Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 106 of 161
Found at i:33536324 original size:21 final size:19
Alignment explanation
Indices: 33536287--33536361 Score: 114
Period size: 19 Copynumber: 3.8 Consensus size: 19
33536277 AATCATATCT
33536287 TCCAAGATTGCATATCATA
1 TCCAAGATTGCATATCATA
33536306 TCCAAGATTGCATATATCATA
1 TCCAAGATTGC--ATATCATA
*
33536327 TCTAAGATTGCATATCATA
1 TCCAAGATTGCATATCATA
*
33536346 TCTAAGATTGCATATC
1 TCCAAGATTGCATATC
33536362 CTTGAAGATT
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
19 35 0.66
21 18 0.34
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.35
Consensus pattern (19 bp):
TCCAAGATTGCATATCATA
Found at i:33536705 original size:102 final size:102
Alignment explanation
Indices: 33536529--33536735 Score: 414
Period size: 102 Copynumber: 2.0 Consensus size: 102
33536519 CACATACATA
33536529 CTTATTAAATTGAAATAATCTCTTGTACATATCCCTATGTCAATTCAAACAATTAACTCGATTTA
1 CTTATTAAATTGAAATAATCTCTTGTACATATCCCTATGTCAATTCAAACAATTAACTCGATTTA
33536594 ATAAGCAGATAAAAGACTATGTGAGGTAACAAAGTAT
66 ATAAGCAGATAAAAGACTATGTGAGGTAACAAAGTAT
33536631 CTTATTAAATTGAAATAATCTCTTGTACATATCCCTATGTCAATTCAAACAATTAACTCGATTTA
1 CTTATTAAATTGAAATAATCTCTTGTACATATCCCTATGTCAATTCAAACAATTAACTCGATTTA
33536696 ATAAGCAGATAAAAGACTATGTGAGGTAACAAAGTAT
66 ATAAGCAGATAAAAGACTATGTGAGGTAACAAAGTAT
33536733 CTT
1 CTT
33536736 TCCCTTGAAA
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
102 105 1.00
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.33
Consensus pattern (102 bp):
CTTATTAAATTGAAATAATCTCTTGTACATATCCCTATGTCAATTCAAACAATTAACTCGATTTA
ATAAGCAGATAAAAGACTATGTGAGGTAACAAAGTAT
Found at i:33538354 original size:334 final size:334
Alignment explanation
Indices: 33537745--33538412 Score: 1336
Period size: 334 Copynumber: 2.0 Consensus size: 334
33537735 ACTAACGAGG
33537745 ATCATTGGCTTCTTTGCTCTGCTCCTTTGCTGATGGTTCTCCAAGGTGGCCAACCAAGGGTTCTT
1 ATCATTGGCTTCTTTGCTCTGCTCCTTTGCTGATGGTTCTCCAAGGTGGCCAACCAAGGGTTCTT
33537810 TAAGAGGCTAATTTTGCTAAAAATTCTTATGCAAGGAAGATGATAGGCGTGAGAGGGAAAGATAG
66 TAAGAGGCTAATTTTGCTAAAAATTCTTATGCAAGGAAGATGATAGGCGTGAGAGGGAAAGATAG
33537875 CTAAGAGAGTTGAGAGAGGAGAGAATGATGAATGAGTGAGGGATGATTGAAAAAGTGAGAAATGA
131 CTAAGAGAGTTGAGAGAGGAGAGAATGATGAATGAGTGAGGGATGATTGAAAAAGTGAGAAATGA
33537940 GCTCTTATTTATAGGTGAGGCAAGGGAGCTAGTGTACAAAAAAATAGGAGTGTCCATCTTTCGAA
196 GCTCTTATTTATAGGTGAGGCAAGGGAGCTAGTGTACAAAAAAATAGGAGTGTCCATCTTTCGAA
33538005 ACTTCTTCCAAGGATGGCCGGCCATGAATTGAGGAAATGTGGCTGATTTTGCTTGATTCTTGGTC
261 ACTTCTTCCAAGGATGGCCGGCCATGAATTGAGGAAATGTGGCTGATTTTGCTTGATTCTTGGTC
33538070 AATTTGAGT
326 AATTTGAGT
33538079 ATCATTGGCTTCTTTGCTCTGCTCCTTTGCTGATGGTTCTCCAAGGTGGCCAACCAAGGGTTCTT
1 ATCATTGGCTTCTTTGCTCTGCTCCTTTGCTGATGGTTCTCCAAGGTGGCCAACCAAGGGTTCTT
33538144 TAAGAGGCTAATTTTGCTAAAAATTCTTATGCAAGGAAGATGATAGGCGTGAGAGGGAAAGATAG
66 TAAGAGGCTAATTTTGCTAAAAATTCTTATGCAAGGAAGATGATAGGCGTGAGAGGGAAAGATAG
33538209 CTAAGAGAGTTGAGAGAGGAGAGAATGATGAATGAGTGAGGGATGATTGAAAAAGTGAGAAATGA
131 CTAAGAGAGTTGAGAGAGGAGAGAATGATGAATGAGTGAGGGATGATTGAAAAAGTGAGAAATGA
33538274 GCTCTTATTTATAGGTGAGGCAAGGGAGCTAGTGTACAAAAAAATAGGAGTGTCCATCTTTCGAA
196 GCTCTTATTTATAGGTGAGGCAAGGGAGCTAGTGTACAAAAAAATAGGAGTGTCCATCTTTCGAA
33538339 ACTTCTTCCAAGGATGGCCGGCCATGAATTGAGGAAATGTGGCTGATTTTGCTTGATTCTTGGTC
261 ACTTCTTCCAAGGATGGCCGGCCATGAATTGAGGAAATGTGGCTGATTTTGCTTGATTCTTGGTC
33538404 AATTTGAGT
326 AATTTGAGT
33538413 GCCACCATAA
Statistics
Matches: 334, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
334 334 1.00
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.29
Consensus pattern (334 bp):
ATCATTGGCTTCTTTGCTCTGCTCCTTTGCTGATGGTTCTCCAAGGTGGCCAACCAAGGGTTCTT
TAAGAGGCTAATTTTGCTAAAAATTCTTATGCAAGGAAGATGATAGGCGTGAGAGGGAAAGATAG
CTAAGAGAGTTGAGAGAGGAGAGAATGATGAATGAGTGAGGGATGATTGAAAAAGTGAGAAATGA
GCTCTTATTTATAGGTGAGGCAAGGGAGCTAGTGTACAAAAAAATAGGAGTGTCCATCTTTCGAA
ACTTCTTCCAAGGATGGCCGGCCATGAATTGAGGAAATGTGGCTGATTTTGCTTGATTCTTGGTC
AATTTGAGT
Found at i:33539163 original size:24 final size:24
Alignment explanation
Indices: 33539115--33539161 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
33539105 ACTAATCATA
*
33539115 GAGAGAATTGAGGAGGGATATTTG
1 GAGAGAATTGAGGAGGAATATTTG
*
33539139 GAGAGATTTGAGGAGAGAATATT
1 GAGAGAATTGAGGAG-GAATATT
33539162 GGGATTTGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.38, T:0.26
Consensus pattern (24 bp):
GAGAGAATTGAGGAGGAATATTTG
Found at i:33539889 original size:27 final size:27
Alignment explanation
Indices: 33539846--33540245 Score: 426
Period size: 27 Copynumber: 14.9 Consensus size: 27
33539836 CGAGACCCCA
* *
33539846 AAATA-CCTCATAGGGTAAAATGACTG
1 AAATACCCCCATAGGGTAAAATGACCG
*
33539872 AAATACCCCCGTAGGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
* * *
33539899 AAATACCTCCATAGGGTAAAATAATCG
1 AAATACCCCCATAGGGTAAAATGACCG
** *
33539926 AAATACCCTTATAGGGTAAAATGACTG
1 AAATACCCCCATAGGGTAAAATGACCG
*
33539953 AAATACCCCCATAGGGTAAAATGACCA
1 AAATACCCCCATAGGGTAAAATGACCG
* * *
33539980 AAATACCCCCGTAGAGTAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGACCG
* *
33540007 AAATACCCTCATAGGGTAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGACCG
* * **
33540034 AAATACCCCCATAGGATAGAATGACTA
1 AAATACCCCCATAGGGTAAAATGACCG
* * ** *
33540061 AAATACCCCCGTAAGGTAAAACAACCA
1 AAATACCCCCATAGGGTAAAATGACCG
**** * *
33540088 AAATACCATTGTAGGGTAAAATGGCCA
1 AAATACCCCCATAGGGTAAAATGACCG
* *
33540115 AAATACCCCGATAGGGTAAAATGACCA
1 AAATACCCCCATAGGGTAAAATGACCG
* *
33540142 AAATACCCCTATAGGGTAAAATGACCA
1 AAATACCCCCATAGGGTAAAATGACCG
* * * *
33540169 AAATACCCCCGTAAGGTAAAATAACTG
1 AAATACCCCCATAGGGTAAAATGACCG
* *
33540196 AAATACCCCTATA-GGTAGAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
33540222 AAATACCCCCATAGGGTAAAATGA
1 AAATACCCCCATAGGGTAAAATGA
33540246 TTGTTATACC
Statistics
Matches: 309, Mismatches: 63, Indels: 3
0.82 0.17 0.01
Matches are distributed among these distances:
26 27 0.09
27 282 0.91
ACGTcount: A:0.43, C:0.21, G:0.17, T:0.19
Consensus pattern (27 bp):
AAATACCCCCATAGGGTAAAATGACCG
Found at i:33539999 original size:81 final size:81
Alignment explanation
Indices: 33539843--33540243 Score: 475
Period size: 81 Copynumber: 5.0 Consensus size: 81
33539833 CACCGAGACC
* * *
33539843 CCAAAATA-CCTCATAGGGTAAAATGACTGAAATACCCCCGTAGGGTAAAATGACCGAAATACCT
1 CCAAAATACCCTCATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAAATGACCAAAATACCC
33539907 CCATAGGGTAAAATAA
66 CCATAGGGTAAAATAA
* * *
33539923 TCGAAATACCCTTATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAAATGACCAAAATACCC
1 CCAAAATACCCTCATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAAATGACCAAAATACCC
* * *
33539988 CCGTAGAGTAAAATGA
66 CCATAGGGTAAAATAA
* * * * *
33540004 TCGAAATACCCTCATAGGGTAAAATGA-TCGAAATACCCCCATAGGATAGAATGACTAAAATACC
1 CCAAAATACCCTCATAGGGTAAAATGACT-GAAATACCCCCATAGGGTAAAATGACCAAAATACC
* * *
33540068 CCCGTAAGGTAAAACAA
65 CCCATAGGGTAAAATAA
* ** * ** *
33540085 CCAAAATACCATTGTAGGGTAAAATGGCCAAAATACCCCGATAGGGTAAAATGACCAAAATACCC
1 CCAAAATACCCTCATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAAATGACCAAAATACCC
* *
33540150 CTATAGGGTAAAATGA
66 CCATAGGGTAAAATAA
* * * * * * *
33540166 CCAAAATACCCCCGTAAGGTAAAATAACTGAAATACCCCTATA-GGTAGAATGACCGAAATACCC
1 CCAAAATACCCTCATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAAATGACCAAAATACCC
33540230 CCATAGGGTAAAAT
66 CCATAGGGTAAAAT
33540244 GATTGTTATA
Statistics
Matches: 272, Mismatches: 46, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
80 39 0.14
81 233 0.86
ACGTcount: A:0.43, C:0.22, G:0.17, T:0.19
Consensus pattern (81 bp):
CCAAAATACCCTCATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAAATGACCAAAATACCC
CCATAGGGTAAAATAA
Found at i:33540467 original size:26 final size:26
Alignment explanation
Indices: 33540438--33540492 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
33540428 TTTGCCACAT
* *
33540438 ATACTGTTACTGGCAGCTTCGCTGCG
1 ATACTATTACTGGAAGCTTCGCTGCG
*
33540464 ATACTATTACTGGAAGCTTTGCTGCG
1 ATACTATTACTGGAAGCTTCGCTGCG
33540490 ATA
1 ATA
33540493 TTGGTGTGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.33
Consensus pattern (26 bp):
ATACTATTACTGGAAGCTTCGCTGCG
Found at i:33540634 original size:28 final size:28
Alignment explanation
Indices: 33540597--33540715 Score: 168
Period size: 28 Copynumber: 4.3 Consensus size: 28
33540587 CACTGTACTG
33540597 GTTACTGTATTGGGCTAAGGCCCACACT
1 GTTACTGTATTGGGCTAAGGCCCACACT
*
33540625 GTTACTGTATTGGGCTAAGTCCCACACT
1 GTTACTGTATTGGGCTAAGGCCCACACT
* **
33540653 ATTACTGTATTGGGCTAAGAACCACACT
1 GTTACTGTATTGGGCTAAGGCCCACACT
** *
33540681 GTTACTGTATCAGGCTAAGGCCTACACT
1 GTTACTGTATTGGGCTAAGGCCCACACT
33540709 G-TACTGT
1 GTTACTGT
33540716 TACTAAATAG
Statistics
Matches: 81, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
27 6 0.07
28 75 0.93
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (28 bp):
GTTACTGTATTGGGCTAAGGCCCACACT
Found at i:33553238 original size:27 final size:28
Alignment explanation
Indices: 33553179--33553232 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
33553169 AAAATAATTA
*
33553179 AAATTAAATATGTTAATAATTGAAGTGC
1 AAATTAAATATGTTAATAATTAAAGTGC
* *
33553207 AAATTAATTAT-TTTATAATTAAAGTG
1 AAATTAAATATGTTAATAATTAAAGTG
33553233 TGAATTTCGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 13 0.57
28 10 0.43
ACGTcount: A:0.46, C:0.02, G:0.11, T:0.41
Consensus pattern (28 bp):
AAATTAAATATGTTAATAATTAAAGTGC
Found at i:33557342 original size:51 final size:50
Alignment explanation
Indices: 33557212--33557398 Score: 191
Period size: 51 Copynumber: 3.7 Consensus size: 50
33557202 AAAGTGATGG
* * * ** *
33557212 TCACGTGTGTGGTACTATGTGCAGGCTACTACGTGTACTAGA-A-TGATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGT-AT-GA
*
33557262 TCGCATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGCT-TCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAG-TAT-GA
* * * * * *
33557313 TCACGTGTGTAGTACTATGTGAAGACTACTACGTGTATCGGATAGTGATGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGT-ATGA
33557364 TCACATGTGTAGTACTATGTGCAGGCTACTATGTG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGTG
33557399 AACTGGTATC
Statistics
Matches: 113, Mismatches: 19, Indels: 9
0.80 0.13 0.06
Matches are distributed among these distances:
50 37 0.33
51 74 0.65
52 1 0.01
53 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.32
Consensus pattern (50 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGTATGA
Found at i:33557398 original size:102 final size:101
Alignment explanation
Indices: 33557212--33557398 Score: 288
Period size: 102 Copynumber: 1.8 Consensus size: 101
33557202 AAAGTGATGG
* * * *
33557212 TCACGTGTGTGGTACTATGTGCAGGCTACTACGTGTACTAGAATGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGAAGACTACTACGTGTACTAGAATGATAGGTCACATGTGTAGTAC
33557277 TATGTGCAGGCTACTATGTGTACCGGATAGCTTCGA
66 TATGTGCAGGCTACTATGTGTACCGGATAGCTTCGA
*
33557313 TCACGTGTGTAGTACTATGTGAAGACTACTACGTGTA-TCGGATAGTGAT-GGTCACATGTGTAG
1 TCACGTGTGTAGTACTATGTGAAGACTACTACGTGTACT-AGA-A-TGATAGGTCACATGTGTAG
33557376 TACTATGTGCAGGCTACTATGTG
63 TACTATGTGCAGGCTACTATGTG
33557399 AACTGGTATC
Statistics
Matches: 78, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
100 1 0.01
101 36 0.46
102 37 0.47
103 4 0.05
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.32
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGAAGACTACTACGTGTACTAGAATGATAGGTCACATGTGTAGTAC
TATGTGCAGGCTACTATGTGTACCGGATAGCTTCGA
Found at i:33557643 original size:16 final size:16
Alignment explanation
Indices: 33557622--33557653 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
33557612 TGATTGAAAG
*
33557622 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
33557638 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
33557654 GCGACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:33560693 original size:50 final size:50
Alignment explanation
Indices: 33560624--33560811 Score: 268
Period size: 50 Copynumber: 3.7 Consensus size: 50
33560614 GTAAAGAGGT
*
33560624 CCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATGAGAGGA
1 CCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATGAGAAGA
* * *
33560674 CCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAAGT
1 CCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATGAGAAGA
** * * * *
33560724 CCCCCGTAAGACCATGTTTGGGACATGGCATGGGCATCGATATGAGAACA
1 CCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATGAGAAGA
*
33560774 TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 -CCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
33560812 GTTATTATCA
Statistics
Matches: 119, Mismatches: 18, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
50 87 0.73
51 32 0.27
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (50 bp):
CCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATGAGAAGA
Found at i:33560753 original size:100 final size:101
Alignment explanation
Indices: 33560629--33560810 Score: 303
Period size: 100 Copynumber: 1.8 Consensus size: 101
33560619 GAGGTCCCAT
* **
33560629 GTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATGAGAGGA-CCCATGTAAGACCATGTCT
1 GTAAGACCATGTCTGGGACATGGCATGGGCATCGAGATGAGAACATCCCATGTAAGACCATGTCT
33560693 GGGACATGGCGTTGGCACCGAGATGAGAAGTCCCCC
66 GGGACATGGCGTTGGCACCGAGATGAGAAGTCCCCC
* *
33560729 GTAAGACCATGTTTGGGACATGGCATGGGCATCGATATGAGAACATCCCATGTAAGACCATGTCT
1 GTAAGACCATGTCTGGGACATGGCATGGGCATCGAGATGAGAACATCCCATGTAAGACCATGTCT
*
33560794 GGGACATGGCTTTGGCA
66 GGGACATGGCGTTGGCA
33560811 TGTTATTATC
Statistics
Matches: 75, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
100 40 0.53
101 35 0.47
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.21
Consensus pattern (101 bp):
GTAAGACCATGTCTGGGACATGGCATGGGCATCGAGATGAGAACATCCCATGTAAGACCATGTCT
GGGACATGGCGTTGGCACCGAGATGAGAAGTCCCCC
Found at i:33570303 original size:278 final size:281
Alignment explanation
Indices: 33569806--33570361 Score: 1010
Period size: 278 Copynumber: 2.0 Consensus size: 281
33569796 AAACTTTGGG
* *
33569806 GCAAAAGCATAATTATGTAAAAGTGTAGTGGCAAAATTGTAATTTTTCCAAAGTTAGAGTCGAGG
1 GCAAAAGCATAATTATGTAAAAGTGTAGGGGCAAAATCGTAATTTTTCCAAAGTTAGAGTCGAGG
*
33569871 GCTGTTTTGATAAATGTGAGTTTTAAATGAGTTAAATTTTCTATTTTAGATCAAGAAGAACGAAA
66 GCTGTTTTGATAAATGTGAGTATTAAATGAGTTAAATTTTCTATTTTAGATCAAGAAGAACGAAA
* *
33569936 TTCGGAGTTAGACTGGGGAAAGAAAAAGATAGAGGACTAAGTTGGTAGATTTGGTCAAATTTTGT
131 TTCAGAGTTAGACCGGGGAAAGAAAAAGATAGAGGACTAAGTTGGTAGATTTGGTCAAATTTTGT
*
33570001 ACCGAGGTAAGTTTACGGTAAATAAATACAATATTTCAATAA-T-T-ATTATTTTTATTTTCCAG
196 ACCGAGGTAAGTTTACGGTAAATAAATACAATATTTCAATAATTATGATTATTGTTATTTTCCAG
33570063 CAATTATGCATTTATTTTCCC
261 CAATTATGCATTTATTTTCCC
33570084 GCAAAAGCATAATTATGTAAAAGTGTAGGGGCAAAATCGTAATTTTTCCAAAGTTAGAGTCGAGG
1 GCAAAAGCATAATTATGTAAAAGTGTAGGGGCAAAATCGTAATTTTTCCAAAGTTAGAGTCGAGG
*
33570149 GCTGTTTTGATAAATGTGAGTATTAAATGAGTTAAATTTTCTATTTTATATCAAGAAGAACGAAA
66 GCTGTTTTGATAAATGTGAGTATTAAATGAGTTAAATTTTCTATTTTAGATCAAGAAGAACGAAA
* *
33570214 TTTAGAGTTAGACCGGGGAAAGAAATAGATAGAGGACTAAGTTGGTAGATTTGGTCAAATTTTGT
131 TTCAGAGTTAGACCGGGGAAAGAAAAAGATAGAGGACTAAGTTGGTAGATTTGGTCAAATTTTGT
33570279 ACCGAGGTAAGTTTACGGTAAATAAATACAATATTTCAATAATTATGATTATTGTTATTTTCCAG
196 ACCGAGGTAAGTTTACGGTAAATAAATACAATATTTCAATAATTATGATTATTGTTATTTTCCAG
33570344 CAATTATGCATTTATTTT
261 CAATTATGCATTTATTTT
33570362 ATGAATTTAT
Statistics
Matches: 266, Mismatches: 9, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
278 229 0.86
279 1 0.00
280 1 0.00
281 35 0.13
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.35
Consensus pattern (281 bp):
GCAAAAGCATAATTATGTAAAAGTGTAGGGGCAAAATCGTAATTTTTCCAAAGTTAGAGTCGAGG
GCTGTTTTGATAAATGTGAGTATTAAATGAGTTAAATTTTCTATTTTAGATCAAGAAGAACGAAA
TTCAGAGTTAGACCGGGGAAAGAAAAAGATAGAGGACTAAGTTGGTAGATTTGGTCAAATTTTGT
ACCGAGGTAAGTTTACGGTAAATAAATACAATATTTCAATAATTATGATTATTGTTATTTTCCAG
CAATTATGCATTTATTTTCCC
Found at i:33574399 original size:15 final size:15
Alignment explanation
Indices: 33574381--33574411 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
33574371 GTTATGTAAG
33574381 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
*
33574396 TGAAAGGTCAGGAGT
1 TGAAAGGTCAAGAGT
33574411 T
1 T
33574412 ATGTTGTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.06, G:0.35, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:33578750 original size:15 final size:15
Alignment explanation
Indices: 33578732--33578762 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
33578722 GTTATGTAAG
33578732 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
33578747 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
33578762 T
1 T
33578763 ATGTTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:33579370 original size:10 final size:10
Alignment explanation
Indices: 33579351--33579379 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
33579341 CAAACTACCC
33579351 AAAA-TAAAA
1 AAAACTAAAA
33579360 AAAACTAAAA
1 AAAACTAAAA
33579370 AAAACTAAAA
1 AAAACTAAAA
33579380 TGGAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.21
10 15 0.79
ACGTcount: A:0.83, C:0.07, G:0.00, T:0.10
Consensus pattern (10 bp):
AAAACTAAAA
Found at i:33580817 original size:114 final size:114
Alignment explanation
Indices: 33580439--33581226 Score: 884
Period size: 114 Copynumber: 6.9 Consensus size: 114
33580429 GTTTACTATC
* * * * * * *
33580439 AAGCGCCACAAAATCTCTTAACCAAAATGTAGCGTTTTGGTCTAGATGTATACTAGAATTAGTGG
1 AAGCGCCGCAAAATATCTTAACCAAAATGCAGAG-TTTGGTCTTGAGGTATATTAGAATTAGTGG
* * * ** * *
33580504 CGATTATAGGAAAACGCCGCTAAAG-AAAGTATTAGCATCG-ATCGCCAA
65 CGCTTATGGGAAAACGCCGCTAAAGCATAGTATTAGCGGCGTGTCGTCAA
* * * * *
33580552 ACGCGCCGCAACATATCTTAACCAAAATGCAGAGTTTGGTCTTTATGTATATTAGAATTAGTGGT
1 AAGCGCCGCAAAATATCTTAACCAAAATGCAGAGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
* ** * * *
33580617 GCATATGAAAAAACGCCGCTAAAGCA-AGTATTAGCAGCGAT-TTGTGAA
66 GCTTATGGGAAAACGCCGCTAAAGCATAGTATTAGCGGCG-TGTCGTCAA
* *
33580665 AAGCGCCGCAAAATATATTAACCAAAATGCAGATTTTGGTCTTGAGGTATATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAATGCAGAGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
* * * * *
33580730 GCTTATGGGAAAATGCCGCTAACGCATAGTATTAGTGGCGTGTTGTAAA
66 GCTTATGGGAAAACGCCGCTAAAGCATAGTATTAGCGGCGTGTCGTCAA
* * * * *
33580779 AAGCGCCACAACATATCTTAACCAAAATGCAAAGTTTGGTCTTGAGGTATACTAGAATTAGTAGC
1 AAGCGCCGCAAAATATCTTAACCAAAATGCAGAGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
* *
33580844 GCTTATTGGAAAACGCCGCTAAAGCATAGTATTAGCGGCGCGTCGTCAA
66 GCTTATGGGAAAACGCCGCTAAAGCATAGTATTAGCGGCGTGTCGTCAA
* *
33580893 AAGCGCCGCAACATATCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAATGCAGAGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
** * * * *
33580958 GCTTATTCGAAAATGCCGCTAATGCATAGTATTAGCGGCGCGTCGTCAG
66 GCTTATGGGAAAACGCCGCTAAAGCATAGTATTAGCGGCGTGTCGTCAA
* *
33581007 AAGCGCCGCAAAATATCTTAACCAAAACGTAGAGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAATGCAGAGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
* * * * **
33581072 ACTTATGGGAAAACGCCGCTAATGCATAGTATTAGTGGCGCT-TGGTGGA
66 GCTTATGGGAAAACGCCGCTAAAGCATAGTATTAGCGGCG-TGTCGTCAA
* * * * * * * * *
33581121 AAGCGCCGCAAAATATATTAACAAAAACGCAGCGATTTGGACTTGATGTATACTAGCAGTAGTGG
1 AAGCGCCGCAAAATATCTTAACCAAAATGCAGAG-TTTGGTCTTGAGGTATATTAGAATTAGTGG
* * * * *
33581186 CGCTTACGGGAAAACACCGCGAAAACATATTATTAGCGGCG
65 CGCTTATGGGAAAACGCCGCTAAAGCATAGTATTAGCGGCG
33581227 CGTTTTGGGA
Statistics
Matches: 582, Mismatches: 86, Indels: 12
0.86 0.13 0.02
Matches are distributed among these distances:
112 58 0.10
113 113 0.19
114 353 0.61
115 58 0.10
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (114 bp):
AAGCGCCGCAAAATATCTTAACCAAAATGCAGAGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
GCTTATGGGAAAACGCCGCTAAAGCATAGTATTAGCGGCGTGTCGTCAA
Found at i:33581071 original size:342 final size:342
Alignment explanation
Indices: 33580439--33581229 Score: 1032
Period size: 342 Copynumber: 2.3 Consensus size: 342
33580429 GTTTACTATC
* * * *
33580439 AAGCGCCACAAAATCTCTTAACCAAAATGTAGCGTTTTGGTCTAGATGTATACTAGAATTAGTGG
1 AAGCGCCACAAAATATCTTAACCAAAATGCAGCGATTTGGTCTTGATGTATACTAGAATTAGTGG
* * ** * *
33580504 CGATTATAGGAAAACGCCGCTAAAG-AAAGTATTAGCATCG-ATCGCCAAACGCGCCGCAACATA
66 CGCTTATAGGAAAACGCCGCTAAAGCATAGTATTAGCGGCGCGTCGCCAAAAGCGCCGCAACATA
* * * *
33580567 TCTTAACCAAAATGCAGAGTTTGGTCTTTATGTATATTAGAATTAGTGGTGCATATGAAAAAACG
131 TCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCATATGAAAAAACG
* * * *
33580632 CCGCTAAAGCAAGTATTAGCAGCGATTTGTGAAAAGCGCCGCAAAATATATTAACCAAAATGCAG
196 CCGCTAAAGCAAGTATTAGCAGCGAGTCGTCAAAAGCGCCGCAAAATATATTAACCAAAACGCAG
* * *
33580697 ATTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGGGAAAATGCCGCTAACGCATAGTAT
261 AGTTTGGTCTTGAGGTATATTAGAATTAGTGGCACTTATGGGAAAACGCCGCTAACGCATAGTAT
*
33580762 TAGTGGCG-TGTTGTAAA
326 TAGTGGCGCT-TGGTAAA
* ** * *
33580779 AAGCGCCACAACATATCTTAACCAAAATGCAAAG-TTTGGTCTTGAGGTATACTAGAATTAGTAG
1 AAGCGCCACAAAATATCTTAACCAAAATGCAGCGATTTGGTCTTGATGTATACTAGAATTAGTGG
* *
33580843 CGCTTATTGGAAAACGCCGCTAAAGCATAGTATTAGCGGCGCGTCGTCAAAAGCGCCGCAACATA
66 CGCTTATAGGAAAACGCCGCTAAAGCATAGTATTAGCGGCGCGTCGCCAAAAGCGCCGCAACATA
* *** *
33580908 TCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATTCGAAAATG
131 TCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCATATGAAAAAACG
* * * * * *
33580973 CCGCTAATGCATAGTATTAGCGGCGCGTCGTCAGAAGCGCCGCAAAATATCTTAACCAAAACGTA
196 CCGCTAAAGCA-AGTATTAGCAGCGAGTCGTCAAAAGCGCCGCAAAATATATTAACCAAAACGCA
*
33581038 GAGTTTGGTCTTGAGGTATATTAGAATTAGTGGCACTTATGGGAAAACGCCGCTAATGCATAGTA
260 GAGTTTGGTCTTGAGGTATATTAGAATTAGTGGCACTTATGGGAAAACGCCGCTAACGCATAGTA
**
33581103 TTAGTGGCGCTTGGTGGA
325 TTAGTGGCGCTTGGTAAA
* * * * * * *
33581121 AAGCGCCGCAAAATATATTAACAAAAACGCAGCGATTTGGACTTGATGTATACTAGCAGTAGTGG
1 AAGCGCCACAAAATATCTTAACCAAAATGCAGCGATTTGGTCTTGATGTATACTAGAATTAGTGG
** * * * *
33581186 CGCTTACGGGAAAACACCGCGAAAACATATTATTAGCGGCGCGT
66 CGCTTATAGGAAAACGCCGCTAAAGCATAGTATTAGCGGCGCGT
33581230 TTTGGGAAGC
Statistics
Matches: 386, Mismatches: 60, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
339 50 0.13
340 41 0.11
341 86 0.22
342 145 0.38
343 64 0.17
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (342 bp):
AAGCGCCACAAAATATCTTAACCAAAATGCAGCGATTTGGTCTTGATGTATACTAGAATTAGTGG
CGCTTATAGGAAAACGCCGCTAAAGCATAGTATTAGCGGCGCGTCGCCAAAAGCGCCGCAACATA
TCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCATATGAAAAAACG
CCGCTAAAGCAAGTATTAGCAGCGAGTCGTCAAAAGCGCCGCAAAATATATTAACCAAAACGCAG
AGTTTGGTCTTGAGGTATATTAGAATTAGTGGCACTTATGGGAAAACGCCGCTAACGCATAGTAT
TAGTGGCGCTTGGTAAA
Found at i:33581343 original size:49 final size:47
Alignment explanation
Indices: 33581290--33581401 Score: 118
Period size: 49 Copynumber: 2.3 Consensus size: 47
33581280 GTTTGTCATA
** *
33581290 TTTGGTTTAGGTTTAGGGTATTAGGGTTCATTATATAATGTTTATTATT
1 TTTGGTTTAGGTTTAGGGT-TTAGGGTTCACGATATAA-GTTTAGTATT
* * *
33581339 TTTGGATTGTA-GTTTAGGGTTTAGGGTTTACGATGTAAGTTTAGTGTT
1 TTTGG-TT-TAGGTTTAGGGTTTAGGGTTCACGATATAAGTTTAGTATT
33581387 TTTGGTTTAAGGTTT
1 TTTGGTTT-AGGTTT
33581402 GGGAGTTTGT
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
46 1 0.02
47 3 0.06
48 17 0.32
49 19 0.36
50 11 0.21
51 2 0.04
ACGTcount: A:0.20, C:0.02, G:0.27, T:0.52
Consensus pattern (47 bp):
TTTGGTTTAGGTTTAGGGTTTAGGGTTCACGATATAAGTTTAGTATT
Found at i:33581568 original size:7 final size:7
Alignment explanation
Indices: 33581553--33581594 Score: 57
Period size: 7 Copynumber: 6.0 Consensus size: 7
33581543 TGGTTTTGGT
*
33581553 GTTTTGG
1 GTTTAGG
33581560 GTTTAGG
1 GTTTAGG
*
33581567 GTTTAAG
1 GTTTAGG
*
33581574 GTTTGGG
1 GTTTAGG
33581581 GTTTAGG
1 GTTTAGG
33581588 GTTTAGG
1 GTTTAGG
33581595 CCACTTTAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.12, C:0.00, G:0.43, T:0.45
Consensus pattern (7 bp):
GTTTAGG
Found at i:33581582 original size:21 final size:21
Alignment explanation
Indices: 33581553--33581592 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
33581543 TGGTTTTGGT
*
33581553 GTTTTGGGTTTAGGGTTTAAG
1 GTTTGGGGTTTAGGGTTTAAG
33581574 GTTTGGGGTTTAGGGTTTA
1 GTTTGGGGTTTAGGGTTTA
33581593 GGCCACTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.40, T:0.47
Consensus pattern (21 bp):
GTTTGGGGTTTAGGGTTTAAG
Found at i:33582949 original size:6 final size:6
Alignment explanation
Indices: 33582935--33582966 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
33582925 AACTACTGCA
*
33582935 TCACTG TCACCG TCACCG TCACCG TCACCG TC
1 TCACCG TCACCG TCACCG TCACCG TCACCG TC
33582967 GCTCTCTGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.47, G:0.16, T:0.22
Consensus pattern (6 bp):
TCACCG
Found at i:33584064 original size:35 final size:35
Alignment explanation
Indices: 33584001--33584067 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
33583991 AATTTTAGAT
** *
33584001 TATTAAGAATAAAATTATATGTGGAAGTGTATTTA
1 TATTAAGAATAAAATTATATCCGAAAGTGTATTTA
33584036 TATTAAGAATAAAATTATATCCGAAAGTGTAT
1 TATTAAGAATAAAATTATATCCGAAAGTGTAT
33584068 ATAAATTCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.45, C:0.03, G:0.15, T:0.37
Consensus pattern (35 bp):
TATTAAGAATAAAATTATATCCGAAAGTGTATTTA
Found at i:33584842 original size:9 final size:9
Alignment explanation
Indices: 33584752--33585077 Score: 231
Period size: 9 Copynumber: 37.3 Consensus size: 9
33584742 GTACATAGCA
*
33584752 TACATAGCT
1 TACATAACT
33584761 TACATAA--
1 TACATAACT
*
33584768 TACAAAACT
1 TACATAACT
33584777 TACATAACT
1 TACATAACT
* *
33584786 TAAATATCT
1 TACATAACT
*
33584795 TACACAACT
1 TACATAACT
* *
33584804 TGCATAACC
1 TACATAACT
33584813 TACATAA--
1 TACATAACT
33584820 TACATTTAACT
1 TACA--TAACT
*
33584831 TACATTACT
1 TACATAACT
33584840 TACATAACT
1 TACATAACT
33584849 TACATAA--
1 TACATAACT
*
33584856 TACAAAACT
1 TACATAACT
33584865 TACATAACT
1 TACATAACT
* *
33584874 TAAATATCT
1 TACATAACT
*
33584883 TAC-TCAAAT
1 TACAT-AACT
*
33584892 TACATAACC
1 TACATAACT
33584901 TACATAA--
1 TACATAACT
33584908 TACATTTAACT
1 TACA--TAACT
33584919 TACATAACT
1 TACATAACT
33584928 TACATAACT
1 TACATAACT
*
33584937 TACATAATACA
1 TACAT-A-ACT
33584948 TA-ATAACT
1 TACATAACT
33584956 TAC--AACT
1 TACATAACT
* *
33584963 TATATAACA
1 TACATAACT
*
33584972 TACATTACT
1 TACATAACT
**
33584981 TTGATAACT
1 TACATAACT
33584990 TACATAACT
1 TACATAACT
33584999 TACATAA--
1 TACATAACT
*
33585006 TACACAACT
1 TACATAACT
*
33585015 TACATAGCT
1 TACATAACT
*
33585024 TACTTAA--
1 TACATAACT
33585031 TACATAACT
1 TACATAACT
33585040 TACATAACT
1 TACATAACT
33585049 T--AT-ACT
1 TACATAACT
33585055 CATACATAACT
1 --TACATAACT
*
33585066 TACATAATT
1 TACATAACT
33585075 TAC
1 TAC
33585078 TTAATACATA
Statistics
Matches: 247, Mismatches: 42, Indels: 56
0.72 0.12 0.16
Matches are distributed among these distances:
6 3 0.01
7 40 0.16
8 6 0.02
9 177 0.72
10 6 0.02
11 15 0.06
ACGTcount: A:0.44, C:0.21, G:0.01, T:0.34
Consensus pattern (9 bp):
TACATAACT
Found at i:33584844 original size:88 final size:88
Alignment explanation
Indices: 33584743--33585050 Score: 360
Period size: 88 Copynumber: 3.5 Consensus size: 88
33584733 ACTTACATAG
* * *
33584743 TACATAGCATACATAGCTTACATAATACAAAACTTACATAACTTAAATATCTTACACAACTTGCA
1 TACATAACTTACATAACTTACATAATACAAAACTTACATAACTTAAATATCTTACACAACTTGCA
33584808 TAACCTACATAATACATTTAACT
66 TAACCTACATAATACATTTAACT
* * * *
33584831 TACATTACTTACATAACTTACATAATACAAAACTTACATAACTTAAATATCTTACTCAAATTACA
1 TACATAACTTACATAACTTACATAATACAAAACTTACATAACTTAAATATCTTACACAACTTGCA
33584896 TAACCTACATAATACATTTAACT
66 TAACCTACATAATACATTTAACT
* * * **
33584919 TACATAACTTACATAACTTACATAATACATAATAACTTAC--AACTTATATAACATACATTACTT
1 TACATAACTTACATAACTTACATAATAC--AA-AACTTACATAACTTAAATATCTTACACAAC-T
*
33584982 TG-ATAACTTACATAACTTACA--TAA--
62 TGCATAACCTACATAA--TACATTTAACT
* * * *
33585006 TACACAACTTACATAGCTTACTTAATACATAACTTACATAACTTA
1 TACATAACTTACATAACTTACATAATACAAAACTTACATAACTTA
33585051 TACTCATACA
Statistics
Matches: 191, Mismatches: 21, Indels: 18
0.83 0.09 0.08
Matches are distributed among these distances:
84 7 0.04
85 1 0.01
86 6 0.03
87 25 0.13
88 108 0.57
89 29 0.15
90 4 0.02
91 11 0.06
ACGTcount: A:0.45, C:0.20, G:0.02, T:0.33
Consensus pattern (88 bp):
TACATAACTTACATAACTTACATAATACAAAACTTACATAACTTAAATATCTTACACAACTTGCA
TAACCTACATAATACATTTAACT
Found at i:33589605 original size:21 final size:21
Alignment explanation
Indices: 33589579--33589647 Score: 111
Period size: 21 Copynumber: 3.3 Consensus size: 21
33589569 CTACAACTTA
* *
33589579 AAGCAGAGGCTGCAGCGAGGG
1 AAGCAGAGGCTGCAACGAGAG
*
33589600 AAGCAGAGGCTACAACGAGAG
1 AAGCAGAGGCTGCAACGAGAG
33589621 AAGCAGAGGCTGCAACGAGAG
1 AAGCAGAGGCTGCAACGAGAG
33589642 AAGCAG
1 AAGCAG
33589648 CGAGAGAAGC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.38, C:0.19, G:0.39, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCTGCAACGAGAG
Found at i:33590128 original size:43 final size:42
Alignment explanation
Indices: 33590052--33590301 Score: 238
Period size: 42 Copynumber: 5.9 Consensus size: 42
33590042 TTTTTTATAA
* * * * **
33590052 AAGCGCCGCTAAA-AGTCATGTTCTATAGCGGCGTTTGTAGTGA
1 AAGCGCCGCTAAAGA-ACATGATCTTTAGCGGCGTTT-TTGTCT
* * *
33590095 AAGCACCGCTAAAGAACATGAT-TTGTAGTGGCGTTTTTGTTT
1 AAGCGCCGCTAAAGAACATGATCTT-TAGCGGCGTTTTTGTCT
*
33590137 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTTTTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGT-TTTTGTCT
* *
33590180 AAGCGCCGCTAAAGAACATGATCTTTAGCTGCGTCTTTT-TTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGT-TTTTGTCT
* * *
33590222 AAGCGCAGCTAAAGGACATGATCTTTAGCGGCGTTTTT-TTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTGTCT
* * * * *
33590263 GTAGCGCTGCTAAAGAACATGACCTTTAACGACGTTTTT
1 -AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT
33590302 TTCTGTAAAC
Statistics
Matches: 179, Mismatches: 23, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
41 7 0.04
42 98 0.55
43 73 0.41
44 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTGTCT
Found at i:33590150 original size:42 final size:42
Alignment explanation
Indices: 33590095--33590303 Score: 264
Period size: 42 Copynumber: 5.0 Consensus size: 42
33590085 TTTGTAGTGA
* *
33590095 AAGCACCGCTAAAGAACATGAT-TTGTAGTGGCGT-TTTTGTTT
1 AAGCGCCGCTAAAGAACATGATCTT-TAGCGGCGTCTTTT-TTT
33590137 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTTTTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTTTTT-T
*
33590180 AAGCGCCGCTAAAGAACATGATCTTTAGCTGCGTCTTTTTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTTTTTT
* *
33590222 AAGCGCAGCTAAAGGACATGATCTTTAGCGGCGT-TTTTTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTTTTTT
* * * * *
33590263 GTAGCGCTGCTAAAGAACATGACCTTTAACGACGT-TTTTTT
1 -AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTTTTT
33590304 CTGTAAACGC
Statistics
Matches: 151, Mismatches: 12, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
41 7 0.05
42 97 0.64
43 47 0.31
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTTTTTT
Found at i:33590189 original size:85 final size:85
Alignment explanation
Indices: 33590095--33590290 Score: 274
Period size: 85 Copynumber: 2.3 Consensus size: 85
33590085 TTTGTAGTGA
* *
33590095 AAGCACCGCTAAAGAACATGAT-TTGTAG-TGGCGT-TTTTGTTTAAGCGCCGCTAAAGAACATG
1 AAGCGCCGCTAAAGAACATGATCTT-TAGCT-GCGTCTTTT-TTTAAGCGCAGCTAAAGAACATG
33590157 ATCTTTAGCGGCGTCTTTTTTCT
63 ATCTTTAGCGGCGTCTTTTTTCT
*
33590180 AAGCGCCGCTAAAGAACATGATCTTTAGCTGCGTCTTTTTTTAAGCGCAGCTAAAGGACATGATC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCTGCGTCTTTTTTTAAGCGCAGCTAAAGAACATGATC
* *
33590245 TTTAGCGGCGTTTTTTTTGT
66 TTTAGCGGCGTCTTTTTTCT
* *
33590265 -AGCGCTGCTAAAGAACATGACCTTTA
1 AAGCGCCGCTAAAGAACATGATCTTTA
33590291 ACGACGTTTT
Statistics
Matches: 101, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
84 24 0.24
85 70 0.69
86 7 0.07
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (85 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCTGCGTCTTTTTTTAAGCGCAGCTAAAGAACATGATC
TTTAGCGGCGTCTTTTTTCT
Found at i:33594527 original size:49 final size:49
Alignment explanation
Indices: 33594404--33594634 Score: 272
Period size: 50 Copynumber: 4.7 Consensus size: 49
33594394 TAAGGGAATG
* *
33594404 AAATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAT
1 AAATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CGACAAGAT
* * * *
33594454 AACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA-GTACAAGA-
1 AAATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACG-ACAAGAT
* *
33594502 AAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAT
1 AA-ATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CGACAAGAT
* * * *
33594553 AACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA-GTACAAGA-
1 AAATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACG-ACAAGAT
33594601 AAGATCCCATGTAAGACCATGTCTGGGACATGGC
1 AA-ATCCCATGTAAGACCATGTCTGGGACATGGC
33594635 TTTGACATCT
Statistics
Matches: 153, Mismatches: 21, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
48 6 0.04
49 70 0.46
50 74 0.48
51 3 0.02
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (49 bp):
AAATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACGACAAGAT
Found at i:33594534 original size:99 final size:99
Alignment explanation
Indices: 33594406--33594634 Score: 458
Period size: 99 Copynumber: 2.3 Consensus size: 99
33594396 AGGGAATGAA
33594406 ATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGATAACTCCCATGTAAGACC
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGATAACTCCCATGTAAGACC
33594471 ATATCTGGGATATGGCATTGGCAGTACAAGAAAG
66 ATATCTGGGATATGGCATTGGCAGTACAAGAAAG
33594505 ATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGATAACTCCCATGTAAGACC
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGATAACTCCCATGTAAGACC
33594570 ATATCTGGGATATGGCATTGGCAGTACAAGAAAG
66 ATATCTGGGATATGGCATTGGCAGTACAAGAAAG
33594604 ATCCCATGTAAGACCATGTCTGGGACATGGC
1 ATCCCATGTAAGACCATGTCTGGGACATGGC
33594635 TTTGACATCT
Statistics
Matches: 130, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 130 1.00
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (99 bp):
ATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGATAACTCCCATGTAAGACC
ATATCTGGGATATGGCATTGGCAGTACAAGAAAG
Found at i:33600863 original size:30 final size:30
Alignment explanation
Indices: 33600819--33600877 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
33600809 TCCGAGCTTT
33600819 GGGGAAAAAGTGTAAATATGCAAAAGTTTA
1 GGGGAAAAAGTGTAAATATGCAAAAGTTTA
* * *
33600849 GGGGTAAAAA-TGTAATTTTGCCAAAGTTT
1 GGGG-AAAAAGTGTAAATATGCAAAAGTTT
33600878 GAGTCAATGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.41, C:0.05, G:0.25, T:0.29
Consensus pattern (30 bp):
GGGGAAAAAGTGTAAATATGCAAAAGTTTA
Found at i:33608436 original size:50 final size:50
Alignment explanation
Indices: 33608371--33608544 Score: 240
Period size: 50 Copynumber: 3.5 Consensus size: 50
33608361 CATTGAGGTT
33608371 ATGAGAGGTCCCATGTAAGACCATGTTTGGGACATAGCATTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTTTGGGACATAGCATTGGCACCGAG
* * * *
33608421 ATAAGAGGTCTCATGTAAGACCATGTTTGGGACATGGGATTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTTTGGGACATAGCATTGGCACCGAG
* ** * * *
33608471 ATGGGAGGTCCCCCGTAAGACCATGTCTGGGACATAGCATGGGCACCGAT
1 ATGAGAGGTCCCATGTAAGACCATGTTTGGGACATAGCATTGGCACCGAG
**
33608521 ATGAGAACTCCCATGTAAGACCAT
1 ATGAGAGGTCCCATGTAAGACCAT
33608545 ATCTAGGATA
Statistics
Matches: 105, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 105 1.00
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.21
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTTTGGGACATAGCATTGGCACCGAG
Found at i:33608564 original size:100 final size:104
Alignment explanation
Indices: 33608323--33608565 Score: 271
Period size: 100 Copynumber: 2.4 Consensus size: 104
33608313 GGTAAAGAGA
* * * *
33608323 TCCCATGTAAGACCATCTCTAGGACATGGCATTGGCATCATTGAGGTTATGAGAGGTCCCATGTA
1 TCCCATGTAAGACCATATCTAGGACATGGCGTTGGCATCA-CGAGG-TATGAGAGGTCCCACGTA
* * **
33608388 AGACCATGTTTGGGACATAGCATTGGCACCGAGATAAGAGG
64 AGACCATGTCTGGGACATAGCATGGGCACCGAGATAAGAAC
* * * * * *
33608429 TCTCATGTAAGACCATGTTTGGGACATGG-GATTGGCA-C-CGA-G-ATGGGAGGTCCCCCGTAA
1 TCCCATGTAAGACCATATCTAGGACATGGCG-TTGGCATCACGAGGTATGAGAGGTCCCACGTAA
* *
33608489 GACCATGTCTGGGACATAGCATGGGCACCGATATGAGAAC
65 GACCATGTCTGGGACATAGCATGGGCACCGAGATAAGAAC
*
33608529 TCCCATGTAAGACCATATCTAGGATATGGCGTTGGCA
1 TCCCATGTAAGACCATATCTAGGACATGGCGTTGGCA
33608566 GTAAATGAAA
Statistics
Matches: 115, Mismatches: 20, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
100 79 0.69
101 1 0.01
102 1 0.01
103 2 0.02
105 1 0.01
106 31 0.27
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.23
Consensus pattern (104 bp):
TCCCATGTAAGACCATATCTAGGACATGGCGTTGGCATCACGAGGTATGAGAGGTCCCACGTAAG
ACCATGTCTGGGACATAGCATGGGCACCGAGATAAGAAC
Found at i:33608613 original size:49 final size:49
Alignment explanation
Indices: 33608379--33608613 Score: 195
Period size: 50 Copynumber: 4.7 Consensus size: 49
33608369 TTATGAGAGG
* * * **
33608379 TCCCATGTAAGACCATGTTTGGGACATAGCATTGGCACCGAGATAAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATAGCATTGGCA-CGAAATGAGAAC
* * * * * * **
33608429 TCTCATGTAAGACCATGTTTGGGACATGGGATTGGCACCGAGATGGGAGG
1 TCCCATGTAAGACCATGTCTGGGACATAGCATTGGCA-CGAAATGAGAAC
** * *
33608479 TCCCCCGTAAGACCATGTCTGGGACATAGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATAGCATTGGCA-CGAAATGAGAAC
* * * * *
33608529 TCCCATGTAAGACCATATCTAGGATATGGCGTTGGCA-GTAAATGA-AAC
1 TCCCATGTAAGACCATGTCTGGGACATAGCATTGGCACG-AAATGAGAAC
* *
33608577 ATCCCATGTAAGACTATGTCTGGGACATAGCTTTGGC
1 -TCCCATGTAAGACCATGTCTGGGACATAGCATTGGC
33608614 TTGTTATTAT
Statistics
Matches: 152, Mismatches: 31, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
48 4 0.03
49 35 0.23
50 113 0.74
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (49 bp):
TCCCATGTAAGACCATGTCTGGGACATAGCATTGGCACGAAATGAGAAC
Found at i:33613253 original size:50 final size:50
Alignment explanation
Indices: 33613145--33613441 Score: 260
Period size: 50 Copynumber: 5.8 Consensus size: 50
33613135 ATTTCGGTAA
* * * *
33613145 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCACTAGCATCATTGAGGTTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGA-G--ATG
*
33613201 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
33613251 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGTGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * *
33613301 AGTGGTGTCCC--GTAAGACCATGTCTGGGACATGGCATGGGCACCAATATG
1 AG-AG-GTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * * * *
33613351 AGAACTCCCATGTAAGACCATATCTGGGATATGACATT-G-ACAGTAAAGG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* ** * * *
33613400 AAACATCCCATGTAAGACTATGTCTGGGACATAGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
33613442 TGTTATTATC
Statistics
Matches: 200, Mismatches: 34, Indels: 19
0.79 0.13 0.08
Matches are distributed among these distances:
48 6 0.03
49 33 0.17
50 112 0.56
51 2 0.01
52 6 0.03
53 2 0.01
55 1 0.00
56 38 0.19
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:33618459 original size:14 final size:14
Alignment explanation
Indices: 33618421--33618465 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
33618411 ACATCCTTTA
*
33618421 TTCTCTTTTCCTAC
1 TTCTCTTTTCTTAC
33618435 TTCTCTTTTCTTAC
1 TTCTCTTTTCTTAC
* *
33618449 TTTTCTTTTCTTGC
1 TTCTCTTTTCTTAC
33618463 TTC
1 TTC
33618466 CTACCTAAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.04, C:0.29, G:0.02, T:0.64
Consensus pattern (14 bp):
TTCTCTTTTCTTAC
Found at i:33628401 original size:22 final size:22
Alignment explanation
Indices: 33628362--33628403 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
33628352 TGTTTCACAT
** *
33628362 TCTTCATCTTTTTTTCTTTTTC
1 TCTTCATCTACTTCTCTTTTTC
33628384 TCTTCATCTACTTCTCTTTT
1 TCTTCATCTACTTCTCTTTT
33628404 CTTGTTTTCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.07, C:0.26, G:0.00, T:0.67
Consensus pattern (22 bp):
TCTTCATCTACTTCTCTTTTTC
Found at i:33633242 original size:16 final size:16
Alignment explanation
Indices: 33633221--33633251 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
33633211 TTGCTAAACC
33633221 CTTAGAGTTCACCAAT
1 CTTAGAGTTCACCAAT
*
33633237 CTTAGAGTTCGCCAA
1 CTTAGAGTTCACCAA
33633252 ATGGTGAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (16 bp):
CTTAGAGTTCACCAAT
Found at i:33635154 original size:18 final size:19
Alignment explanation
Indices: 33635127--33635162 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
33635117 CATATATGTA
*
33635127 TGTATGTATA-ATATAAAT
1 TGTATATATACATATAAAT
33635145 TGTATATATACATATAAA
1 TGTATATATACATATAAA
33635163 ATATTATTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (19 bp):
TGTATATATACATATAAAT
Found at i:33635375 original size:24 final size:24
Alignment explanation
Indices: 33635303--33635395 Score: 100
Period size: 24 Copynumber: 3.9 Consensus size: 24
33635293 AGATATATAA
* * *
33635303 AATAATACATAATAAATTTGAAAT
1 AATAATATATGATAAATTTAAAAT
*
33635327 AATAATGA-ATGA-AAACTTAAAAT
1 AATAAT-ATATGATAAATTTAAAAT
*
33635350 AATTATATATGATAAATTTAAAAT
1 AATAATATATGATAAATTTAAAAT
**
33635374 AATAATATGCGATAAATTTAAA
1 AATAATATATGATAAATTTAAA
33635396 CAATATTAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
22 1 0.02
23 18 0.31
24 38 0.66
25 1 0.02
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.33
Consensus pattern (24 bp):
AATAATATATGATAAATTTAAAAT
Found at i:33637306 original size:131 final size:132
Alignment explanation
Indices: 33637112--33637386 Score: 401
Period size: 131 Copynumber: 2.1 Consensus size: 132
33637102 ACTGCTGCTC
* * *
33637112 AGGGAGACATGATTTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCT
1 AGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTAGTGGCT
* *
33637177 TAAATCTGCTTCT-CTACTACCTTGAGAAGATAAGATTCGTCGTCTTAGATTTGCTCCACTACTG
66 TAAATCTG-TTCTCCTACTACCTTGAGAAGATAAGATTCGCCGTCTTAGATCTGCTCCACTACTG
*
33637241 CCT
130 CAT
* * *
33637244 AGGGAGATAGGATCTACAATCTTCAA-CTACTCCACTGTTGCTCAGGGAGATAGTACTAGTGGCT
1 AGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTAGTGGCT
* * * *
33637308 TAAATCTGTTTTCCTACTTCCTTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGC
66 TAAATCTGTTCTCCTACTACCTTGAGAAGATAAGATTCGCCGTCTTAGATCTGCTCCACTACTGC
33637373 AT
131 AT
*
33637375 AAGGAGACAGGA
1 AGGGAGACAGGA
33637387 CTTATGGTTT
Statistics
Matches: 127, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
130 3 0.02
131 101 0.80
132 23 0.18
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.29
Consensus pattern (132 bp):
AGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTAGTGGCT
TAAATCTGTTCTCCTACTACCTTGAGAAGATAAGATTCGCCGTCTTAGATCTGCTCCACTACTGC
AT
Found at i:33640020 original size:51 final size:51
Alignment explanation
Indices: 33639956--33640084 Score: 152
Period size: 51 Copynumber: 2.5 Consensus size: 51
33639946 TAGGCCGCAT
* *** *
33639956 GTGTAGTACTATGTGCTGGCTACTATGCGTACCGGAT-AGCTTCGATCACGC
1 GTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATGAAAAT-GATCACAC
* * * * *
33640007 GTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGAAAATGGTCACAT
1 GTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATGAAAATGATCACAC
33640058 GTGTAGTACTATGTGCAGGCTACTATG
1 GTGTAGTACTATGTGCAGGCTACTATG
33640085 TGAACTGGGT
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
51 64 0.97
52 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (51 bp):
GTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATGAAAATGATCACAC
Found at i:33645758 original size:51 final size:49
Alignment explanation
Indices: 33645614--33645797 Score: 172
Period size: 51 Copynumber: 3.7 Consensus size: 49
33645604 AAGTTGCTAG
* * * *
33645614 GTCACGTGTGTAGTACTATGTGCAGGCTCCTACGTGTATC-GAAATGATAG
1 GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATA-GAT-C
* ** * * * *
33645664 GTCGCATGTGTAGTACTATGTGTTGGCTACTATGCGTACCGGATAGCTTC
1 GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAG-ATC
** *
33645714 GATCACGCGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGAAAATC
1 G-TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAT--AGATC
*
33645766 GTCACATGAGTAGTACTATGTGCAGGCTACTA
1 GTCACATGTGTAGTACTATGTGCAGGCTACTA
33645798 TGTGAACCGG
Statistics
Matches: 105, Mismatches: 24, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
50 34 0.32
51 67 0.64
52 3 0.03
53 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (49 bp):
GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGATC
Found at i:33646545 original size:14 final size:14
Alignment explanation
Indices: 33646526--33646557 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
33646516 GACAAGTAAA
33646526 AATTAACAGATCTT
1 AATTAACAGATCTT
33646540 AATTAACAGATCTT
1 AATTAACAGATCTT
33646554 AATT
1 AATT
33646558 TGGAGCTCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (14 bp):
AATTAACAGATCTT
Found at i:33659048 original size:24 final size:24
Alignment explanation
Indices: 33658981--33659073 Score: 80
Period size: 24 Copynumber: 3.9 Consensus size: 24
33658971 AGATATATAA
* * * * *
33658981 AATAATACATAATACATTTGAAAC
1 AATAATATATGATAAATTTAAAAT
** *
33659005 AATAATGCATGA-AAACTTAAAAT
1 AATAATATATGATAAATTTAAAAT
*
33659028 AATTATATATGATAAATTTAAAAT
1 AATAATATATGATAAATTTAAAAT
**
33659052 AATAATATGCGATAAATTTAAA
1 AATAATATATGATAAATTTAAA
33659074 CAATATTAAT
Statistics
Matches: 55, Mismatches: 13, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
23 16 0.29
24 39 0.71
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.32
Consensus pattern (24 bp):
AATAATATATGATAAATTTAAAAT
Found at i:33661943 original size:2 final size:2
Alignment explanation
Indices: 33661936--33661961 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
33661926 TTTCGAGCAA
33661936 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
33661962 ATTCTGTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:33662075 original size:193 final size:193
Alignment explanation
Indices: 33661744--33662191 Score: 597
Period size: 193 Copynumber: 2.3 Consensus size: 193
33661734 ACTGGTTGTG
* * * ** *
33661744 CTCTCTCTCTCTCTTTCTTTTGAATTCGGTTAA-TTTCTATTCGTTTTTTTTAAGATTCTGGTGT
1 CTCTCTCTCTCTC-TTCTTCT-CATTCTGTTAATTTTCTATTCG-TTTTTAGAAGATTTTGGTGT
* * * *
33661808 CCAGAAACATGGAAAAATATACTCTGTGATTTAATGTATATTTTACGTTAATTTATATTTAATTT
63 TCAGAAACAGGGAAAAATACACTCTGTGATTTAACGTATATTTTACGTTAATTTATATTTAATTT
*
33661873 TCATGTTCAGAAAATGGCTAGCAGAAAGGAAGAGCCGGCTCCAGCGCAACTGGTTTCGAGCAATC
128 TCATGTTCAGAAAATGGCTAGCAGAAAGGAAGAGCCGGCTCCAGCGCAACTGGTTTCAAGCAATC
*
33661938 T
193 A
33661939 CTCTCTCTCTCTCTCTCTCTCTCATTCTGTTAATTTTCTATTCGTTTTTAGAAGATTTTGGTGTT
1 CTCTCTCTCTCTCT-TCT-TCTCATTCTGTTAATTTTCTATTCGTTTTTAGAAGATTTTGGTGTT
*
33662004 CAGAAACAGGGAAGAAATACA-T-TGTGATTTAACGTATATTTTATGTTAATTTAT-TTTAATTT
64 CAGAAACAGGGAA-AAATACACTCTGTGATTTAACGTATATTTTACGTTAATTTATATTTAATTT
* * * *
33662066 TCCTGTTCAGAAAATGGCTAGCAGAAAGGAAGAGCCGTCTCCAGCGCAACTGGTTTTAATCAATC
128 TCATGTTCAGAAAATGGCTAGCAGAAAGGAAGAGCCGGCTCCAGCGCAACTGGTTTCAAGCAATC
33662131 A
193 A
* * *
33662132 CTCTCTCT-TCT-TT-TTCGGC-TTCTATTAATTTTCTATTCGTTTTTCGAAGATTTTGGTGTT
1 CTCTCTCTCTCTCTTCTTC-TCATTCTGTTAATTTTCTATTCGTTTTTAGAAGATTTTGGTGTT
33662192 TTGTAGATTT
Statistics
Matches: 228, Mismatches: 20, Indels: 17
0.86 0.08 0.06
Matches are distributed among these distances:
188 41 0.18
189 2 0.01
190 1 0.00
191 1 0.00
192 3 0.01
193 76 0.33
194 31 0.14
195 55 0.24
196 18 0.08
ACGTcount: A:0.25, C:0.17, G:0.16, T:0.42
Consensus pattern (193 bp):
CTCTCTCTCTCTCTTCTTCTCATTCTGTTAATTTTCTATTCGTTTTTAGAAGATTTTGGTGTTCA
GAAACAGGGAAAAATACACTCTGTGATTTAACGTATATTTTACGTTAATTTATATTTAATTTTCA
TGTTCAGAAAATGGCTAGCAGAAAGGAAGAGCCGGCTCCAGCGCAACTGGTTTCAAGCAATCA
Found at i:33668590 original size:3 final size:3
Alignment explanation
Indices: 33668558--33668614 Score: 69
Period size: 3 Copynumber: 19.0 Consensus size: 3
33668548 GATGTATCCA
* * * * *
33668558 ATG ATA ATG ATG AGG AGG ATG GTG ACG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
33668606 ATG ATG ATG
1 ATG ATG ATG
33668615 CACCAAGTGA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.02, G:0.37, T:0.28
Consensus pattern (3 bp):
ATG
Found at i:33677051 original size:31 final size:31
Alignment explanation
Indices: 33677013--33677088 Score: 116
Period size: 31 Copynumber: 2.4 Consensus size: 31
33677003 ATCACATTAG
* *
33677013 TATTAAATTAATAAAATATTATCTAGATAAA
1 TATTAAATTAATAAAATACTATCTAAATAAA
33677044 TATTAAATTAATAAAATACTATCTAAATAAA
1 TATTAAATTAATAAAATACTATCTAAATAAA
*
33677075 TATTTAATTTAATA
1 TA-TTAAATTAATA
33677089 TCTCATATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
31 31 0.76
32 10 0.24
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (31 bp):
TATTAAATTAATAAAATACTATCTAAATAAA
Found at i:33677123 original size:5 final size:5
Alignment explanation
Indices: 33677113--33677139 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
33677103 CTACATAAAT
33677113 ATTAA ATTAA ATTAA ATTAA ATTAA AT
1 ATTAA ATTAA ATTAA ATTAA ATTAA AT
33677140 ATTAAATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATTAA
Found at i:33677163 original size:27 final size:27
Alignment explanation
Indices: 33677108--33677163 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
33677098 AATATCTACA
**
33677108 TAAATATTAAATTAAATTAAATTAAAT
1 TAAATATTAAATTAAATTAAAACAAAT
*
33677135 TAAATATTAAATT-CATTAAAACAATAT
1 TAAATATTAAATTAAATTAAAACAA-AT
33677162 TA
1 TA
33677164 TCTTTCAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 8 0.32
27 17 0.68
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (27 bp):
TAAATATTAAATTAAATTAAAACAAAT
Found at i:33677507 original size:19 final size:19
Alignment explanation
Indices: 33677467--33677507 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
33677457 ATTTTGGTTC
* *
33677467 TCAGGTACAATTTTCGATT
1 TCAGGTACAATTTTCAAGT
*
33677486 TCAGGTCCAATTTTCAAGT
1 TCAGGTACAATTTTCAAGT
33677505 TCA
1 TCA
33677508 ATTACCCATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.39
Consensus pattern (19 bp):
TCAGGTACAATTTTCAAGT
Found at i:33681910 original size:43 final size:43
Alignment explanation
Indices: 33681853--33682037 Score: 203
Period size: 43 Copynumber: 4.3 Consensus size: 43
33681843 CTTCTCATAA
* *
33681853 AAAAACGCTGCTAAAGGTCATGTTCTTTAGCGAAGTTTGTGGG
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGAAGTTTGTGGG
* **
33681896 AAAAACGCCGCTAAAGATCATGTTCTATAGCGGCGTTTGTGGG
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGAAGTTTGTGGG
* ** * * *
33681939 AAAAGCGCCGCTAAAGATCATGTTCTTTAATGACA-TTTTTAGT
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGA-AGTTTGTGGG
* * **
33681982 AAAAACGCCACTAAAGGTCATGTTCTTTAGCGGCGTTTGT-GG
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGAAGTTTGTGGG
*
33682024 AAAAACGCCACTAA
1 AAAAACGCCGCTAA
33682038 CTTTAGCAGA
Statistics
Matches: 117, Mismatches: 23, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
42 15 0.13
43 102 0.87
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGATCATGTTCTTTAGCGAAGTTTGTGGG
Found at i:33681960 original size:86 final size:85
Alignment explanation
Indices: 33681853--33682037 Score: 237
Period size: 86 Copynumber: 2.2 Consensus size: 85
33681843 CTTCTCATAA
* * * * *
33681853 AAAAACGCTGCTAAAGGTCATGTTCTTTAGCGA-AGTTTGTGGGAAAAACGCCGCTAAAGATCAT
1 AAAAACGCCGCTAAAGATCATGTTCTTTAACGACA-TTTGTAGGAAAAACGCCACTAAAGATCAT
33681917 GTTCTATAGCGGCGTTTGTGGG
65 GTTCTATAGCGGCGTTTGT-GG
* * * * *
33681939 AAAAGCGCCGCTAAAGATCATGTTCTTTAATGACATTTTTAGTAAAAACGCCACTAAAGGTCATG
1 AAAAACGCCGCTAAAGATCATGTTCTTTAACGACATTTGTAGGAAAAACGCCACTAAAGATCATG
*
33682004 TTCTTTAGCGGCGTTTGTGG
66 TTCTATAGCGGCGTTTGTGG
*
33682024 AAAAACGCCACTAA
1 AAAAACGCCGCTAA
33682038 CTTTAGCAGA
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
85 14 0.16
86 70 0.82
87 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (85 bp):
AAAAACGCCGCTAAAGATCATGTTCTTTAACGACATTTGTAGGAAAAACGCCACTAAAGATCATG
TTCTATAGCGGCGTTTGTGG
Found at i:33682411 original size:66 final size:66
Alignment explanation
Indices: 33682305--33682438 Score: 164
Period size: 66 Copynumber: 2.0 Consensus size: 66
33682295 ATTCTGAAGC
** * * **
33682305 TGTAGCTGGAGTTTGTCATATTTTCTTATTGCCTTTGCTTCCCTC-ACTGCTACCTCTGCTTTAA
1 TGTAGCTGGAGTTCATCATATTTTCTTATAGCCTCTGCTTCCCTCGA-TGCTACCTCCACTTTAA
33682369 GT
65 GT
* *
33682371 TGTAGCTGGAGTTCATCATATTTTCTT-TGAGCCTCTGCTTCTCTCGATGCTGCCTCCACTTTAA
1 TGTAGCTGGAGTTCATCATATTTTCTTAT-AGCCTCTGCTTCCCTCGATGCTACCTCCACTTTAA
33682435 GT
65 GT
33682437 TG
1 TG
33682439 AGCAATTTGT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
65 1 0.02
66 56 0.97
67 1 0.02
ACGTcount: A:0.14, C:0.25, G:0.18, T:0.43
Consensus pattern (66 bp):
TGTAGCTGGAGTTCATCATATTTTCTTATAGCCTCTGCTTCCCTCGATGCTACCTCCACTTTAAG
T
Found at i:33687809 original size:24 final size:25
Alignment explanation
Indices: 33687755--33687810 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 25
33687745 TCTAAAGTTG
*
33687755 ATAATAGATTTAATTTCATTGTACT
1 ATAATAGATTTAATTGCATTGTACT
* *
33687780 AAAATAGATTTAA-TGCATTGTATT
1 ATAATAGATTTAATTGCATTGTACT
*
33687804 TTAATAG
1 ATAATAG
33687811 GTGTAAACTA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 14 0.54
25 12 0.46
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.45
Consensus pattern (25 bp):
ATAATAGATTTAATTGCATTGTACT
Found at i:33699356 original size:156 final size:156
Alignment explanation
Indices: 33699072--33699382 Score: 595
Period size: 156 Copynumber: 2.0 Consensus size: 156
33699062 CCGAGAAGGA
*
33699072 ATTTTCAACTATAAGAAACCTCACTTAAGAAGAAGTAGTTGAAGCTGGGCTCCGAACTATGAGAG
1 ATTTTCAACTATAAGAAACCTCACTTAAGAAGAAGTAGTTGAAGCTGGGCTCCGAACTATAAGAG
33699137 TTTGCTTTTGTTTTATGTTTCTAAGAGCAGTCTATCTGATCAAATAAGGGATCAGACCGCTCCTG
66 TTTGCTTTTGTTTTATGTTTCTAAGAGCAGTCTATCTGATCAAATAAGGGATCAGACCGCTCCTG
33699202 GTGTTCGAACTAGTCATTAATGGTCG
131 GTGTTCGAACTAGTCATTAATGGTCG
*
33699228 ATTTTCAACTATAAGAAACCTCACTTAAGAAGAAGTAGTTGAAGCTGGGCTCTGAACTATAAGAG
1 ATTTTCAACTATAAGAAACCTCACTTAAGAAGAAGTAGTTGAAGCTGGGCTCCGAACTATAAGAG
*
33699293 TTTGCTTTTGTTTTATGTTTCTAAGAGCAGTCTATCTGATCAAATAAGGGATCATACCGCTCCTG
66 TTTGCTTTTGTTTTATGTTTCTAAGAGCAGTCTATCTGATCAAATAAGGGATCAGACCGCTCCTG
33699358 GTGTTCGAACTAGTCATTAATGGTC
131 GTGTTCGAACTAGTCATTAATGGTC
33699383 AGCTTCATTG
Statistics
Matches: 152, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
156 152 1.00
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (156 bp):
ATTTTCAACTATAAGAAACCTCACTTAAGAAGAAGTAGTTGAAGCTGGGCTCCGAACTATAAGAG
TTTGCTTTTGTTTTATGTTTCTAAGAGCAGTCTATCTGATCAAATAAGGGATCAGACCGCTCCTG
GTGTTCGAACTAGTCATTAATGGTCG
Found at i:33707017 original size:23 final size:22
Alignment explanation
Indices: 33706991--33707034 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
33706981 TTGTTATTAC
33706991 TATTAAGTA-ATTAATAATATTTA
1 TATT-AGTATATTAAT-ATATTTA
*
33707014 TATTATTATATTAATATATTT
1 TATTAGTATATTAATATATTT
33707035 CGATTTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
TATTAGTATATTAATATATTTA
Found at i:33707075 original size:12 final size:12
Alignment explanation
Indices: 33707058--33707123 Score: 60
Period size: 12 Copynumber: 5.1 Consensus size: 12
33707048 TATATTTCTA
*
33707058 TATTATTTATTT
1 TATTATTTATAT
33707070 TATTATTCTATCTAT
1 TATTATT-TA--TAT
33707085 TATTATTATAATAT
1 TATTATT-T-ATAT
*
33707099 TATTATATATAT
1 TATTATTTATAT
*
33707111 TATTATTTCTAT
1 TATTATTTATAT
33707123 T
1 T
33707124 TAGTTATTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
12 22 0.49
13 3 0.07
14 9 0.20
15 10 0.22
16 1 0.02
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.64
Consensus pattern (12 bp):
TATTATTTATAT
Found at i:33707130 original size:29 final size:28
Alignment explanation
Indices: 33707058--33707133 Score: 86
Period size: 26 Copynumber: 2.8 Consensus size: 28
33707048 TATATTTCTA
* *
33707058 TATTATTTAT-TTTATTATTCTATCTAT
1 TATTATTTATATTTATTATTATATATAT
*
33707085 TATTA-TTATA-ATATTATTATATATAT
1 TATTATTTATATTTATTATTATATATAT
*
33707111 TATTATTTCTATTTAGTTATTAT
1 TATTATTTATATTTA-TTATTAT
33707134 TTAGTTCAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
26 22 0.55
27 9 0.22
28 2 0.05
29 7 0.17
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (28 bp):
TATTATTTATATTTATTATTATATATAT
Found at i:33711118 original size:22 final size:22
Alignment explanation
Indices: 33711088--33711129 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
33711078 GTCCCCACAC
* *
33711088 GGTAGGGATATCGGGATACCTA
1 GGTAAGGATATCGCGATACCTA
*
33711110 GGTAAGGATATTGCGATACC
1 GGTAAGGATATCGCGATACC
33711130 CTAGTCAGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.24
Consensus pattern (22 bp):
GGTAAGGATATCGCGATACCTA
Found at i:33711407 original size:10 final size:10
Alignment explanation
Indices: 33711394--33711418 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
33711384 TAAAAATGAG
33711394 GAAAACACTT
1 GAAAACACTT
33711404 GAAAACACTT
1 GAAAACACTT
33711414 GAAAA
1 GAAAA
33711419 TAAGACCTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.56, C:0.16, G:0.12, T:0.16
Consensus pattern (10 bp):
GAAAACACTT
Found at i:33727754 original size:34 final size:32
Alignment explanation
Indices: 33727716--33727788 Score: 76
Period size: 34 Copynumber: 2.2 Consensus size: 32
33727706 TTATACCATG
* *
33727716 ATTAAACATTAATTA-ATCTTATTTAATTAACTTA
1 ATTAAACATTAATTATA-CTAATTTAACT-A-TTA
**
33727750 ATTAAAGTTTAATTATACTAATTTAACTATTA
1 ATTAAACATTAATTATACTAATTTAACTATTA
33727782 ATTAAAC
1 ATTAAAC
33727789 TAAGTTGGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
32 9 0.27
33 1 0.03
34 22 0.67
35 1 0.03
ACGTcount: A:0.45, C:0.08, G:0.01, T:0.45
Consensus pattern (32 bp):
ATTAAACATTAATTATACTAATTTAACTATTA
Found at i:33727762 original size:20 final size:19
Alignment explanation
Indices: 33727737--33727791 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
33727727 ATTAATCTTA
*
33727737 TTTAATTAACTTAATTAAAG
1 TTTAATTAAC-TAATTAAAC
*
33727757 TTTAATTATACTAATTTAAC
1 TTTAATTA-ACTAATTAAAC
33727777 TATTAATTAAACTAA
1 T-TTAATT-AACTAA
33727792 GTTGGAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 16 0.53
21 13 0.43
22 1 0.03
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.45
Consensus pattern (19 bp):
TTTAATTAACTAATTAAAC
Found at i:33730091 original size:54 final size:54
Alignment explanation
Indices: 33729983--33730097 Score: 131
Period size: 54 Copynumber: 2.1 Consensus size: 54
33729973 CAAGTGGTTC
** *
33729983 GCCAGTCTGTTTGATGAACTGATGTTCGCAAGGCAAGTTGCAAACTGGGGGTTT
1 GCCAGTCTGTTTGACAAACTGATGTTCGCAAGGCAAGTTGCAAACTGGGAGTTT
* * * ** **
33730037 GCCAGTCTGTTTGGCAAACTGATGTTCTCCAGTTAAGTTGTGAACTGGGAGTTT
1 GCCAGTCTGTTTGACAAACTGATGTTCGCAAGGCAAGTTGCAAACTGGGAGTTT
*
33730091 GTCAGTC
1 GCCAGTC
33730098 AAAGATAAAG
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.21, C:0.17, G:0.30, T:0.32
Consensus pattern (54 bp):
GCCAGTCTGTTTGACAAACTGATGTTCGCAAGGCAAGTTGCAAACTGGGAGTTT
Found at i:33734998 original size:15 final size:14
Alignment explanation
Indices: 33734963--33735003 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
33734953 TTGGATTTTG
33734963 GATTTTAAATATTTA
1 GATTTTAAA-ATTTA
33734978 GA-TTTAAAATTTA
1 GATTTTAAAATTTA
33734991 TGATTTTAAAATT
1 -GATTTTAAAATT
33735004 CTTTGTTTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.21
14 8 0.33
15 11 0.46
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.51
Consensus pattern (14 bp):
GATTTTAAAATTTA
Found at i:33735282 original size:16 final size:17
Alignment explanation
Indices: 33735261--33735300 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 17
33735251 AAAATTAAAG
33735261 AAATATATATTT-TTTA
1 AAATATATATTTCTTTA
33735277 AAATAT-T-TTTCTTTA
1 AAATATATATTTCTTTA
33735292 AAA-ATATAT
1 AAATATATAT
33735301 GTCCATCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
14 5 0.24
15 9 0.43
16 7 0.33
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
AAATATATATTTCTTTA
Found at i:33742233 original size:33 final size:33
Alignment explanation
Indices: 33742146--33742236 Score: 105
Period size: 33 Copynumber: 2.8 Consensus size: 33
33742136 AATATTTGCT
* *
33742146 AGTTGATATTTATTATCATTTTACAAAATGAAC
1 AGTTGATATTTATTATCATTTCACAAAATGAAA
* *
33742179 A-TTG-TAATTTTTTTATAATTTCACAAAATGAAA
1 AGTTGAT-A-TTTATTATCATTTCACAAAATGAAA
*
33742212 AGTTGATATTTGTTATCATTTCACA
1 AGTTGATATTTATTATCATTTCACA
33742237 GAACCCGCGG
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
31 1 0.02
32 4 0.08
33 38 0.79
34 4 0.08
35 1 0.02
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.45
Consensus pattern (33 bp):
AGTTGATATTTATTATCATTTCACAAAATGAAA
Found at i:33743191 original size:17 final size:17
Alignment explanation
Indices: 33743140--33743193 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
33743130 GATAATGAAG
*
33743140 ATTACATACCAAAGAAT
1 ATTACAAACCAAAGAAT
33743157 ATATA-AAA--AAATGAAAT
1 AT-TACAAACCAAA-G-AAT
33743174 ATTACAAACCAAAGAAT
1 ATTACAAACCAAAGAAT
33743191 ATT
1 ATT
33743194 TGTGGCGATT
Statistics
Matches: 30, Mismatches: 1, Indels: 12
0.70 0.02 0.28
Matches are distributed among these distances:
15 3 0.10
16 3 0.10
17 18 0.60
18 3 0.10
19 3 0.10
ACGTcount: A:0.59, C:0.11, G:0.06, T:0.24
Consensus pattern (17 bp):
ATTACAAACCAAAGAAT
Found at i:33745031 original size:19 final size:19
Alignment explanation
Indices: 33745007--33745046 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
33744997 GGAATTTTGG
33745007 AATGGAAAAGAAGAGA-GAA
1 AATGG-AAAGAAGAGAGGAA
*
33745026 AATGGAGAGAAGAGAGGAA
1 AATGGAAAGAAGAGAGGAA
33745045 AA
1 AA
33745047 ATGTGAATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.60, C:0.00, G:0.35, T:0.05
Consensus pattern (19 bp):
AATGGAAAGAAGAGAGGAA
Found at i:33747414 original size:8 final size:8
Alignment explanation
Indices: 33747403--33747473 Score: 58
Period size: 8 Copynumber: 8.9 Consensus size: 8
33747393 TTAAAACTCT
33747403 AACCCTAA
1 AACCCTAA
33747411 AACCCTAA
1 AACCCTAA
*
33747419 AAACCTAA
1 AACCCTAA
*
33747427 ACAACCTAA
1 A-ACCCTAA
33747436 AACCCTAA
1 AACCCTAA
33747444 TAA---TAA
1 -AACCCTAA
*
33747450 AATCCTAAA
1 AACCCT-AA
*
33747459 AAACCTAA
1 AACCCTAA
33747467 AACCCTA
1 AACCCTA
33747474 TTTAATAAAC
Statistics
Matches: 53, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
5 2 0.04
6 3 0.06
8 31 0.58
9 17 0.32
ACGTcount: A:0.55, C:0.30, G:0.00, T:0.15
Consensus pattern (8 bp):
AACCCTAA
Found at i:33747434 original size:17 final size:17
Alignment explanation
Indices: 33747403--33747473 Score: 69
Period size: 17 Copynumber: 4.4 Consensus size: 17
33747393 TTAAAACTCT
*
33747403 AACCCT-AAAACCCTAA
1 AACCCTAAAAAACCTAA
* *
33747419 AAACCTAAACAACCTAA
1 AACCCTAAAAAACCTAA
*
33747436 AACCCT-AATAA--TAA
1 AACCCTAAAAAACCTAA
*
33747450 AATCCTAAAAAACCTAA
1 AACCCTAAAAAACCTAA
33747467 AACCCTA
1 AACCCTA
33747474 TTTAATAAAC
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
14 8 0.19
15 4 0.09
16 9 0.21
17 22 0.51
ACGTcount: A:0.55, C:0.30, G:0.00, T:0.15
Consensus pattern (17 bp):
AACCCTAAAAAACCTAA
Found at i:33747437 original size:39 final size:41
Alignment explanation
Indices: 33747389--33747467 Score: 99
Period size: 39 Copynumber: 2.0 Consensus size: 41
33747379 ATCATTTTTA
* **
33747389 AACCTTAAAACTCTAACCCTAAAACCCT-AAAAACCTAAAC
1 AACCTTAAAACCCTAACAATAAAACCCTAAAAAACCTAAAC
* *
33747429 AACC-TAAAACCCTAATAATAAAATCCTAAAAAACCTAAA
1 AACCTTAAAACCCTAACAATAAAACCCTAAAAAACCTAAA
33747468 ACCCTATTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
39 18 0.55
40 15 0.45
ACGTcount: A:0.54, C:0.28, G:0.00, T:0.18
Consensus pattern (41 bp):
AACCTTAAAACCCTAACAATAAAACCCTAAAAAACCTAAAC
Found at i:33747451 original size:31 final size:32
Alignment explanation
Indices: 33747416--33747492 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 32
33747406 CCTAAAACCC
33747416 TAAAAACCTAAACAACCTAAAACCCTA-ATAA
1 TAAAAACCTAAACAACCTAAAACCCTATATAA
* * *
33747447 TAAAATCCTAAAAAACCTAAAACCCTATTTAA
1 TAAAAACCTAAACAACCTAAAACCCTATATAA
*
33747479 T-AAACCCTAAACAA
1 TAAAAACCTAAACAA
33747493 TAACAAAAAC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
31 36 0.90
32 4 0.10
ACGTcount: A:0.56, C:0.25, G:0.00, T:0.19
Consensus pattern (32 bp):
TAAAAACCTAAACAACCTAAAACCCTATATAA
Found at i:33758392 original size:21 final size:21
Alignment explanation
Indices: 33758368--33758413 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
33758358 TCCAAGACCA
*
33758368 AAGAGAGAAGGGTTCCTCAGT
1 AAGAGAAAAGGGTTCCTCAGT
33758389 AAGAGAAAAGGGTTCCTCAGT
1 AAGAGAAAAGGGTTCCTCAGT
33758410 AAGA
1 AAGA
33758414 TGATTTTGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.39, C:0.13, G:0.30, T:0.17
Consensus pattern (21 bp):
AAGAGAAAAGGGTTCCTCAGT
Found at i:33758722 original size:2 final size:2
Alignment explanation
Indices: 33758715--33758745 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
33758705 AGCTTTCCAA
*
33758715 AG AG AG AG AG AG AG AG AG AG AG AG AA AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
33758746 AAGAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (2 bp):
AG
Found at i:33765619 original size:14 final size:14
Alignment explanation
Indices: 33765597--33765630 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
33765587 AGAATTTGTA
*
33765597 CCAAGTCAACCATT
1 CCAAATCAACCATT
33765611 CCAAATCAACCATT
1 CCAAATCAACCATT
*
33765625 CAAAAT
1 CCAAAT
33765631 GCATATAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.32, G:0.03, T:0.21
Consensus pattern (14 bp):
CCAAATCAACCATT
Found at i:33766318 original size:40 final size:38
Alignment explanation
Indices: 33766271--33766417 Score: 161
Period size: 40 Copynumber: 3.7 Consensus size: 38
33766261 TCCGTTTAAC
* *
33766271 TTCATATAATCA-TTCTGTATATCTATTACCATACAACTGA
1 TTCATATAACCATTTC-GTATATCTATT-CCATATAA-TGA
*
33766311 TTAATATAACCATTTCGTATATCTATTTCCATATAATTGA
1 TTCATATAACCATTTCGTATATCTA-TTCCATATAA-TGA
** *
33766351 TTCATATAATAATTTTGTATATCTAGTTCCATATAATCGA
1 TTCATATAACCATTTCGTATATCTA-TTCCATATAAT-GA
*
33766391 TTCATATAACCATTTCATATATCTATT
1 TTCATATAACCATTTCGTATATCTATT
33766418 TTTTCACATA
Statistics
Matches: 91, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
39 3 0.03
40 83 0.91
41 5 0.05
ACGTcount: A:0.35, C:0.16, G:0.05, T:0.44
Consensus pattern (38 bp):
TTCATATAACCATTTCGTATATCTATTCCATATAATGA
Found at i:33766374 original size:80 final size:80
Alignment explanation
Indices: 33766271--33766418 Score: 219
Period size: 80 Copynumber: 1.9 Consensus size: 80
33766261 TCCGTTTAAC
* *
33766271 TTCATATAATCATTCTGTATATCTA-TTACCATACAA-CTGATTAATATAACCATTTCGTATATC
1 TTCATATAATAATTCTGTATATCTAGTT-CCATACAATC-GATTAATATAACCATTTCATATATC
33766334 TATTTCCATATAATTGA
64 TATTTCCATATAATTGA
* * *
33766351 TTCATATAATAATTTTGTATATCTAGTTCCATATAATCGATTCATATAACCATTTCATATATCTA
1 TTCATATAATAATTCTGTATATCTAGTTCCATACAATCGATTAATATAACCATTTCATATATCTA
33766416 TTT
66 TTT
33766419 TTTCACATAA
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
80 58 0.95
81 3 0.05
ACGTcount: A:0.34, C:0.16, G:0.05, T:0.45
Consensus pattern (80 bp):
TTCATATAATAATTCTGTATATCTAGTTCCATACAATCGATTAATATAACCATTTCATATATCTA
TTTCCATATAATTGA
Found at i:33766534 original size:25 final size:25
Alignment explanation
Indices: 33766506--33766575 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
33766496 ACGTGGGAAC
* *
33766506 AATGCTCACACAAGCTGTGACTGTA
1 AATGCTCACACGAGCTGTGACTATA
* * *
33766531 AATGCTCGCACGAGTTGTAACTATA
1 AATGCTCACACGAGCTGTGACTATA
* *
33766556 ATTGCTCACATGAGCTGTGA
1 AATGCTCACACGAGCTGTGA
33766576 AATGGGCTTG
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (25 bp):
AATGCTCACACGAGCTGTGACTATA
Found at i:33769663 original size:46 final size:46
Alignment explanation
Indices: 33769596--33769781 Score: 167
Period size: 46 Copynumber: 4.0 Consensus size: 46
33769586 GAGTTTTGCC
* ** * * *
33769596 TAGGTTTCGAGCTTTTGCATATGTTGTGGACTCAAGAATTCAATAA
1 TAGGTTTCAAGCTCCTGCATATGTTGTGGACTCGAGAATACAAGAA
*** *
33769642 TAGG-TTCAAAGCTCCTGCATATGTTACAGACTCGAGAATACAGGAA
1 TAGGTTTC-AAGCTCCTGCATATGTTGTGGACTCGAGAATACAAGAA
* * * **
33769688 TAGGTTTCGAGCTCCTACATATGTTGTGGACTCGAGAATACAGGTT
1 TAGGTTTCAAGCTCCTGCATATGTTGTGGACTCGAGAATACAAGAA
* * ** * *
33769734 TAGGTTTCGAGCTCCTACATATGTTACGAACTTGAGAATACAAGAA
1 TAGGTTTCAAGCTCCTGCATATGTTGTGGACTCGAGAATACAAGAA
33769780 TA
1 TA
33769782 CTAAGCCTTA
Statistics
Matches: 114, Mismatches: 24, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
45 3 0.03
46 108 0.95
47 3 0.03
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.31
Consensus pattern (46 bp):
TAGGTTTCAAGCTCCTGCATATGTTGTGGACTCGAGAATACAAGAA
Found at i:33769755 original size:92 final size:92
Alignment explanation
Indices: 33769596--33769781 Score: 225
Period size: 92 Copynumber: 2.0 Consensus size: 92
33769586 GAGTTTTGCC
** * * *
33769596 TAGGTTTCGAGCTTTTGCATATGTTGTGGACTCAAGAATTCAATAATAGGTTCAAAGCTCCTGCA
1 TAGGTTTCGAGCTCCTACATATGTTGTGGACTCAAGAATACAATAATAGGTTCAAAGCTCCTACA
*
33769661 TATGTTAC-AGACTCGAGAATACAGGAA
66 TATGTTACGA-ACTCGAGAATACAAGAA
* * * *
33769688 TAGGTTTCGAGCTCCTACATATGTTGTGGACTCGAGAATACAGGT-TTAGGTTTC-GAGCTCCTA
1 TAGGTTTCGAGCTCCTACATATGTTGTGGACTCAAGAATACA-ATAATAGG-TTCAAAGCTCCTA
*
33769751 CATATGTTACGAACTTGAGAATACAAGAA
64 CATATGTTACGAACTCGAGAATACAAGAA
33769780 TA
1 TA
33769782 CTAAGCCTTA
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
92 75 0.94
93 5 0.06
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.31
Consensus pattern (92 bp):
TAGGTTTCGAGCTCCTACATATGTTGTGGACTCAAGAATACAATAATAGGTTCAAAGCTCCTACA
TATGTTACGAACTCGAGAATACAAGAA
Found at i:33773708 original size:40 final size:40
Alignment explanation
Indices: 33773652--33773916 Score: 374
Period size: 40 Copynumber: 6.7 Consensus size: 40
33773642 TTGAATGATG
* * * *
33773652 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
33773692 TCCGGACTAAGACCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
33773732 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
33773771 TCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
33773811 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
33773851 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
33773892 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
33773917 AACGAGGAGC
Statistics
Matches: 207, Mismatches: 15, Indels: 6
0.91 0.07 0.03
Matches are distributed among these distances:
39 36 0.17
40 162 0.78
41 9 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:33773934 original size:120 final size:119
Alignment explanation
Indices: 33773652--33773949 Score: 352
Period size: 119 Copynumber: 2.5 Consensus size: 119
33773642 TTGAATGATG
* ** * * ** *
33773652 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGACCCGAAGGCATT
1 TCCGGGCTAAGACCCGAAGGCATTTGAAC-GAGTGACTATATCCGGGTTAAGTCCCGAAGGCATT
*
33773716 TGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
65 TGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
* ** * *
33773771 TCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGACCCGAAGGCATTTGAACGAGTGACTATATCCGGGTTAAGTCCCGAAGGCATTT
* *
33773836 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
66 GTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
* * * *
33773892 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAGACCCGAAGGCATTTGAACGAGTGA-CTATATCCGGGTTAAGTCCCGAAGG
33773950 TACGTGATTT
Statistics
Matches: 154, Mismatches: 21, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
119 86 0.56
120 66 0.43
121 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGCTAAGACCCGAAGGCATTTGAACGAGTGACTATATCCGGGTTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:33781820 original size:79 final size:81
Alignment explanation
Indices: 33781684--33781868 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
33781674 TTGAATGATG
*
33781684 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
33781748 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
33781763 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
33781825 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
33781843 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
33781869 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:33781882 original size:40 final size:40
Alignment explanation
Indices: 33781685--33781868 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
33781675 TGAATGATGT
* * * *
33781685 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
33781725 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
33781765 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
33781803 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
33781844 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
33781869 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:33781890 original size:79 final size:79
Alignment explanation
Indices: 33781685--33781901 Score: 201
Period size: 79 Copynumber: 2.7 Consensus size: 79
33781675 TGAATGATGT
** * * * **
33781685 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAA-ATCCCGAAGGCATT
*
33781748 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** * *
33781765 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
*
33781830 GCGAGTTACT-ATAA
66 GCGAGATACTAAT-A
* * *
33781844 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
33781902 TACGTGATTT
Statistics
Matches: 116, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 71 0.61
80 42 0.36
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:33785931 original size:8 final size:8
Alignment explanation
Indices: 33785918--33785948 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
33785908 TGTGAGACAC
33785918 GACCGTGT
1 GACCGTGT
33785926 GACCGTGT
1 GACCGTGT
33785934 GACCGTGT
1 GACCGTGT
*
33785942 GGCCGTG
1 GACCGTG
33785949 CGCAAGACAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.10, C:0.26, G:0.42, T:0.23
Consensus pattern (8 bp):
GACCGTGT
Found at i:33793348 original size:23 final size:22
Alignment explanation
Indices: 33793305--33793348 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
33793295 TTCTAAGTCG
33793305 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
33793328 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
33793349 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:33793456 original size:44 final size:45
Alignment explanation
Indices: 33793393--33793480 Score: 142
Period size: 44 Copynumber: 2.0 Consensus size: 45
33793383 AACATATACT
* * *
33793393 CGGTGGATTCAGCACATAGCAACCACCTTA-TTATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTAACTAATCAATGATGTC
33793437 CGGTGGAATCAGCACATAGCAACCACCTAACTAATCAATGATGT
1 CGGTGGAATCAGCACATAGCAACCACCTAACTAATCAATGATGT
33793481 TCAGTTCACA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 28 0.70
45 12 0.30
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTAACTAATCAATGATGTC
Found at i:33793554 original size:51 final size:50
Alignment explanation
Indices: 33793499--33793677 Score: 209
Period size: 51 Copynumber: 3.5 Consensus size: 50
33793489 CATAGTAGCT
* *
33793499 TGCACATAGTACTACACATGTGACCATTACCATCCGATACACGTAGTATCC
1 TGCACATAGTACTACACACGTGACCA-TACCATCCGGTACACGTAGTATCC
* * * * *
33793550 TGCACATAGTACTACACACGTGATCGAAACTATCCGGTACGCATAGTAGT-C
1 TGCACATAGTACTACACACGTGA-CCATACCATCCGGTACACGTAGTA-TCC
* * * *
33793601 TGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACGTAGTAGCC
1 TGCACATAGTACTACACACGTGACCATACCA-TCCGGTACACGTAGTATCC
33793651 TGCACATAGTACTACACACGTGACCAT
1 TGCACATAGTACTACACACGTGACCAT
33793678 CACTTTCACT
Statistics
Matches: 105, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
49 2 0.02
50 39 0.37
51 61 0.58
52 3 0.03
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (50 bp):
TGCACATAGTACTACACACGTGACCATACCATCCGGTACACGTAGTATCC
Found at i:33793665 original size:101 final size:101
Alignment explanation
Indices: 33793489--33793673 Score: 293
Period size: 101 Copynumber: 1.8 Consensus size: 101
33793479 GTTCAGTTCA
* *
33793489 CATAGTAGCTTGCACATAGTACTACACATGTGACCATTACCATCCGATACACGTAGTATCCTGCA
1 CATAGTAGCTTGCACATAGTACTACACATGCGACCA-TACCATCCGATACACGTAGTAGCCTGCA
33793554 CATAGTACTACACACGTGATCGAAACTATCCGGTACG
65 CATAGTACTACACACGTGATCGAAACTATCCGGTACG
* *
33793591 CATAGTAG-TCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACGTAGTAGCCTGC
1 CATAGTAGCT-TGCACATAGTACTACACATGCGACCATACCA-TCCGATACACGTAGTAGCCTGC
33793654 ACATAGTACTACACACGTGA
64 ACATAGTACTACACACGTGA
33793674 CCATCACTTT
Statistics
Matches: 77, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
100 4 0.05
101 41 0.53
102 32 0.42
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (101 bp):
CATAGTAGCTTGCACATAGTACTACACATGCGACCATACCATCCGATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAACTATCCGGTACG
Found at i:33796680 original size:74 final size:73
Alignment explanation
Indices: 33796590--33796736 Score: 267
Period size: 74 Copynumber: 2.0 Consensus size: 73
33796580 AAAAACTTTG
*
33796590 GAAACATGCCTAACCATACCCATTTTTGTCCACCAACTTAACCAATGGTCTAATTACCATATAAA
1 GAAACATGCCGAACCATACCCATTTTTGTCCACCAACTTAACCAATGGTCTAATTACCATATAAA
33796655 GACCTCCAA
66 -ACCTCCAA
*
33796664 GAAACATGCCGAACCATATCCATTTTTGTCCACCAACTTAACCAATGGTCTAATTACCATATAAA
1 GAAACATGCCGAACCATACCCATTTTTGTCCACCAACTTAACCAATGGTCTAATTACCATATAAA
33796729 ACCTCCAA
66 ACCTCCAA
33796737 TTTAAAATTT
Statistics
Matches: 71, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
73 8 0.11
74 63 0.89
ACGTcount: A:0.37, C:0.29, G:0.08, T:0.26
Consensus pattern (73 bp):
GAAACATGCCGAACCATACCCATTTTTGTCCACCAACTTAACCAATGGTCTAATTACCATATAAA
ACCTCCAA
Found at i:33798659 original size:20 final size:20
Alignment explanation
Indices: 33798634--33798730 Score: 67
Period size: 20 Copynumber: 4.8 Consensus size: 20
33798624 ATTCCAAAAA
*
33798634 TAATATTATTTTAATAAATT
1 TAATATTAATTTAATAAATT
*
33798654 TAATATTAAATT--T-AATT
1 TAATATTAATTTAATAAATT
* *
33798671 TAATATTTATCTTGTAGATGAATAT
1 TAATA-TTA-ATT-TA-ATAAAT-T
* *
33798696 T-CTATTAATTTAATAGATT
1 TAATATTAATTTAATAAATT
33798715 TAATATTAATTTAATA
1 TAATATTAATTTAATA
33798731 TTAAAGTGAT
Statistics
Matches: 59, Mismatches: 9, Indels: 18
0.69 0.10 0.21
Matches are distributed among these distances:
17 9 0.15
18 4 0.07
19 3 0.05
20 28 0.47
21 2 0.03
22 2 0.03
23 4 0.07
24 5 0.08
25 2 0.03
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (20 bp):
TAATATTAATTTAATAAATT
Found at i:33798728 original size:11 final size:11
Alignment explanation
Indices: 33798698--33798734 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
33798688 ATGAATATTC
33798698 TATTAATTTAA
1 TATTAATTTAA
*
33798709 TA--GATTTAA
1 TATTAATTTAA
33798718 TATTAATTTAA
1 TATTAATTTAA
33798729 TATTAA
1 TATTAA
33798735 AGTGATTAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 8 0.36
11 14 0.64
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (11 bp):
TATTAATTTAA
Found at i:33803392 original size:29 final size:29
Alignment explanation
Indices: 33803352--33803407 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
33803342 TAACACACCT
* *
33803352 GTGTGGTCCACATAGTCTGGCACACGGTC
1 GTGTGGTCCACACAGTCTGCCACACGGTC
*
33803381 GTGTGG-CTCACACAGTTTGCCACACGG
1 GTGTGGTC-CACACAGTCTGCCACACGG
33803408 CCACGTGATG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 1 0.04
29 22 0.96
ACGTcount: A:0.18, C:0.29, G:0.30, T:0.23
Consensus pattern (29 bp):
GTGTGGTCCACACAGTCTGCCACACGGTC
Found at i:33805384 original size:20 final size:19
Alignment explanation
Indices: 33805324--33805384 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 19
33805314 TACAAAATAA
*
33805324 TTCAAAATAGTTTTAAAAAC
1 TTCAAAATA-TTTTAAAAAT
*
33805344 TTCAAAATAATTTT-TAAAT
1 TTCAAAAT-ATTTTAAAAAT
33805363 TTCAAAATATTTATAAAAAT
1 TTCAAAATATTT-TAAAAAT
33805383 TT
1 TT
33805385 TAGAATTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
18 4 0.11
19 12 0.34
20 18 0.51
21 1 0.03
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.43
Consensus pattern (19 bp):
TTCAAAATATTTTAAAAAT
Found at i:33826083 original size:45 final size:45
Alignment explanation
Indices: 33826032--33826210 Score: 265
Period size: 45 Copynumber: 4.0 Consensus size: 45
33826022 TACTGGTTAC
* *
33826032 CATTGATTATAAATGTGGTTGCTGTGTGCTGATTCCACCGGGTAT
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGGTAT
33826077 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGGTA-
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGGTAT
* *
33826121 CTATTGATTATGAAGGTGGTTGCTATGTGCTGATTCCACCGAGTAT
1 C-ATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGGTAT
* * *
33826167 CATTGACTATAAGGGTGG-TGCTATGTGCTGA-TCCACCGTGTAT
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGGTAT
33826210 C
1 C
33826211 TGTTATTATT
Statistics
Matches: 124, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
43 12 0.10
44 14 0.11
45 97 0.78
46 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (45 bp):
CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGGTAT
Found at i:33828857 original size:41 final size:41
Alignment explanation
Indices: 33828652--33828855 Score: 295
Period size: 41 Copynumber: 5.0 Consensus size: 41
33828642 TGAATAATGA
33828652 TGAATTGCACATACGTGCCCCTAG-TTGTACTTCGGTACCCT
1 TGAATTGCACATACGTGCCCCT-GTTTGTACTTCGGTACCCT
* **
33828693 TAAATTGCACATACGTGCCCCTGTTTGTACTTTAGTACCCT
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCT
*
33828734 TGAATTGCACATACGTGCACCTGTTTGTACTTCGGTACCCT
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCT
* * *
33828775 TGAATTGCTCATACGTGTCCCC-GTTCGTACTTCGGTACCCC
1 TGAATTGCACATACGTG-CCCCTGTTTGTACTTCGGTACCCT
* *
33828816 TGAATTGCACAAACGTGCCCCTGTTTGTACTTCGATACCC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
33828856 CTAGATGTAC
Statistics
Matches: 145, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
40 5 0.03
41 137 0.94
42 3 0.02
ACGTcount: A:0.20, C:0.29, G:0.18, T:0.33
Consensus pattern (41 bp):
TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCT
Found at i:33834813 original size:41 final size:41
Alignment explanation
Indices: 33834710--33834813 Score: 172
Period size: 41 Copynumber: 2.5 Consensus size: 41
33834700 TTTAACATAT
* * *
33834710 TCACCGGCACTTAACCTGCTAAGCTTATAGCCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
*
33834751 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
33834792 TCACCGGCACTTAGCCTGCTAG
1 TCACCGGCACTTAGCCTGCTAG
33834814 ACNNNNNNNN
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
Found at i:33857815 original size:80 final size:80
Alignment explanation
Indices: 33857681--33857841 Score: 277
Period size: 80 Copynumber: 2.0 Consensus size: 80
33857671 CAGGTTTGAA
*
33857681 TAAGTCATAGACTCTGATATAGAATTATGAATCCATCTATTGAATTTCAGGAAAAAAACATAGAC
1 TAAGTCATAGACTCTGATATAGAATTATGAATCAATCTATTGAATTTCAGGAAAAAAACATAGAC
33857746 AAATATCTACAATGG
66 AAATATCTACAATGG
* * * *
33857761 TAAGTCATAGACTCTGATATAGCATTATGAATCAATCTATTGAATTTCATGAAAATATCATAGAC
1 TAAGTCATAGACTCTGATATAGAATTATGAATCAATCTATTGAATTTCAGGAAAAAAACATAGAC
33857826 AAATATCTACAATGG
66 AAATATCTACAATGG
33857841 T
1 T
33857842 TGCAGTTGTA
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
80 76 1.00
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.31
Consensus pattern (80 bp):
TAAGTCATAGACTCTGATATAGAATTATGAATCAATCTATTGAATTTCAGGAAAAAAACATAGAC
AAATATCTACAATGG
Found at i:33864937 original size:40 final size:40
Alignment explanation
Indices: 33864863--33864982 Score: 122
Period size: 40 Copynumber: 3.0 Consensus size: 40
33864853 ACACTGTTCA
33864863 TGCCACGTCAGCAAATCGCGTCCTAGA-G-GG-CGCGATTTCC
1 TGCCACGTCAGCAAATCGCG--CT-GACGTGGACGCGATTTCC
*
33864903 TTCCACGTCAGCAAATCGCGCTGACGTGGACGCGATTTCC
1 TGCCACGTCAGCAAATCGCGCTGACGTGGACGCGATTTCC
* * * *
33864943 TGCGCATGCCCTG-ACATCGCGCTGACGTGGACGCGATTTC
1 TGC-CACG-TCAGCAAATCGCGCTGACGTGGACGCGATTTC
33864983 GCGGAAAATG
Statistics
Matches: 69, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
37 2 0.03
38 3 0.04
39 2 0.03
40 31 0.45
41 29 0.42
42 2 0.03
ACGTcount: A:0.18, C:0.33, G:0.28, T:0.22
Consensus pattern (40 bp):
TGCCACGTCAGCAAATCGCGCTGACGTGGACGCGATTTCC
Found at i:33867410 original size:25 final size:25
Alignment explanation
Indices: 33867378--33867428 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
33867368 CAAAAAGGTG
33867378 AGCTATAAAGCTCAGTGTAAAACTA
1 AGCTATAAAGCTCAGTGTAAAACTA
33867403 AGCTATAAAGCTCAGTGTAAAACTA
1 AGCTATAAAGCTCAGTGTAAAACTA
33867428 A
1 A
33867429 CTCAGCAGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.45, C:0.16, G:0.16, T:0.24
Consensus pattern (25 bp):
AGCTATAAAGCTCAGTGTAAAACTA
Found at i:33883530 original size:12 final size:13
Alignment explanation
Indices: 33883506--33883534 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
33883496 GGGCTATAAC
33883506 TATTGCATTTATT
1 TATTGCATTTATT
33883519 TATTGC-TTTATT
1 TATTGCATTTATT
33883531 TATT
1 TATT
33883535 CATGTATGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:33910603 original size:22 final size:19
Alignment explanation
Indices: 33910578--33910620 Score: 59
Period size: 22 Copynumber: 2.1 Consensus size: 19
33910568 ATGATAATCA
33910578 ATAATATATAATTATATCTATT
1 ATAATATAT-ATTA-AT-TATT
33910600 ATAATATATATTAATTATT
1 ATAATATATATTAATTATT
33910619 AT
1 AT
33910621 CAACTTTGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.29
20 2 0.10
21 4 0.19
22 9 0.43
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (19 bp):
ATAATATATATTAATTATT
Found at i:33910992 original size:19 final size:19
Alignment explanation
Indices: 33910968--33911020 Score: 79
Period size: 19 Copynumber: 2.8 Consensus size: 19
33910958 GCCCCATTCG
*
33910968 ACCAGCAGCTGATGCACAC
1 ACCAGCAGCTGACGCACAC
*
33910987 ACCAGCAGTTGACGCACAC
1 ACCAGCAGCTGACGCACAC
*
33911006 ACCAGCAGCTCACGC
1 ACCAGCAGCTGACGC
33911021 CGCTACTACC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.30, C:0.40, G:0.21, T:0.09
Consensus pattern (19 bp):
ACCAGCAGCTGACGCACAC
Found at i:33913484 original size:11 final size:11
Alignment explanation
Indices: 33913468--33913500 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
33913458 GGGAAATGCA
33913468 AAGAAAAAAAG
1 AAGAAAAAAAG
33913479 AAGAAAAAAAG
1 AAGAAAAAAAG
33913490 -AGAAAAAAAG
1 AAGAAAAAAAG
33913500 A
1 A
33913501 GAGAGCATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (11 bp):
AAGAAAAAAAG
Found at i:33913485 original size:10 final size:10
Alignment explanation
Indices: 33913469--33913502 Score: 59
Period size: 10 Copynumber: 3.3 Consensus size: 10
33913459 GGAAATGCAA
33913469 AGAAAAAAAG
1 AGAAAAAAAG
33913479 AAGAAAAAAAG
1 -AGAAAAAAAG
33913490 AGAAAAAAAG
1 AGAAAAAAAG
33913500 AGA
1 AGA
33913503 GAGCATATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 13 0.57
11 10 0.43
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (10 bp):
AGAAAAAAAG
Found at i:33916118 original size:17 final size:18
Alignment explanation
Indices: 33916087--33916125 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
33916077 AACAGATAAG
*
33916087 AAAAATGAAATGAAAGTA
1 AAAAATGAAATGAAAGGA
*
33916105 AAAAATTAAA-GAAAGGA
1 AAAAATGAAATGAAAGGA
33916122 AAAA
1 AAAA
33916126 TAAAAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.13
Consensus pattern (18 bp):
AAAAATGAAATGAAAGGA
Found at i:33921110 original size:19 final size:19
Alignment explanation
Indices: 33921086--33921124 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
33921076 TTGTTTCTTT
33921086 ATACGTTCTAGGAACTCCA
1 ATACGTTCTAGGAACTCCA
33921105 ATACGTTCTAGGAACTCCA
1 ATACGTTCTAGGAACTCCA
33921124 A
1 A
33921125 ACGCGGTGGA
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:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (19 bp):
ATACGTTCTAGGAACTCCA
Found at i:33921190 original size:29 final size:29
Alignment explanation
Indices: 33921158--33921232 Score: 75
Period size: 29 Copynumber: 2.6 Consensus size: 29
33921148 CCTCCCCTTT
*
33921158 TCTTCTTTTTCTTTTT-CTTTCTTTCTCT-C
1 TCTTCTTTTTCTTTTTGCTTGCTTT-T-TGC
*
33921187 TCTT-TTTTTGTTTGTTGCTTGCTTTTTGC
1 TCTTCTTTTTCTTT-TTGCTTGCTTTTTGC
*
33921216 TCTTCTTTTTTTTTTTG
1 TCTTCTTTTTCTTTTTG
33921233 ATTCTTGGTT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
28 9 0.23
29 15 0.38
30 15 0.38
ACGTcount: A:0.00, C:0.19, G:0.08, T:0.73
Consensus pattern (29 bp):
TCTTCTTTTTCTTTTTGCTTGCTTTTTGC
Found at i:33921828 original size:29 final size:29
Alignment explanation
Indices: 33921794--33921893 Score: 87
Period size: 30 Copynumber: 3.4 Consensus size: 29
33921784 TAAGGGCCCG
*
33921794 AATGTAATTTAC-AGAATATTAGGGGTCAA
1 AATGTAATTTACAAAAAT-TTAGGGGTCAA
* *
33921823 GATGTAAATTTAGAAAAATTTAGGGGTCAA
1 AATGT-AATTTACAAAAATTTAGGGGTCAA
** * *
33921853 AATGTAATTTTTGAAAAGTTCAGGGG-CTAA
1 AATGTAA-TTTACAAAAATTTAGGGGTC-AA
33921883 AATGTAATTTA
1 AATGTAATTTA
33921894 TATTTTTTGT
Statistics
Matches: 59, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
29 10 0.17
30 45 0.76
31 4 0.07
ACGTcount: A:0.41, C:0.05, G:0.21, T:0.33
Consensus pattern (29 bp):
AATGTAATTTACAAAAATTTAGGGGTCAA
Found at i:33921906 original size:16 final size:17
Alignment explanation
Indices: 33921885--33921918 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
33921875 GGGGCTAAAA
33921885 TGTAATTTATAT-TTTT
1 TGTAATTTATATCTTTT
33921901 TGTAATTTATATCTTTT
1 TGTAATTTATATCTTTT
33921918 T
1 T
33921919 TTAGAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.24, C:0.03, G:0.06, T:0.68
Consensus pattern (17 bp):
TGTAATTTATATCTTTT
Found at i:33929674 original size:23 final size:24
Alignment explanation
Indices: 33929630--33929674 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
33929620 ATTCCTATGT
33929630 GGAGAAATAAGGAAGGTGAGCGAA
1 GGAGAAATAAGGAAGGTGAGCGAA
*
33929654 GGAGAAATAAGG-CGGTGAGCG
1 GGAGAAATAAGGAAGGTGAGCG
33929675 GGTAAGGGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.40, C:0.07, G:0.44, T:0.09
Consensus pattern (24 bp):
GGAGAAATAAGGAAGGTGAGCGAA
Found at i:33937017 original size:27 final size:27
Alignment explanation
Indices: 33936989--33937045 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
33936979 AGTTAATAAA
33936989 TTCTCTTTGAGTTTTTCTTTT-CAAGAAT
1 TTCTC-TTGAG-TTTTCTTTTACAAGAAT
*
33937017 TTCTCTTGAGTTTTCTTTTAGAAGAAT
1 TTCTCTTGAGTTTTCTTTTACAAGAAT
33937044 TT
1 TT
33937046 TAACAATCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 9 0.33
27 13 0.48
28 5 0.19
ACGTcount: A:0.19, C:0.12, G:0.12, T:0.56
Consensus pattern (27 bp):
TTCTCTTGAGTTTTCTTTTACAAGAAT
Found at i:33937379 original size:15 final size:15
Alignment explanation
Indices: 33937359--33937388 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
33937349 TAAGTCAAAT
33937359 CTACGACTTCAACAA
1 CTACGACTTCAACAA
33937374 CTACGACTTCAACAA
1 CTACGACTTCAACAA
33937389 ACTTACGATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.33, G:0.07, T:0.20
Consensus pattern (15 bp):
CTACGACTTCAACAA
Found at i:33940871 original size:129 final size:129
Alignment explanation
Indices: 33940722--33941010 Score: 427
Period size: 129 Copynumber: 2.2 Consensus size: 129
33940712 AAAAAACACT
* * * *
33940722 GCTAAAGACCAAGACCTTTAGCGGCATTTTCCCCACAAATGCAGCTAAAGACCAGGACCTTTAGC
1 GCTAAAGACCAAGACCTTTAGCAGCACTTTCCCCACAAACGCAGCTAAAGACCAAGACCTTTAGC
* *
33940787 GGCGCTTTTCCCACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCATTTTA-CACAAACGCC
66 GGCGCTTTTACCACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGC-TTTTACCACAAACGCC
* * * * *
33940851 GCTAAAGACCATGATCTTTAGCAGCGCTTTCCTCACAAACGCTGCTAAAGACCAAGACCTTTAGC
1 GCTAAAGACCAAGACCTTTAGCAGCACTTTCCCCACAAACGCAGCTAAAGACCAAGACCTTTAGC
* *
33940916 GGCGTTTTTACCACAAATGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCACAAACGCC
66 GGCGCTTTTACCACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCACAAACGCC
* *
33940980 GCTAAAGAACAAGACCTTTAGCAGCGCTTTC
1 GCTAAAGACCAAGACCTTTAGCAGCACTTTC
33941011 TCCAAAAATG
Statistics
Matches: 143, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
128 5 0.03
129 138 0.97
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.21
Consensus pattern (129 bp):
GCTAAAGACCAAGACCTTTAGCAGCACTTTCCCCACAAACGCAGCTAAAGACCAAGACCTTTAGC
GGCGCTTTTACCACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCACAAACGCC
Done.