAGAAATTTA
1 T-TTT-CATTTTTTA-AAATTTA
59015242 T
1 T
59015243 AAATTTGTTG
Statistics
Matches: 49, Mismatches: 10, Indels: 5
0.77 0.16 0.08
Matches are distributed among these distances:
19 14 0.29
20 17 0.35
21 3 0.06
22 7 0.14
23 8 0.16
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.66
Consensus pattern (20 bp):
TTTTCATTTTTTAAAATTTA
Found at i:59015911 original size:44 final size:42
Alignment explanation
Indices: 59015850--59015934 Score: 118
Period size: 41 Copynumber: 2.0 Consensus size: 42
59015840 AATCACTTTC
* *
59015850 CCTTTTAAAAACTTTTAAGTCATTTTTTAAAAAAATTGTTTTTTT
1 CCTTTTAAAAACTTTTAAG---TTATTTAAAAAAATAGTTTTTTT
59015895 CCTTTTAAAAAC-TTTAAGTTATTTAAAAAAATAGTTTTTT
1 CCTTTTAAAAACTTTTAAGTTATTTAAAAAAATAGTTTTTT
59015935 AAATTATTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
41 20 0.53
44 6 0.16
45 12 0.32
ACGTcount: A:0.36, C:0.08, G:0.05, T:0.51
Consensus pattern (42 bp):
CCTTTTAAAAACTTTTAAGTTATTTAAAAAAATAGTTTTTTT
Found at i:59016047 original size:9 final size:9
Alignment explanation
Indices: 59016033--59016058 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
59016023 TTAATTTTTG
59016033 AAAATATTT
1 AAAATATTT
59016042 AAAATATTT
1 AAAATATTT
59016051 AAAATATT
1 AAAATATT
59016059 AATCTAGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
AAAATATTT
Found at i:59016559 original size:18 final size:18
Alignment explanation
Indices: 59016536--59016604 Score: 59
Period size: 18 Copynumber: 3.6 Consensus size: 18
59016526 CTTACATTTG
59016536 TTTAAATTAAGAGTTTTT
1 TTTAAATTAAGAGTTTTT
*
59016554 TTTAAA-TAATTACGCTTATTTTT
1 TTTAAATTAA-GA-G----TTTTT
59016577 TTTAAATTAAGAGTTTTT
1 TTTAAATTAAGAGTTTTT
*
59016595 TTTAAGTTAA
1 TTTAAATTAA
59016605 TGTATTATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 14
0.71 0.05 0.24
Matches are distributed among these distances:
17 3 0.07
18 21 0.51
19 1 0.02
22 1 0.02
23 12 0.29
24 3 0.07
ACGTcount: A:0.33, C:0.03, G:0.09, T:0.55
Consensus pattern (18 bp):
TTTAAATTAAGAGTTTTT
Found at i:59016604 original size:23 final size:22
Alignment explanation
Indices: 59016537--59016604 Score: 63
Period size: 20 Copynumber: 3.2 Consensus size: 22
59016527 TTACATTTGT
59016537 TTAAATTAAGAGTTTTTTTTAA
1 TTAAATTAAGAGTTTTTTTTAA
* * *
59016559 AT-AATTACG-CTTATTTTTT--
1 TTAAATTAAGAGTT-TTTTTTAA
59016578 TTAAATTAAGAGTTTTTTTTAA
1 TTAAATTAAGAGTTTTTTTTAA
59016600 GTTAA
1 -TTAA
59016605 TGTATTATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 11
0.67 0.12 0.22
Matches are distributed among these distances:
19 1 0.03
20 14 0.41
21 14 0.41
22 1 0.03
23 4 0.12
ACGTcount: A:0.34, C:0.03, G:0.09, T:0.54
Consensus pattern (22 bp):
TTAAATTAAGAGTTTTTTTTAA
Found at i:59017001 original size:17 final size:18
Alignment explanation
Indices: 59016979--59017015 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
59016969 ATGTCTAAAA
*
59016979 AAGATATTA-TTTATTAT
1 AAGATATCATTTTATTAT
59016996 AAGATATCATTTTATTAT
1 AAGATATCATTTTATTAT
59017014 AA
1 AA
59017016 AATAAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (18 bp):
AAGATATCATTTTATTAT
Found at i:59021572 original size:34 final size:34
Alignment explanation
Indices: 59021526--59021599 Score: 114
Period size: 34 Copynumber: 2.2 Consensus size: 34
59021516 AATGCCACGA
*
59021526 TTCACAACTCAGTATGGAAACACCATACCTACAT
1 TTCACAACTCAGTATGGAAACACCATAACTACAT
*
59021560 TTCACAGA-TCAGTATGGAAATACCATAACTACAT
1 TTCACA-ACTCAGTATGGAAACACCATAACTACAT
59021594 TTCACA
1 TTCACA
59021600 CTTTGCCATG
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
34 36 0.97
35 1 0.03
ACGTcount: A:0.39, C:0.26, G:0.09, T:0.26
Consensus pattern (34 bp):
TTCACAACTCAGTATGGAAACACCATAACTACAT
Found at i:59021684 original size:27 final size:27
Alignment explanation
Indices: 59021667--59021719 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
59021657 TTTACTATGT
* *
59021667 TTGGCACACTATATCACTTTTCCATAA
1 TTGGAACACTATATCACTTTACCATAA
* *
59021694 TTGGAACACTTTATCACTTTGCCATA
1 TTGGAACACTATATCACTTTACCATA
59021720 GTTCAACTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.09, T:0.38
Consensus pattern (27 bp):
TTGGAACACTATATCACTTTACCATAA
Found at i:59021819 original size:33 final size:31
Alignment explanation
Indices: 59021774--59021867 Score: 93
Period size: 33 Copynumber: 2.9 Consensus size: 31
59021764 ATCAGATAAG
*
59021774 TGTAGCTAAAGCTACCACTTATCACTTGTCA
1 TGTAGCTGAAGCTACCACTTATCACTTGTCA
59021805 CTTGTAGCTGAAGCTACCAC-TATTCAC-TGATCA
1 --TGTAGCTGAAGCTACCACTTA-TCACTTG-TCA
* * *
59021838 AGTAGCCGAAGCTACCACTTTTCACATTGT
1 TGTAGCTGAAGCTACCACTTATCAC-TTGT
59021868 ACACACAAGG
Statistics
Matches: 52, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
31 20 0.38
32 6 0.12
33 26 0.50
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.31
Consensus pattern (31 bp):
TGTAGCTGAAGCTACCACTTATCACTTGTCA
Found at i:59021903 original size:32 final size:32
Alignment explanation
Indices: 59021855--59021967 Score: 149
Period size: 33 Copynumber: 3.5 Consensus size: 32
59021845 GAAGCTACCA
59021855 CTTTTCACA-TTGTACACACAAGGTGTACATTTC
1 CTTTTCA-AGTTGTACACACAA-GTGTACATTTC
*
59021888 CTTTTCAAG-TGTACACACAAAGTGTACGTTTC
1 CTTTTCAAGTTGTACACAC-AAGTGTACATTTC
*
59021920 CTTTTTAAGTTGTACACACACAGTGTACATTTC
1 CTTTTCAAGTTGTACACACA-AGTGTACATTTC
*
59021953 CTTTTCTAGTTGTAC
1 CTTTTCAAGTTGTAC
59021968 CTTTTAGGTG
Statistics
Matches: 71, Mismatches: 5, Indels: 8
0.85 0.06 0.10
Matches are distributed among these distances:
32 29 0.41
33 42 0.59
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.39
Consensus pattern (32 bp):
CTTTTCAAGTTGTACACACAAGTGTACATTTC
Found at i:59026412 original size:23 final size:23
Alignment explanation
Indices: 59026369--59026413 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
59026359 ATTCCACATT
**
59026369 CATATATCAATGTCTCACATTTC
1 CATATATCAATAACTCACATTTC
59026392 CATATATCAATAAC-CATCATTT
1 CATATATCAATAACTCA-CATTT
59026414 TTCTTGTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.36, C:0.24, G:0.02, T:0.38
Consensus pattern (23 bp):
CATATATCAATAACTCACATTTC
Found at i:59026671 original size:21 final size:21
Alignment explanation
Indices: 59026647--59026711 Score: 73
Period size: 19 Copynumber: 3.2 Consensus size: 21
59026637 AAGTCTAGGT
59026647 GAAGCACATAAGTGCTAAATG
1 GAAGCACATAAGTGCTAAATG
** *
59026668 GAAGC-CCGAAG-GCTAACT-
1 GAAGCACATAAGTGCTAAATG
*
59026686 GAAGCACATAAGTGCTAAACG
1 GAAGCACATAAGTGCTAAATG
59026707 GAAGC
1 GAAGC
59026712 CCGAAGGCTA
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
18 5 0.15
19 10 0.29
20 9 0.26
21 10 0.29
ACGTcount: A:0.40, C:0.20, G:0.26, T:0.14
Consensus pattern (21 bp):
GAAGCACATAAGTGCTAAATG
Found at i:59026689 original size:39 final size:39
Alignment explanation
Indices: 59026629--59026729 Score: 166
Period size: 39 Copynumber: 2.6 Consensus size: 39
59026619 ATCATGATCT
* ** *
59026629 GAAGCCCGAAGTCTAGGTGAAGCACATAAGTGCTAAATG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
59026668 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
59026707 GAAGCCCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
59026730 TCATCAGAGC
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 58 1.00
ACGTcount: A:0.37, C:0.22, G:0.28, T:0.14
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
Found at i:59029134 original size:62 final size:62
Alignment explanation
Indices: 59029037--59029162 Score: 218
Period size: 62 Copynumber: 2.0 Consensus size: 62
59029027 AAGGCACATA
59029037 TAACTATCTTTCAAAAATTAATGTCTTCTAACACAAAACACACACAGTTGGCATCCCAATTT
1 TAACTATCTTTCAAAAATTAATGTCTTCTAACACAAAACACACACAGTTGGCATCCCAATTT
* *
59029099 TAACTATCTTT-AACAAATTAATGTCTTCTAACACAAAGCACATACAGTTGGCATCCCAATTT
1 TAACTATCTTTCAA-AAATTAATGTCTTCTAACACAAAACACACACAGTTGGCATCCCAATTT
59029161 TA
1 TA
59029163 CTTTCACTAT
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
61 2 0.03
62 59 0.97
ACGTcount: A:0.38, C:0.23, G:0.07, T:0.32
Consensus pattern (62 bp):
TAACTATCTTTCAAAAATTAATGTCTTCTAACACAAAACACACACAGTTGGCATCCCAATTT
Found at i:59053325 original size:21 final size:21
Alignment explanation
Indices: 59053296--59053335 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
59053286 GAGCATTTGG
*
59053296 GAGCAAAATGAG-CAAAAAAC
1 GAGCAAAATCAGACAAAAAAC
59053316 GAGCTAAAATCAGACAAAAA
1 GAGC-AAAATCAGACAAAAA
59053336 GAGTAGATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 7 0.41
22 6 0.35
ACGTcount: A:0.60, C:0.15, G:0.17, T:0.07
Consensus pattern (21 bp):
GAGCAAAATCAGACAAAAAAC
Found at i:59055248 original size:21 final size:21
Alignment explanation
Indices: 59055224--59055300 Score: 136
Period size: 21 Copynumber: 3.7 Consensus size: 21
59055214 AATGGTTAAT
*
59055224 TAAGTTCAAGTGGTAAGACCC
1 TAAGGTCAAGTGGTAAGACCC
*
59055245 TAAGGTCAAGTGATAAGACCC
1 TAAGGTCAAGTGGTAAGACCC
59055266 TAAGGTCAAGTGGTAAGACCC
1 TAAGGTCAAGTGGTAAGACCC
59055287 TAAGGTCAAGTGGT
1 TAAGGTCAAGTGGT
59055301 TTTAGAAAAT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 53 1.00
ACGTcount: A:0.34, C:0.17, G:0.27, T:0.22
Consensus pattern (21 bp):
TAAGGTCAAGTGGTAAGACCC
Found at i:59056992 original size:25 final size:25
Alignment explanation
Indices: 59056964--59057044 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
59056954 AGACCATATG
59056964 TTTTCTCCCTACTTATTGGTTAATT
1 TTTTCTCCCTACTTATTGGTTAATT
* * *** *
59056989 TTTTC-CCATTTAGTTA-TGACCATATG
1 TTTTCTCC--CTACTTATTGGTTA-ATT
59057015 TTTTCTCCCTACTTATTGGTTAATT
1 TTTTCTCCCTACTTATTGGTTAATT
59057040 TTTTC
1 TTTTC
59057045 CCATTTAGTT
Statistics
Matches: 39, Mismatches: 12, Indels: 10
0.64 0.20 0.16
Matches are distributed among these distances:
24 2 0.05
25 20 0.51
26 15 0.38
27 2 0.05
ACGTcount: A:0.17, C:0.20, G:0.09, T:0.54
Consensus pattern (25 bp):
TTTTCTCCCTACTTATTGGTTAATT
Found at i:59057031 original size:51 final size:51
Alignment explanation
Indices: 59056955--59057056 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
59056945 GTACTAGAAA
59056955 GACCATATGTTTTCTCCCTACTTATTGGTTAATTTTTTCCCATTTAGTTAT
1 GACCATATGTTTTCTCCCTACTTATTGGTTAATTTTTTCCCATTTAGTTAT
59057006 GACCATATGTTTTCTCCCTACTTATTGGTTAATTTTTTCCCATTTAGTTAT
1 GACCATATGTTTTCTCCCTACTTATTGGTTAATTTTTTCCCATTTAGTTAT
59057057 CTTTAGCATA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.20, C:0.20, G:0.10, T:0.51
Consensus pattern (51 bp):
GACCATATGTTTTCTCCCTACTTATTGGTTAATTTTTTCCCATTTAGTTAT
Found at i:59062109 original size:17 final size:17
Alignment explanation
Indices: 59062087--59062122 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
59062077 TAATTTAAAA
59062087 TTAATTAAAATAA-ATTT
1 TTAATTAAAA-AATATTT
59062104 TTAATTAAAAAATATTT
1 TTAATTAAAAAATATTT
59062121 TT
1 TT
59062123 GAACCACACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 2 0.11
17 16 0.89
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAATTAAAAAATATTT
Found at i:59067419 original size:18 final size:19
Alignment explanation
Indices: 59067396--59067434 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
59067386 TCTAAGTGGA
59067396 TTCTTTC-CTGGGTATTAT
1 TTCTTTCACTGGGTATTAT
* *
59067414 TTCTTTCATTGGTTATTAT
1 TTCTTTCACTGGGTATTAT
59067433 TT
1 TT
59067435 GATTATTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.13, C:0.13, G:0.13, T:0.62
Consensus pattern (19 bp):
TTCTTTCACTGGGTATTAT
Found at i:59084538 original size:21 final size:21
Alignment explanation
Indices: 59084513--59084562 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
59084503 GTTGTTTAGA
*
59084513 AGGAAGTTGCTACTGCAGAAG
1 AGGAAGTTGCTACTGAAGAAG
*
59084534 AGGAAGTTGTTACTGAAGAAG
1 AGGAAGTTGCTACTGAAGAAG
*
59084555 AAGAAGTT
1 AGGAAGTT
59084563 ACTGAAAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.38, C:0.08, G:0.32, T:0.22
Consensus pattern (21 bp):
AGGAAGTTGCTACTGAAGAAG
Found at i:59084890 original size:17 final size:15
Alignment explanation
Indices: 59084868--59084902 Score: 52
Period size: 17 Copynumber: 2.2 Consensus size: 15
59084858 GATAAAAAAT
59084868 AAAAGAAGGAAGAGAAG
1 AAAAGAAGG-AGA-AAG
59084885 AAAAGAAGGAGAAAG
1 AAAAGAAGGAGAAAG
59084900 AAA
1 AAA
59084903 CATCATGCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 3 0.17
17 9 0.50
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (15 bp):
AAAAGAAGGAGAAAG
Found at i:59088691 original size:2 final size:2
Alignment explanation
Indices: 59088684--59088714 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
59088674 GAGACTAGTC
59088684 AT AT AT 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 AT AT AT A
59088715 CATGTCATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:59089545 original size:23 final size:24
Alignment explanation
Indices: 59089502--59089551 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
59089492 TGTATTAACC
59089502 TCATTTTAACATACATATCACAAA
1 TCATTTTAACATACATATCACAAA
* * *
59089526 TCATTTTCACA-ACATTTCACACA
1 TCATTTTAACATACATATCACAAA
59089549 TCA
1 TCA
59089552 CAAGTATAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.40, C:0.26, G:0.00, T:0.34
Consensus pattern (24 bp):
TCATTTTAACATACATATCACAAA
Found at i:59091443 original size:28 final size:28
Alignment explanation
Indices: 59091411--59091480 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
59091401 ATAGTAAGTC
59091411 CGCACACTTAGTGCT-TA-ATAGTCAAACT
1 CGCACACTTAGTGCTATACA-A-TCAAACT
*
59091439 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
59091467 CGCACACTTAGTGC
1 CGCACACTTAGTGC
59091481 CAATCTCATT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 35 0.90
29 3 0.08
30 1 0.03
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:59094713 original size:40 final size:40
Alignment explanation
Indices: 59094654--59094861 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 40
59094644 CAATTGAATG
* * * *
59094654 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
59094694 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
59094734 ACATCCGGGCTAAGACCTGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
59094774 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
59094814 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
59094854 ATATCCGG
1 ATATCCGG
59094862 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 28, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 140 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:59098904 original size:273 final size:273
Alignment explanation
Indices: 59098403--59098955 Score: 971
Period size: 273 Copynumber: 2.0 Consensus size: 273
59098393 GATAGAGCTC
* * **
59098403 TCAACTTTGCCATCGACTTCCTACTCAAAGCATCAAAAACTACATTTTCCTTGCCAGTATAATAC
1 TCAACTGTGCCATCAACTTCCTACTCAAAGCATCAAAAACTACATTCGCCTTGCCAGTATAATAC
* *
59098468 TCTATCACACAATCATAATCCTTTAACAACTCAATCCAATGTCACTGTCTTAAATTCAACTTCTT
66 TCTAGCACACAATCATAATCCTTTAACAACTCAATCCAATGTCACTGTCTTAAATTCAACTCCTT
*
59098533 TTGGGTAATGAGGTACTTAAGGCTCTTATGATCCATATAGATAACACACCTTTCCCCATACAAAT
131 TTGGGTAATGAGATACTTAAGGCTCTTATGATCCATATAGATAACACACCTTTCCCCATACAAAT
* *
59098598 AATGACGCCAAATCTTGAGTGCAAAAACCACAGCAGCTAACTCCAAATCATGAGTAGGGTTGTTT
196 AATGACGCCAAATCTTAAGTGCAAAAACCACAGCAGCTAACTCCAAATCATGAGTAGGGTAGTTT
59098663 CACCCATGTATCT
261 CACCCATGTATCT
*
59098676 TCAACTGTGCCATCAACTTCCTACTCAAAGCATCAAAAATTACATTCGCCTTGCCAGTATAATAC
1 TCAACTGTGCCATCAACTTCCTACTCAAAGCATCAAAAACTACATTCGCCTTGCCAGTATAATAC
**
59098741 TCTAGCACACAATCATAATCCTTTAACAACTCAATCCAATGTCGTTGTCTTAAATTCAACTCCTT
66 TCTAGCACACAATCATAATCCTTTAACAACTCAATCCAATGTCACTGTCTTAAATTCAACTCCTT
* *
59098806 TTGGGTAATGAGATACTTAAGGCTCTTATGATCTATATAGATAACACACCTTTCCCTATACAAAT
131 TTGGGTAATGAGATACTTAAGGCTCTTATGATCCATATAGATAACACACCTTTCCCCATACAAAT
*
59098871 AATGACGCCAAATCTTAAGTGCAAAACCCACAGCAGCTAACTCCAAATCATGAGTAGGGTAGTTT
196 AATGACGCCAAATCTTAAGTGCAAAAACCACAGCAGCTAACTCCAAATCATGAGTAGGGTAGTTT
59098936 CACCCATGTATCT
261 CACCCATGTATCT
59098949 TCAACTG
1 TCAACTG
59098956 CCTTGAAGCA
Statistics
Matches: 265, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
273 265 1.00
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (273 bp):
TCAACTGTGCCATCAACTTCCTACTCAAAGCATCAAAAACTACATTCGCCTTGCCAGTATAATAC
TCTAGCACACAATCATAATCCTTTAACAACTCAATCCAATGTCACTGTCTTAAATTCAACTCCTT
TTGGGTAATGAGATACTTAAGGCTCTTATGATCCATATAGATAACACACCTTTCCCCATACAAAT
AATGACGCCAAATCTTAAGTGCAAAAACCACAGCAGCTAACTCCAAATCATGAGTAGGGTAGTTT
CACCCATGTATCT
Found at i:59116620 original size:22 final size:22
Alignment explanation
Indices: 59116595--59116639 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
59116585 CTATGAAAGT
59116595 GCAAAACCCGGACCTATTTCTA
1 GCAAAACCCGGACCTATTTCTA
59116617 GCAAAACCCGGACCTATTTCTA
1 GCAAAACCCGGACCTATTTCTA
59116639 G
1 G
59116640 TAAGATTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.22
Consensus pattern (22 bp):
GCAAAACCCGGACCTATTTCTA
Done.