Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009611.1 Hibiscus syriacus cultivar Beakdansim tig00116997_pilon, whole genome shotgun sequence
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: 6671611
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 21 of 27
Found at i:5331198 original size:25 final size:25
Alignment explanation
Indices: 5331127--5331203 Score: 77
Period size: 25 Copynumber: 3.1 Consensus size: 25
5331117 CAACTCATAT
*
5331127 AAATTTGCACCGAAGTGCCACGTAG
1 AAATTTGCACCGAAGTGCCGCGTAG
* * *
5331152 AATTTTGTC-TCGAA-TGATCGCGTAG
1 AAATTTG-CACCGAAGTG-CCGCGTAG
*
5331177 AAATTTGCACCAAAGTGCCGCGTAG
1 AAATTTGCACCGAAGTGCCGCGTAG
5331202 AA
1 AA
5331204 TTGTACATTA
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
24 3 0.08
25 34 0.85
26 3 0.08
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (25 bp):
AAATTTGCACCGAAGTGCCGCGTAG
Found at i:5331579 original size:25 final size:25
Alignment explanation
Indices: 5331534--5331583 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
5331524 ACATAATGCA
* *
5331534 TATAATATGAATTTATGTCATGTAT
1 TATAATATGAATATATATCATGTAT
5331559 TATAATATGGAATATA-ATCATGTAT
1 TATAATAT-GAATATATATCATGTAT
5331584 CAAGATATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.40, C:0.04, G:0.12, T:0.44
Consensus pattern (25 bp):
TATAATATGAATATATATCATGTAT
Found at i:5342742 original size:18 final size:17
Alignment explanation
Indices: 5342719--5342763 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
5342709 GTTTATGAGA
5342719 GAATTGGAATATGTGAAG
1 GAATTGGAATATGT-AAG
* * *
5342737 GAATTGTAATTTGTCAG
1 GAATTGGAATATGTAAG
5342754 GAATTGGAAT
1 GAATTGGAAT
5342764 CCAATTTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.36, C:0.02, G:0.29, T:0.33
Consensus pattern (17 bp):
GAATTGGAATATGTAAG
Found at i:5343559 original size:251 final size:244
Alignment explanation
Indices: 5343103--5343637 Score: 790
Period size: 251 Copynumber: 2.2 Consensus size: 244
5343093 CCGACCCGAG
* * *
5343103 CCCGACCCG-AATAATAAAAAAATATTTTTATTCAATAAAAACAGTGACTTCATTGAAATATATA
1 CCCGACCCGAAATAATAAAAAAATATTTTTATTCAATAAAAACAATAACTTAATTGAAATATATA
* * *
5343167 TATAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATTTTTTGGGTCGGG
66 TAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATTATTT--GTAGGG
* *
5343232 TCGGGTATTTTTCACCCTAAACCCGAACCCAACTCGACCCGAATATAACACTTAAAAAAATCGAC
129 TCGGGTATTTTTCACCCTAAACCCGAACCCAACCCGACCCGAATATAACACTTAAAAAAACCGAC
5343297 CCGACCAAAATAAAGTTTCA-CCGACCCGACCCGAATATACGAATTAGAAA
194 CCGACCAAAATAAAGTTTCACCCGACCCGACCCGAATATACGAATTAGAAA
5343347 TTCGATCCGACCCGAAATAATAAAAAAATATTTTTATTCAATAAAAACAATAACTTAATTGGAAA
1 --C---CCGACCCGAAATAATAAAAAAATATTTTTATTCAATAAAAACAATAACTTAATT-G---
5343412 AAATTATATATAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATA-TAT
57 AAA-TATATATAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATTAT
* ** *
5343476 TT-TAGGGTCGGGTATTTTTCACCCTAAACCCGAACTCGGCCCGACCCGAATATCACACTTAAAA
121 TTGTAGGGTCGGGTATTTTTCACCCTAAACCCGAACCCAACCCGACCCGAATATAACACTTAAAA
* * *
5343540 CAACCGACCCGACCAAAATAAAGTTTCACCCGACCCGATCCGAATATATGAATTAGAAA
186 AAACCGACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAATATACGAATTAGAAA
5343599 CCCGACCCGAAATAATAAAAAAAATATTTTTATTCAATA
1 CCCGACCCGAAATAAT-AAAAAAATATTTTTATTCAATA
5343638 TATGAATAAG
Statistics
Matches: 263, Mismatches: 15, Indels: 20
0.88 0.05 0.07
Matches are distributed among these distances:
246 1 0.00
247 15 0.06
248 22 0.08
249 8 0.03
250 43 0.16
251 83 0.32
252 28 0.11
254 7 0.03
255 56 0.21
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.28
Consensus pattern (244 bp):
CCCGACCCGAAATAATAAAAAAATATTTTTATTCAATAAAAACAATAACTTAATTGAAATATATA
TAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATTATTTGTAGGGTC
GGGTATTTTTCACCCTAAACCCGAACCCAACCCGACCCGAATATAACACTTAAAAAAACCGACCC
GACCAAAATAAAGTTTCACCCGACCCGACCCGAATATACGAATTAGAAA
Found at i:5344721 original size:60 final size:59
Alignment explanation
Indices: 5344555--5344733 Score: 189
Period size: 60 Copynumber: 3.0 Consensus size: 59
5344545 GATGAAATTG
* ** ** *
5344555 GGATGAAATTGGAATATTCAAAAAAATTGGGGACCAATTTAGAAAGAGAGTCATAGTTTA
1 GGATGAAATTGAAATATTC-AAAAGTTTAAGGACCAATTTAGAATGAGAGTCATAGTTTA
* * * **
5344615 GGAATGAAATTAAAATGTTCAAAAGTGTAAGGACTGATTTAGAATGAGAGTCATAGTTTAA
1 GG-ATGAAATTGAAATATTCAAAAGTTTAAGGACCAATTTAGAATGAGAGTCATAGTTT-A
* * *
5344676 GGATGAAATTGAAATATTCAAAAGTTTAAGAACCAATTTTA-AATGAGGGTTATAGTTT
1 GGATGAAATTGAAATATTCAAAAGTTTAAGGACCAA-TTTAGAATGAGAGTCATAGTTT
5344734 GGGAACATAT
Statistics
Matches: 97, Mismatches: 19, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
60 76 0.78
61 21 0.22
ACGTcount: A:0.42, C:0.06, G:0.22, T:0.30
Consensus pattern (59 bp):
GGATGAAATTGAAATATTCAAAAGTTTAAGGACCAATTTAGAATGAGAGTCATAGTTTA
Found at i:5364036 original size:2 final size:2
Alignment explanation
Indices: 5364031--5364086 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
5364021 ACACACACAC
5364031 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5364073 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
5364087 CCTCATCAGC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5364115 original size:6 final size:6
Alignment explanation
Indices: 5364106--5364157 Score: 50
Period size: 6 Copynumber: 8.7 Consensus size: 6
5364096 CATCAGCATC
* ** * * *
5364106 ATCATT ATCAAT ATCATT ATCAAC ATCATT ATCATT GTTACT ATCATT
1 ATCATT ATCATT ATCATT ATCATT ATCATT ATCATT ATCATT ATCATT
5364154 ATCA
1 ATCA
5364158 CAGTTCCTTA
Statistics
Matches: 34, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.37, C:0.19, G:0.02, T:0.42
Consensus pattern (6 bp):
ATCATT
Found at i:5364121 original size:12 final size:12
Alignment explanation
Indices: 5364105--5364139 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
5364095 GCATCAGCAT
5364105 CATCATTATCAA
1 CATCATTATCAA
*
5364117 TATCATTATCAA
1 CATCATTATCAA
5364129 CATCATTATCA
1 CATCATTATCA
5364140 TTGTTACTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.37
Consensus pattern (12 bp):
CATCATTATCAA
Found at i:5364572 original size:45 final size:46
Alignment explanation
Indices: 5364500--5364617 Score: 123
Period size: 45 Copynumber: 2.6 Consensus size: 46
5364490 ATCACATAGA
* * * * *
5364500 CATATAAACACACAGATC-CTTATCACATAGCTTATAGCACATGTT
1 CATATAATCACATAGATCACATAACACATAGCTTATAGCACATGCT
* * * * *
5364545 CATATAATCTCCTAGGTCA-ATAACACATAGCTTATATCATATGCT
1 CATATAATCACATAGATCACATAACACATAGCTTATAGCACATGCT
*
5364590 CATGTAATCACATAGATCACATAACACA
1 CATATAATCACATAGATCACATAACACA
5364618 CAGATTATGG
Statistics
Matches: 57, Mismatches: 14, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
45 49 0.86
46 8 0.14
ACGTcount: A:0.39, C:0.24, G:0.08, T:0.29
Consensus pattern (46 bp):
CATATAATCACATAGATCACATAACACATAGCTTATAGCACATGCT
Found at i:5370388 original size:7 final size:7
Alignment explanation
Indices: 5370376--5370432 Score: 53
Period size: 7 Copynumber: 8.3 Consensus size: 7
5370366 TAGAAAAGTT
5370376 AACGGTC
1 AACGGTC
5370383 AACGGTC
1 AACGGTC
*
5370390 AA-AGTC
1 AACGGTC
* **
5370396 AATGACC
1 AACGGTC
5370403 AACGGTC
1 AACGGTC
*
5370410 AATGGTC
1 AACGGTC
*
5370417 AACGATC
1 AACGGTC
5370424 AACGGTC
1 AACGGTC
5370431 AA
1 AA
5370433 AATCAATGAG
Statistics
Matches: 38, Mismatches: 11, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
6 5 0.13
7 33 0.87
ACGTcount: A:0.37, C:0.25, G:0.23, T:0.16
Consensus pattern (7 bp):
AACGGTC
Found at i:5370456 original size:17 final size:17
Alignment explanation
Indices: 5370434--5370471 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
5370424 AACGGTCAAA
5370434 ATCAATGAGTTAATTCG
1 ATCAATGAGTTAATTCG
* *
5370451 ATCAATGGGTTCATTCG
1 ATCAATGAGTTAATTCG
5370468 ATCA
1 ATCA
5370472 CCTGGTCGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (17 bp):
ATCAATGAGTTAATTCG
Found at i:5370764 original size:23 final size:23
Alignment explanation
Indices: 5370738--5370785 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
5370728 ATAAAGTACA
*
5370738 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
5370761 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
5370784 AT
1 AT
5370786 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:5371192 original size:21 final size:22
Alignment explanation
Indices: 5371167--5371218 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
5371157 ACACTTTACA
*
5371167 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
5371190 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
5371213 ATATAA
1 ATATAA
5371219 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:5371203 original size:23 final size:23
Alignment explanation
Indices: 5371177--5371239 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
5371167 ATATAACCAC
5371177 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
5371200 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
5371223 TACCTATTACATCATAT
1 TACCTATTACATTATAT
5371240 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:5371697 original size:39 final size:39
Alignment explanation
Indices: 5371643--5371768 Score: 234
Period size: 39 Copynumber: 3.2 Consensus size: 39
5371633 TCAAGTTGTA
5371643 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
5371682 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
* *
5371721 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
5371760 GATTTTGAT
1 GATTTTGAT
5371769 GAGCATCGGA
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 85 1.00
ACGTcount: A:0.17, C:0.13, G:0.21, T:0.48
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
Found at i:5372049 original size:18 final size:18
Alignment explanation
Indices: 5372026--5372062 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
5372016 CGAAATATAT
5372026 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
5372044 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
5372062 A
1 A
5372063 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:5372339 original size:25 final size:25
Alignment explanation
Indices: 5372311--5372361 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
5372301 TTAATCCAAA
*
5372311 TAATGTACCCATAACAATGTTCAAT
1 TAATGTACCCACAACAATGTTCAAT
*
5372336 TAATGTACCCACAACAATGTTTAAT
1 TAATGTACCCACAACAATGTTCAAT
5372361 T
1 T
5372362 GATTTGTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (25 bp):
TAATGTACCCACAACAATGTTCAAT
Found at i:5372655 original size:21 final size:22
Alignment explanation
Indices: 5372630--5372681 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
5372620 ACACTTTACA
*
5372630 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
5372653 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
5372676 ATATAA
1 ATATAA
5372682 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:5372666 original size:23 final size:23
Alignment explanation
Indices: 5372640--5372702 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
5372630 ATATAACCAC
5372640 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
5372663 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
5372686 TACCTATTACATCATAT
1 TACCTATTACATTATAT
5372703 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:5373086 original size:21 final size:22
Alignment explanation
Indices: 5373061--5373112 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
5373051 ACACTTTACA
*
5373061 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
5373084 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
5373107 ATATAA
1 ATATAA
5373113 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:5373097 original size:23 final size:23
Alignment explanation
Indices: 5373071--5373133 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
5373061 ATATAACCAC
5373071 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
5373094 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
5373117 TACCTATTACATCATAT
1 TACCTATTACATTATAT
5373134 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:5373196 original size:431 final size:431
Alignment explanation
Indices: 5372393--5373232 Score: 1635
Period size: 431 Copynumber: 1.9 Consensus size: 431
5372383 TTTGAATTAT
5372393 TTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATAT
1 TTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATAT
* *
5372458 TTAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTATACGCCTATA
66 TTAGAATTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATA
5372523 ATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGA
131 ATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGA
5372588 AAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATT
196 AAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATT
5372653 ATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATAT
261 ATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATAT
*
5372718 TGAAAGTGTCCATACTTTTTATAAAAAGGATCGATATTTTTTTTAAAACTTATGTAATTTATGTT
326 TGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTT
5372783 TCAATTTTTTTAACAGTGTTTCGTGTTTTCCACCTACAATA
391 TCAATTTTTTTAACAGTGTTTCGTGTTTTCCACCTACAATA
* *
5372824 TTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTAT
1 TTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATAT
5372889 TTAGAATTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATA
66 TTAGAATTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATA
5372954 ATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGA
131 ATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGA
5373019 AAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATT
196 AAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATT
5373084 ATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATAT
261 ATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATAT
5373149 TGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTT
326 TGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTT
5373214 TCAATTTTTTTAACAGTGT
391 TCAATTTTTTTAACAGTGT
5373233 ACTGCGAATT
Statistics
Matches: 404, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
431 404 1.00
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.40
Consensus pattern (431 bp):
TTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATAT
TTAGAATTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATA
ATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGA
AAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATT
ATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATAT
TGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTT
TCAATTTTTTTAACAGTGTTTCGTGTTTTCCACCTACAATA
Found at i:5376293 original size:22 final size:23
Alignment explanation
Indices: 5376262--5376304 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
5376252 TTCCACAGTG
5376262 AAAAAAGTATCGACAC-TTTTAT
1 AAAAAAGTATCGACACATTTTAT
*
5376284 AAAAAGGTATCGACACATTTT
1 AAAAAAGTATCGACACATTTT
5376305 TATACCGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (23 bp):
AAAAAAGTATCGACACATTTTAT
Found at i:5376608 original size:183 final size:183
Alignment explanation
Indices: 5376300--5376994 Score: 1241
Period size: 183 Copynumber: 3.8 Consensus size: 183
5376290 GTATCGACAC
5376300 ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAA
1 ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAA
5376365 TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGAACATAAAGTACCGACAC
66 TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGAACATAAAGTACCGACAC
5376430 AATATTAGAAAGTGTCGATAAAGGTTGTAGACCTATTCGCTCATAAAACCGGT
131 AATATTAGAAAGTGTCGATAAAGGTTGTAGACCTATTCGCTCATAAAACCGGT
5376483 ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAA
1 ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAA
*
5376548 TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTAAACATAAAGTACCGACAC
66 TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGAACATAAAGTACCGACAC
5376613 AATATTAGAAAGTGTCGATAAAGGTTGTAGACCTATTCGCTCATAAAACCGGT
131 AATATTAGAAAGTGTCGATAAAGGTTGTAGACCTATTCGCTCATAAAACCGGT
*
5376666 ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAA
1 ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAA
*
5376731 TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACAC
66 TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGAACATAAAGTACCGACAC
*
5376796 AATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGT
131 AATATTAGAAAGTGTCGATAAAGGTTGTAGACCTATTCGCTCATAAAACCGGT
* *
5376849 ATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTTTTTT
1 ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATG---TGT
* * * * *
5376914 CAA--TCGACACTTTTTTAAATGGTATCGACACATTTTTCTTTCATTCTGGACATAAAGTACAGA
63 AAATGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGAACATAAAGTACCGA
*
5376977 CACAATATTAAAAAGTGT
128 CACAATATTAGAAAGTGT
5376995 GAAAACTTTG
Statistics
Matches: 496, Mismatches: 13, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
183 418 0.84
184 74 0.15
186 4 0.01
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.36
Consensus pattern (183 bp):
ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAA
TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGAACATAAAGTACCGACAC
AATATTAGAAAGTGTCGATAAAGGTTGTAGACCTATTCGCTCATAAAACCGGT
Found at i:5378202 original size:3 final size:3
Alignment explanation
Indices: 5378194--5378268 Score: 78
Period size: 3 Copynumber: 25.0 Consensus size: 3
5378184 ACTTGTTTGG
* * * **
5378194 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * *
5378242 AGC TTC ATC GTC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC
5378269 GTCAGCTTCA
Statistics
Matches: 57, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.25, C:0.35, G:0.05, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:5380082 original size:199 final size:199
Alignment explanation
Indices: 5379742--5380517 Score: 1516
Period size: 199 Copynumber: 3.9 Consensus size: 199
5379732 TATTTAAATT
5379742 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
5379807 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
5379872 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGA
131 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGA
5379937 AAAA
196 AAAA
5379941 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
5380006 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
5380071 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGA
131 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGA
5380136 AAAA
196 AAAA
5380140 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
5380205 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
*
5380270 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACATTGTTTTCCATTCATTCTGGGA
131 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGA
5380335 AAAA
196 AAAA
5380339 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
5380404 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
* *
5380469 ATTGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
131 ATCGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTT
5380518 GGCCATATTG
Statistics
Matches: 572, Mismatches: 4, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
199 534 0.93
200 38 0.07
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.37
Consensus pattern (199 bp):
AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGA
AAAA
Found at i:5380670 original size:19 final size:19
Alignment explanation
Indices: 5380638--5380684 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
5380628 TTATATTCAC
5380638 ATACAAAA--ATAAATCGT
1 ATACAAAATTATAAATCGT
*
5380655 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
5380674 ATACAAAATTA
1 ATACAAAATTA
5380685 ACTCGACATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 8 0.30
19 19 0.70
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:5382512 original size:33 final size:33
Alignment explanation
Indices: 5382475--5382540 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
5382465 CATCTTAATA
*
5382475 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
5382508 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
5382541 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:5382614 original size:21 final size:21
Alignment explanation
Indices: 5382574--5382638 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
5382564 CCCCTTATTC
* *
5382574 CTCTCGAGTGTATCTTCGACT
1 CTCTCGAGTTTCTCTTCGACT
*
5382595 CTCTCGAGTTTCTCTACGACT
1 CTCTCGAGTTTCTCTTCGACT
* *
5382616 -TGATCAAGTTTCTCTTCGACT
1 CT-CTCGAGTTTCTCTTCGACT
5382637 CT
1 CT
5382639 TGATTGTCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.15, C:0.29, G:0.15, T:0.40
Consensus pattern (21 bp):
CTCTCGAGTTTCTCTTCGACT
Found at i:5384887 original size:17 final size:18
Alignment explanation
Indices: 5384865--5384907 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
5384855 ATATATCCGG
5384865 TATCATT-TTACCGGTTT
1 TATCATTGTTACCGGTTT
5384882 TATCATTTTGTTACCGGTTT
1 TATCA--TTGTTACCGGTTT
5384902 TATCAT
1 TATCAT
5384908 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 5 0.22
18 1 0.04
19 2 0.09
20 15 0.65
ACGTcount: A:0.19, C:0.16, G:0.12, T:0.53
Consensus pattern (18 bp):
TATCATTGTTACCGGTTT
Found at i:5384897 original size:20 final size:20
Alignment explanation
Indices: 5384870--5384916 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
5384860 TCCGGTATCA
5384870 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
5384889 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
5384910 TTTTACC
1 TTTTACC
5384917 TGGTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:5386297 original size:29 final size:29
Alignment explanation
Indices: 5386260--5386334 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
5386250 TTTTTTTATT
* * * *
5386260 AAATTTATTTCATTTTTATTTTAACTTTA
1 AAATATATTTCATTCTTATCTTAACTATA
*
5386289 AAATATATTTTATTCTTATCTTAACTATA
1 AAATATATTTCATTCTTATCTTAACTATA
5386318 AAATATATATT-ATTCTT
1 AAATATAT-TTCATTCTT
5386335 TTATGGACAT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 38 0.95
30 2 0.05
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (29 bp):
AAATATATTTCATTCTTATCTTAACTATA
Found at i:5387174 original size:30 final size:30
Alignment explanation
Indices: 5387114--5387322 Score: 152
Period size: 29 Copynumber: 7.3 Consensus size: 30
5387104 TTGTATAATA
* * *
5387114 AAAATACATTTTT-AATTTAATA-AAAGAAT
1 AAAATATATTTTTAAAGTTAAGATAAA-AAT
*
5387143 AAAATATATTTTTAAAGCTAAGATAAAAAT
1 AAAATATATTTTTAAAGTTAAGATAAAAAT
* *
5387173 AAAATATA-TTTTAAAATTAA-AGTAAAGAT
1 AAAATATATTTTTAAAGTTAAGA-TAAAAAT
* * **
5387202 AAAATAT-GTTTTAAATTTAAG-T-TTAA-
1 AAAATATATTTTTAAAGTTAAGATAAAAAT
* * * *
5387228 AAAATATA-TTTT-AACTTAAAACAAAAAC
1 AAAATATATTTTTAAAGTTAAGATAAAAAT
* * * *
5387256 AAAATATATTTTTGAAGTTAAGGTAAGAAC
1 AAAATATATTTTTAAAGTTAAGATAAAAAT
*
5387286 AAAATATATTTTT-AAGTTAAAATAAAAAT
1 AAAATATATTTTTAAAGTTAAGATAAAAAT
5387315 AAAATATA
1 AAAATATA
5387323 ATTACTAAGT
Statistics
Matches: 144, Mismatches: 25, Indels: 22
0.75 0.13 0.12
Matches are distributed among these distances:
25 6 0.04
26 11 0.08
27 3 0.02
28 10 0.07
29 70 0.49
30 41 0.28
31 3 0.02
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.35
Consensus pattern (30 bp):
AAAATATATTTTTAAAGTTAAGATAAAAAT
Found at i:5387343 original size:113 final size:112
Alignment explanation
Indices: 5387113--5387351 Score: 259
Period size: 113 Copynumber: 2.1 Consensus size: 112
5387103 GTTGTATAAT
* * * * *
5387113 AAAAATACATTTTTAATTTAATAAAAGAATAAAATATATTTTTAAAGCTAAGATAAAAATAAAAT
1 AAAAATATA-TTTTAACTTAATAAAAAAACAAAATATATTTTTAAAGCTAAGATAAAAACAAAAT
* * * * * *
5387178 ATATTTTAAAATTAAAGTAAAGATAAAATATGTTTTAAATTTAAGTTTA
65 ATATTTTAAAATTAAAATAAAAATAAAATATATTCTAAAGTTAAG-ATA
* * * *
5387227 AAAAATATATTTTAACTTAA-AACAAAAACAAAATATATTTTTGAAGTTAAGGTAAGAACAAAAT
1 AAAAATATATTTTAACTTAATAA-AAAAACAAAATATATTTTTAAAGCTAAGATAAAAACAAAAT
* *
5387291 ATATTTTTAAGTTAAAATAAAAATAAAATATAATTACT-AAGTTAA-ATA
65 ATATTTTAAAATTAAAATAAAAATAAAATAT-ATT-CTAAAGTTAAGATA
5387339 AAAAATATATTTT
1 AAAAATATATTTT
5387352 TTAAAACTAG
Statistics
Matches: 105, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
112 17 0.16
113 71 0.68
114 16 0.15
115 1 0.01
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (112 bp):
AAAAATATATTTTAACTTAATAAAAAAACAAAATATATTTTTAAAGCTAAGATAAAAACAAAATA
TATTTTAAAATTAAAATAAAAATAAAATATATTCTAAAGTTAAGATA
Found at i:5406655 original size:52 final size:52
Alignment explanation
Indices: 5406577--5406682 Score: 194
Period size: 52 Copynumber: 2.0 Consensus size: 52
5406567 ACCCAATTTG
*
5406577 CCTACGAATACTTCCAAAGCCAAATTAACAACATAAGCCTGCACAATCAGCC
1 CCTACGAATACTTCCAAAGCCAAATTAACAACATAAACCTGCACAATCAGCC
*
5406629 CCTACGAATACTTCCAAAGCCAAATTAACAACATAAACCTGCACAATTAGCC
1 CCTACGAATACTTCCAAAGCCAAATTAACAACATAAACCTGCACAATCAGCC
5406681 CC
1 CC
5406683 AAAGCTTTCA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.41, C:0.33, G:0.08, T:0.18
Consensus pattern (52 bp):
CCTACGAATACTTCCAAAGCCAAATTAACAACATAAACCTGCACAATCAGCC
Found at i:5407931 original size:23 final size:23
Alignment explanation
Indices: 5407905--5407955 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
5407895 AATAACATAT
* **
5407905 TAGGTATCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATAAAA
5407928 TAGGTAGCGCTTATATAATAAAA
1 TAGGTAGCGCTTATATAATAAAA
5407951 TAGGT
1 TAGGT
5407956 TAATTACTGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.35
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATAAAA
Found at i:5408009 original size:23 final size:23
Alignment explanation
Indices: 5407983--5408152 Score: 102
Period size: 23 Copynumber: 7.6 Consensus size: 23
5407973 ATCAAGCATA
* *
5407983 ATAATATATTAGGTACCGCTTAT
1 ATAATATAATAGGTACCACTTAT
*
5408006 ATAATGTAATAGGTACCACTTAT
1 ATAATATAATAGGTACCACTTAT
*
5408029 ATAATAAAATAGGTTA--A-TTAT
1 ATAATATAATAGG-TACCACTTAT
* * *** *
5408050 -TAGAAATATTATCAAACAC--A-
1 ATA-ATATAATAGGTACCACTTAT
* * * *
5408070 ATAACATATTAGGTAGCGCTTAT
1 ATAATATAATAGGTACCACTTAT
* *
5408093 ATAATGTAATAGGTAACACTTAT
1 ATAATATAATAGGTACCACTTAT
* *
5408116 ATAATAAAATAGGTAACACTTAT
1 ATAATATAATAGGTACCACTTAT
*
5408139 ATAATAAAATAGGT
1 ATAATATAATAGGT
5408153 TAATTACTGG
Statistics
Matches: 114, Mismatches: 24, Indels: 18
0.73 0.15 0.12
Matches are distributed among these distances:
20 13 0.11
21 12 0.11
22 3 0.03
23 84 0.74
24 2 0.02
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.34
Consensus pattern (23 bp):
ATAATATAATAGGTACCACTTAT
Found at i:5408028 original size:87 final size:87
Alignment explanation
Indices: 5407877--5408129 Score: 389
Period size: 87 Copynumber: 2.9 Consensus size: 87
5407867 TCATTTAACC
* * * * *
5407877 GGAAATATTACCAAGTACAATAACATATTAGGTATCGCTTATATAATGTAATAGGTAGCGCTTAT
1 GGAAATATTATCAAGCACAATAACATATTAGGTACCGCTTATATAATGTAATAGGTAACACTTAT
5407942 ATAATAAAATAGGTTAATTACT
66 ATAATAAAATAGGTTAATTACT
* * * *
5407964 GGAAACATTATCAAGCATAATAATATATTAGGTACCGCTTATATAATGTAATAGGTACCACTTAT
1 GGAAATATTATCAAGCACAATAACATATTAGGTACCGCTTATATAATGTAATAGGTAACACTTAT
*
5408029 ATAATAAAATAGGTTAATTATT
66 ATAATAAAATAGGTTAATTACT
* * *
5408051 AGAAATATTATCAAACACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAACACTTAT
1 GGAAATATTATCAAGCACAATAACATATTAGGTACCGCTTATATAATGTAATAGGTAACACTTAT
5408116 ATAATAAAATAGGT
66 ATAATAAAATAGGT
5408130 AACACTTATA
Statistics
Matches: 150, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
87 150 1.00
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.33
Consensus pattern (87 bp):
GGAAATATTATCAAGCACAATAACATATTAGGTACCGCTTATATAATGTAATAGGTAACACTTAT
ATAATAAAATAGGTTAATTACT
Found at i:5408214 original size:23 final size:23
Alignment explanation
Indices: 5408187--5408237 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
5408177 ACAATAACAT
5408187 TAGGTAGCGCTTATATAACGTAA
1 TAGGTAGCGCTTATATAACGTAA
*
5408210 TAGGTAGCGTTTATATAACGTAA
1 TAGGTAGCGCTTATATAACGTAA
5408233 TAGGT
1 TAGGT
5408238 TAATTACTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.33, C:0.10, G:0.24, T:0.33
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAACGTAA
Found at i:5408247 original size:110 final size:109
Alignment explanation
Indices: 5407992--5408237 Score: 359
Period size: 110 Copynumber: 2.3 Consensus size: 109
5407982 AATAATATAT
* * * *
5407992 TAGGTACCGCTTATATAATGTAATAGGTACCACTTATATAATAAAATAGGTTAATTATTAGAAAT
1 TAGGTAACGCTTATATAATGTAATAGGTAACACTTATATAATAAAATAGGTTAATTACTAGAAAC
*
5408057 ATTATCAAACACAATAACATATTAGGTAGCGCTTATATAATGTAA
66 ATTATCAAACACAATAACA-ATTAGGTAGCGCTTATATAACGTAA
* ** *
5408102 TAGGTAACACTTATATAATAAAATAGGTAACACTTATATAATAAAATAGGTTAATTACTGGAAAC
1 TAGGTAACGCTTATATAATGTAATAGGTAACACTTATATAATAAAATAGGTTAATTACTAGAAAC
*
5408167 ATTATCAAGCACAATAAC-ATTAGGTAGCGCTTATATAACGTAA
66 ATTATCAAACACAATAACAATTAGGTAGCGCTTATATAACGTAA
* * *
5408210 TAGGTAGCGTTTATATAACGTAATAGGT
1 TAGGTAACGCTTATATAATGTAATAGGT
5408238 TAATTACTTA
Statistics
Matches: 120, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
108 46 0.38
110 74 0.62
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (109 bp):
TAGGTAACGCTTATATAATGTAATAGGTAACACTTATATAATAAAATAGGTTAATTACTAGAAAC
ATTATCAAACACAATAACAATTAGGTAGCGCTTATATAACGTAA
Found at i:5408760 original size:24 final size:23
Alignment explanation
Indices: 5408733--5408788 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 23
5408723 TTACCAATGA
5408733 TAACAATAAAATAATATTATTTAT
1 TAACAATAAAATAATATTATTT-T
*
5408757 TAACAA-AATAATATTATTATTTT
1 TAACAATAA-AATAATATTATTTT
5408780 TAA-AATAAA
1 TAACAATAAA
5408789 CATTGTAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
22 3 0.10
23 8 0.28
24 18 0.62
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (23 bp):
TAACAATAAAATAATATTATTTT
Found at i:5409198 original size:200 final size:198
Alignment explanation
Indices: 5408788--5409224 Score: 540
Period size: 200 Copynumber: 2.2 Consensus size: 198
5408778 TTTAAAATAA
* ** *
5408788 ACATTGTAAATTTATTTATTACATTATAATTATCGGTTTCGATATTTTTGGGATCGATACAATTT
1 ACATTATAAATTTACCTATTACATTATAATTATCGGTTTCGATATTTTTAGGATCGATACAATTT
* *
5408853 TAAATGTATCGACACTTTATGCGTGCATCTCTTTGGGCATTCATTCTGAAAAAAAGTATCGACAC
66 TAAATGTATCGACACTTTATGCGTGCACCTCTTTGGACATTCATTCTGAAAAAAAGTATCGACAC
* * *
5408918 AAACTTAAAATGTGTCGATACATTATGTAGATATATTTTCTCATAAAATCGGTATATTTATACCA
131 AAACTTAAAATGTGTCGATACATTATGTAGACATATTCTCTCAAAAAATCGGTATATTTATACCA
5408983 AGT
196 AGT
* * * * *
5408986 ACATTGTAAATTTACCTATTACATTGTAATTATCGGTTTCGATGTTTTTAGGATTGATAC-TTTT
1 ACATTATAAATTTACCTATTACATTATAATTATCGGTTTCGATATTTTTAGGATCGATACAATTT
* * *
5409050 AATAAATGTATCGACACTTTATGTGTGCACCTCGTTT-GACATTCATTCTGGACAAAATGTATCG
66 --TAAATGTATCGACACTTTATGCGTGCACCTC-TTTGGACATTCATTCT-GAAAAAAAGTATCG
* *** * * *
5409114 TCAC-TTTTTAAATTTGTGTCGATACATTATGTTGACCTATTCTCTCAAAAAATCGGTATATTTA
127 ACACAAACTTAAA-ATGTGTCGATACATTATGTAGACATATTCTCTCAAAAAATCGGTATATTTA
*
5409178 TACC-GGTT
191 TACCAAG-T
* * *
5409186 ATATTATAAATTTACCTATTATATTATAATTAGCGGTTT
1 ACATTATAAATTTACCTATTACATTATAATTATCGGTTT
5409225 TAATATAACA
Statistics
Matches: 205, Mismatches: 28, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
197 3 0.01
198 54 0.26
199 46 0.22
200 102 0.50
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (198 bp):
ACATTATAAATTTACCTATTACATTATAATTATCGGTTTCGATATTTTTAGGATCGATACAATTT
TAAATGTATCGACACTTTATGCGTGCACCTCTTTGGACATTCATTCTGAAAAAAAGTATCGACAC
AAACTTAAAATGTGTCGATACATTATGTAGACATATTCTCTCAAAAAATCGGTATATTTATACCA
AGT
Found at i:5412886 original size:27 final size:27
Alignment explanation
Indices: 5412848--5412902 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
5412838 TGACTATCGC
*
5412848 ATTGCGATTTTCCAAATTCGCATTGCG
1 ATTGCGATTTTCCAAATTCGCAATGCG
5412875 ATTGCGATTTTCCAAATTCGCAATGCG
1 ATTGCGATTTTCCAAATTCGCAATGCG
5412902 A
1 A
5412903 ATATGTAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (27 bp):
ATTGCGATTTTCCAAATTCGCAATGCG
Found at i:5412934 original size:20 final size:20
Alignment explanation
Indices: 5412911--5412996 Score: 120
Period size: 20 Copynumber: 4.2 Consensus size: 20
5412901 GAATATGTAA
5412911 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
**
5412931 ATCGCAACGCGATAAT-ACAT
1 ATCGCAACGCGATTCTGAC-T
5412951 AATCGCAACGCGATTCTGACT
1 -ATCGCAACGCGATTCTGACT
*
5412972 ATCGCAACGCGATTCTAACT
1 ATCGCAACGCGATTCTGACT
5412992 ATCGC
1 ATCGC
5412997 GTTGCTATAA
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
19 2 0.03
20 39 0.67
21 15 0.26
22 2 0.03
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:5412980 original size:61 final size:61
Alignment explanation
Indices: 5412911--5413026 Score: 169
Period size: 61 Copynumber: 1.9 Consensus size: 61
5412901 GAATATGTAA
* *
5412911 ATCGCAACGCGATTCTGACTATCGCAACGCGATAATACATAATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTAACTATCGCAACGCGATAATACAAAATCGCAACGCGATTCTGACT
*** * *
5412972 ATCGCAACGCGATTCTAACTATCGCGTTGCTATAATACAAAATCGCAATGCGATT
1 ATCGCAACGCGATTCTAACTATCGCAACGCGATAATACAAAATCGCAACGCGATT
5413027 TTCAAAGCGT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (61 bp):
ATCGCAACGCGATTCTAACTATCGCAACGCGATAATACAAAATCGCAACGCGATTCTGACT
Found at i:5413195 original size:22 final size:22
Alignment explanation
Indices: 5413170--5413242 Score: 101
Period size: 22 Copynumber: 3.3 Consensus size: 22
5413160 CTACGGCGAC
*
5413170 ATCCGTCCCTATCTCCGACGAA
1 ATCCGTCCCCATCTCCGACGAA
* *
5413192 ATCCGTCCCCGTCTCCGGCGAA
1 ATCCGTCCCCATCTCCGACGAA
* *
5413214 ATTCATCCCCATCTCCGACGAA
1 ATCCGTCCCCATCTCCGACGAA
5413236 ATCCGTC
1 ATCCGTC
5413243 TATCTCCATC
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.21, C:0.42, G:0.15, T:0.22
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGACGAA
Found at i:5413495 original size:21 final size:21
Alignment explanation
Indices: 5413471--5413534 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
5413461 GCAAATTCGC
5413471 GTTGCATTTCGCGTTGCGATA
1 GTTGCATTTCGCGTTGCGATA
* **
5413492 GTTGAAAATCGCGTTGCGAT-
1 GTTGCATTTCGCGTTGCGATA
* *
5413512 TTTCCATTTCGCGTTGCGATA
1 GTTGCATTTCGCGTTGCGATA
5413533 GT
1 GT
5413535 CTACAATGTC
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
20 15 0.45
21 18 0.55
ACGTcount: A:0.17, C:0.19, G:0.27, T:0.38
Consensus pattern (21 bp):
GTTGCATTTCGCGTTGCGATA
Found at i:5413520 original size:41 final size:41
Alignment explanation
Indices: 5413475--5413618 Score: 147
Period size: 41 Copynumber: 3.5 Consensus size: 41
5413465 ATTCGCGTTG
5413475 CATTTCGCGTTGCGATAGT-TGAAAATCG-CGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTCT-AAAAT-GTCGTTGCGATTTTC
*
5413516 CATTTCGCGTTGCGATAGTCTACAATGTCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTCTAAAATGTCGTTGCGATTTTC
* ** *
5413557 CAAATT--CGTTGCGATAGTCTACAGTTGTCGTTACGATTTTC
1 C-ATTTCGCGTTGCGATAGTCTA-AAATGTCGTTGCGATTTTC
*
5413598 CAAATT--CGTTGCGATAGTCTA
1 C-ATTTCGCGTTGCGATAGTCTA
5413619 CAGTTGTTGT
Statistics
Matches: 93, Mismatches: 6, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
40 16 0.17
41 73 0.78
42 4 0.04
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.38
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTCTAAAATGTCGTTGCGATTTTC
Found at i:5413593 original size:22 final size:22
Alignment explanation
Indices: 5413523--5413656 Score: 111
Period size: 22 Copynumber: 6.4 Consensus size: 22
5413513 TTCCATTTCG
*
5413523 CGTTGCGATAGTCTACA-ATGT
1 CGTTGCGATAGTCTACAGTTGT
* * **
5413544 CGTTGCGAT--TTTCCAAAT-T
1 CGTTGCGATAGTCTACAGTTGT
5413563 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
* * * **
5413585 CGTTACGAT--TTTCCAAAT-T
1 CGTTGCGATAGTCTACAGTTGT
5413604 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
* *
5413626 TGTTGCGAAAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
5413648 CGTTGCGAT
1 CGTTGCGAT
5413657 TTTTCAAATT
Statistics
Matches: 86, Mismatches: 20, Indels: 13
0.72 0.17 0.11
Matches are distributed among these distances:
19 23 0.27
20 7 0.08
21 19 0.22
22 37 0.43
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (22 bp):
CGTTGCGATAGTCTACAGTTGT
Found at i:5413619 original size:41 final size:41
Alignment explanation
Indices: 5413523--5413625 Score: 181
Period size: 41 Copynumber: 2.5 Consensus size: 41
5413513 TTCCATTTCG
* *
5413523 CGTTGCGATAGTCTACA-ATGTCGTTGCGATTTTCCAAATT
1 CGTTGCGATAGTCTACAGTTGTCGTTACGATTTTCCAAATT
5413563 CGTTGCGATAGTCTACAGTTGTCGTTACGATTTTCCAAATT
1 CGTTGCGATAGTCTACAGTTGTCGTTACGATTTTCCAAATT
5413604 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
5413626 TGTTGCGAAA
Statistics
Matches: 60, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
40 17 0.28
41 43 0.72
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.38
Consensus pattern (41 bp):
CGTTGCGATAGTCTACAGTTGTCGTTACGATTTTCCAAATT
Found at i:5414288 original size:5 final size:5
Alignment explanation
Indices: 5414274--5414305 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
5414264 CCACTGCCGC
5414274 CGTC- CGTCT CGTCT CGTCT CGTCT CGTCT CGT
1 CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT CGT
5414306 GTCGGGTCGG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.00, C:0.41, G:0.22, T:0.38
Consensus pattern (5 bp):
CGTCT
Found at i:5414335 original size:6 final size:6
Alignment explanation
Indices: 5414302--5414352 Score: 65
Period size: 6 Copynumber: 9.2 Consensus size: 6
5414292 TCGTCTCGTC
*
5414302 TCGT-G TCG-GG TCG-GG TCG-GG TTGTGG TCGTGG TCGTGG TCGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
5414346 TCGTGG T
1 TCGTGG T
5414353 AATACGTGTC
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
5 16 0.38
6 26 0.62
ACGTcount: A:0.00, C:0.16, G:0.51, T:0.33
Consensus pattern (6 bp):
TCGTGG
Found at i:5414510 original size:21 final size:21
Alignment explanation
Indices: 5414484--5414540 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
5414474 ACAACTGTTG
5414484 ACTATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGATTTTCA
*
5414505 ACTATCGGAACGCGATTTTCA
1 ACTATCGCAACGCGATTTTCA
* *
5414526 ATTATCGCAATGCGA
1 ACTATCGCAACGCGA
5414541 ATTAGAGATC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.28
Consensus pattern (21 bp):
ACTATCGCAACGCGATTTTCA
Found at i:5415160 original size:20 final size:20
Alignment explanation
Indices: 5415035--5415157 Score: 113
Period size: 20 Copynumber: 6.2 Consensus size: 20
5415025 AAAATCGCAA
**
5415035 CGATAGTCAAATTCGCGTTG
1 CGATAGTCATTTTCGCGTTG
* *
5415055 CGATAGTCATTTTCGTGTTA
1 CGATAGTCATTTTCGCGTTG
** *
5415075 CGATTTTCA-TTTCGCGTTT
1 CGATAGTCATTTTCGCGTTG
**
5415094 CGATAGTCAAATTCGCGTTG
1 CGATAGTCATTTTCGCGTTG
* *
5415114 CTATAGTCATTTTCGTGTTG
1 CGATAGTCATTTTCGCGTTG
** *
5415134 CGATTTTCATTTTCGTGTTG
1 CGATAGTCATTTTCGCGTTG
5415154 CGAT
1 CGAT
5415158 TTTAAGTTTC
Statistics
Matches: 83, Mismatches: 19, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
19 15 0.18
20 68 0.82
ACGTcount: A:0.18, C:0.18, G:0.21, T:0.43
Consensus pattern (20 bp):
CGATAGTCATTTTCGCGTTG
Found at i:5415167 original size:20 final size:20
Alignment explanation
Indices: 5415124--5415167 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
5415114 CTATAGTCAT
* *
5415124 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTAAG
5415144 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
5415164 TTTC
1 TTTC
5415168 AGAAACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.14, G:0.20, T:0.55
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:5417083 original size:20 final size:20
Alignment explanation
Indices: 5417058--5417128 Score: 106
Period size: 20 Copynumber: 3.5 Consensus size: 20
5417048 CTTAAAAATT
5417058 GCAACGCGAAAATGACTATC
1 GCAACGCGAAAATGACTATC
*
5417078 GCAACGCGGAAATGACTATC
1 GCAACGCGAAAATGACTATC
**
5417098 GCAACGCGAATTTGACTATC
1 GCAACGCGAAAATGACTATC
*
5417118 GCAATGCGAAA
1 GCAACGCGAAA
5417129 TAAAAATTGC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.37, C:0.24, G:0.23, T:0.17
Consensus pattern (20 bp):
GCAACGCGAAAATGACTATC
Found at i:5417872 original size:21 final size:20
Alignment explanation
Indices: 5417804--5417879 Score: 53
Period size: 21 Copynumber: 3.6 Consensus size: 20
5417794 GACATCTCCT
5417804 ATCGTTCAAGAGGCCCCTATC
1 ATCGTTCAAGAGG-CCCTATC
** * **
5417825 ATCCCTCAAGAGTCTCCTCCC
1 ATCGTTCAAGAGGC-CCTATC
* *
5417846 ACCGTTCAAGAGGCCACTGTC
1 ATCGTTCAAGAGGCC-CTATC
*
5417867 ATCGTTGAAGAGG
1 ATCGTTCAAGAGG
5417880 TTCTTTCCAC
Statistics
Matches: 40, Mismatches: 13, Indels: 4
0.70 0.23 0.07
Matches are distributed among these distances:
20 2 0.05
21 38 0.95
ACGTcount: A:0.24, C:0.33, G:0.21, T:0.22
Consensus pattern (20 bp):
ATCGTTCAAGAGGCCCTATC
Found at i:5419256 original size:28 final size:27
Alignment explanation
Indices: 5419203--5419256 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 27
5419193 GTACACTTTT
****
5419203 TTTGATTGTTTAATTGATTCTTAAAAG
1 TTTGATTGTTTAATTGATGAGGAAAAG
5419230 TTTGATTTGTTTAATTGATGAGGAAAA
1 TTTGA-TTGTTTAATTGATGAGGAAAA
5419257 TAAGAATTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
27 5 0.23
28 17 0.77
ACGTcount: A:0.31, C:0.02, G:0.19, T:0.48
Consensus pattern (27 bp):
TTTGATTGTTTAATTGATGAGGAAAAG
Found at i:5419307 original size:14 final size:14
Alignment explanation
Indices: 5419288--5419324 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
5419278 GCTTGTTTAA
5419288 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
5419302 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
5419316 TTGATTTGT
1 TTGATTTGT
5419325 TTAATTGATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.49
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:5419332 original size:27 final size:27
Alignment explanation
Indices: 5419288--5419403 Score: 88
Period size: 27 Copynumber: 3.9 Consensus size: 27
5419278 GCTTGTTTAA
** * *
5419288 TTGATTTGTAAAAGTTGATTTGTAAAAG
1 TTGATTTGTTTAA-TTGATGTGTAAAAT
5419316 TTGATTTGTTTAATTGATGTGTAAATAAT
1 TTGATTTGTTTAATTGATGTGT-AA-AAT
* *
5419345 TCTTATTTGTGCTTGTTTAATTGATTTGTAAAAT
1 T-TGA----T--TTGTTTAATTGATGTGTAAAAT
5419379 TTGATTTGTTTAATTGATGTGTAAA
1 TTGATTTGTTTAATTGATGTGTAAA
5419404 TAATTCTTAT
Statistics
Matches: 71, Mismatches: 8, Indels: 19
0.72 0.08 0.19
Matches are distributed among these distances:
27 27 0.38
28 13 0.18
29 4 0.06
30 2 0.03
33 2 0.03
34 5 0.07
35 2 0.03
36 16 0.23
ACGTcount: A:0.29, C:0.02, G:0.18, T:0.51
Consensus pattern (27 bp):
TTGATTTGTTTAATTGATGTGTAAAAT
Found at i:5419368 original size:36 final size:36
Alignment explanation
Indices: 5419321--5419432 Score: 134
Period size: 36 Copynumber: 3.4 Consensus size: 36
5419311 AAAAGTTGAT
5419321 TTGTTTAATTGATGTGTAAATAATTCTTATTTGTGC
1 TTGTTTAATTGATGTGTAAATAATTCTTATTTGTGC
* *
5419357 TTGTTTAATTGATTTGT-AA-AATT-TGA----T--
1 TTGTTTAATTGATGTGTAAATAATTCTTATTTGTGC
5419384 TTGTTTAATTGATGTGTAAATAATTCTTATTTGTGC
1 TTGTTTAATTGATGTGTAAATAATTCTTATTTGTGC
*
5419420 TTATTTAATTGAT
1 TTGTTTAATTGAT
5419433 TAAAATGTAA
Statistics
Matches: 62, Mismatches: 5, Indels: 18
0.73 0.06 0.21
Matches are distributed among these distances:
27 16 0.26
28 2 0.03
29 5 0.08
30 2 0.03
33 2 0.03
34 5 0.08
35 2 0.03
36 28 0.45
ACGTcount: A:0.27, C:0.04, G:0.15, T:0.54
Consensus pattern (36 bp):
TTGTTTAATTGATGTGTAAATAATTCTTATTTGTGC
Found at i:5419385 original size:63 final size:63
Alignment explanation
Indices: 5419302--5419455 Score: 254
Period size: 63 Copynumber: 2.4 Consensus size: 63
5419292 TTTGTAAAAG
*
5419302 TTGATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAATTCTTATTTGTGCTTGTTTAA
1 TTGATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAATTCTTATTTGTGCTTATTTAA
*
5419365 TTGATTTGTAAAATTTGATTTGTTTAATTGATGTGTAAATAATTCTTATTTGTGCTTATTTAA
1 TTGATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAATTCTTATTTGTGCTTATTTAA
5419428 TTGATTAAAATGTAAAAGTTGATTTGTT
1 TTGATT----TGTAAAAGTTGATTTGTT
5419456 GATTTCAATC
Statistics
Matches: 84, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
63 67 0.80
67 17 0.20
ACGTcount: A:0.29, C:0.03, G:0.16, T:0.52
Consensus pattern (63 bp):
TTGATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAATTCTTATTTGTGCTTATTTAA
Found at i:5419546 original size:20 final size:20
Alignment explanation
Indices: 5419521--5419584 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
5419511 AACGCTAAAC
5419521 TCAAAATCGCAATGCGAAAG
1 TCAAAATCGCAATGCGAAAG
*
5419541 TCAAAATCGCAATGTGAAAG
1 TCAAAATCGCAATGCGAAAG
* *
5419561 CCAAAATCGCAACGCGAAAG
1 TCAAAATCGCAATGCGAAAG
5419581 TCAA
1 TCAA
5419585 TTCGCGTTGC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.45, C:0.22, G:0.19, T:0.14
Consensus pattern (20 bp):
TCAAAATCGCAATGCGAAAG
Found at i:5419652 original size:20 final size:20
Alignment explanation
Indices: 5419623--5419688 Score: 87
Period size: 20 Copynumber: 3.3 Consensus size: 20
5419613 GCGATTTTCT
* *
5419623 CGTTGTGATAGTCAAATTCC
1 CGTTGCGATAGTCAAATTCA
*
5419643 CGTTGCGATAATCAAATTCA
1 CGTTGCGATAGTCAAATTCA
* *
5419663 CGTTGCGATAGTCATATTCG
1 CGTTGCGATAGTCAAATTCA
5419683 CGTTGC
1 CGTTGC
5419689 TTTCGAGTTG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.33
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCA
Found at i:5420006 original size:140 final size:140
Alignment explanation
Indices: 5419715--5420136 Score: 792
Period size: 140 Copynumber: 3.0 Consensus size: 140
5419705 TTGAGTTGCG
5419715 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
1 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
5419780 TAGCAATG-TCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
5419844 AATACACATA
131 AATACACATA
*
5419854 ATAGTCAAATTCGCATTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
1 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
* *
5419919 TAGCAATGTTCAAACTCAAGTTACTAATACATACCTAACTGAAAATGTAAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
5419984 AATACACATA
131 AATACACATA
*
5419994 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAAATCA
1 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
*
5420059 TAGAAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
5420124 AATACACATA
131 AATACACATA
5420134 ATA
1 ATA
5420137 CAACGTTTGC
Statistics
Matches: 274, Mismatches: 8, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
139 72 0.26
140 202 0.74
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.27
Consensus pattern (140 bp):
ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
AATACACATA
Found at i:5422271 original size:14 final size:14
Alignment explanation
Indices: 5422252--5422288 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
5422242 TCCCGTGGCA
5422252 TTTTCTTCGGGGAC
1 TTTTCTTCGGGGAC
*
5422266 TTTTCTTCGGGGAT
1 TTTTCTTCGGGGAC
5422280 TTCTTCTTC
1 TT-TTCTTC
5422289 TTCTTCTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.05, C:0.22, G:0.22, T:0.51
Consensus pattern (14 bp):
TTTTCTTCGGGGAC
Found at i:5423466 original size:20 final size:20
Alignment explanation
Indices: 5423403--5423457 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
5423393 GCAAATTTGG
**
5423403 AAAATCGCAATGCGATAGTC
1 AAAATCGCGTTGCGATAGTC
5423423 AAAATCGCGTTGCGATAGTC
1 AAAATCGCGTTGCGATAGTC
5423443 AAAATCGCGTTGCGA
1 AAAATCGCGTTGCGA
5423458 ATCTGAAAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.22
Consensus pattern (20 bp):
AAAATCGCGTTGCGATAGTC
Found at i:5423507 original size:19 final size:19
Alignment explanation
Indices: 5423483--5423519 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
5423473 TGCGATACTG
* *
5423483 GAGATCGCTTTGCGATTTA
1 GAGATCGCATTACGATTTA
5423502 GAGATCGCATTACGATTT
1 GAGATCGCATTACGATTT
5423520 TGTTGGTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.35
Consensus pattern (19 bp):
GAGATCGCATTACGATTTA
Found at i:5424330 original size:14 final size:14
Alignment explanation
Indices: 5424310--5424357 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
5424300 TATATATTCG
5424310 TTTATGTTCGTTCA
1 TTTATGTTCGTTCA
*
5424324 ATTA---T-GTTCA
1 TTTATGTTCGTTCA
5424334 TTTATGTTCGTTCA
1 TTTATGTTCGTTCA
5424348 TTTATGTTCG
1 TTTATGTTCG
5424358 AACAATGGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
10 8 0.29
11 1 0.04
13 1 0.04
14 18 0.64
ACGTcount: A:0.17, C:0.12, G:0.15, T:0.56
Consensus pattern (14 bp):
TTTATGTTCGTTCA
Found at i:5424342 original size:24 final size:24
Alignment explanation
Indices: 5424310--5424356 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
5424300 TATATATTCG
5424310 TTTATGTTCGTTCAATTATGTTCA
1 TTTATGTTCGTTCAATTATGTTCA
*
5424334 TTTATGTTCGTTCATTTATGTTC
1 TTTATGTTCGTTCAATTATGTTC
5424357 GAACAATGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.17, C:0.13, G:0.13, T:0.57
Consensus pattern (24 bp):
TTTATGTTCGTTCAATTATGTTCA
Found at i:5431844 original size:21 final size:20
Alignment explanation
Indices: 5431758--5431915 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
5431748 AAATGACCAA
**
5431758 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
5431777 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
5431797 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
5431817 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * * *
5431838 GAAAATCGCGATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
5431859 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
5431879 CAATAATCGCAACGCGAATAT
1 CAA-AATCGCAACGCGATTTT
*
5431900 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
5431916 ACACATAAAT
Statistics
Matches: 102, Mismatches: 31, Indels: 11
0.71 0.22 0.08
Matches are distributed among these distances:
19 16 0.16
20 42 0.41
21 44 0.43
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:5432279 original size:20 final size:20
Alignment explanation
Indices: 5431883--5432292 Score: 488
Period size: 20 Copynumber: 20.4 Consensus size: 20
5431873 GATTTTCAAT
* ** *
5431883 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
5431903 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
5431923 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
5431943 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
5431963 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
5431983 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
5432003 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* * *
5432023 AATCGCAACG-ATAATACATAA
1 AATCGCAACGCGT-ATCCGT-A
*
5432044 AATCGCAACACGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
5432064 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
5432084 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
5432104 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
5432124 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
5432144 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
5432164 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
5432184 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
5432204 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
5432224 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
5432244 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
5432264 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
5432284 AATCACAAC
1 AATCGCAAC
5432293 ACTGAAATTT
Statistics
Matches: 337, Mismatches: 42, Indels: 22
0.84 0.10 0.05
Matches are distributed among these distances:
19 4 0.01
20 315 0.93
21 17 0.05
22 1 0.00
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:5433008 original size:24 final size:24
Alignment explanation
Indices: 5432969--5433015 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
5432959 AAATTTGGTC
5432969 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
5432993 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
5433016 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:5433206 original size:12 final size:12
Alignment explanation
Indices: 5433189--5433213 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5433179 ATATAATCCT
5433189 GAAGAAGAAAAA
1 GAAGAAGAAAAA
5433201 GAAGAAGAAAAA
1 GAAGAAGAAAAA
5433213 G
1 G
5433214 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:5435518 original size:19 final size:19
Alignment explanation
Indices: 5435496--5435769 Score: 345
Period size: 19 Copynumber: 15.4 Consensus size: 19
5435486 CGGAAAATAC
*
5435496 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
5435515 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
5435529 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
5435549 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
5435563 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
5435582 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
5435601 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
5435615 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
5435634 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
5435653 AATCGCAATGCGAAATGGA
1 AATCGCAATGCGAAATGAA
5435672 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
5435691 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
5435710 AATCGCAA--C-AAA--AG
1 AATCGCAATGCGAAATGAA
5435724 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
5435743 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
5435762 AATCGCAA
1 AATCGCAA
5435770 CGAGATAATC
Statistics
Matches: 224, Mismatches: 10, Indels: 42
0.81 0.04 0.15
Matches are distributed among these distances:
14 41 0.18
15 2 0.01
16 9 0.04
17 8 0.04
18 3 0.01
19 148 0.66
20 13 0.06
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:5435583 original size:33 final size:35
Alignment explanation
Indices: 5435496--5435791 Score: 273
Period size: 33 Copynumber: 8.5 Consensus size: 35
5435486 CGGAAAATAC
* *
5435496 AATCGCAACGCGAAATGAAAATCCCAA-C-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAAGCGATGAA
*
5435529 AATCGCAATGCGGAAATGAAAATCGCAA-CGA-GAG
1 AATCGCAATGC-GAAATGAAAATCGCAAGCGATGAA
5435563 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA-GCG--ATGAA
*
5435601 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA-GCG--ATGAA
*
5435634 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGGA
1 AATCGCAATGCGAAATGAAAATCGCAA-GCG--ATGAA
5435672 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA-GCG--ATGAA
*
5435710 AATCGCAA--C-AAA--AGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA-GCG--ATGAA
*
5435743 AATCGCAATGCGAAATGAAAATCGCAA-CGA-GAT
1 AATCGCAATGCGAAATGAAAATCGCAAGCGATGAA
5435776 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
5435792 TATAAACGCA
Statistics
Matches: 235, Mismatches: 11, Indels: 34
0.84 0.04 0.12
Matches are distributed among these distances:
33 101 0.43
34 31 0.13
35 9 0.04
36 8 0.03
37 2 0.01
38 84 0.36
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (35 bp):
AATCGCAATGCGAAATGAAAATCGCAAGCGATGAA
Found at i:5435698 original size:109 final size:105
Alignment explanation
Indices: 5435524--5435791 Score: 450
Period size: 109 Copynumber: 2.5 Consensus size: 105
5435514 AAATCCCAAC
5435524 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGA-GAATCGCAATGCGAAATGAAAATCGC
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGATGAATCGCAATGCGAAATGAAAATCGC
* *
5435588 AATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
65 AATGCGAAATGAAAATCGCAACAAAAGAATCGCAATGCGAA
*
5435629 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGGAAATCGCAATGCGAAATGAAAAT
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGAGAT-G-AATCGCAATGCGAAATGAAAAT
5435694 CGCAATGCGAAATGAAAATCGCAACAAAAGAATCGCAATGCGAA
62 CGCAATGCGAAATGAAAATCGCAACAAAAGAATCGCAATGCGAA
5435738 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAT-AATCGCAATGCGAAAT
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATGAATCGCAATGCGAAAT
5435792 TATAAACGCA
Statistics
Matches: 154, Mismatches: 4, Indels: 11
0.91 0.02 0.07
Matches are distributed among these distances:
104 32 0.21
105 16 0.10
106 4 0.03
107 5 0.03
108 1 0.01
109 96 0.62
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.15
Consensus pattern (105 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATGAATCGCAATGCGAAATGAAAATCGCA
ATGCGAAATGAAAATCGCAACAAAAGAATCGCAATGCGAA
Found at i:5435807 original size:52 final size:52
Alignment explanation
Indices: 5435524--5435791 Score: 446
Period size: 52 Copynumber: 5.0 Consensus size: 52
5435514 AAATCCCAAC
5435524 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
5435577 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
5435629 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGGAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGAGA--G-AATCGCAATGCGAA
* *
5435686 ATGAAAATCGCAATGCGAAATGAAAATCGCAACAAAAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
5435738 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
5435790 AT
1 AT
5435792 TATAAACGCA
Statistics
Matches: 205, Mismatches: 5, Indels: 11
0.93 0.02 0.05
Matches are distributed among these distances:
52 133 0.65
53 17 0.08
54 4 0.02
55 4 0.02
56 1 0.00
57 46 0.22
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.15
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:5435807 original size:71 final size:70
Alignment explanation
Indices: 5435496--5435791 Score: 324
Period size: 71 Copynumber: 4.2 Consensus size: 70
5435486 CGGAAAATAC
* *
5435496 AATCGCAACGCGAAATGAAAATCCCAA--C---ATGAAAATCGCAATGCGGAAATGAAAATCGCA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCA
5435556 ACGAGA
65 ACGAGA
* * *
5435562 GAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCG-CAATGC
1 -AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGA-AAT-GAAAAT-C
* *
5435626 GAAATGA-A
62 GCAACGAGA
*
5435634 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGGAAATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
* *
5435699 TGCGA
66 CGAGA
* *
5435704 AAT-GAAAAT-CGCAACA-AAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATC
1 AATCG-CAATGCG-AA-ATGAA-AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATC
5435766 GCAACGAGA
62 GCAACGAGA
5435775 TAATCGCAATGCGAAAT
1 -AATCGCAATGCGAAAT
5435792 TATAAACGCA
Statistics
Matches: 192, Mismatches: 19, Indels: 31
0.79 0.08 0.13
Matches are distributed among these distances:
67 25 0.13
69 11 0.06
70 17 0.09
71 100 0.52
72 29 0.15
73 10 0.05
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (70 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
CGAGA
Found at i:5435888 original size:19 final size:19
Alignment explanation
Indices: 5435798--5435880 Score: 104
Period size: 20 Copynumber: 4.6 Consensus size: 19
5435788 AAATTATAAA
5435798 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
5435817 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
5435837 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
*
5435853 CG--TTGCGATTTTTATTT
1 CGCATTGCGATTTTCATTT
5435870 CGCATTGCGAT
1 CGCATTGCGAT
5435881 AGTCATTTTT
Statistics
Matches: 55, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
14 6 0.11
16 6 0.11
17 7 0.13
19 17 0.31
20 19 0.35
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.45
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:5436006 original size:14 final size:14
Alignment explanation
Indices: 5435987--5436023 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
5435977 CATCAATTAC
5435987 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
5436001 ACAAATCATCTTTT
1 ACAAATCAACTTTT
5436015 ACAAATCAA
1 ACAAATCAA
5436024 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:5437992 original size:14 final size:14
Alignment explanation
Indices: 5437973--5438029 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
5437963 GCGAAATGAA
*
5437973 AATCGCAACGACAG
1 AATCGCAACGAAAG
5437987 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
5438004 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
5438020 AATCGCAACG
1 AATCGCAACG
5438030 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:5438000 original size:33 final size:33
Alignment explanation
Indices: 5437954--5438046 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
5437944 GCGAAACCAA
*
5437954 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
5437987 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
5438020 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
5438047 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:5438011 original size:19 final size:19
Alignment explanation
Indices: 5437917--5438051 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
5437907 TAATTTACTT
* *
5437917 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
5437937 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
5437956 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
5437975 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
5437989 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
5438008 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
5438022 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
5438041 TCGCAATGCGA
1 TCGCAACGCGA
5438052 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:5438069 original size:19 final size:19
Alignment explanation
Indices: 5438047--5438175 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
5438037 AAAATCGCAA
5438047 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
5438066 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
5438080 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
5438099 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
5438113 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
5438132 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
5438151 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
5438171 TGCGA
1 TGCGA
5438176 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:5438089 original size:33 final size:33
Alignment explanation
Indices: 5438047--5438138 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
5438037 AAAATCGCAA
5438047 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
5438080 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
5438113 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
5438139 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:5438389 original size:92 final size:93
Alignment explanation
Indices: 5438219--5438597 Score: 735
Period size: 92 Copynumber: 4.1 Consensus size: 93
5438209 TTGAATGGAT
5438219 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
5438284 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
5438312 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
5438376 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
5438404 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
5438468 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
5438496 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
5438561 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
5438589 AAATTTACT
1 AAATTTACT
5438598 AAGCAATCTA
Statistics
Matches: 284, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
92 184 0.65
93 100 0.35
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:5438548 original size:185 final size:185
Alignment explanation
Indices: 5438219--5438597 Score: 733
Period size: 185 Copynumber: 2.0 Consensus size: 185
5438209 TTGAATGGAT
5438219 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
5438284 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
5438349 TATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
5438404 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
5438468 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
*
5438533 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAT
131 TA-TATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
5438589 AAATTTACT
1 AAATTTACT
5438598 AAGCAATCTA
Statistics
Matches: 192, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
184 92 0.48
185 100 0.52
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.22
Consensus pattern (185 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:5440323 original size:14 final size:14
Alignment explanation
Indices: 5440304--5440393 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
5440294 TTGAAATGAA
5440304 AATCGCAACGAGAG
1 AATCGCAACGAGAG
5440318 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
5440335 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
5440351 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
5440370 AATCGCAACGAGAG
1 AATCGCAACGAGAG
5440384 AATCGCAACG
1 AATCGCAACG
5440394 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:5440341 original size:33 final size:33
Alignment explanation
Indices: 5440296--5440410 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
5440286 TCTTTTGGTT
5440296 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
5440329 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
5440362 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
5440395 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
5440411 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:5440342 original size:19 final size:18
Alignment explanation
Indices: 5440303--5440415 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
5440293 GTTGAAATGA
5440303 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
5440318 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
5440335 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
5440351 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
5440368 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
5440384 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
5440401 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
5440416 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:5440446 original size:14 final size:14
Alignment explanation
Indices: 5440427--5440481 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
5440417 TTTGGTTTCG
5440427 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
5440441 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
5440460 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
5440474 CGTTGCGA
1 CGTTGCGA
5440482 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:5440459 original size:33 final size:33
Alignment explanation
Indices: 5440411--5440481 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
5440401 AAAATCGCAA
**
5440411 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
5440444 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
5440477 TGCGA
1 TGCGA
5440482 CAGTCATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:5440489 original size:33 final size:33
Alignment explanation
Indices: 5440422--5440503 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
5440412 GCGATTTTGG
***
5440422 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
5440455 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
5440488 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
5440504 TTCATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:5440508 original size:20 final size:20
Alignment explanation
Indices: 5440434--5440522 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
5440424 TCGCGTTGCG
5440434 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
5440454 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
5440467 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
5440487 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
5440507 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
5440523 CTCTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
19 9 0.16
20 21 0.38
21 13 0.24
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:5440644 original size:33 final size:33
Alignment explanation
Indices: 5440602--5440672 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
5440592 AATACTAACT
*
5440602 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
5440635 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
5440668 TGAAA
1 TGAAA
5440673 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:5440906 original size:22 final size:22
Alignment explanation
Indices: 5440854--5440908 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
5440844 TGGTTGTGAG
**
5440854 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
5440876 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
5440898 GGATTTCTTCG
1 GGATTTCTTCG
5440909 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:5441079 original size:20 final size:20
Alignment explanation
Indices: 5441054--5441246 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
5441044 CTTTAAATAT
5441054 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
5441074 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
5441096 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
5441115 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
5441135 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
5441155 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
5441175 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
5441195 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
5441215 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
5441235 CGCGTTGCGATT
1 CGCGTTGCGATT
5441247 ATTGAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:5441241 original size:60 final size:60
Alignment explanation
Indices: 5441054--5441246 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
5441044 CTTTAAATAT
**
5441054 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
5441115 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
5441175 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
5441235 CGCGTTGCGATT
1 CGCGTTGCGATT
5441247 ATTGAAAATC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 83 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:5443583 original size:14 final size:15
Alignment explanation
Indices: 5443558--5443598 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
5443548 TATATTATTG
*
5443558 AATAAAATTATAAAT
1 AATATAATTATAAAT
*
5443573 TATAT-ATTAT-AAT
1 AATATAATTATAAAT
5443586 AATATAATTATAA
1 AATATAATTATAA
5443599 CAATAAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
13 7 0.33
14 10 0.48
15 4 0.19
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AATATAATTATAAAT
Found at i:5444069 original size:21 final size:22
Alignment explanation
Indices: 5444039--5444090 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
5444029 GAGGGAACCA
5444039 ATTCCCCCCCAAGGGGGTACTG
1 ATTCCCCCCCAAGGGGGTACTG
5444061 ATTCCCCCCCAAGGGGGTACTG
1 ATTCCCCCCCAAGGGGGTACTG
5444083 ATTCCCCC
1 ATTCCCCC
5444091 TAAATGGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.17, C:0.40, G:0.23, T:0.19
Consensus pattern (22 bp):
ATTCCCCCCCAAGGGGGTACTG
Found at i:5449552 original size:22 final size:22
Alignment explanation
Indices: 5449526--5449585 Score: 86
Period size: 21 Copynumber: 2.8 Consensus size: 22
5449516 TTGATGCAGA
5449526 GGGAATCGATACCCCCTTGAAG
1 GGGAATCGATACCCCCTTGAAG
* * *
5449548 GGGAACCGATTCCCCC-TGTAG
1 GGGAATCGATACCCCCTTGAAG
5449569 GGGAATCGATACCCCCT
1 GGGAATCGATACCCCCT
5449586 GGGTTCTGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 18 0.56
22 14 0.44
ACGTcount: A:0.23, C:0.32, G:0.27, T:0.18
Consensus pattern (22 bp):
GGGAATCGATACCCCCTTGAAG
Found at i:5451550 original size:45 final size:45
Alignment explanation
Indices: 5451486--5451576 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
5451476 TTTCAAAATC
5451486 TTAAAATTACTAAAATGTTTTGTTATATCAAAAAGGGAGAGATTG
1 TTAAAATTACTAAAATGTTTTGTTATATCAAAAAGGGAGAGATTG
*
5451531 TTAAAATTACTAAAATGTTTTGTTATATCAAAAAGGGGGAGATTG
1 TTAAAATTACTAAAATGTTTTGTTATATCAAAAAGGGAGAGATTG
5451576 T
1 T
5451577 CGAAAATATT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.41, C:0.04, G:0.19, T:0.36
Consensus pattern (45 bp):
TTAAAATTACTAAAATGTTTTGTTATATCAAAAAGGGAGAGATTG
Found at i:5455318 original size:36 final size:37
Alignment explanation
Indices: 5455273--5455361 Score: 96
Period size: 36 Copynumber: 2.4 Consensus size: 37
5455263 TTTGTATAAT
5455273 ATTACAAATTATAAAATATTTATAT-TTTTTCTTAAAAA
1 ATTA-AAATTATAAAATATTTATATATTTTT-TTAAAAA
*
5455311 ATT-AAATTCAT--AATATTTATATAATTTTTTTATAAA
1 ATTAAAATT-ATAAAATATTTATAT-ATTTTTTTAAAAA
*
5455347 ATTAAAAATATAAAA
1 ATTAAAATTATAAAA
5455362 AATGTTTAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
35 11 0.26
36 16 0.37
37 11 0.26
38 5 0.12
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (37 bp):
ATTAAAATTATAAAATATTTATATATTTTTTTAAAAA
Found at i:5489633 original size:15 final size:16
Alignment explanation
Indices: 5489610--5489657 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
5489600 TATAAGGTAA
*
5489610 TTTTGTTATAATT-TT
1 TTTTATTATAATTATT
*
5489625 TTTTATTATACTTATT
1 TTTTATTATAATTATT
* *
5489641 GTTTATTATCATTATT
1 TTTTATTATAATTATT
5489657 T
1 T
5489658 GAAAAAACAT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
15 11 0.42
16 15 0.58
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.69
Consensus pattern (16 bp):
TTTTATTATAATTATT
Found at i:5491418 original size:17 final size:18
Alignment explanation
Indices: 5491398--5491438 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
5491388 GAATTATATT
5491398 AGTAAAAT-ATTAAATAA
1 AGTAAAATAATTAAATAA
5491415 AGTAAAATAATTAAATAA
1 AGTAAAATAATTAAATAA
*
5491433 ATTAAA
1 AGTAAA
5491439 TACATAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (18 bp):
AGTAAAATAATTAAATAA
Found at i:5501925 original size:33 final size:31
Alignment explanation
Indices: 5501883--5501958 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 31
5501873 CCTAAACCCG
5501883 ACCCGACCCGACCCGAACAGTACATTTAAAAAA
1 ACCCGACCCGACCCGAA-A-TACATTTAAAAAA
***
5501916 ACCCGACCCGAACCCGAAATTTTTTTAAAAAA
1 ACCCGACCCG-ACCCGAAATACATTTAAAAAA
*
5501948 ATCCGACCCGA
1 ACCCGACCCGA
5501959 TCGGGTCGGG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
31 1 0.03
32 19 0.50
33 11 0.29
34 7 0.18
ACGTcount: A:0.39, C:0.33, G:0.12, T:0.16
Consensus pattern (31 bp):
ACCCGACCCGACCCGAAATACATTTAAAAAA
Found at i:5507668 original size:304 final size:288
Alignment explanation
Indices: 5507103--5507690 Score: 1032
Period size: 304 Copynumber: 2.0 Consensus size: 288
5507093 TAACACAAAC
5507103 AATGGGAGTGGCTCCACCTTATCTTCATTGCATGACTCAGGTTTGAGTTTGCCCAAGACCCAAAT
1 AATGGGAGTGGCTCCACCTTATCTTCATTGCATGACTCAGGTTTGAGTTTGCCCAAGACCCAAAT
5507168 TTTACTTCTTGTAACTTAATCTTCTAATTAGGTGGTGACATGTGTCACCATAACATATATCATGA
66 TTTACTTCTTGTAACTTAATCTTCTAATTAGGTGGTGACATGTGTCACCATAACATATATCATGA
5507233 TCATGTGTTAACACATGTCAGATCCTGGTTAAATGATTAATTATTAAATTTTAATTTAGGACAAT
131 TCATGTGTTAACACATGTCAGATCCTGGTTAAATGATTAATTATTAAATTTTAATTTAGGACAAT
5507298 TGATAGCATATAAATAATTAGGTGGTGACATGTGTCACCAATGACACGTGTCATGATCATGTGCT
196 TGATAGCATATAAATAATTAGGTGGTGACATGTGTCACCAATGACACGTGTCATGATCATGTGCT
5507363 AACACATGTCAGATCCTAATTAAACACA
261 AACACATGTCAGATCCTAATTAAACACA
5507391 AATGGTGAGTGGCTCCACCTTGTATCTTTCATTTGCATGACTCAGGTTTGAGTTTGCCCAAGACC
1 AATGG-GAGTGGCTCCACC-T-TATC-TTCA-TTGCATGACTCAGGTTTGAGTTTGCCCAAGACC
5507456 CAAATTTTACTTCTTTGTAACTTAATTTTCTTCTAATTAGGTGGTGACATGTGTCACCAATAACA
61 CAAATTTTACTTC-TTGTAACTTAA---TCTTCTAATTAGGTGGTGACATGTGTCACC-ATAACA
5507521 TATATCATGATCATGTGTTAACACATGTCAGATCCTGGTTAAATGATTAATTATTAAATTTTATT
121 TATATCATGATCATGTGTTAACACATGTCAGATCCTGGTTAAATGATTAATTATTAAA---T-TT
5507586 TAATTTAGGACCAAATTGATAGCATATAAATAATTAGGTGGTGACATGTGTCACCAATGACACGT
182 TAATTTAGGA-C-AATTGATAGCATATAAATAATTAGGTGGTGACATGTGTCACCAATGACACGT
5507651 GTCATGATCATGTGCTAACACATGTCAGATCCTAATTAAA
245 GTCATGATCATGTGCTAACACATGTCAGATCCTAATTAAA
5507691 TGATTAATTT
Statistics
Matches: 284, Mismatches: 0, Indels: 16
0.95 0.00 0.05
Matches are distributed among these distances:
288 5 0.02
289 13 0.05
290 1 0.00
291 4 0.01
292 4 0.01
293 46 0.16
294 11 0.04
297 30 0.11
298 64 0.23
301 1 0.00
302 12 0.04
303 1 0.00
304 92 0.32
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (288 bp):
AATGGGAGTGGCTCCACCTTATCTTCATTGCATGACTCAGGTTTGAGTTTGCCCAAGACCCAAAT
TTTACTTCTTGTAACTTAATCTTCTAATTAGGTGGTGACATGTGTCACCATAACATATATCATGA
TCATGTGTTAACACATGTCAGATCCTGGTTAAATGATTAATTATTAAATTTTAATTTAGGACAAT
TGATAGCATATAAATAATTAGGTGGTGACATGTGTCACCAATGACACGTGTCATGATCATGTGCT
AACACATGTCAGATCCTAATTAAACACA
Found at i:5508190 original size:35 final size:35
Alignment explanation
Indices: 5508129--5508204 Score: 116
Period size: 35 Copynumber: 2.2 Consensus size: 35
5508119 AATTGAATTT
* *
5508129 AATTGAATTATTTTAGAATTTAGGGTTTAGAATGA
1 AATTGAATTACTTTAGAAATTAGGGTTTAGAATGA
* *
5508164 AATTGAATTACTTTGGAAATTGGGGTTTAGAATGA
1 AATTGAATTACTTTAGAAATTAGGGTTTAGAATGA
5508199 AATTGA
1 AATTGA
5508205 GGACTGTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.37, C:0.01, G:0.22, T:0.39
Consensus pattern (35 bp):
AATTGAATTACTTTAGAAATTAGGGTTTAGAATGA
Found at i:5540872 original size:5 final size:5
Alignment explanation
Indices: 5540864--5540897 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
5540854 CCACCCCAAA
*
5540864 AAAAG AAAAG AAACG AAAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
5540898 CACAGTAGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.79, C:0.03, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:5543026 original size:19 final size:19
Alignment explanation
Indices: 5542998--5543040 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
5542988 ATAGAATAAA
5542998 AAATACATTATCAATATAT
1 AAATACATTATCAATATAT
**
5543017 CAAATA-ATTATTTATATAT
1 -AAATACATTATCAATATAT
5543036 AAATA
1 AAATA
5543041 TAATAAAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 5 0.24
19 11 0.52
20 5 0.24
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (19 bp):
AAATACATTATCAATATAT
Found at i:5543873 original size:17 final size:18
Alignment explanation
Indices: 5543841--5543874 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
5543831 TAATTAAATA
5543841 AAATACTAACAAAATATT
1 AAATACTAACAAAATATT
*
5543859 AAATA-TAATAAAATAT
1 AAATACTAACAAAATAT
5543875 ACCTTATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (18 bp):
AAATACTAACAAAATATT
Found at i:5544644 original size:59 final size:59
Alignment explanation
Indices: 5544552--5544669 Score: 236
Period size: 59 Copynumber: 2.0 Consensus size: 59
5544542 ATGGAAGGTG
5544552 TATGGGCCGTGCCTTTGGGCTAAAATTTTCATACATGGATTACTTGGCGTCTTTAGTTA
1 TATGGGCCGTGCCTTTGGGCTAAAATTTTCATACATGGATTACTTGGCGTCTTTAGTTA
5544611 TATGGGCCGTGCCTTTGGGCTAAAATTTTCATACATGGATTACTTGGCGTCTTTAGTTA
1 TATGGGCCGTGCCTTTGGGCTAAAATTTTCATACATGGATTACTTGGCGTCTTTAGTTA
5544670 ATTTTTTTCC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.20, C:0.17, G:0.24, T:0.39
Consensus pattern (59 bp):
TATGGGCCGTGCCTTTGGGCTAAAATTTTCATACATGGATTACTTGGCGTCTTTAGTTA
Found at i:5552623 original size:22 final size:21
Alignment explanation
Indices: 5552574--5552634 Score: 54
Period size: 22 Copynumber: 2.8 Consensus size: 21
5552564 TAAAATTTCC
*
5552574 TAATTGATTT-TTTTAAATTT
1 TAATTAATTTATTTTAAATTT
5552594 TAACATT-ATTTATTTTATATATTT
1 T-A-ATTAATTTATTTTA-A-ATTT
*
5552618 TAATTAATTAATTTTAA
1 TAATTAATTTATTTTAA
5552635 TAAAATAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
20 1 0.03
21 5 0.15
22 12 0.35
23 11 0.32
24 5 0.15
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (21 bp):
TAATTAATTTATTTTAAATTT
Found at i:5552676 original size:2 final size:2
Alignment explanation
Indices: 5552671--5552705 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
5552661 TAATTTTTTA
5552671 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5552706 ATTCAAAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5559820 original size:20 final size:20
Alignment explanation
Indices: 5559795--5559833 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
5559785 AGTATGTTCA
5559795 GGGGGTATCGATTCCCCCTG
1 GGGGGTATCGATTCCCCCTG
*
5559815 GGGGGTATTGATTCCCCCT
1 GGGGGTATCGATTCCCCCT
5559834 AAATGAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.10, C:0.28, G:0.33, T:0.28
Consensus pattern (20 bp):
GGGGGTATCGATTCCCCCTG
Found at i:5566767 original size:15 final size:15
Alignment explanation
Indices: 5566747--5566776 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
5566737 GGGTATTGTT
5566747 GTCCTTCGGGACGTA
1 GTCCTTCGGGACGTA
5566762 GTCCTTCGGGACGTA
1 GTCCTTCGGGACGTA
5566777 ATGGTCCTAC
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:0.13, C:0.27, G:0.33, T:0.27
Consensus pattern (15 bp):
GTCCTTCGGGACGTA
Found at i:5570435 original size:2 final size:2
Alignment explanation
Indices: 5570428--5570466 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
5570418 TGCCATACTT
5570428 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5570467 GGATCTTTGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5580602 original size:32 final size:32
Alignment explanation
Indices: 5580561--5580623 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
5580551 ATCAATAAAA
5580561 TAGTTGCATCCATTACATTCATACTTCATTAT
1 TAGTTGCATCCATTACATTCATACTTCATTAT
5580593 TAGTTGCATCCATTACATTCATACTTCATTA
1 TAGTTGCATCCATTACATTCATACTTCATTA
5580624 CAATCTTACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.29, C:0.22, G:0.06, T:0.43
Consensus pattern (32 bp):
TAGTTGCATCCATTACATTCATACTTCATTAT
Found at i:5580622 original size:16 final size:16
Alignment explanation
Indices: 5580571--5580625 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
5580561 TAGTTGCATC
5580571 CATTACATTCATACTT
1 CATTACATTCATACTT
*
5580587 CATTATTAGTTGCAT-C--
1 CATTA-CA-TT-CATACTT
5580603 CATTACATTCATACTT
1 CATTACATTCATACTT
5580619 CATTACA
1 CATTACA
5580626 ATCTTACATA
Statistics
Matches: 31, Mismatches: 2, Indels: 12
0.69 0.04 0.27
Matches are distributed among these distances:
13 3 0.10
14 3 0.10
15 1 0.03
16 17 0.55
17 1 0.03
18 3 0.10
19 3 0.10
ACGTcount: A:0.31, C:0.24, G:0.04, T:0.42
Consensus pattern (16 bp):
CATTACATTCATACTT
Done.