Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 118 of 141
Found at i:34896702 original size:50 final size:53
Alignment explanation
Indices: 34896616--34896740 Score: 141
Period size: 50 Copynumber: 2.4 Consensus size: 53
34896606 CGGTGCCCAT
** *
34896616 GCCATGTCCCAGACATGGTCTTACAGGGAAGTTCTCAT-CTCAGT-A-CCAAC
1 GCCATGTCCCAGACATGGTCTTACAGGGAACCTCTCATACTCAATAAGCCAAC
* *
34896666 GCCATGTCCTAGACATGGTCTTAC-GTGGGACCTCTCATAACCTCAATAATGCCAAC
1 GCCATGTCCCAGACATGGTCTTACAG-GGAACCTCTCAT-A-CTCAATAA-GCCAAC
34896722 GCCATGTCCCAGACATGGT
1 GCCATGTCCCAGACATGGT
34896741 GATAGAGGAA
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
49 1 0.02
50 32 0.52
53 5 0.08
54 1 0.02
56 23 0.37
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (53 bp):
GCCATGTCCCAGACATGGTCTTACAGGGAACCTCTCATACTCAATAAGCCAAC
Found at i:34901391 original size:48 final size:48
Alignment explanation
Indices: 34901320--34901464 Score: 281
Period size: 48 Copynumber: 3.0 Consensus size: 48
34901310 ACCCCATGCC
*
34901320 TATTCCATAATAATTTCACAAGTGCAATACTTTTGTTTCTTAGTTGCT
1 TATTCCATAATACTTTCACAAGTGCAATACTTTTGTTTCTTAGTTGCT
34901368 TATTCCATAATACTTTCACAAGTGCAATACTTTTGTTTCTTAGTTGCT
1 TATTCCATAATACTTTCACAAGTGCAATACTTTTGTTTCTTAGTTGCT
34901416 TATTCCATAATACTTTCACAAGTGCAATACTTTTGTTTCTTAGTTGCT
1 TATTCCATAATACTTTCACAAGTGCAATACTTTTGTTTCTTAGTTGCT
34901464 T
1 T
34901465 GGCCTCTCGA
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 96 1.00
ACGTcount: A:0.26, C:0.18, G:0.10, T:0.46
Consensus pattern (48 bp):
TATTCCATAATACTTTCACAAGTGCAATACTTTTGTTTCTTAGTTGCT
Found at i:34912910 original size:30 final size:30
Alignment explanation
Indices: 34912876--34912933 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
34912866 TCAAACTTTG
34912876 GGGCAAAAGTGTAAATATGCAAAAGTTTAA
1 GGGCAAAAGTGTAAATATGCAAAAGTTTAA
* * *
34912906 GGGCAAAATTGTAAATTTGCCAAAGTTT
1 GGGCAAAAGTGTAAATATGCAAAAGTTT
34912934 GAGTCAAGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (30 bp):
GGGCAAAAGTGTAAATATGCAAAAGTTTAA
Found at i:34913381 original size:50 final size:50
Alignment explanation
Indices: 34913323--34913428 Score: 131
Period size: 50 Copynumber: 2.1 Consensus size: 50
34913313 TATTGAGCTT
* * * *
34913323 ATGAGAGGTCCCACATAAGACCATGTCTGGGACATGGCGTTGGTACCGAG
1 ATGAGAGGTCCCACATAAGACCATGCCTGGGACATGGCCTGGGCACCGAG
* * * * *
34913373 ATGAGAGGTCCCCCGTAAGACCCTGCCTGGGCCATGGCCTGGGCACCGAT
1 ATGAGAGGTCCCACATAAGACCATGCCTGGGACATGGCCTGGGCACCGAG
34913423 ATGAGA
1 ATGAGA
34913429 ACTCTCATGT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.24, C:0.26, G:0.32, T:0.18
Consensus pattern (50 bp):
ATGAGAGGTCCCACATAAGACCATGCCTGGGACATGGCCTGGGCACCGAG
Found at i:34923108 original size:50 final size:50
Alignment explanation
Indices: 34923022--34923160 Score: 181
Period size: 50 Copynumber: 2.8 Consensus size: 50
34923012 ACATGCCAAA
* ** *
34923022 GCCATGTCCTAGACATGGTCTTACATGGGAGTTCTCATATCGGTGC-CCGT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCTAC-T
* ** *
34923072 GCCATATCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCTACT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCTACT
*
34923122 GCCATGTCCCAGACATGGACTTACATGGGACCTCTCATA
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
34923161 ATCTCAATGA
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
50 74 0.99
51 1 0.01
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCTACT
Found at i:34926688 original size:15 final size:15
Alignment explanation
Indices: 34926655--34926727 Score: 65
Period size: 15 Copynumber: 4.7 Consensus size: 15
34926645 CATAGTTTCA
* *
34926655 CTATAGTTTTCAGACT
1 CTATAG-TTTCATAGT
* *
34926671 CTAAAGTTTCCTAGT
1 CTATAGTTTCATAGT
*
34926686 CTATTTGTTTCATAGT
1 CTA-TAGTTTCATAGT
* *
34926702 CTATAGTTTCAAAAT
1 CTATAGTTTCATAGT
34926717 CTATAGTTTCA
1 CTATAGTTTCA
34926728 CAATCACAAT
Statistics
Matches: 46, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
15 29 0.63
16 17 0.37
ACGTcount: A:0.27, C:0.16, G:0.11, T:0.45
Consensus pattern (15 bp):
CTATAGTTTCATAGT
Found at i:34926732 original size:15 final size:15
Alignment explanation
Indices: 34926701--34926732 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
34926691 TGTTTCATAG
34926701 TCTATAGTTTCAAAA
1 TCTATAGTTTCAAAA
*
34926716 TCTATAGTTTCACAA
1 TCTATAGTTTCAAAA
34926731 TC
1 TC
34926733 ACAATCTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.19, G:0.06, T:0.41
Consensus pattern (15 bp):
TCTATAGTTTCAAAA
Found at i:34929596 original size:39 final size:40
Alignment explanation
Indices: 34929551--34929735 Score: 178
Period size: 40 Copynumber: 4.7 Consensus size: 40
34929541 GCTCCTCGTT
* * *
34929551 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
34929591 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
34929630 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * * * * *
34929670 CAAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAAC-TCGCA
* *
34929711 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAACCCGGA
34929736 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 37 0.30
40 74 0.61
41 11 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:34929651 original size:40 final size:39
Alignment explanation
Indices: 34929518--34929735 Score: 165
Period size: 40 Copynumber: 5.5 Consensus size: 39
34929508 AAATCACGTA
* * **
34929518 CCTTCGGGATTTAA-CCGGATATAGCTCCTCGTTCA-AATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCG--CACAATG
* * * * *
34929557 CCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCACAATG
* *
34929596 CCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCAC-AATG
* * *
34929636 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCAC-AATG
* * * * *
34929676 CCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCACAAAG
1 CCTTCGGGA-CTTAACCCGGATTTA-GCAAC-TCGCACAATG
*
34929716 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
34929736 CAGCATTCAA
Statistics
Matches: 143, Mismatches: 29, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
38 2 0.01
39 48 0.34
40 85 0.59
41 8 0.06
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (39 bp):
CCTTCGGGACTTAACCCGGATTTAGCAACTCGCACAATG
Found at i:34939798 original size:20 final size:21
Alignment explanation
Indices: 34939773--34939812 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
34939763 TATGAGAATG
34939773 TCAGTGCAACTTTT-CAAAAA
1 TCAGTGCAACTTTTACAAAAA
*
34939793 TCAGTGCAAGTTTTACAAAA
1 TCAGTGCAACTTTTACAAAA
34939813 TTTTCCTACC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.30
Consensus pattern (21 bp):
TCAGTGCAACTTTTACAAAAA
Found at i:34939913 original size:24 final size:24
Alignment explanation
Indices: 34939885--34939975 Score: 96
Period size: 24 Copynumber: 3.8 Consensus size: 24
34939875 ACACTCCACA
*
34939885 TTGTGGCCAAGCCACTCAATATCG
1 TTGTGGACAAGCCACTCAATATCG
* **
34939909 TTGTGGTCAAGCCACTCGTTAGT-G
1 TTGTGGACAAGCCACTCAATA-TCG
* *
34939933 TTCTGGACAAGCCATTC-ATATCG
1 TTGTGGACAAGCCACTCAATATCG
*
34939956 TTGTGGATAAGCCACTCAAT
1 TTGTGGACAAGCCACTCAAT
34939976 TTTTGTAGTA
Statistics
Matches: 54, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
22 1 0.02
23 17 0.31
24 35 0.65
25 1 0.02
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (24 bp):
TTGTGGACAAGCCACTCAATATCG
Found at i:34941374 original size:23 final size:23
Alignment explanation
Indices: 34941347--34941422 Score: 116
Period size: 23 Copynumber: 3.3 Consensus size: 23
34941337 AGTCTTATTG
34941347 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * *
34941370 TTCAGTGGTAGCTACGGTTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
34941393 ATCGGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
34941416 ATCAGTG
1 ATCAGTG
34941423 TGGCACTTAT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:34942734 original size:42 final size:42
Alignment explanation
Indices: 34942682--34942797 Score: 126
Period size: 42 Copynumber: 2.8 Consensus size: 42
34942672 ATTATCAGTA
34942682 GGCATGCTTAACATGCAAATCAAATCT-AATATCAACATAGTC
1 GGCATGCTTAACATGCAAATCAAATCTCAAT-TCAACATAGTC
* * * * * * * *
34942724 GGCATACTTAACATACAAATCATATCTCAGTTTATCATTGTT
1 GGCATGCTTAACATGCAAATCAAATCTCAATTCAACATAGTC
* *
34942766 GGCATGTTTAACATGCAAATCAAATATCAATT
1 GGCATGCTTAACATGCAAATCAAATCTCAATT
34942798 AATATAACAG
Statistics
Matches: 59, Mismatches: 14, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
42 57 0.97
43 2 0.03
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (42 bp):
GGCATGCTTAACATGCAAATCAAATCTCAATTCAACATAGTC
Found at i:34943956 original size:13 final size:13
Alignment explanation
Indices: 34943938--34943979 Score: 75
Period size: 13 Copynumber: 3.2 Consensus size: 13
34943928 AATAATAGTT
34943938 ATATAGATACAAA
1 ATATAGATACAAA
*
34943951 ATATAGATATAAA
1 ATATAGATACAAA
34943964 ATATAGATACAAA
1 ATATAGATACAAA
34943977 ATA
1 ATA
34943980 ATAGTAGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.62, C:0.05, G:0.07, T:0.26
Consensus pattern (13 bp):
ATATAGATACAAA
Found at i:34943961 original size:21 final size:22
Alignment explanation
Indices: 34943919--34943961 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
34943909 TAAGCTTGTG
*
34943919 TAGATACAAAATAATAGTTATA
1 TAGATACAAAATAATAGATATA
34943941 TAGATACAAAAT-ATAGATATA
1 TAGATACAAAATAATAGATATA
34943962 AAATATAGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.56, C:0.05, G:0.09, T:0.30
Consensus pattern (22 bp):
TAGATACAAAATAATAGATATA
Found at i:34944046 original size:13 final size:13
Alignment explanation
Indices: 34944028--34944057 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
34944018 AATAATAGTT
34944028 ATATAGATACAAA
1 ATATAGATACAAA
*
34944041 ATATAGATATAAA
1 ATATAGATACAAA
34944054 ATAT
1 ATAT
34944058 TCTACTGGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (13 bp):
ATATAGATACAAA
Found at i:34944276 original size:10 final size:10
Alignment explanation
Indices: 34944261--34944293 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
34944251 TTTCAATTTT
*
34944261 TATAATTATA
1 TATAATTCTA
34944271 TATAATTCTA
1 TATAATTCTA
34944281 TATAATTCTA
1 TATAATTCTA
34944291 TAT
1 TAT
34944294 TTTTAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (10 bp):
TATAATTCTA
Found at i:34955312 original size:52 final size:52
Alignment explanation
Indices: 34955238--34955418 Score: 152
Period size: 52 Copynumber: 3.5 Consensus size: 52
34955228 TAGCTCGCAC
* * *
34955238 ATTGACCACAACTCACACATGGGTGCAACTCACACATTAGCATAGTTCACAT
1 ATTGACTACAACTCACATATGGGCGCAACTCACACATTAGCATAGTTCACAT
* * * * * * * * *
34955290 ATTGACTACAGCTCGCATATGGGCACAACACGCACAATAACATAGCTCGCGTAT
1 ATTGACTACAACTCACATATGGGCGCAACTCACACATTAGCATAGTTCAC--AT
* * * *
34955344 ATTGACTACAACTCATAGATAGGCGCAAAT-ACACATTAGCATAGCTTGCAC--
1 ATTGACTACAACTCACATATGGGCGCAACTCACACATTAGCATAG-TT-CACAT
*
34955395 ATTGACTACAACTCGCATATGGGC
1 ATTGACTACAACTCACATATGGGC
34955419 ATATCAAGTG
Statistics
Matches: 96, Mismatches: 29, Indels: 9
0.72 0.22 0.07
Matches are distributed among these distances:
51 20 0.21
52 38 0.40
53 11 0.11
54 25 0.26
55 2 0.02
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.23
Consensus pattern (52 bp):
ATTGACTACAACTCACATATGGGCGCAACTCACACATTAGCATAGTTCACAT
Found at i:34955399 original size:105 final size:103
Alignment explanation
Indices: 34955226--34955419 Score: 257
Period size: 105 Copynumber: 1.9 Consensus size: 103
34955216 TCACACATGT
* * *
34955226 CATAGCTCGCACATTGACCACAACTCACACATGGGTGCAACTCACACATTAGCATAGTTCACATA
1 CATAGCTCGCACATTGACCACAACTCACACATAGGCGCAAATCACACATTAGCATAGTTCACA-A
*
34955291 TTGACTACAGCTCGCATATGGGCACAACACGCACAATAA
65 TTGACTACAACTCGCATATGGGCACAACACGCACAATAA
* * * *
34955330 CATAGCTCGCGTATATTGACTACAACTCATAGATAGGCGCAAAT-ACACATTAGCATAGCTTGCA
1 CATAGCTCGC--ACATTGACCACAACTCACACATAGGCGCAAATCACACATTAGCATAG-TT-CA
34955394 C-ATTGACTACAACTCGCATATGGGCA
62 CAATTGACTACAACTCGCATATGGGCA
34955420 TATCAAGTGT
Statistics
Matches: 78, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
104 10 0.13
105 38 0.49
106 27 0.35
107 3 0.04
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.22
Consensus pattern (103 bp):
CATAGCTCGCACATTGACCACAACTCACACATAGGCGCAAATCACACATTAGCATAGTTCACAAT
TGACTACAACTCGCATATGGGCACAACACGCACAATAA
Found at i:34965332 original size:21 final size:20
Alignment explanation
Indices: 34965307--34965347 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
34965297 AATTTGAGTT
*
34965307 GTTAATATAATTTTGAACTTG
1 GTTAAAATAATTTT-AACTTG
*
34965328 GTTAAAATCATTTTAACTTG
1 GTTAAAATAATTTTAACTTG
34965348 ATTTTAAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.34, C:0.07, G:0.12, T:0.46
Consensus pattern (20 bp):
GTTAAAATAATTTTAACTTG
Found at i:34966157 original size:17 final size:16
Alignment explanation
Indices: 34966126--34966167 Score: 66
Period size: 17 Copynumber: 2.6 Consensus size: 16
34966116 GAATTTAGAA
34966126 GAATTTTTGAATTAGT
1 GAATTTTTGAATTAGT
*
34966142 GAATTTTGTGATTTAGT
1 GAATTTT-TGAATTAGT
34966159 GAATTTTTG
1 GAATTTTTG
34966168 CGATTTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 9 0.38
17 15 0.62
ACGTcount: A:0.26, C:0.00, G:0.21, T:0.52
Consensus pattern (16 bp):
GAATTTTTGAATTAGT
Found at i:34967469 original size:46 final size:46
Alignment explanation
Indices: 34967398--34967578 Score: 299
Period size: 46 Copynumber: 3.9 Consensus size: 46
34967388 GCAAAGTGTA
*
34967398 AAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGTTGTG
1 AAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTGTG
*
34967444 AAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTATG
1 AAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTGTG
* * *
34967490 AAACGTAGGTATCGTGTTTCAGTGAAAAAAACCATACTGAGTTGTG
1 AAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTGTG
* *
34967536 AAAAGTAGGTATGGTATTTCTGTGAAGAAAACCATACTGAGTT
1 AAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTT
34967579 ATCGCAATGT
Statistics
Matches: 124, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 124 1.00
ACGTcount: A:0.35, C:0.10, G:0.26, T:0.29
Consensus pattern (46 bp):
AAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTGTG
Found at i:34974220 original size:49 final size:49
Alignment explanation
Indices: 34974096--34974276 Score: 281
Period size: 49 Copynumber: 3.7 Consensus size: 49
34974086 ACACCATTTA
* * *
34974096 TGGACAAGCCACCACTGATTTGCAGATAAACTGCCATTGATAACTCTTTTG
1 TGGACAAGCCACCACTAATTTGCAGATATACTGCCATTGATAA--ATTTTG
* *
34974147 TGGAAAAGCCACCACTAATATGCAGATATACTGCCATTGATAAATTTTG
1 TGGACAAGCCACCACTAATTTGCAGATATACTGCCATTGATAAATTTTG
*
34974196 TGGACAAGCCACCACTGATTTGCAGATATACTGCCATTGATAAATTTTG
1 TGGACAAGCCACCACTAATTTGCAGATATACTGCCATTGATAAATTTTG
*
34974245 TGGACAAGCCACCACTAACTTGCAGATATACT
1 TGGACAAGCCACCACTAATTTGCAGATATACT
34974277 ACCACTGCTT
Statistics
Matches: 120, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
49 81 0.68
51 39 0.32
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (49 bp):
TGGACAAGCCACCACTAATTTGCAGATATACTGCCATTGATAAATTTTG
Found at i:34977861 original size:21 final size:21
Alignment explanation
Indices: 34977837--34977885 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
34977827 AGTCTGTCAT
34977837 GACATCGAA-CCCTGATGTCGC
1 GACATCGAACCCCTG-TGTCGC
*
34977858 GACA-CAGAACCCCTGTGTCGT
1 GACATC-GAACCCCTGTGTCGC
34977879 GACATCG
1 GACATCG
34977886 CCGTAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
20 1 0.04
21 17 0.71
22 6 0.25
ACGTcount: A:0.24, C:0.33, G:0.24, T:0.18
Consensus pattern (21 bp):
GACATCGAACCCCTGTGTCGC
Found at i:34979977 original size:28 final size:28
Alignment explanation
Indices: 34979944--34980037 Score: 143
Period size: 28 Copynumber: 3.3 Consensus size: 28
34979934 ATATCTGCAA
34979944 ATCAGTGGTGGCATGTCCACAAAATTGT
1 ATCAGTGGTGGCATGTCCACAAAATTGT
*
34979972 ATCAGTGGTGGCATGTCCACTAAATTGT
1 ATCAGTGGTGGCATGTCCACAAAATTGT
* *
34980000 ATCAGTGGTGGCTTGTCCACAAAAGTGTT
1 ATCAGTGGTGGCATGTCCACAAAATTG-T
*
34980029 ATTAGTGGT
1 ATCAGTGGT
34980038 AGTTTATCTA
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
28 51 0.85
29 9 0.15
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.32
Consensus pattern (28 bp):
ATCAGTGGTGGCATGTCCACAAAATTGT
Found at i:34981015 original size:26 final size:26
Alignment explanation
Indices: 34980981--34981032 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
34980971 TTTAGATGTG
*
34980981 AAACTATAGACTATGAAAACTATAGA
1 AAACTATAGACTAAGAAAACTATAGA
*
34981007 AAACTATAGACTAAGAAAACTCTAGA
1 AAACTATAGACTAAGAAAACTATAGA
34981033 TTGTGAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.54, C:0.13, G:0.12, T:0.21
Consensus pattern (26 bp):
AAACTATAGACTAAGAAAACTATAGA
Found at i:34981023 original size:16 final size:17
Alignment explanation
Indices: 34980999--34981032 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
34980989 GACTATGAAA
34980999 ACTATAGAAAACTATAG
1 ACTATAGAAAACTATAG
*
34981016 ACTA-AGAAAACTCTAG
1 ACTATAGAAAACTATAG
34981032 A
1 A
34981033 TTGTGAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.53, C:0.15, G:0.12, T:0.21
Consensus pattern (17 bp):
ACTATAGAAAACTATAG
Found at i:34988035 original size:600 final size:593
Alignment explanation
Indices: 34986896--34988094 Score: 1582
Period size: 600 Copynumber: 2.0 Consensus size: 593
34986886 TTGCTGGATT
* * * * * ** *
34986896 GAGTTGGGGGAGAAGAATGTGTTAGGACCGGATCTAGTGCAGGAGACTAAGAATATTGTGAAGAT
1 GAGTTGGGGGAGAAGAAAGTATTAGGACCGGATCAACTGCAGAAGACTAAGAATAGAGTGAAAAT
* * *
34986961 TATTTGGGATCATTTTAAAGCGACATTTGACAAGCAAAAGTCTTATTCTGACTTGAAGAGGAAGG
66 TATTTGAGATCATTTAAAAGCGACATCTGACAAGCAAAAGTCTTATTCTGACTTGAAGAGGAAGG
* * * * *
34987026 ATATAGAGTTTACTGTTGGTGAACGGGTCTTCGTTACGGTTGGAATAAAGTGTTGAGAGTTGGCT
131 ATATAGAGTTCAATGTTGGTGAACGGGTCTTCGTTACGGTTGGAAGAAAGTGTTAAGAGTTGGCC
* *
34987091 GCCAAGGGAAACTGAGTTTGAGGTTCACCAGACCGTATCACATCATGAAGAGAGTGGGACCAGTG
196 GCCAAGGGAAACTGAGTCTGAGGTTCACCAGACCCTATCACATCATGAAGAGAGTGGGACCAGTG
* * * ** * *
34987156 GCATATCAGCTTGAGTTACCTCCAGAGTTGGATCATATCCACGATGTTTTTATTTGTCCATGTTG
261 GCACATCAACTTGAGTTACCTCCAAAGTTGGATCATATCCACGACATTTTCATGTGTCCATGTTG
** * * **
34987221 AGGCGATACCAATTTGACCTTACTCATATAGTTTCGATTAAGGAGATTAAGGTTCAATCGGATTT
326 AGAAGATACCAATTTGACCCTACCCATATAGTTTCGATTAAGGAGATTAAGGTTCAATCAAATTT
* *
34987286 GTCATTTGATGAGGAACCGATACAGATCCTTGATCGTGACTTCAAAGTTTTGAGAAGGAAGAAGA
391 GTCATTTGATGAGGAACCGATACAGATCCTCGATCATGACTTCAAAGTTTTGAGAAGGAAGAAGA
* * * * *
34987351 TTCCACTTGTGAAAGTTTTGTGGAGGAATCACGGTTCTAATGAGGCCACTTGAGAGTCGGAATAT
456 TTCCACTTGTGAAAGTTTTGTGGAGGAATCACAGCTCTAATGAGACCACTTGAGAGCCGAAATAT
* * * * * *
34987416 TTATTGCTTCAACAATATCCTTACCTTTTTCCATGAGGTAAATTTTGAGGATGAAATTTTTATAA
521 TTAATGCGTCAACAATATCCTCACCTTTTTCCATCAGGTAAATTTCGAGGAAGAAATTTTTATAA
34987481 GGAGGGTA
586 GGAGGGTA
*
34987489 GAGTTGGGGGAGAAGAAAGTATTAGGACCGGATCAACTGCAGAAGACTGAGAATAGAGTGAAAAT
1 GAGTTGGGGGAGAAGAAAGTATTAGGACCGGATCAACTGCAGAAGACTAAGAATAGAGTGAAAAT
* * *
34987554 T-TTTCGAGATCATTTAAAAGTGACATCTGACAGGCAAAAGTCTTATTTTGACTTGAAGAGGAAG
66 TATTT-GAGATCATTTAAAAGCGACATCTGACAAGCAAAAGTCTTATTCTGACTTGAAGAGGAAG
* * * *
34987618 TATATAGAGTTCAATGTTGGTGAATGGGTCTTCCTTAATGTTTCAC-GTTGGGAGAAATTGTTAA
130 GATATAGAGTTCAATGTTGGTGAACGGGTCTT-C-----G-TT-ACGGTTGGAAGAAAGTGTTAA
* * * * **
34987682 GATTTGGCCGCTAGGGGAAATTGAGTCTGAGGTTCGTCAGACCCTATCACATCATGAAGAGAGTG
187 GAGTTGGCCGCCAAGGGAAACTGAGTCTGAGGTTCACCAGACCCTATCACATCATGAAGAGAGTG
* * *
34987747 GGACTAGTGGCACATCAACTTGAGTTACCTCCAAAGTTGGATCGTATCCATGACATTTTCATGTG
252 GGACCAGTGGCACATCAACTTGAGTTACCTCCAAAGTTGGATCATATCCACGACATTTTCATGTG
* * * *
34987812 TCCATGTTGAGAAGATACCAATTTTACCCTACCCATATAG-TTCTGATTGAGGAGATTGAGGTTT
317 TCCATGTTGAGAAGATACCAATTTGACCCTACCCATATAGTTTC-GATTAAGGAGATTAAGGTTC
* *
34987876 GA-CTAAATTTTTCATTTGATGAGGAACCGATACAGATCCTCGATCATGA-TGTCAAAGTTTT-A
381 AATC-AAATTTGTCATTTGATGAGGAACCGATACAGATCCTCGATCATGACT-TCAAAGTTTTGA
* *
34987938 CGAAGGAAGAAGGTTCCACTTGTGAAAGTTTTGTGGATGAATCACAGCTCTAATGAGACCACTTG
444 -GAAGGAAGAAGATTCCACTTGTGAAAGTTTTGTGGAGGAATCACAGCTCTAATGAGACCACTTG
* *
34988003 GGAGCCGAAATATTTAATGCGTCAATAATATCCTCACCTTTTTCCATCAGGTAAATTTCGAGGAA
508 AGAGCCGAAATATTTAATGCGTCAACAATATCCTCACCTTTTTCCATCAGGTAAATTTCGAGGAA
*
34988068 GAAATTTTTATAATGAGGGTA
573 GAAATTTTTATAAGGAGGGTA
*
34988089 GGGTTG
1 GAGTTG
34988095 TCGCATCCCA
Statistics
Matches: 520, Mismatches: 73, Indels: 19
0.85 0.12 0.03
Matches are distributed among these distances:
592 3 0.01
593 138 0.27
594 1 0.00
599 7 0.01
600 369 0.71
601 2 0.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (593 bp):
GAGTTGGGGGAGAAGAAAGTATTAGGACCGGATCAACTGCAGAAGACTAAGAATAGAGTGAAAAT
TATTTGAGATCATTTAAAAGCGACATCTGACAAGCAAAAGTCTTATTCTGACTTGAAGAGGAAGG
ATATAGAGTTCAATGTTGGTGAACGGGTCTTCGTTACGGTTGGAAGAAAGTGTTAAGAGTTGGCC
GCCAAGGGAAACTGAGTCTGAGGTTCACCAGACCCTATCACATCATGAAGAGAGTGGGACCAGTG
GCACATCAACTTGAGTTACCTCCAAAGTTGGATCATATCCACGACATTTTCATGTGTCCATGTTG
AGAAGATACCAATTTGACCCTACCCATATAGTTTCGATTAAGGAGATTAAGGTTCAATCAAATTT
GTCATTTGATGAGGAACCGATACAGATCCTCGATCATGACTTCAAAGTTTTGAGAAGGAAGAAGA
TTCCACTTGTGAAAGTTTTGTGGAGGAATCACAGCTCTAATGAGACCACTTGAGAGCCGAAATAT
TTAATGCGTCAACAATATCCTCACCTTTTTCCATCAGGTAAATTTCGAGGAAGAAATTTTTATAA
GGAGGGTA
Found at i:34995803 original size:22 final size:22
Alignment explanation
Indices: 34995773--34995832 Score: 111
Period size: 22 Copynumber: 2.7 Consensus size: 22
34995763 AGCATTTTGC
34995773 TCCCTATGTTGCAACATCAAACT
1 TCCC-ATGTTGCAACATCAAACT
34995796 TCCCATGTTGCAACATCAAACT
1 TCCCATGTTGCAACATCAAACT
34995818 TCCCATGTTGCAACA
1 TCCCATGTTGCAACA
34995833 CAACGATCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 33 0.89
23 4 0.11
ACGTcount: A:0.30, C:0.32, G:0.10, T:0.28
Consensus pattern (22 bp):
TCCCATGTTGCAACATCAAACT
Found at i:35000221 original size:18 final size:18
Alignment explanation
Indices: 35000198--35000232 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
35000188 CAAGAATAGT
35000198 AAGCATCAAAATAGTTTC
1 AAGCATCAAAATAGTTTC
*
35000216 AAGCATGAAAATAGTTT
1 AAGCATCAAAATAGTTT
35000233 GGCACATCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.29
Consensus pattern (18 bp):
AAGCATCAAAATAGTTTC
Found at i:35001375 original size:27 final size:27
Alignment explanation
Indices: 35001337--35001393 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
35001327 TGGCATAAAG
35001337 CCATTACTAAGTGGGGAAAGAAGACTC
1 CCATTACTAAGTGGGGAAAGAAGACTC
35001364 CCATTACTAAGTGGGGAAAGAAGACTC
1 CCATTACTAAGTGGGGAAAGAAGACTC
35001391 CCA
1 CCA
35001394 CCTTTTGGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.18
Consensus pattern (27 bp):
CCATTACTAAGTGGGGAAAGAAGACTC
Found at i:35006144 original size:39 final size:39
Alignment explanation
Indices: 35006083--35006167 Score: 98
Period size: 39 Copynumber: 2.2 Consensus size: 39
35006073 GGATCACATC
* * ** *
35006083 AGCATGTATCACATTACACATATGGTCACATAACATTTA
1 AGCATATATCACAATACACATATAATCACATAACATTCA
* *
35006122 AGCATATATCACAATACTCATATAATTACATAACATTCA
1 AGCATATATCACAATACACATATAATCACATAACATTCA
*
35006161 AACATAT
1 AGCATAT
35006168 GTCGTAATAC
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.44, C:0.20, G:0.06, T:0.31
Consensus pattern (39 bp):
AGCATATATCACAATACACATATAATCACATAACATTCA
Found at i:35008980 original size:21 final size:21
Alignment explanation
Indices: 35008935--35008997 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
35008925 TTTGAACCAT
* *
35008935 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
35008957 TACCATTTCCTACCAATTCCA
1 TACCATTTCGTACCAATTCCA
*
35008978 TACCATTTCGAACCAATTCC
1 TACCATTTCGTACCAATTCC
35008998 CAAATACCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
21 24 0.67
22 12 0.33
ACGTcount: A:0.33, C:0.35, G:0.03, T:0.29
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:35010289 original size:30 final size:28
Alignment explanation
Indices: 35010255--35010310 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 28
35010245 GTGATTAAAT
35010255 AAAATCGACA-CAAGCAGAATTTAAAAGAAA
1 AAAATCGACAGCAAG-A-AA-TTAAAAGAAA
*
35010285 AAAATTGACAGCAAGAAATTAAAAGA
1 AAAATCGACAGCAAGAAATTAAAAGA
35010311 TAAGTCCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 8 0.33
29 2 0.08
30 10 0.42
31 4 0.17
ACGTcount: A:0.61, C:0.11, G:0.14, T:0.14
Consensus pattern (28 bp):
AAAATCGACAGCAAGAAATTAAAAGAAA
Found at i:35012551 original size:18 final size:17
Alignment explanation
Indices: 35012528--35012566 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
35012518 CTCTTTTTGC
35012528 TCTTTTTCATTCTCTTTT
1 TCTTTTTCATT-TCTTTT
*
35012546 TCTTTTTTTATTTCTTTT
1 TC-TTTTTCATTTCTTTT
35012564 TCT
1 TCT
35012567 GTCTTTCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
17 1 0.05
18 10 0.53
19 8 0.42
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (17 bp):
TCTTTTTCATTTCTTTT
Found at i:35015159 original size:38 final size:34
Alignment explanation
Indices: 35015116--35015184 Score: 84
Period size: 38 Copynumber: 1.9 Consensus size: 34
35015106 CTTTTCTTCC
*
35015116 ATAATCCTTTCTTCCTCTTTCTTTTCTTTATTTCTAAA
1 ATAATCCATTC-T-CTCTTTC-TTT-TTTATTTCTAAA
*
35015154 ATAATCCATTCTCTTTTTCTTTTTTATTTCT
1 ATAATCCATTCTCTCTTTCTTTTTTATTTCT
35015185 TTTCAAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 9 0.31
35 3 0.10
36 6 0.21
37 1 0.03
38 10 0.34
ACGTcount: A:0.17, C:0.22, G:0.00, T:0.61
Consensus pattern (34 bp):
ATAATCCATTCTCTCTTTCTTTTTTATTTCTAAA
Found at i:35017846 original size:148 final size:148
Alignment explanation
Indices: 35017578--35017873 Score: 565
Period size: 148 Copynumber: 2.0 Consensus size: 148
35017568 ATCTAATCTT
35017578 CAAGCTTAGTCAATGTTTTTACTTAGTTGGTGCACTCAGACTGCTGATAACTCTTGAAAAGAGTT
1 CAAGCTTAGTCAATGTTTTTACTTAGTTGGTGCACTCAGACTGCTGATAACTCTTGAAAAGAGTT
35017643 ATATTTCATGCTTTTAGATTTAGTTAATTGCCTGTACTTAGGTACATTTAGTTGCATTTTAGGAT
66 ATATTTCATGCTTTTAGATTTAGTTAATTGCCTGTACTTAGGTACATTTAGTTGCATTTTAGGAT
35017708 ATTTCTTTAGTATTTTTC
131 ATTTCTTTAGTATTTTTC
*
35017726 CAAGCTTAGTCAATGTTTTTGCTTAGTTGGTGCACTCAGACTGCTGATAACTCTTGAAAAGAGTT
1 CAAGCTTAGTCAATGTTTTTACTTAGTTGGTGCACTCAGACTGCTGATAACTCTTGAAAAGAGTT
**
35017791 ATATTTCATGCTTTTAGATTTAGTTAATTGCCTGTACTTAGGTATGTTTAGTTGCATTTTAGGAT
66 ATATTTCATGCTTTTAGATTTAGTTAATTGCCTGTACTTAGGTACATTTAGTTGCATTTTAGGAT
35017856 ATTTCTTTAGTATTTTTC
131 ATTTCTTTAGTATTTTTC
35017874 TTGTTTTAGC
Statistics
Matches: 145, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
148 145 1.00
ACGTcount: A:0.24, C:0.13, G:0.18, T:0.45
Consensus pattern (148 bp):
CAAGCTTAGTCAATGTTTTTACTTAGTTGGTGCACTCAGACTGCTGATAACTCTTGAAAAGAGTT
ATATTTCATGCTTTTAGATTTAGTTAATTGCCTGTACTTAGGTACATTTAGTTGCATTTTAGGAT
ATTTCTTTAGTATTTTTC
Found at i:35026384 original size:24 final size:24
Alignment explanation
Indices: 35026339--35026384 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
35026329 ATCGTTACTT
* * **
35026339 AGCTTGTATGAGCTTATTGATTAC
1 AGCTTGTAAGAGCATACCGATTAC
35026363 AGCTTGTAAGAGCATACCGATT
1 AGCTTGTAAGAGCATACCGATT
35026385 CATAGCTCGT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (24 bp):
AGCTTGTAAGAGCATACCGATTAC
Found at i:35034506 original size:16 final size:16
Alignment explanation
Indices: 35034485--35034515 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
35034475 TTCCCTATTA
*
35034485 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
35034501 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
35034516 GCATACATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:35037201 original size:13 final size:13
Alignment explanation
Indices: 35037183--35037207 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35037173 ACATAATCTC
35037183 ATGGCCTGCCACT
1 ATGGCCTGCCACT
35037196 ATGGCCTGCCAC
1 ATGGCCTGCCAC
35037208 CAGTGATAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.40, G:0.24, T:0.20
Consensus pattern (13 bp):
ATGGCCTGCCACT
Found at i:35037809 original size:24 final size:25
Alignment explanation
Indices: 35037744--35037809 Score: 64
Period size: 24 Copynumber: 2.7 Consensus size: 25
35037734 TAGTTTGTCT
* * *
35037744 CAATCTAAAGTTTTTATCATTTTAA
1 CAATCTATAGTTTCTATCAGTTTAA
* *
35037769 CAATC-ATAGTCTCCTAT-AGTTTCA
1 CAATCTATAGT-TTCTATCAGTTTAA
35037793 CAATCTATAGTTTCTAT
1 CAATCTATAGTTTCTAT
35037810 TTCTTTCACA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
24 19 0.58
25 14 0.42
ACGTcount: A:0.32, C:0.18, G:0.06, T:0.44
Consensus pattern (25 bp):
CAATCTATAGTTTCTATCAGTTTAA
Found at i:35043152 original size:29 final size:28
Alignment explanation
Indices: 35043120--35043181 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 28
35043110 AAAAAGCCCT
35043120 TTTTTTCAAAATTTACCGAAATGGGCCGA
1 TTTTTTCAAAATTTACCGAAATGGGCC-A
* ** * *
35043149 TTTTTTGATTATTTACCGGAATGGTCCA
1 TTTTTTCAAAATTTACCGAAATGGGCCA
35043177 TTTTT
1 TTTTT
35043182 CGGGAAATCG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 6 0.21
29 22 0.79
ACGTcount: A:0.24, C:0.15, G:0.16, T:0.45
Consensus pattern (28 bp):
TTTTTTCAAAATTTACCGAAATGGGCCA
Found at i:35043813 original size:125 final size:126
Alignment explanation
Indices: 35043360--35043824 Score: 788
Period size: 126 Copynumber: 3.7 Consensus size: 126
35043350 CGTCTCTGGT
* * * *
35043360 CAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAATTTATGAAATCGCACCCTCG
1 CAAATAGTATAAAATCGTTTCTACGAGGATGCTATTTGAGAAGAAATTGTGAAATCGCACCCTCG
35043425 TGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTTCTGATTTTTCTGAG
66 TGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTTCTGATTTTTCTGAG
* * *
35043486 CAAATAGTATAAAATCGTTTCTATGAGGATGCTATTTGAGAATAAATTGTGAAATCGCGCCCTCG
1 CAAATAGTATAAAATCGTTTCTACGAGGATGCTATTTGAGAAGAAATTGTGAAATCGCACCCTCG
35043551 TGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTTCTGATTTTTCTGAG
66 TGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTTCTGATTTTTCTGAG
* * *
35043612 CAAATAGTATAAAATCGTTTCTATGAGGATGCTATTTGAGAATAAATTGTGAAATCGCGCCCTCG
1 CAAATAGTATAAAATCGTTTCTACGAGGATGCTATTTGAGAAGAAATTGTGAAATCGCACCCTCG
* *
35043677 TGGACGCGATTTTGCTACAGTAGGGCATGTAAGAAATAA-TTTTTTTCTGATGTTTCTGAG
66 TGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTTCTGATTTTTCTGAG
* *
35043737 CAAATAGTATAAAATCATTTCTACGAGGATGCTATTTGAGAAGAAATTGTGAAATCGCACCTTCG
1 CAAATAGTATAAAATCGTTTCTACGAGGATGCTATTTGAGAAGAAATTGTGAAATCGCACCCTCG
*
35043802 TGGATGCGATTTTGCTACAGTAG
66 TGGACGCGATTTTGCTACAGTAG
35043825 CAAGTTTGGG
Statistics
Matches: 324, Mismatches: 15, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
125 102 0.31
126 222 0.69
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.34
Consensus pattern (126 bp):
CAAATAGTATAAAATCGTTTCTACGAGGATGCTATTTGAGAAGAAATTGTGAAATCGCACCCTCG
TGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTTCTGATTTTTCTGAG
Found at i:35046920 original size:10 final size:10
Alignment explanation
Indices: 35046905--35046929 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
35046895 CAGACCTAAC
35046905 ATTATGTAAA
1 ATTATGTAAA
35046915 ATTATGTAAA
1 ATTATGTAAA
35046925 ATTAT
1 ATTAT
35046930 TAAGCCAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (10 bp):
ATTATGTAAA
Found at i:35047054 original size:56 final size:57
Alignment explanation
Indices: 35046912--35047055 Score: 143
Period size: 56 Copynumber: 2.5 Consensus size: 57
35046902 AACATTATGT
*** * *
35046912 AAAATTATGTAAAATTATTAAGCCAAAATTTTTTTCTTAATGGTTAGTAAAATTTATC
1 AAAA-TATGTAAAATTATTAAGCCAAAAAAATTGTCTTAATGGTTAGTAAAATGTATC
* * * * *
35046970 -AAATAATCTCAAATTATTAAGTCC--AAAAATTGTGTTAATGGTTATTAAAGTGT-TC
1 AAAAT-ATGTAAAATTATTAAG-CCAAAAAAATTGTCTTAATGGTTAGTAAAATGTATC
35047025 AAAATATGTAAAATTATTAAGCCAAAAAAAT
1 AAAATATGTAAAATTATTAAGCCAAAAAAAT
35047056 ATGTAAAATT
Statistics
Matches: 69, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
54 2 0.03
55 16 0.23
56 32 0.46
57 17 0.25
58 2 0.03
ACGTcount: A:0.45, C:0.08, G:0.10, T:0.38
Consensus pattern (57 bp):
AAAATATGTAAAATTATTAAGCCAAAAAAATTGTCTTAATGGTTAGTAAAATGTATC
Found at i:35047058 original size:26 final size:26
Alignment explanation
Indices: 35047025--35047081 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
35047015 TAAAGTGTTC
35047025 AAAATATGTAAAATTATTAAGCCAAA
1 AAAATATGTAAAATTATTAAGCCAAA
35047051 AAAATATGTAAAATTATTAAGCCAAA
1 AAAATATGTAAAATTATTAAGCCAAA
35047077 AAAAT
1 AAAAT
35047082 TTAGGTTAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.60, C:0.07, G:0.07, T:0.26
Consensus pattern (26 bp):
AAAATATGTAAAATTATTAAGCCAAA
Found at i:35047132 original size:29 final size:29
Alignment explanation
Indices: 35047079--35048967 Score: 2410
Period size: 29 Copynumber: 66.7 Consensus size: 29
35047069 AAGCCAAAAA
35047079 AATTTAGGTTA-GTTTAGGGTTTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
*
35047107 AATTTAGGTTAGGTTTAGGGTTTTTAGTT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
*
35047136 AATTTAGGTTAGGTTTAGGGTTTTTAGTT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
*
35047165 AATTTAGGTTA-GATTAGGGTTTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
**
35047193 AATTTAGGTTAGGTTTAGGGTTTTTTGTT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
*
35047222 AATTTAGGTTAGGTTTAGGGTTTTTAGTT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
*
35047251 AATTTAGGTTA-GATTAGGGTTTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
* *
35047279 CATTTAGGTAAGGTTTAGGGTTTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
*
35047308 AATTTAGGTTA-GATTAGGGTTTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
* *
35047336 AATTTAGGTTAAGTTTAGGG-TTTTAGTT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
*
35047364 AATTTAGGTTAGGTTTAGGGTTTTTAGTT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
* *
35047393 AATTTAGGTTA-GATTAGGGTTTTTAGTT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
**
35047421 AATTTAGGTTAGGTTTAGGGTTTTTTGTT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
* *
35047450 AATTTAGGTTAGCTTTAGGGTTTTTAGTT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
*
35047479 AATTTAGGTTAGATTT-GGGTTTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
* *
35047507 AATTAAGGTTAAGTTTAGGGTTTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
* * *
35047536 AATTTAGGCTA-GATTAGGGGTTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
*
35047564 AATTTAGGTTAGGTTTAGGGTTTTTAGTT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
* *
35047593 AATTTA----ACGATTAGGGTTTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
* * *
35047618 AATTTAGGTTA-GATTAAGGTTTTTAGTT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
35047646 AATTTAGGTTAGGTTTAGGGTTTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
* *
35047675 AATTTAGGTTA-GATTAGGGATTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
*
35047703 AATTTAGGTTAGGTTTAGGGTTTTTAGTT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
* *
35047732 AATTTAGCTTA-GATTAGGGTTTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
* *
35047760 AATTTAGGTTA-GATTAGAGTTTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
*
35047788 AATTTAGGTTAGGTTTAGGGTTTTTAGTT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
* *
35047817 AATTTAAGTTA-GATTAGGGTTTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
*
35047845 AATTTAGGTTAGGTTTAGGGTTTTT-TTGT
1 AATTTAGGTTAGGTTTAGGGTTTTTAAT-T
*
35047874 CAATTTAGGTTAGGTTTAGGGTTTTTAGTT
1 -AATTTAGGTTAGGTTTAGGGTTTTTAATT
*
35047904 AATTTAGGTTAGGTTTAGGGTTTTTAGTT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
* * **
35047933 AATTTAGGCTAGGTTTAAGGTTTTTTGTT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
*
35047962 AATTTAGGTTAGGTTTAGGGTTTTTAGTT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
*
35047991 AATTTAGGTTA-GATTAGGGTTTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
*
35048019 AATTTAGGTTAGGTTTAGGATTTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
* *
35048048 AGTTTAGGTTAGGTTTAGGGTTTTTAGTT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
*
35048077 AATTTAGGTTA-GATTAGGGTTTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
*
35048105 AATTTAGGTTAGGTTTAGGATTTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
* *
35048134 AGTTTAGGTTAGGTTTAGGGTTTTTAGTT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
*
35048163 AATTTAGGTTAGGTTTAGGGTTTTTAGTT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
* *
35048192 AATTTAAGTTA-GATTAGGGTTTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
* *
35048220 AATTTAGGTTA-GATTAGGGGTTTTTAGTT
1 AATTTAGGTTAGGTTTA-GGGTTTTTAATT
35048249 AATTTAGGTTAGGTTTAGGGTTTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
* **
35048278 AATTTAGGTTAGGTTTAGGGGTTTTAGCT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
* *
35048307 AATTTAGGTGA-GATTAGGGTTTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
* * *
35048335 AATTTAGATTA-GATTAGGGTTTTTAGTT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
35048363 AATTTAGGTTAGGTTTAGGGTTTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
*
35048392 AATTTAGGTTA-GATTAGGGTTTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
*
35048420 AATTTAGGTTAGGTTTAGGGTTTTTACTT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
35048449 AATTTAGGTTAGGTTTAGGGTTTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
*
35048478 AATTTAGGTTA-GATTAGGGTTTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
35048506 AATTTAGGGTT---TTTA--G---TTAATTT
1 AATTTA-GGTTAGGTTTAGGGTTTTTAA-TT
** * *
35048529 AGGTTAGATTAGGGTTT----TTAATTAATTT
1 AATTTAGGTTA-GGTTTAGGGTT-TTTAA-TT
** * *
35048557 AGGTTAGATTAGGGTTT---T----TAATT
1 AATTTAGGTTA-GGTTTAGGGTTTTTAATT
* *
35048580 AATTTAGGTTA-GCTTAGGGTTTTTAGTT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
35048608 AATTTAGGTTAGGTTTAGGGTTTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
* *
35048637 AATTTAGGTTA-GATTAGGGTTTGTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
**
35048665 AATTTAGGTTAGGTTTAGGGTTTTTTGTT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
* *
35048694 AATTTAGGTTAGGTTTAGGGGTTTTAGTT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
*
35048723 AATTTAGGTTA-GATTAGGGTTTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
** *
35048751 AATTTAGGTTA-AATTAGGGTTTTTAGTT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
**
35048779 AATTTAGGTTAGGTTTAATGTTTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
35048808 AATTTAGGTTA--TATTAGGGTTTTTAATT
1 AATTTAGGTTAGGT-TTAGGGTTTTTAATT
*
35048836 AATTTAGGTTAGGTTTAGGG-TTTTAGTT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
*
35048864 AATTTAGGTTA-GATTAGGGTTTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
*
35048892 AATTTAGGTTA-GATTAGGGTTTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
*
35048920 AATTTAGGTTAGGGTTAGGGTTTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATT
*
35048949 AATTTAGGTTAGGGTTAGG
1 AATTTAGGTTAGGTTTAGG
35048968 TTAGGGTTTT
Statistics
Matches: 1662, Mismatches: 148, Indels: 101
0.87 0.08 0.05
Matches are distributed among these distances:
21 3 0.00
22 7 0.00
23 16 0.01
24 3 0.00
25 23 0.01
26 3 0.00
27 11 0.01
28 703 0.42
29 861 0.52
30 31 0.02
31 1 0.00
ACGTcount: A:0.25, C:0.01, G:0.24, T:0.51
Consensus pattern (29 bp):
AATTTAGGTTAGGTTTAGGGTTTTTAATT
Found at i:35047183 original size:57 final size:57
Alignment explanation
Indices: 35047079--35048967 Score: 2521
Period size: 57 Copynumber: 33.3 Consensus size: 57
35047069 AAGCCAAAAA
*
35047079 AATTTAGGTTA-GTTTAGGGTTTTTAATTAATTTAGGTTAGGTTTAGGGTTTTTAGTT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTA-GTTTAGGGTTTTTAATT
* *
35047136 AATTTAGGTTAGGTTTAGGGTTTTTAGTTAATTTAGGTTAGATTAGGGTTTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGTTTAGGGTTTTTAATT
** *
35047193 AATTTAGGTTAGGTTTAGGGTTTTTTGTTAATTTAGGTTAGGTTTAGGGTTTTTAGTT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTA-GTTTAGGGTTTTTAATT
* * *
35047251 AATTTAGGTTA-GATTAGGGTTTTTAATTCATTTAGGTAAGGTTTAGGGTTTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTA-GTTTAGGGTTTTTAATT
* *
35047308 AATTTAGGTTA-GATTAGGGTTTTTAATTAATTTAGGTTAAGTTTAGGG-TTTTAGTT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTT-AGTTTAGGGTTTTTAATT
* * *
35047364 AATTTAGGTTAGGTTTAGGGTTTTTAGTTAATTTAGGTTAGATTAGGGTTTTTAGTT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGTTTAGGGTTTTTAATT
** *
35047421 AATTTAGGTTAGGTTTAGGGTTTTTTGTTAATTTAGGTTAGCTTTAGGGTTTTTAGTT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAG-TTTAGGGTTTTTAATT
* *
35047479 AATTTAGGTTAGATTT-GGGTTTTTAATTAATTAAGGTTAAGTTTAGGGTTTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTT-AGTTTAGGGTTTTTAATT
* * * *
35047536 AATTTAGGCTA-GATTAGGGGTTTTAATTAATTTAGGTTAGGTTTAGGGTTTTTAGTT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTA-GTTTAGGGTTTTTAATT
* * * * *
35047593 AATTTA----ACGATTAGGGTTTTTAATTAATTTAGGTTAGATTAAGGTTTTTAGTT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGTTTAGGGTTTTTAATT
* *
35047646 AATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGATTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGTTTAGGGTTTTTAATT
* * *
35047703 AATTTAGGTTAGGTTTAGGGTTTTTAGTTAATTTAGCTTAGATTAGGGTTTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGTTTAGGGTTTTTAATT
* * *
35047760 AATTTAGGTTA-GATTAGAGTTTTTAATTAATTTAGGTTAGGTTTAGGGTTTTTAGTT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTA-GTTTAGGGTTTTTAATT
* * *
35047817 AATTTAAGTTA-GATTAGGGTTTTTAATTAATTTAGGTTAGGTTTAGGGTTTTT-TTGT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTA-GTTTAGGGTTTTTAAT-T
* *
35047874 CAATTTAGGTTAGGTTTAGGGTTTTTAGTTAATTTAGGTTAGGTTTAGGGTTTTTAGTT
1 -AATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTA-GTTTAGGGTTTTTAATT
* * ** *
35047933 AATTTAGGCTAGGTTTAAGGTTTTTTGTTAATTTAGGTTAGGTTTAGGGTTTTTAGTT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTA-GTTTAGGGTTTTTAATT
* *
35047991 AATTTAGGTTA-GATTAGGGTTTTTAATTAATTTAGGTTAGGTTTAGGATTTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTA-GTTTAGGGTTTTTAATT
* * *
35048048 AGTTTAGGTTAGGTTTAGGGTTTTTAGTTAATTTAGGTTAGATTAGGGTTTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGTTTAGGGTTTTTAATT
* * *
35048105 AATTTAGGTTAGGTTTAGGATTTTTAATTAGTTTAGGTTAGGTTTAGGGTTTTTAGTT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTA-GTTTAGGGTTTTTAATT
* * *
35048163 AATTTAGGTTAGGTTTAGGGTTTTTAGTTAATTTAAGTTAGATTAGGGTTTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGTTTAGGGTTTTTAATT
* *
35048220 AATTTAGGTTA-GATTAGGGGTTTTTAGTTAATTTAGGTTAGGTTTAGGGTTTTTAATT
1 AATTTAGGTTAGGTTTA-GGGTTTTTAATTAATTTAGGTTA-GTTTAGGGTTTTTAATT
* ** * *
35048278 AATTTAGGTTAGGTTTAGGGGTTTTAGCTAATTTAGGTGAGATTAGGGTTTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGTTTAGGGTTTTTAATT
* * *
35048335 AATTTAGATTA-GATTAGGGTTTTTAGTTAATTTAGGTTAGGTTTAGGGTTTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTA-GTTTAGGGTTTTTAATT
* *
35048392 AATTTAGGTTA-GATTAGGGTTTTTAATTAATTTAGGTTAGGTTTAGGGTTTTTACTT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTA-GTTTAGGGTTTTTAATT
*
35048449 AATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGATTAGGG--TTT--TT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGTTTAGGGTTTTTAATT
* *
35048502 AA-TTA----A--TTTAGGGTTTTTAGTTAATTTAGGTTAGATTAGGGTTTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGTTTAGGGTTTTTAATT
* * *
35048552 AATTTAGGTTA-GATTAGGGTTTTTAATTAATTTAGGTTAGCTTAGGGTTTTTAGTT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGTTTAGGGTTTTTAATT
* *
35048608 AATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTGTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGTTTAGGGTTTTTAATT
** * *
35048665 AATTTAGGTTAGGTTTAGGGTTTTTTGTTAATTTAGGTTAGGTTTAGGGGTTTTAGTT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTA-GTTTAGGGTTTTTAATT
* ** *
35048723 AATTTAGGTTA-GATTAGGGTTTTTAATTAATTTAGGTTAAATTAGGGTTTTTAGTT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGTTTAGGGTTTTTAATT
**
35048779 AATTTAGGTTAGGTTTAATGTTTTTAATTAATTTAGGTTA-TATTAGGGTTTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGT-TTAGGGTTTTTAATT
* *
35048836 AATTTAGGTTAGGTTTAGGG-TTTTAGTTAATTTAGGTTAGATTAGGGTTTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGTTTAGGGTTTTTAATT
* *
35048892 AATTTAGGTTA-GATTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTA-GTTTAGGGTTTTTAATT
*
35048949 AATTTAGGTTAGGGTTAGG
1 AATTTAGGTTAGGTTTAGG
35048968 TTAGGGTTTT
Statistics
Matches: 1653, Mismatches: 135, Indels: 87
0.88 0.07 0.05
Matches are distributed among these distances:
46 34 0.02
48 4 0.00
50 4 0.00
51 3 0.00
52 3 0.00
53 26 0.02
54 27 0.02
55 11 0.01
56 220 0.13
57 933 0.56
58 342 0.21
59 45 0.03
60 1 0.00
ACGTcount: A:0.25, C:0.01, G:0.24, T:0.51
Consensus pattern (57 bp):
AATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGTTTAGGGTTTTTAATT
Found at i:35047499 original size:11 final size:10
Alignment explanation
Indices: 35047079--35048930 Score: 134
Period size: 9 Copynumber: 195.1 Consensus size: 10
35047069 AAGCCAAAAA
35047079 AATTTAGGTT
1 AATTTAGGTT
*
35047089 AGTTTAGGGTT
1 AATTTA-GGTT
*
35047100 --TTTA-ATT
1 AATTTAGGTT
35047107 AATTTAGGTT
1 AATTTAGGTT
*
35047117 AGGTTTAGGGTT
1 A-ATTTA-GGTT
35047129 --TTTA-GTT
1 AATTTAGGTT
35047136 AATTTAGGTT
1 AATTTAGGTT
*
35047146 AGGTTTAGGGTT
1 A-ATTTA-GGTT
35047158 --TTTA-GTT
1 AATTTAGGTT
35047165 AATTTAGGTT
1 AATTTAGGTT
35047175 AGA-TTAGGGTT
1 A-ATTTA-GGTT
*
35047186 --TTTA-ATT
1 AATTTAGGTT
35047193 AATTTAGGTT
1 AATTTAGGTT
*
35047203 AGGTTTAGGGTT
1 A-ATTTA-GGTT
*
35047215 --TTT-TGTT
1 AATTTAGGTT
35047222 AATTTAGGTT
1 AATTTAGGTT
*
35047232 AGGTTTAGGGTT
1 A-ATTTA-GGTT
35047244 --TTTA-GTT
1 AATTTAGGTT
35047251 AATTTAGGTT
1 AATTTAGGTT
35047261 AGA-TTAGGGTT
1 A-ATTTA-GGTT
*
35047272 --TTTA-ATT
1 AATTTAGGTT
*
35047279 CATTTAGG-T
1 AATTTAGGTT
35047288 AAGGTTTAGGGTT
1 AA--TTTA-GGTT
*
35047301 --TTTA-ATT
1 AATTTAGGTT
35047308 AATTTAGGTT
1 AATTTAGGTT
35047318 AGA-TTAGGGTT
1 A-ATTTA-GGTT
*
35047329 --TTTA-ATT
1 AATTTAGGTT
35047336 AATTTAGGTT
1 AATTTAGGTT
*
35047346 AAGTTTAGGGT
1 AA-TTTAGGTT
35047357 --TTTA-GTT
1 AATTTAGGTT
35047364 AATTTAGGTT
1 AATTTAGGTT
*
35047374 AGGTTTAGGGTT
1 A-ATTTA-GGTT
35047386 --TTTA-GTT
1 AATTTAGGTT
35047393 AATTTAGGTT
1 AATTTAGGTT
35047403 AGA-TTAGGGTT
1 A-ATTTA-GGTT
35047414 --TTTA-GTT
1 AATTTAGGTT
35047421 AATTTAGGTT
1 AATTTAGGTT
*
35047431 AGGTTTAGGGTT
1 A-ATTTA-GGTT
*
35047443 --TTT-TGTT
1 AATTTAGGTT
35047450 AATTTAGGTT
1 AATTTAGGTT
*
35047460 AGCTTTAGGGTT
1 A-ATTTA-GGTT
35047472 --TTTA-GTT
1 AATTTAGGTT
35047479 AATTTAGGTT
1 AATTTAGGTT
*
35047489 AGATTTGGGTT
1 A-ATTTAGGTT
*
35047500 --TTTA-ATT
1 AATTTAGGTT
*
35047507 AATTAAGGTT
1 AATTTAGGTT
35047517 AAGTTTAGGGTT
1 AA-TTTA-GGTT
*
35047529 --TTTA-ATT
1 AATTTAGGTT
*
35047536 AATTTAGGCT
1 AATTTAGGTT
*
35047546 AGA-TTAGGGGT
1 A-ATTTA-GGTT
*
35047557 --TTTA-ATT
1 AATTTAGGTT
35047564 AATTTAGGTT
1 AATTTAGGTT
*
35047574 AGGTTTAGGGTT
1 A-ATTTA-GGTT
35047586 --TTTA-GTT
1 AATTTAGGTT
*
35047593 AATTTAACG--
1 AATTT-AGGTT
35047602 -A-TTAGGGTT
1 AATTTA-GGTT
*
35047611 --TTTA-ATT
1 AATTTAGGTT
35047618 AATTTAGGTT
1 AATTTAGGTT
*
35047628 AGATTAAGGTT
1 A-ATTTAGGTT
35047639 --TTTA-GTT
1 AATTTAGGTT
35047646 AATTTAGGTT
1 AATTTAGGTT
*
35047656 AGGTTTAGGGTT
1 A-ATTTA-GGTT
*
35047668 --TTTA-ATT
1 AATTTAGGTT
35047675 AATTTAGGTT
1 AATTTAGGTT
*
35047685 AGA-TTAGG-G
1 A-ATTTAGGTT
* *
35047694 ATTTTA-ATT
1 AATTTAGGTT
35047703 AATTTAGGTT
1 AATTTAGGTT
*
35047713 AGGTTTAGGGTT
1 A-ATTTA-GGTT
35047725 --TTTA-GTT
1 AATTTAGGTT
*
35047732 AATTTAGCTT
1 AATTTAGGTT
35047742 AGA-TTAGGGTT
1 A-ATTTA-GGTT
*
35047753 --TTTA-ATT
1 AATTTAGGTT
35047760 AATTTAGGTT
1 AATTTAGGTT
35047770 AGA-TTAGAGTT
1 A-ATTTAG-GTT
*
35047781 --TTTA-ATT
1 AATTTAGGTT
35047788 AATTTAGGTT
1 AATTTAGGTT
*
35047798 AGGTTTAGGGTT
1 A-ATTTA-GGTT
35047810 --TTTA-GTT
1 AATTTAGGTT
*
35047817 AATTTAAGTT
1 AATTTAGGTT
35047827 AGA-TTAGGGTT
1 A-ATTTA-GGTT
*
35047838 --TTTA-ATT
1 AATTTAGGTT
35047845 AATTTAGGTT
1 AATTTAGGTT
*
35047855 AGGTTTAGGGTT
1 A-ATTTA-GGTT
** *
35047867 --TTTTTGTC
1 AATTTAGGTT
35047875 AATTTAGGTT
1 AATTTAGGTT
*
35047885 AGGTTTAGGGTT
1 A-ATTTA-GGTT
35047897 --TTTA-GTT
1 AATTTAGGTT
35047904 AATTTAGGTT
1 AATTTAGGTT
*
35047914 AGGTTTAGGGTT
1 A-ATTTA-GGTT
35047926 --TTTA-GTT
1 AATTTAGGTT
*
35047933 AATTTAGGCT
1 AATTTAGGTT
*
35047943 AGGTTTAAGGTT
1 A-ATTT-AGGTT
*
35047955 --TTT-TGTT
1 AATTTAGGTT
35047962 AATTTAGGTT
1 AATTTAGGTT
*
35047972 AGGTTTAGGGTT
1 A-ATTTA-GGTT
35047984 --TTTA-GTT
1 AATTTAGGTT
35047991 AATTTAGGTT
1 AATTTAGGTT
35048001 AGA-TTAGGGTT
1 A-ATTTA-GGTT
*
35048012 --TTTA-ATT
1 AATTTAGGTT
35048019 AATTTAGGTT
1 AATTTAGGTT
*
35048029 AGGTTTAGGATT
1 A-ATTTAGG-TT
*
35048041 --TTTA-ATT
1 AATTTAGGTT
*
35048048 AGTTTAGGTT
1 AATTTAGGTT
*
35048058 AGGTTTAGGGTT
1 A-ATTTA-GGTT
35048070 --TTTA-GTT
1 AATTTAGGTT
35048077 AATTTAGGTT
1 AATTTAGGTT
35048087 AGA-TTAGGGTT
1 A-ATTTA-GGTT
*
35048098 --TTTA-ATT
1 AATTTAGGTT
35048105 AATTTAGGTT
1 AATTTAGGTT
*
35048115 AGGTTTAGGATT
1 A-ATTTAGG-TT
*
35048127 --TTTA-ATT
1 AATTTAGGTT
*
35048134 AGTTTAGGTT
1 AATTTAGGTT
*
35048144 AGGTTTAGGGTT
1 A-ATTTA-GGTT
35048156 --TTTA-GTT
1 AATTTAGGTT
35048163 AATTTAGGTT
1 AATTTAGGTT
*
35048173 AGGTTTAGGGTT
1 A-ATTTA-GGTT
35048185 --TTTA-GTT
1 AATTTAGGTT
*
35048192 AATTTAAGTT
1 AATTTAGGTT
35048202 AGA-TTAGGGTT
1 A-ATTTA-GGTT
*
35048213 --TTTA-ATT
1 AATTTAGGTT
35048220 AATTTAGGTT
1 AATTTAGGTT
35048230 AGA-TTAGGGGTT
1 A-ATTTA--GGTT
35048242 --TTTA-GTT
1 AATTTAGGTT
35048249 AATTTAGGTT
1 AATTTAGGTT
*
35048259 AGGTTTAGGGTT
1 A-ATTTA-GGTT
*
35048271 --TTTA-ATT
1 AATTTAGGTT
35048278 AATTTAGGTT
1 AATTTAGGTT
* *
35048288 AGGTTTAGGGGT
1 A-ATTTA-GGTT
*
35048300 --TTTA-GCT
1 AATTTAGGTT
*
35048307 AATTTAGGTG
1 AATTTAGGTT
35048317 AGA-TTAGGGTT
1 A-ATTTA-GGTT
*
35048328 --TTTA-ATT
1 AATTTAGGTT
*
35048335 AATTTAGATT
1 AATTTAGGTT
35048345 AGA-TTAGGGTT
1 A-ATTTA-GGTT
35048356 --TTTA-GTT
1 AATTTAGGTT
35048363 AATTTAGGTT
1 AATTTAGGTT
*
35048373 AGGTTTAGGGTT
1 A-ATTTA-GGTT
*
35048385 --TTTA-ATT
1 AATTTAGGTT
35048392 AATTTAGGTT
1 AATTTAGGTT
35048402 AGA-TTAGGGTT
1 A-ATTTA-GGTT
*
35048413 --TTTA-ATT
1 AATTTAGGTT
35048420 AATTTAGGTT
1 AATTTAGGTT
*
35048430 AGGTTTAGGGTT
1 A-ATTTA-GGTT
*
35048442 --TTTA-CTT
1 AATTTAGGTT
35048449 AATTTAGGTT
1 AATTTAGGTT
*
35048459 AGGTTTAGGGTT
1 A-ATTTA-GGTT
*
35048471 --TTTA-ATT
1 AATTTAGGTT
35048478 AATTTAGGTT
1 AATTTAGGTT
35048488 AGA-TTAGGGTT
1 A-ATTTA-GGTT
*
35048499 --TTTA-ATT
1 AATTTAGGTT
35048506 AATTTAGGGTT
1 AATTTA-GGTT
35048517 --TTTA-GTT
1 AATTTAGGTT
35048524 AATTTAGGTT
1 AATTTAGGTT
35048534 AGA-TTAGGGTT
1 A-ATTTA-GGTT
*
35048545 --TTTA-ATT
1 AATTTAGGTT
35048552 AATTTAGGTT
1 AATTTAGGTT
35048562 AGA-TTAGGGTT
1 A-ATTTA-GGTT
*
35048573 --TTTA-ATT
1 AATTTAGGTT
35048580 AATTTAGGTT
1 AATTTAGGTT
**
35048590 AGCTTAGGGTT
1 AATTTA-GGTT
35048601 --TTTA-GTT
1 AATTTAGGTT
35048608 AATTTAGGTT
1 AATTTAGGTT
*
35048618 AGGTTTAGGGTT
1 A-ATTTA-GGTT
*
35048630 --TTTA-ATT
1 AATTTAGGTT
35048637 AATTTAGGTT
1 AATTTAGGTT
35048647 AGA-TTAGGGTT
1 A-ATTTA-GGTT
* *
35048658 --TGTA-ATT
1 AATTTAGGTT
35048665 AATTTAGGTT
1 AATTTAGGTT
*
35048675 AGGTTTAGGGTT
1 A-ATTTA-GGTT
*
35048687 --TTT-TGTT
1 AATTTAGGTT
35048694 AATTTAGGTT
1 AATTTAGGTT
* *
35048704 AGGTTTAGGGGT
1 A-ATTTA-GGTT
35048716 --TTTA-GTT
1 AATTTAGGTT
35048723 AATTTAGGTT
1 AATTTAGGTT
35048733 AGA-TTAGGGTT
1 A-ATTTA-GGTT
*
35048744 --TTTA-ATT
1 AATTTAGGTT
35048751 AATTTAGGTT
1 AATTTAGGTT
*
35048761 AAATTAGGGTT
1 AATTTA-GGTT
35048772 --TTTA-GTT
1 AATTTAGGTT
35048779 AATTTAGGTT
1 AATTTAGGTT
* *
35048789 AGGTTTAATGTT
1 A-ATTT-AGGTT
*
35048801 --TTTA-ATT
1 AATTTAGGTT
35048808 AATTTAGGTT
1 AATTTAGGTT
35048818 -ATATTAGGGTT
1 AAT-TTA-GGTT
*
35048829 --TTTA-ATT
1 AATTTAGGTT
35048836 AATTTAGGTT
1 AATTTAGGTT
* *
35048846 AGGTTTAGGGT
1 A-ATTTAGGTT
35048857 --TTTA-GTT
1 AATTTAGGTT
35048864 AATTTAGGTT
1 AATTTAGGTT
35048874 AGA-TTAGGGTT
1 A-ATTTA-GGTT
*
35048885 --TTTA-ATT
1 AATTTAGGTT
35048892 AATTTAGGTT
1 AATTTAGGTT
35048902 AGA-TTAGGGTT
1 A-ATTTA-GGTT
*
35048913 --TTTA-ATT
1 AATTTAGGTT
35048920 AATTTAGGTT
1 AATTTAGGTT
35048930 A
1 A
35048931 GGGTTAGGGT
Statistics
Matches: 1345, Mismatches: 154, Indels: 686
0.62 0.07 0.31
Matches are distributed among these distances:
6 1 0.00
7 153 0.11
8 18 0.01
9 462 0.34
10 306 0.23
11 280 0.21
12 124 0.09
13 1 0.00
ACGTcount: A:0.25, C:0.01, G:0.24, T:0.51
Consensus pattern (10 bp):
AATTTAGGTT
Found at i:35049069 original size:26 final size:25
Alignment explanation
Indices: 35049038--35049086 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
35049028 CTTAAAAAAT
35049038 TTCTATGCGTATTACATCAAATAAAC
1 TTCTAT-CGTATTACATCAAATAAAC
**
35049064 TTCTATTTTATTACATCAAATAA
1 TTCTATCGTATTACATCAAATAA
35049087 TAAATTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.39, C:0.16, G:0.04, T:0.41
Consensus pattern (25 bp):
TTCTATCGTATTACATCAAATAAAC
Found at i:35049219 original size:21 final size:21
Alignment explanation
Indices: 35049195--35049255 Score: 59
Period size: 24 Copynumber: 2.8 Consensus size: 21
35049185 CCGGCGGCGG
35049195 TTGTGCTTCCTCCGGTGGTGA
1 TTGTGCTTCCTCCGGTGGTGA
* *
35049216 TTGTGGTTCTTCCTCTGGTGGTGG
1 TTGT-G--CTTCCTCCGGTGGTGA
* *
35049240 TTGTGGTTCTTCCGGT
1 TTGTGCTTCCTCCGGT
35049256 TCGGCATCTG
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
21 12 0.38
22 1 0.03
23 1 0.03
24 18 0.56
ACGTcount: A:0.02, C:0.20, G:0.34, T:0.44
Consensus pattern (21 bp):
TTGTGCTTCCTCCGGTGGTGA
Found at i:35049230 original size:24 final size:24
Alignment explanation
Indices: 35049200--35049252 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
35049190 GGCGGTTGTG
35049200 CTTCCTCCGGTGGTGATTGTGGTT
1 CTTCCTCCGGTGGTGATTGTGGTT
* *
35049224 CTTCCTCTGGTGGTGGTTGTGGTT
1 CTTCCTCCGGTGGTGATTGTGGTT
35049248 CTTCC
1 CTTCC
35049253 GGTTCGGCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.02, C:0.23, G:0.32, T:0.43
Consensus pattern (24 bp):
CTTCCTCCGGTGGTGATTGTGGTT
Found at i:35049551 original size:18 final size:18
Alignment explanation
Indices: 35049507--35049552 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
35049497 TATTCGGAAA
* *
35049507 AGGATACATGTAAGGGTT
1 AGGATACATATAAGGGCT
*
35049525 AGGGTACATATAAGGGCT
1 AGGATACATATAAGGGCT
*
35049543 AGGAAACATA
1 AGGATACATA
35049553 CCTGGCATCA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.30, T:0.22
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:35050207 original size:7 final size:7
Alignment explanation
Indices: 35050197--35050228 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
35050187 TTATATACAT
35050197 AATACTA
1 AATACTA
35050204 AATACTA
1 AATACTA
35050211 AATACTA
1 AATACTA
35050218 AATACTA
1 AATACTA
35050225 AATA
1 AATA
35050229 TCAATCGACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:35051347 original size:29 final size:30
Alignment explanation
Indices: 35051305--35051365 Score: 99
Period size: 29 Copynumber: 2.1 Consensus size: 30
35051295 GCCATTGATG
35051305 AAAATATAAAAAAATTA-AAATTATTTTAAA
1 AAAATATAAAAAAATTATAAA-TATTTTAAA
35051335 AAAATAT-AAAAAATTATAAATATTTTAAA
1 AAAATATAAAAAAATTATAAATATTTTAAA
35051364 AA
1 AA
35051366 TGGATTTGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
29 20 0.67
30 10 0.33
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (30 bp):
AAAATATAAAAAAATTATAAATATTTTAAA
Found at i:35051403 original size:40 final size:40
Alignment explanation
Indices: 35051359--35051434 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
35051349 TATAAATATT
35051359 TTAAAAATGGATTTGAGAGAATTTTGGAAGGAAATTAAAA
1 TTAAAAATGGATTTGAGAGAATTTTGGAAGGAAATTAAAA
* *
35051399 TTAAATATGGGTTTGAGAGAATTTTGGAAGGAAATT
1 TTAAAAATGGATTTGAGAGAATTTTGGAAGGAAATT
35051435 GAGAGGATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (40 bp):
TTAAAAATGGATTTGAGAGAATTTTGGAAGGAAATTAAAA
Found at i:35052694 original size:26 final size:26
Alignment explanation
Indices: 35052658--35052707 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
35052648 CTACGCGAAG
35052658 GGGTCAAGGGG-AGAAGACCCTTGCGT
1 GGGTCAAGGGGCAG-AGACCCTTGCGT
*
35052684 GGGTCAAGGGGCAGAGACCTTTGC
1 GGGTCAAGGGGCAGAGACCCTTGC
35052708 AATGGTGACC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.22, C:0.20, G:0.42, T:0.16
Consensus pattern (26 bp):
GGGTCAAGGGGCAGAGACCCTTGCGT
Found at i:35053615 original size:17 final size:17
Alignment explanation
Indices: 35053585--35053629 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
35053575 TTGTGAATCG
* *
35053585 TGTCCGCCAAGCGATAT
1 TGTCCACCAAGCGATAC
*
35053602 TGTCCACCAGGCGATAC
1 TGTCCACCAAGCGATAC
*
35053619 TGTCCTCCAAG
1 TGTCCACCAAG
35053630 AAATATTGTC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.22, C:0.33, G:0.22, T:0.22
Consensus pattern (17 bp):
TGTCCACCAAGCGATAC
Found at i:35055343 original size:25 final size:25
Alignment explanation
Indices: 35055315--35055432 Score: 132
Period size: 25 Copynumber: 4.8 Consensus size: 25
35055305 CTCTCAAGCA
35055315 ATAAATCGGTATGCTCTCAGGAGCT
1 ATAAATCGGTATGCTCTCAGGAGCT
**
35055340 ATAAATCGAAATGCTCTCAGGAGCT
1 ATAAATCGGTATGCTCTCAGGAGCT
* * * *
35055365 ATAAATTGGTAAGCCCAT-ACGAGCT
1 ATAAATCGGTATGCTC-TCAGGAGCT
* *
35055390 ATGAATCGGTATGCTC-CATGAGCT
1 ATAAATCGGTATGCTCTCAGGAGCT
*
35055414 ATAAATCAGTATGCTCTCA
1 ATAAATCGGTATGCTCTCA
35055433 CGATCGGTGG
Statistics
Matches: 75, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
24 20 0.27
25 54 0.72
26 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.27
Consensus pattern (25 bp):
ATAAATCGGTATGCTCTCAGGAGCT
Found at i:35063076 original size:25 final size:25
Alignment explanation
Indices: 35063035--35063249 Score: 175
Period size: 25 Copynumber: 8.6 Consensus size: 25
35063025 TCCTCTACAC
* * *
35063035 GTATGCTCACACGAGCTGTGAATCG
1 GTATGCTCTCTCGAGCTGTAAATCG
* *
35063060 ATATGCTCTCTCAAGCTGTAAATCG
1 GTATGCTCTCTCGAGCTGTAAATCG
*
35063085 GTATGCTCT-TACAAGCTGTAAATCG
1 GTATGCTCTCT-CGAGCTGTAAATCG
* * *
35063110 GTAAGCTCATAT-GAGCTGTGAATCG
1 GTATGCTC-TCTCGAGCTGTAAATCG
** * *
35063135 ACATGCCCTCTCGAGTTGTAAATCG
1 GTATGCTCTCTCGAGCTGTAAATCG
35063160 GTATGCTCTCTCGAGCTGTAAATCG
1 GTATGCTCTCTCGAGCTGTAAATCG
* * * * * *
35063185 GTAAGCTCAT-ACGAGTTTTGAATTG
1 GTATGCTC-TCTCGAGCTGTAAATCG
* *
35063210 GTATGCTCTCACGAGCTATAAATCG
1 GTATGCTCTCTCGAGCTGTAAATCG
* *
35063235 ATATGCTCTCACGAG
1 GTATGCTCTCTCGAG
35063250 TGGTGGAGTG
Statistics
Matches: 152, Mismatches: 32, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
24 4 0.03
25 145 0.95
26 2 0.01
27 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (25 bp):
GTATGCTCTCTCGAGCTGTAAATCG
Found at i:35063089 original size:50 final size:50
Alignment explanation
Indices: 35063035--35063249 Score: 200
Period size: 50 Copynumber: 4.3 Consensus size: 50
35063025 TCCTCTACAC
* * * *
35063035 GTATGCTCACACGAGCTGTGAATCGATATGCTCTCTCAAGCTGTAAATCG
1 GTATGCTCTCACGAGCTGTAAATCGGTATGCTCTCTCGAGCTGTAAATCG
* * * * *
35063085 GTATGCTCTTACAAGCTGTAAATCGGTAAGCTCATAT-GAGCTGTGAATCG
1 GTATGCTCTCACGAGCTGTAAATCGGTATGCTC-TCTCGAGCTGTAAATCG
** * * *
35063135 ACATGCCCTCTCGAGTTGTAAATCGGTATGCTCTCTCGAGCTGTAAATCG
1 GTATGCTCTCACGAGCTGTAAATCGGTATGCTCTCTCGAGCTGTAAATCG
* * * * * * *
35063185 GTAAGCTCAT-ACGAGTTTTGAATTGGTATGCTCTCACGAGCTATAAATCG
1 GTATGCTC-TCACGAGCTGTAAATCGGTATGCTCTCTCGAGCTGTAAATCG
*
35063235 ATATGCTCTCACGAG
1 GTATGCTCTCACGAG
35063250 TGGTGGAGTG
Statistics
Matches: 130, Mismatches: 31, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
49 3 0.02
50 124 0.95
51 3 0.02
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (50 bp):
GTATGCTCTCACGAGCTGTAAATCGGTATGCTCTCTCGAGCTGTAAATCG
Found at i:35063207 original size:75 final size:75
Alignment explanation
Indices: 35063039--35063249 Score: 271
Period size: 75 Copynumber: 2.8 Consensus size: 75
35063029 CTACACGTAT
* * *
35063039 GCTCACACGAGCTGTGAATCGATATGCTCTCTCAAGCTGTAAATCGGTATGCTCT-TACAAGCTG
1 GCTCATACGAGCTGTGAATCGATATGCTCTCTCGAGCTGTAAATCGGTATGCTCTCT-CGAGCTG
35063103 TAAATCGGTAA
65 TAAATCGGTAA
* * * *
35063114 GCTCATATGAGCTGTGAATCGACATGCCCTCTCGAGTTGTAAATCGGTATGCTCTCTCGAGCTGT
1 GCTCATACGAGCTGTGAATCGATATGCTCTCTCGAGCTGTAAATCGGTATGCTCTCTCGAGCTGT
35063179 AAATCGGTAA
66 AAATCGGTAA
* * * * * * * *
35063189 GCTCATACGAGTTTTGAATTGGTATGCTCTCACGAGCTATAAATCGATATGCTCTCACGAG
1 GCTCATACGAGCTGTGAATCGATATGCTCTCTCGAGCTGTAAATCGGTATGCTCTCTCGAG
35063250 TGGTGGAGTG
Statistics
Matches: 116, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
75 115 0.99
76 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (75 bp):
GCTCATACGAGCTGTGAATCGATATGCTCTCTCGAGCTGTAAATCGGTATGCTCTCTCGAGCTGT
AAATCGGTAA
Found at i:35072998 original size:31 final size:31
Alignment explanation
Indices: 35072919--35072999 Score: 87
Period size: 31 Copynumber: 2.6 Consensus size: 31
35072909 ATTCAATGAT
* *
35072919 CAAAT-AAATTCGGCAATATATATCCTTATA
1 CAAATCAAATTCAGCAATGTATATCCTTATA
* *
35072949 CGAATCAAATT-TGACAATGTATAT-CTATATA
1 CAAATCAAATTCAG-CAATGTATATCCT-TATA
35072980 CAAATCAAATTCAGCAATGT
1 CAAATCAAATTCAGCAATGT
35073000 CTAAAACATA
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
30 7 0.17
31 34 0.81
32 1 0.02
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (31 bp):
CAAATCAAATTCAGCAATGTATATCCTTATA
Found at i:35081678 original size:50 final size:50
Alignment explanation
Indices: 35081552--35081798 Score: 246
Period size: 50 Copynumber: 4.8 Consensus size: 50
35081542 ATTTGGGTAA
* *
35081552 AGAGATCCCATGTAAGACCACGTCTGGGACATGGCATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAGA-C--G
* * *
35081608 AAAGGTCTCATGTAATACCATGTCTGGGACATGGCATTGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
* * *
35081658 AGAGGTCCCAAGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
** * * * * *
35081708 AGAGGTCCCCCGTAAGACCATATCTGGGATATGGCATTCGCA--GTACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGACG
* ** *
35081757 AAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
35081799 TGTTATTATC
Statistics
Matches: 163, Mismatches: 27, Indels: 9
0.82 0.14 0.05
Matches are distributed among these distances:
48 1 0.01
49 37 0.23
50 81 0.50
52 1 0.01
53 4 0.02
55 2 0.01
56 37 0.23
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
Found at i:35087085 original size:199 final size:199
Alignment explanation
Indices: 35086728--35087120 Score: 678
Period size: 199 Copynumber: 2.0 Consensus size: 199
35086718 CGATTTAGTC
35086728 CCGAATCGTTTCTAAAGTGTCTCTAAGGCCTCGAGGGCTCAAATAAGGGACGATATGCATGTGTT
1 CCGAATCGTTTCTAAAGTGTCTCTAAGGCCTCGAGGGCTCAAATAAGGGACGATATGCATGTGTT
*
35086793 TGATTAGATTTTGGAATTATTATAAAATGTTAGACATGAATGATTTGAGTTATGTTTTTGCGGTG
66 TGATTAGATTTTGGAATTATTATAAAATGTTAGACATGAATGATTTGAGTTACGTTTTTGCGGTG
* *
35086858 ATGCTCTGTAAACCTATTCCGGCGACGGGTACGGGTTAAGGATGTTACACAGCAAGGCTTCCATT
131 ATGCTCTGTAAACCTATTCCGACGACGGGTACGGGTTAAGGATGTTACACAACAAGGCTTCCATT
35086923 GTAA
196 GTAA
* *
35086927 CCGAATCGTTTCTAAATTGTCTCTAAGGCCTCGAGGGCTCAAATAAGGGATGATATGCATGTGTT
1 CCGAATCGTTTCTAAAGTGTCTCTAAGGCCTCGAGGGCTCAAATAAGGGACGATATGCATGTGTT
* *
35086992 TGATTAGATTTTGGAATTATTATGAAATGTTGGACATGAATGATTTGAGTTACGTTTTTGCGGTG
66 TGATTAGATTTTGGAATTATTATAAAATGTTAGACATGAATGATTTGAGTTACGTTTTTGCGGTG
* * * * *
35087057 ATGCTCTGTAACCCTATTTCGACGACGGGTACGGGTTAGGGGTGTTACACAACAAGGTTTCCAT
131 ATGCTCTGTAAACCTATTCCGACGACGGGTACGGGTTAAGGATGTTACACAACAAGGCTTCCAT
35087121 CAACTCAATA
Statistics
Matches: 182, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
199 182 1.00
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.33
Consensus pattern (199 bp):
CCGAATCGTTTCTAAAGTGTCTCTAAGGCCTCGAGGGCTCAAATAAGGGACGATATGCATGTGTT
TGATTAGATTTTGGAATTATTATAAAATGTTAGACATGAATGATTTGAGTTACGTTTTTGCGGTG
ATGCTCTGTAAACCTATTCCGACGACGGGTACGGGTTAAGGATGTTACACAACAAGGCTTCCATT
GTAA
Found at i:35087878 original size:17 final size:19
Alignment explanation
Indices: 35087852--35087886 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
35087842 TTATTAATTA
35087852 AAATATTATAATA-ATTTT
1 AAATATTATAATATATTTT
35087870 AAATA-TATAATATATTT
1 AAATATTATAATATATTT
35087887 ATTTAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
AAATATTATAATATATTTT
Found at i:35093878 original size:27 final size:27
Alignment explanation
Indices: 35093848--35094025 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
35093838 ATATTGAGTC
* * * *
35093848 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
35093875 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
35093902 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
35093930 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
35093957 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
35093984 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
35094011 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
35094026 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:35093987 original size:82 final size:81
Alignment explanation
Indices: 35093869--35094024 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
35093859 TGCTATATAA
* *
35093869 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
35093934 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
35093951 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
35094015 CACTTAGTGC
65 CACTTAGTGC
35094025 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:35101941 original size:27 final size:27
Alignment explanation
Indices: 35101911--35102088 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
35101901 ATATTGAGTC
* * * *
35101911 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
35101938 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
35101965 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
35101993 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
35102020 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
35102047 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
35102074 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
35102089 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:35102050 original size:82 final size:81
Alignment explanation
Indices: 35101932--35102087 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
35101922 TGCTATATAA
* *
35101932 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
35101997 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
35102014 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
35102078 CACTTAGTGC
65 CACTTAGTGC
35102088 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:35114112 original size:38 final size:37
Alignment explanation
Indices: 35114017--35114316 Score: 188
Period size: 38 Copynumber: 7.9 Consensus size: 37
35114007 TATACAGTTT
* * **
35114017 ACACGGTGTCACCTCGAAGGAACAGTAGATAATTGTCA
1 ACACGGTGTCGCC-CGAAGGACCAGTAGATAACCGTCA
* * * * *
35114055 ACATGATGTCAGCCTGAAGGACCAATAGATAACCGTTA
1 ACACGGTGTC-GCCCGAAGGACCAGTAGATAACCGTCA
** *
35114093 ACACGGTGTTTCCTCGAAGGACCAGTAGATAACTGTCA
1 ACACGGTGTCGCC-CGAAGGACCAGTAGATAACCGTCA
* * * * *
35114131 ACACGTTGTCGCCCTGAAAGG-CTAGTAGATCATCATCA
1 ACACGGTGTCGCCC-G-AAGGACCAGTAGATAACCGTCA
* ** * * **
35114169 ACATGGTGTTACCCTAAAGGATCAGTAGATAACTATCA
1 ACACGGTGTCGCCC-GAAGGACCAGTAGATAACCGTCA
* * ** *
35114207 ACACGGTGTTGCCCCGAAAGACCAGTAGATAATGGTTA
1 ACACGGTGTCG-CCCGAAGGACCAGTAGATAACCGTCA
* **
35114245 ACATGGTGTCGCCCCGAAGGATTAGTAGATAACCGTCA
1 ACACGGTGTCG-CCCGAAGGACCAGTAGATAACCGTCA
* * * *
35114283 ACTCGGTGTCTCCTCGAAGTACCAATAGATAACC
1 ACACGGTGTCGCC-CGAAGGACCAGTAGATAACC
35114317 ATTTCCCAAT
Statistics
Matches: 196, Mismatches: 59, Indels: 14
0.73 0.22 0.05
Matches are distributed among these distances:
37 9 0.05
38 178 0.91
39 9 0.05
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (37 bp):
ACACGGTGTCGCCCGAAGGACCAGTAGATAACCGTCA
Found at i:35114147 original size:76 final size:76
Alignment explanation
Indices: 35114017--35114316 Score: 248
Period size: 76 Copynumber: 3.9 Consensus size: 76
35114007 TATACAGTTT
* * * *
35114017 ACACGGTGTCACCTCGAAGGAACAGTAGATAATTGTCAACATGATGTCAG-CCTGAAGGACCAAT
1 ACACGGTGTCACCTCGAAGGATCAGTAGATAACTGTCAACACGGTGTC-GCCCTGAAGGACCAAT
35114081 AGATAACCGTTA
65 AGATAACCGTTA
** * * * *
35114093 ACACGGTGTTTCCTCGAAGGACCAGTAGATAACTGTCAACACGTTGTCGCCCTGAAAGG-CTAGT
1 ACACGGTGTCACCTCGAAGGATCAGTAGATAACTGTCAACACGGTGTCGCCCTG-AAGGACCAAT
* * * *
35114157 AGATCATCATCA
65 AGATAACCGTTA
* * * * * * * *
35114169 ACATGGTGTTACC-CTAAAGGATCAGTAGATAACTATCAACACGGTGTTGCCCCGAAAGACCAGT
1 ACACGGTGTCACCTC-GAAGGATCAGTAGATAACTGTCAACACGGTGTCGCCCTGAAGGACCAAT
**
35114233 AGATAATGGTTA
65 AGATAACCGTTA
* * * * * * * *
35114245 ACATGGTGTCGCCCCGAAGGATTAGTAGATAACCGTCAACTCGGTGTC-TCCTCGAAGTACCAAT
1 ACACGGTGTCACCTCGAAGGATCAGTAGATAACTGTCAACACGGTGTCGCCCT-GAAGGACCAAT
35114309 AGATAACC
65 AGATAACC
35114317 ATTTCCCAAT
Statistics
Matches: 177, Mismatches: 41, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
75 7 0.04
76 165 0.93
77 5 0.03
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (76 bp):
ACACGGTGTCACCTCGAAGGATCAGTAGATAACTGTCAACACGGTGTCGCCCTGAAGGACCAATA
GATAACCGTTA
Found at i:35114284 original size:114 final size:114
Alignment explanation
Indices: 35114017--35114318 Score: 279
Period size: 114 Copynumber: 2.6 Consensus size: 114
35114007 TATACAGTTT
* * * * * *
35114017 ACACGGTGTCACCTCGAAGGAACAGTAGATAATTGTCAACATGATGTCAGCCTGAAGGACCAATA
1 ACACGGTGTCGCCCCGAAGGAATAGTAGATAATCGTCAACATGATGTCACCCTAAAGGACCAATA
* * * * *
35114082 GATAACCGTTAACACGGTGTTTCCTCGAAGGACCAGTAGATAACTGTCA
66 GATAACCATCAACACGGTGTTGCCCCGAAAGACCAGTAGATAACTGTCA
* * * * * * * * *
35114131 ACACGTTGTCGCCCTGAAAGG-CTAGTAGATCATCATCAACATGGTGTTACCCTAAAGGATCAGT
1 ACACGGTGTCGCCCCG-AAGGAATAGTAGATAATCGTCAACATGATGTCACCCTAAAGGACCAAT
* *
35114195 AGATAACTATCAACACGGTGTTGCCCCGAAAGACCAGTAGATAA-TGGTTA
65 AGATAACCATCAACACGGTGTTGCCCCGAAAGACCAGTAGATAACT-GTCA
* * * * * * *
35114245 ACATGGTGTCGCCCCGAAGGATTAGTAGATAACCGTCAAC-TCGGTGTC-TCCTCGAAGTACCAA
1 ACACGGTGTCGCCCCGAAGGAATAGTAGATAATCGTCAACAT-GATGTCACCCT-AAAGGACCAA
35114308 TAGATAACCAT
64 TAGATAACCAT
35114319 TTCCCAATGC
Statistics
Matches: 147, Mismatches: 36, Indels: 10
0.76 0.19 0.05
Matches are distributed among these distances:
113 9 0.06
114 134 0.91
115 4 0.03
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (114 bp):
ACACGGTGTCGCCCCGAAGGAATAGTAGATAATCGTCAACATGATGTCACCCTAAAGGACCAATA
GATAACCATCAACACGGTGTTGCCCCGAAAGACCAGTAGATAACTGTCA
Found at i:35117451 original size:7 final size:7
Alignment explanation
Indices: 35117439--35117478 Score: 62
Period size: 7 Copynumber: 5.4 Consensus size: 7
35117429 ATCGGTAGCA
35117439 AAAAAAG
1 AAAAAAG
35117446 AAAAAAG
1 AAAAAAG
35117453 AAAAAAG
1 AAAAAAG
35117460 AAAACAAG
1 AAAA-AAG
35117468 AAAAACAG
1 AAAAA-AG
35117476 AAA
1 AAA
35117479 GAAAAAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
7 19 0.61
8 12 0.39
ACGTcount: A:0.82, C:0.05, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:35117451 original size:8 final size:8
Alignment explanation
Indices: 35117438--35117483 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
35117428 AATCGGTAGC
35117438 AAAAAAAG
1 AAAAAAAG
35117446 -AAAAAAG
1 AAAAAAAG
35117453 -AAAAAAG
1 AAAAAAAG
*
35117460 AAAACAAG
1 AAAAAAAG
*
35117468 AAAAACAG
1 AAAAAAAG
35117476 AAAGAAAA
1 AAA-AAAA
35117484 AATTTGTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
7 14 0.44
8 15 0.47
9 3 0.09
ACGTcount: A:0.83, C:0.04, G:0.13, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:35117600 original size:16 final size:17
Alignment explanation
Indices: 35117567--35117600 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
35117557 ACACGCACGC
35117567 AATCAAAATACAAAAAA
1 AATCAAAATACAAAAAA
35117584 AATCAAAA-ACAACAAAA
1 AATCAAAATACAA-AAAA
35117601 GGTGATTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.76, C:0.15, G:0.00, T:0.09
Consensus pattern (17 bp):
AATCAAAATACAAAAAA
Found at i:35121829 original size:19 final size:19
Alignment explanation
Indices: 35121805--35121841 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
35121795 CTATGAAGAC
*
35121805 ACATTTTTTTCATGTATTA
1 ACATTTTTTTCATATATTA
35121824 ACATTTTTTTCATATATT
1 ACATTTTTTTCATATATT
35121842 CTTTGAAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.11, G:0.03, T:0.59
Consensus pattern (19 bp):
ACATTTTTTTCATATATTA
Found at i:35134974 original size:17 final size:18
Alignment explanation
Indices: 35134952--35134990 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
35134942 AAAATGACCT
* *
35134952 AAATA-CCCTATAGGGTA
1 AAATACCCCCATAGGATA
35134969 AAATACCCCCATAGGATA
1 AAATACCCCCATAGGATA
35134987 AAAT
1 AAAT
35134991 GACTGAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.46, C:0.21, G:0.13, T:0.21
Consensus pattern (18 bp):
AAATACCCCCATAGGATA
Found at i:35135052 original size:27 final size:27
Alignment explanation
Indices: 35134969--35135424 Score: 466
Period size: 27 Copynumber: 16.9 Consensus size: 27
35134959 CTATAGGGTA
* *
35134969 AAATACCCCCATAGGATAAAATGACTG
1 AAATACCCCCATAGGGTAAAATGACCG
*** * * * **
35134996 AAATACCCATGTA-AGAAAAATAACTA
1 AAATACCCCCATAGGGTAAAATGACCG
35135022 AAATACCCCCATAGGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
* * * *
35135049 AAATACCCCTATAGGGTAGAATGATCA
1 AAATACCCCCATAGGGTAAAATGACCG
* *** * * *
35135076 AAACACTGTCATAGGGTAGAATGATCA
1 AAATACCCCCATAGGGTAAAATGACCG
*
35135103 AAATACCCCCATAGGGGAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
*
35135130 AAATACCCCTATAGGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
* *
35135157 AAATA-CCCCATTAGGGTAAAATGATCA
1 AAATACCCCCA-TAGGGTAAAATGACCG
* *
35135184 AAATACCTCCATAGGGTAAAATGACTG
1 AAATACCCCCATAGGGTAAAATGACCG
* * * * *
35135211 AAATACCTCCATAGGGTAGAATTATCA
1 AAATACCCCCATAGGGTAAAATGACCG
* **
35135238 AAATACCCCCATAAGGTAAAATGACTA
1 AAATACCCCCATAGGGTAAAATGACCG
* * *
35135265 AAATACCCTCATAGGGTAGAATGACTG
1 AAATACCCCCATAGGGTAAAATGACCG
*
35135292 AAATACCCCCATAGGGTAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGACCG
*
35135319 AAATACCCCCATAGGGTAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGACCG
* * *
35135346 AAATACCCCCATAGGGTAGAATGATCA
1 AAATACCCCCATAGGGTAAAATGACCG
* **
35135373 AAATACCCTCATAGGGTAAAATGATTG
1 AAATACCCCCATAGGGTAAAATGACCG
*
35135400 AAATACCCTCATAGGGTAAAATGAC
1 AAATACCCCCATAGGGTAAAATGAC
35135425 TGTTATGGCC
Statistics
Matches: 358, Mismatches: 68, Indels: 6
0.83 0.16 0.01
Matches are distributed among these distances:
26 22 0.06
27 332 0.93
28 4 0.01
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (27 bp):
AAATACCCCCATAGGGTAAAATGACCG
Found at i:35140957 original size:16 final size:16
Alignment explanation
Indices: 35140910--35140950 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
35140900 TCTAACTTCA
*
35140910 TCTAAACACTTA-CTCT
1 TCTAAACCCTTATC-CT
35140926 TCTAAACCCTTATCCT
1 TCTAAACCCTTATCCT
35140942 TC-AAACCCT
1 TCTAAACCCT
35140951 CTTTCCTCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 7 0.30
16 15 0.65
17 1 0.04
ACGTcount: A:0.29, C:0.37, G:0.00, T:0.34
Consensus pattern (16 bp):
TCTAAACCCTTATCCT
Found at i:35143155 original size:21 final size:21
Alignment explanation
Indices: 35143108--35143157 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
35143098 AAACAATAAT
* *
35143108 AATAAAAAATAAAAGAAAACA
1 AATAAAAAAGAAAAGAAAAAA
** *
35143129 TTTAAAAGAGAAAAGAAAAAA
1 AATAAAAAAGAAAAGAAAAAA
35143150 AATAAAAA
1 AATAAAAA
35143158 CAGAGAAGTA
Statistics
Matches: 21, Mismatches: 8, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.78, C:0.02, G:0.08, T:0.12
Consensus pattern (21 bp):
AATAAAAAAGAAAAGAAAAAA
Found at i:35148627 original size:33 final size:33
Alignment explanation
Indices: 35148563--35148928 Score: 205
Period size: 33 Copynumber: 10.8 Consensus size: 33
35148553 ATATAAAGGG
*
35148563 GGTTGCTAAGTGCTGATTCCCC----CA-AGG-
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
*
35148590 GGTTGCTAAGTGTTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* *
35148623 GGTTGCTAAGTGCTGATTCCACCATATTTCAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCC-CC-GA-TTC--AT-T---GGT
*
35148665 GGTTGCTAAGTGCTGATTCCCC----CA-AGG-
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
35148692 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* *
35148725 GGTTGCTAAGTGCTGATTCCACCATATTTCAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCC-CC-GA-TTC--AT-T---GGT
*
35148767 GGTTGCTAAGTGCTGATTCCCC----CA-AGG-
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
35148794 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
**
35148827 GGTTGCTAAGTGGAGATTCCACCG-TATCATTGAATGT
1 GGTTGCTAAGTGCTGATTCC-CCGAT-TCATTG---GT
*
35148864 GAAAGGGGTTGCTAAGTGCTGATTCCCCG-TATCACTGGT
1 ------GGTTGCTAAGTGCTGATTCCCCGAT-TCATTGGT
*
35148903 GGTTGCTAAGTGCTGAATCCACCGAT
1 GGTTGCTAAGTGCTGATTCC-CCGAT
35148929 AACGGATAAC
Statistics
Matches: 273, Mismatches: 17, Indels: 90
0.72 0.04 0.24
Matches are distributed among these distances:
27 65 0.24
28 4 0.01
31 6 0.02
32 6 0.02
33 79 0.29
34 16 0.06
35 5 0.02
36 6 0.02
37 2 0.01
38 4 0.01
39 4 0.01
41 4 0.01
42 54 0.20
43 18 0.07
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.31
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
Found at i:35148734 original size:102 final size:102
Alignment explanation
Indices: 35148558--35148891 Score: 589
Period size: 102 Copynumber: 3.3 Consensus size: 102
35148548 ATTGAATATA
*
35148558 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGTTGATTCCCCGATTCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
35148623 GGTTGCTAAGTGCTGATTCCACCATATTTCAAATGTG
66 GGTTGCTAAGTGCTGATTCCACCATATTTCAAATGTG
35148660 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
35148725 GGTTGCTAAGTGCTGATTCCACCATATTTCAAATGTG
66 GGTTGCTAAGTGCTGATTCCACCATATTTCAAATGTG
35148762 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
** * *
35148827 GGTTGCTAAGTGGAGATTCCACCGTATCATT-GAATGTG
66 GGTTGCTAAGTGCTGATTCCACCATAT--TTCAAATGTG
*
35148865 AAAGGGGTTGCTAAGTGCTGATTCCCC
1 AAGGGGGTTGCTAAGTGCTGATTCCCC
35148892 GTATCACTGG
Statistics
Matches: 224, Mismatches: 6, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
102 190 0.85
103 32 0.14
104 2 0.01
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (102 bp):
AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
GGTTGCTAAGTGCTGATTCCACCATATTTCAAATGTG
Found at i:35151856 original size:24 final size:24
Alignment explanation
Indices: 35151816--35151862 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
35151806 AAAGGAAAAT
*
35151816 AAGAGAAAGTGATGGAAAATGTTG
1 AAGAGAAAGTGAAGGAAAATGTTG
*
35151840 AAGAGAAAG-GAAAGGAAAGTGTT
1 AAGAGAAAGTG-AAGGAAAATGTT
35151863 ATAAATTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.49, C:0.00, G:0.34, T:0.17
Consensus pattern (24 bp):
AAGAGAAAGTGAAGGAAAATGTTG
Found at i:35159194 original size:50 final size:50
Alignment explanation
Indices: 35159082--35159280 Score: 166
Period size: 50 Copynumber: 3.9 Consensus size: 50
35159072 CATTTGGGTA
*
35159082 AAGAGATCCCATGTAAGACCATGTT-TGGGACATGGCATTGGCATCATTGAGATT
1 AAGAGGTCCCATGTAAGACCAT-TTCTGGGACATGGCATTGGCA-C--TGAGA-T
*
35159136 ATGAGAGGTCCCATGTAAGACCATTTCTGGGACATGGCGTTGGCACTGAGAT
1 A--AGAGGTCCCATGTAAGACCATTTCTGGGACATGGCATTGGCACTGAGAT
**** * * * * *
35159188 AAGAGGTCCCCCACATGACCATGTCTGGGACATGGCATGGGCACCGATAT
1 AAGAGGTCCCATGTAAGACCATTTCTGGGACATGGCATTGGCACTGAGAT
* ** * * * *
35159238 GAGAACTCCAATGTAAGACCATATCTGGGATATGACATTGGCA
1 AAGAGGTCCCATGTAAGACCATTTCTGGGACATGGCATTGGCA
35159281 GTACAGAAAA
Statistics
Matches: 117, Mismatches: 25, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
50 69 0.59
52 2 0.02
53 5 0.04
54 1 0.01
55 3 0.03
56 37 0.32
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.24
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATTTCTGGGACATGGCATTGGCACTGAGAT
Found at i:35159546 original size:12 final size:12
Alignment explanation
Indices: 35159529--35159567 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
35159519 ATGAGTTATT
35159529 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
35159541 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
35159553 TAAGTGAGTAAG
1 TAAGTAAGCAAG
35159565 TAA
1 TAA
35159568 AGAAGCGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:35166634 original size:21 final size:21
Alignment explanation
Indices: 35166585--35166634 Score: 50
Period size: 20 Copynumber: 2.4 Consensus size: 21
35166575 AAAACTATAT
*
35166585 TTTGGTATTCATTATTTTGGGA
1 TTTGGT-TTAATTATTTTGGGA
*
35166607 TGT-GTTTAATTACTTTT-GGA
1 TTTGGTTTAATTA-TTTTGGGA
35166627 TTTGGTTT
1 TTTGGTTT
35166635 TAGATTTGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
20 11 0.48
21 10 0.43
22 2 0.09
ACGTcount: A:0.16, C:0.04, G:0.22, T:0.58
Consensus pattern (21 bp):
TTTGGTTTAATTATTTTGGGA
Found at i:35169462 original size:79 final size:81
Alignment explanation
Indices: 35169326--35169510 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
35169316 TTGAATGATG
*
35169326 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
35169390 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
35169405 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
35169467 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
35169485 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35169511 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:35169524 original size:40 final size:40
Alignment explanation
Indices: 35169327--35169510 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
35169317 TGAATGATGT
* * * *
35169327 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
35169367 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
35169407 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
35169445 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
35169486 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
35169511 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:35169532 original size:79 final size:79
Alignment explanation
Indices: 35169379--35169543 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
35169369 GGACTAAGAT
* **
35169379 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
35169444 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
35169458 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
35169521 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
35169537 CCGAAGG
1 CCGAAGG
35169544 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:35171712 original size:41 final size:40
Alignment explanation
Indices: 35171631--35171798 Score: 194
Period size: 41 Copynumber: 4.1 Consensus size: 40
35171621 AGAGTACCGT
* * *
35171631 TGAATTGCACAAACGTGCCTCT-TTTGTACTTCGGTACCCC
1 TGAATTGCACATACATGCC-CTGTTTGTACTTCAGTACCCC
*
35171671 TGAATTGCACATACATGCTCCTGTTTGTACTTCAGTGCCCC
1 TGAATTGCACATACATGC-CCTGTTTGTACTTCAGTACCCC
* * *
35171712 TGAATTGCTCATTCATGCCCCTGTTTGTACTTCAGTGCCCC
1 TGAATTGCACATACATG-CCCTGTTTGTACTTCAGTACCCC
* * **
35171753 TGAATTGCACATACGTGCCCTTCTTTGTACTTTGGTACCCC
1 TGAATTGCACATACATGCCC-TGTTTGTACTTCAGTACCCC
35171794 TGAAT
1 TGAAT
35171799 GAAGTTTTGT
Statistics
Matches: 111, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
40 21 0.19
41 89 0.80
42 1 0.01
ACGTcount: A:0.18, C:0.29, G:0.17, T:0.35
Consensus pattern (40 bp):
TGAATTGCACATACATGCCCTGTTTGTACTTCAGTACCCC
Found at i:35171730 original size:21 final size:22
Alignment explanation
Indices: 35171657--35171760 Score: 80
Period size: 20 Copynumber: 5.0 Consensus size: 22
35171647 GCCTCTTTTG
* *
35171657 TACTTCGGTACCCCTGAATTGC
1 TACTTCAGTGCCCCTGAATTGC
* * *
35171679 -ACATACA-TGCTCCTG-TTTG-
1 TAC-TTCAGTGCCCCTGAATTGC
35171698 TACTTCAGTGCCCCTGAATTGC
1 TACTTCAGTGCCCCTGAATTGC
*
35171720 T-CATTCA-TGCCCCTG-TTTG-
1 TAC-TTCAGTGCCCCTGAATTGC
35171739 TACTTCAGTGCCCCTGAATTGC
1 TACTTCAGTGCCCCTGAATTGC
35171761 ACATACGTGC
Statistics
Matches: 62, Mismatches: 10, Indels: 20
0.67 0.11 0.22
Matches are distributed among these distances:
19 8 0.13
20 24 0.39
21 23 0.37
22 7 0.11
ACGTcount: A:0.17, C:0.31, G:0.17, T:0.35
Consensus pattern (22 bp):
TACTTCAGTGCCCCTGAATTGC
Found at i:35171772 original size:21 final size:21
Alignment explanation
Indices: 35171667--35171772 Score: 76
Period size: 21 Copynumber: 5.1 Consensus size: 21
35171657 TACTTCGGTA
* *
35171667 CCCCTGAATTGCACATACATG
1 CCCCTGAATTGCACATTCGTG
* * *
35171688 CTCCTG-TTTGTAC-TTCAGTG
1 CCCCTGAATTGCACATTC-GTG
* *
35171708 CCCCTGAATTGCTCATTCATG
1 CCCCTGAATTGCACATTCGTG
* *
35171729 CCCCTG-TTTGTAC-TTCAGTG
1 CCCCTGAATTGCACATTC-GTG
*
35171749 CCCCTGAATTGCACATACGTG
1 CCCCTGAATTGCACATTCGTG
35171770 CCC
1 CCC
35171773 TTCTTTGTAC
Statistics
Matches: 62, Mismatches: 17, Indels: 12
0.68 0.19 0.13
Matches are distributed among these distances:
19 5 0.08
20 24 0.39
21 28 0.45
22 5 0.08
ACGTcount: A:0.18, C:0.33, G:0.17, T:0.32
Consensus pattern (21 bp):
CCCCTGAATTGCACATTCGTG
Found at i:35174719 original size:27 final size:26
Alignment explanation
Indices: 35174688--35174865 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 26
35174678 TAAATTGTAC
35174688 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
35174715 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
35174741 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
35174769 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* *
35174797 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
35174824 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
35174851 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
35174866 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.01
27 103 0.80
28 25 0.19
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:35174804 original size:82 final size:81
Alignment explanation
Indices: 35174689--35174844 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
35174679 AAATTGTACA
* *
35174689 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
35174753 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
35174770 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
35174835 TGCGAGTTGA
65 TGCGAATTGA
35174845 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:35174856 original size:82 final size:81
Alignment explanation
Indices: 35174685--35174865 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
35174675 GATTAAATTG
* *
35174685 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
35174750 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
35174766 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
35174830 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
35174848 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
35174866 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:35174876 original size:27 final size:27
Alignment explanation
Indices: 35174770--35174876 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
35174760 TGACCATGCG
* * * *
35174770 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
35174798 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
35174825 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
35174852 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
35174877 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:35182910 original size:27 final size:27
Alignment explanation
Indices: 35182879--35183056 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
35182869 TAAATTGTAC
35182879 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
35182906 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35182932 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
35182960 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
35182988 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35183015 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
35183042 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
35183057 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:35182993 original size:82 final size:81
Alignment explanation
Indices: 35182880--35183035 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
35182870 AAATTGTACA
* *
35182880 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
35182944 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
35182961 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
35183026 TGCGAGTTGA
65 TGCGAATTGA
35183036 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:35183047 original size:82 final size:81
Alignment explanation
Indices: 35182876--35183056 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
35182866 GATTAAATTG
* *
35182876 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
35182941 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
35182957 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
35183021 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
35183039 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
35183057 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:35189647 original size:49 final size:50
Alignment explanation
Indices: 35189594--35189739 Score: 172
Period size: 49 Copynumber: 2.9 Consensus size: 50
35189584 TCGGAGGAAG
* * *
35189594 TATCTAGCAGTATATCTGCATTATCTAGTGGCTTGACTACAATATTC-GT
1 TATCTGGCAGTATATCTGCATTATCTGGTGGCTTGACCACAATATTCTGT
*
35189643 TATCTGGCAGTATATCTGCAAATTATCTGGTGGCTCGACCACAATATTCTGT
1 TATCTGGCAGTATATCTGC--ATTATCTGGTGGCTTGACCACAATATTCTGT
* * * *
35189695 T-TCTGGCAGCTAGA-CTGCACTATCTGGTGGCTTGTCCACATTATT
1 TATCTGGCAG-TATATCTGCATTATCTGGTGGCTTGACCACAATATT
35189740 GGTGTTATTG
Statistics
Matches: 84, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
49 41 0.49
51 37 0.44
52 6 0.07
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.36
Consensus pattern (50 bp):
TATCTGGCAGTATATCTGCATTATCTGGTGGCTTGACCACAATATTCTGT
Found at i:35189688 original size:51 final size:50
Alignment explanation
Indices: 35189594--35189726 Score: 155
Period size: 51 Copynumber: 2.7 Consensus size: 50
35189584 TCGGAGGAAG
* * *
35189594 TATCTAGCAGTATATCTGCATTATCTAGTGGCTTGACTACAATATTC-GT
1 TATCTGGCAGTATATCTGCATTATCTAGTGGCTCGACCACAATATTCTGT
*
35189643 TATCTGGCAGTATATCTGCAAATTATCTGGTGGCTCGACCACAATATTCTGT
1 TATCTGGCAGTATATCTGC--ATTATCTAGTGGCTCGACCACAATATTCTGT
* * *
35189695 T-TCTGGCAGCTAGA-CTGCACTATCTGGTGGCT
1 TATCTGGCAG-TATATCTGCATTATCTAGTGGCT
35189727 TGTCCACATT
Statistics
Matches: 74, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
49 31 0.42
51 37 0.50
52 6 0.08
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.35
Consensus pattern (50 bp):
TATCTGGCAGTATATCTGCATTATCTAGTGGCTCGACCACAATATTCTGT
Found at i:35190287 original size:21 final size:22
Alignment explanation
Indices: 35190262--35190311 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
35190252 AAGATAATTC
35190262 AACTCAACGA-TAGTGTTTTC-A
1 AACTCAACGATTA-TGTTTTCAA
*
35190283 AACTCAA-TATTATGTTTTCAA
1 AACTCAACGATTATGTTTTCAA
35190304 AACTCAAC
1 AACTCAAC
35190312 ACTACTTGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.34
Consensus pattern (22 bp):
AACTCAACGATTATGTTTTCAA
Found at i:35199966 original size:45 final size:45
Alignment explanation
Indices: 35199902--35199991 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
35199892 TTTAAAACAT
35199902 GTAGTCCTTGATCACACATTCTGAGCTTCATCTCTATCAAATCTA
1 GTAGTCCTTGATCACACATTCTGAGCTTCATCTCTATCAAATCTA
35199947 GTAGTCCTTGATCACACATTCTGAGCTTCATCTCTATCAAATCTA
1 GTAGTCCTTGATCACACATTCTGAGCTTCATCTCTATCAAATCTA
35199992 TCTAGGTAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.27, C:0.27, G:0.11, T:0.36
Consensus pattern (45 bp):
GTAGTCCTTGATCACACATTCTGAGCTTCATCTCTATCAAATCTA
Found at i:35210302 original size:20 final size:22
Alignment explanation
Indices: 35210272--35210311 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
35210262 TATACTTTGC
35210272 AACAGCATTTCCTG-TCTCTGA
1 AACAGCATTTCCTGTTCTCTGA
35210293 AACA-CATTTCCTGTTCTCT
1 AACAGCATTTCCTGTTCTCT
35210312 AACAATGGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.23, C:0.30, G:0.10, T:0.38
Consensus pattern (22 bp):
AACAGCATTTCCTGTTCTCTGA
Found at i:35212305 original size:39 final size:39
Alignment explanation
Indices: 35212215--35213619 Score: 650
Period size: 39 Copynumber: 35.7 Consensus size: 39
35212205 TGAATATAAT
* * * * *
35212215 CAGGGGCATGTAAGTGCATTCAGGAGTACCGTAGTACAAA
1 CAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTAC-AA
* * * *
35212255 CAGGGGTACGTATGTGAAATCAGGGGTACCAAAGTATAA
1 CAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTACAA
* * * *
35212294 CAGGGACACGTATGTGCAATTAGGAGTA-TGAAAGTACAAA
1 CAGGGGCACGTATGTGCAATCAGGGGTACCG-AAGTAC-AA
* *
35212334 CAGGGGCACGTACGTGCAATCAGGGGCACCGAAGTACAA
1 CAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTACAA
* * * *
35212373 TAGGGGCACATATGTACAATCAGGGGTACCGAAGTAAGAA
1 CAGGGGCACGTATGTGCAATCAGGGGTACCGAAGT-ACAA
* * * *
35212413 CAAGGGCATGTATGTGCAATCAGGGGTATCAAAGTACAA
1 CAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTACAA
* * * * * *
35212452 TAGGGGAATGTATGTGTAATTAGGGGTACTGAAGTACAA
1 CAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTACAA
* * * *
35212491 CAGGGGCATGTTTGTGCAATCAGAGGTATCGAAGTACAA
1 CAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTACAA
*
35212530 CAAGGGCACGTATGTGCAATCAGGGGTACCGAAGTACAA
1 CAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTACAA
* * * * **
35212569 TA-GGCCACGTATGTGTAATCACGGGTACTAAAGTACAAA
1 CAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTAC-AA
* * * * *
35212608 TAGTGCCACGTATGTGCAATCAAGGGTATCGAAGTACAAA
1 CAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTAC-AA
* *
35212648 CAGTGGCACGTATGTGCAATCAGGGGTACCAAAGTACAA
1 CAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTACAA
* * * *
35212687 TAGGGGCATGTATGTGCAATCAGGAGTA-TGAAAGTACAAA
1 CAGGGGCACGTATGTGCAATCAGGGGTACCG-AAGTAC-AA
* * *
35212727 CAGGGGCACGTATGTACAATCAGGGGCATCGAAGTACAA
1 CAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTACAA
* * *
35212766 CAGGGGCAGGTATGTGCAATCAAGGGTACCGAAGTAAGAA
1 CAGGGGCACGTATGTGCAATCAGGGGTACCGAAGT-ACAA
* * * * *
35212806 CAAGGGAATGTATGTGCAATCAGGGGTATCAAAGTACAA
1 CAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTACAA
* * * * * * * *
35212845 CAGGGGTAC-TGAAGTACAA-CAAGGGCA-TGTATGTGCAA
1 CAGGGGCACGT-ATGTGCAATCAGGGGTACCG-AAGTACAA
* * * * * * *
35212883 TCAGGGGTATCG-AAGTACAA-CAAGGGCA-CGTATGTGCAA
1 -CAGGGGCA-CGTATGTGCAATCAGGGGTACCG-AAGTACAA
* * * * * * **
35212922 TTAGGGGTACCG-AAGTACAAT-AGGGGCA-CGTATGTGTAA
1 -CAGGGGCA-CGTATGTGCAATCAGGGGTACCG-AAGTACAA
* * * * * * *
35212961 TCACGGGTAC-TAAAGTACAAAT-A--GTTACACGTATGTGCAA
1 -CAGGGGCACGT-ATGTGC-AATCAGGGGTAC-CG-AAGTACAA
* * * * * * * *
35213001 TCAAGGGTATCG-AAGTACAAACAGGGGCA-CGTATGTGCAA
1 -CAGGGGCA-CGTATGTGCAATCAGGGGTACCG-AAGTACAA
* * * * * * *
35213041 TCAGGGGTATCG-AAGTACAAACAGGGGCA-CGTATGTGCAA
1 -CAGGGGCA-CGTATGTGCAATCAGGGGTACCG-AAGTACAA
* * * * * *
35213081 TCAGGGGTACCG-AAGTACAAT-AGGGGCA-CGTATGTGCAA
1 -CAGGGGCA-CGTATGTGCAATCAGGGGTACCG-AAGTACAA
* * * * * * * * * * *
35213120 TCAGGAGTATGGAAGTACAAACAGGGGCA-TGTATGTGCAA
1 -CAGGGGCACGTATGTGCAATCAGGGGTACCG-AAGTACAA
* * * * **
35213160 TCAGGGGTATC-AAAGTACAAT-AGGGGTAATGAAGTACAA
1 -CAGGGGCA-CGTATGTGCAATCAGGGGTACCGAAGTACAA
* * *
35213199 CAAGGGCATGTATGTGCAATCAGGGGTATCGAAGTACAA
1 CAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTACAA
* * * * **
35213238 CAAGGGCACGTATATGCAATCAAGGCTACTAAAGTACAA
1 CAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTACAA
* * *** ***
35213277 TAGGGGCACGTATGTGTAATCACATGTAGTAAAGTACAAA
1 CAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTAC-AA
* * ** * *
35213317 CAGTGGCACGTATGTGCAATTAAAGGTATCAAAGTACAAA
1 CAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTAC-AA
* * *
35213357 TAGGGGCACGTATGTGCAATCAAGGGTATCGAAGTACAAA
1 CAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTAC-AA
* * * * *
35213397 TAGGGGAACTTATGTACAATCAGGGGTACCGAAGAACAA
1 CAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTACAA
* **
35213436 CAGGGGCACGTATGTGCAATCAGGAGTATGGAAGTACAAA
1 CAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTAC-AA
* * * * *
35213476 CAGGGGAAAGTATGTGCAATCAAGGGCATCGAAGTACAA
1 CAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTACAA
* *
35213515 CAGGGGCACGTATGTGTAATCAGGGGTACTGAAGTACAAA
1 CAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTAC-AA
* * *
35213555 CAGGGGCACGTATGTACAATTA-GGGTATCGAAGTACAAA
1 CAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTAC-AA
* * * *
35213594 TAAGGGCACATATGTGTAATCAGGGG
1 CAGGGGCACGTATGTGCAATCAGGGG
35213620 CACGTATGTG
Statistics
Matches: 1115, Mismatches: 214, Indels: 72
0.80 0.15 0.05
Matches are distributed among these distances:
38 59 0.05
39 544 0.49
40 507 0.45
41 3 0.00
42 2 0.00
ACGTcount: A:0.35, C:0.16, G:0.29, T:0.20
Consensus pattern (39 bp):
CAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTACAA
Found at i:35212355 original size:79 final size:79
Alignment explanation
Indices: 35212215--35212850 Score: 640
Period size: 79 Copynumber: 8.1 Consensus size: 79
35212205 TGAATATAAT
* * * * * * * *
35212215 CAGGGGCATGTAAGTGCATTCAGGAGTACCGTAGTACAAACAGGGGTACGTATGTGAAATCAGGG
1 CAGGGGCACGTATGTGCAATCAGGGGTACTGAAGTACAAACAGGGGCACGTATGTGCAATCAGGG
*
35212280 GTACCAAAGTATAA
66 GTACCAAAGTACAA
* * * *
35212294 CAGGGACACGTATGTGCAATTAGGAGTA-TGAAAGTACAAACAGGGGCACGTACGTGCAATCAGG
1 CAGGGGCACGTATGTGCAATCAGGGGTACTG-AAGTACAAACAGGGGCACGTATGTGCAATCAGG
* *
35212358 GGCACCGAAGTACAA
65 GGTACCAAAGTACAA
* * * * * *
35212373 TAGGGGCACATATGTACAATCAGGGGTACCGAAGTA-AGAACAAGGGCATGTATGTGCAATCAGG
1 CAGGGGCACGTATGTGCAATCAGGGGTACTGAAGTACA-AACAGGGGCACGTATGTGCAATCAGG
*
35212437 GGTATCAAAGTACAA
65 GGTACCAAAGTACAA
* * * * * * * *
35212452 TAGGGGAATGTATGTGTAATTAGGGGTACTGAAGTAC-AACAGGGGCATGTTTGTGCAATCAGAG
1 CAGGGGCACGTATGTGCAATCAGGGGTACTGAAGTACAAACAGGGGCACGTATGTGCAATCAGGG
* *
35212516 GTATCGAAGTACAA
66 GTACCAAAGTACAA
* * * * * *
35212530 CAAGGGCACGTATGTGCAATCAGGGGTACCGAAGTAC-AATA-GGCCACGTATGTGTAATCACGG
1 CAGGGGCACGTATGTGCAATCAGGGGTACTGAAGTACAAACAGGGGCACGTATGTGCAATCAGGG
*
35212593 GTACTAAAGTACAAA
66 GTACCAAAGTAC-AA
* * * * *
35212608 TAGTGCCACGTATGTGCAATCAAGGGTA-TCGAAGTACAAACAGTGGCACGTATGTGCAATCAGG
1 CAGGGGCACGTATGTGCAATCAGGGGTACT-GAAGTACAAACAGGGGCACGTATGTGCAATCAGG
35212672 GGTACCAAAGTACAA
65 GGTACCAAAGTACAA
* * * *
35212687 TAGGGGCATGTATGTGCAATCAGGAGTA-TGAAAGTACAAACAGGGGCACGTATGTACAATCAGG
1 CAGGGGCACGTATGTGCAATCAGGGGTACTG-AAGTACAAACAGGGGCACGTATGTGCAATCAGG
* * *
35212751 GGCATCGAAGTACAA
65 GGTACCAAAGTACAA
* * * * * *
35212766 CAGGGGCAGGTATGTGCAATCAAGGGTACCGAAGTA-AGAACAAGGGAATGTATGTGCAATCAGG
1 CAGGGGCACGTATGTGCAATCAGGGGTACTGAAGTACA-AACAGGGGCACGTATGTGCAATCAGG
*
35212830 GGTATCAAAGTACAA
65 GGTACCAAAGTACAA
35212845 CAGGGG
1 CAGGGG
35212851 TACTGAAGTA
Statistics
Matches: 459, Mismatches: 87, Indels: 22
0.81 0.15 0.04
Matches are distributed among these distances:
77 25 0.05
78 106 0.23
79 297 0.65
80 31 0.07
ACGTcount: A:0.35, C:0.16, G:0.30, T:0.19
Consensus pattern (79 bp):
CAGGGGCACGTATGTGCAATCAGGGGTACTGAAGTACAAACAGGGGCACGTATGTGCAATCAGGG
GTACCAAAGTACAA
Found at i:35212359 original size:20 final size:20
Alignment explanation
Indices: 35212212--35213639 Score: 305
Period size: 20 Copynumber: 72.5 Consensus size: 20
35212202 ACCTGAATAT
* *
35212212 AATCAGGGGCATGTAAGTGC
1 AATCAGGGGCACGTAAGTAC
* * *
35212232 ATTCAGGAGTACCGT-AGTAC
1 AATCAGGGGCA-CGTAAGTAC
* * *
35212252 AAACAGGGGTACGTATGTGA-
1 AATCAGGGGCACGTAAGT-AC
* ** *
35212272 AATCAGGGGTACCAAAGTAT
1 AATCAGGGGCACGTAAGTAC
* * *
35212292 AA-CAGGGACACGTATGTGC
1 AATCAGGGGCACGTAAGTAC
* * * * *
35212311 AATTAGGAGTATGAAAGTAC
1 AATCAGGGGCACGTAAGTAC
* * *
35212331 AAACAGGGGCACGTACGTGC
1 AATCAGGGGCACGTAAGTAC
35212351 AATCAGGGGCACCG-AAGTAC
1 AATCAGGGGCA-CGTAAGTAC
* *
35212371 AAT-AGGGGCACATATGTAC
1 AATCAGGGGCACGTAAGTAC
*
35212390 AATCAGGGGTACCG-AAGTA-
1 AATCAGGGGCA-CGTAAGTAC
* * * * *
35212409 AGAACAAGGGCATGTATGTGC
1 A-ATCAGGGGCACGTAAGTAC
* *
35212430 AATCAGGGGTATC-AAAGTAC
1 AATCAGGGGCA-CGTAAGTAC
* * * **
35212450 AAT-AGGGGAATGTATGTGT
1 AATCAGGGGCACGTAAGTAC
* *
35212469 AATTAGGGGTAC-TGAAGTAC
1 AATCAGGGGCACGT-AAGTAC
* ** *
35212489 AA-CAGGGGCATGTTTGTGC
1 AATCAGGGGCACGTAAGTAC
* *
35212508 AATCAGAGGTATCG-AAGTAC
1 AATCAGGGGCA-CGTAAGTAC
* * *
35212528 AA-CAAGGGCACGTATGTGC
1 AATCAGGGGCACGTAAGTAC
*
35212547 AATCAGGGGTACCG-AAGTAC
1 AATCAGGGGCA-CGTAAGTAC
* * **
35212567 AAT-A-GGCCACGTATGTGT
1 AATCAGGGGCACGTAAGTAC
* *
35212585 AATCACGGGTAC-TAAAGTAC
1 AATCAGGGGCACGT-AAGTAC
* * * *
35212605 AAAT-AGTGCCACGTATGTGC
1 -AATCAGGGGCACGTAAGTAC
* *
35212625 AATCAAGGGTATCG-AAGTAC
1 AATCAGGGGCA-CGTAAGTAC
* * * *
35212645 AAACAGTGGCACGTATGTGC
1 AATCAGGGGCACGTAAGTAC
* **
35212665 AATCAGGGGTACCAAAGTAC
1 AATCAGGGGCACGTAAGTAC
* * *
35212685 AAT-AGGGGCATGTATGTGC
1 AATCAGGGGCACGTAAGTAC
* * * *
35212704 AATCAGGAGTATGAAAGTAC
1 AATCAGGGGCACGTAAGTAC
* *
35212724 AAACAGGGGCACGTATGTAC
1 AATCAGGGGCACGTAAGTAC
35212744 AATCAGGGGCATCG-AAGTAC
1 AATCAGGGGCA-CGTAAGTAC
* * *
35212764 AA-CAGGGGCAGGTATGTGC
1 AATCAGGGGCACGTAAGTAC
* *
35212783 AATCAAGGGTACCG-AAGTA-
1 AATCAGGGGCA-CGTAAGTAC
* * * * * *
35212802 AGAACAAGGGAATGTATGTGC
1 A-ATCAGGGGCACGTAAGTAC
* *
35212823 AATCAGGGGTATC-AAAGTAC
1 AATCAGGGGCA-CGTAAGTAC
*
35212843 AA-CAGGGGTAC-TGAAGTAC
1 AATCAGGGGCACGT-AAGTAC
* * * *
35212862 AA-CAAGGGCATGTATGTGC
1 AATCAGGGGCACGTAAGTAC
*
35212881 AATCAGGGGTATCG-AAGTAC
1 AATCAGGGGCA-CGTAAGTAC
* * *
35212901 AA-CAAGGGCACGTATGTGC
1 AATCAGGGGCACGTAAGTAC
* *
35212920 AATTAGGGGTACCG-AAGTAC
1 AATCAGGGGCA-CGTAAGTAC
* **
35212940 AAT-AGGGGCACGTATGTGT
1 AATCAGGGGCACGTAAGTAC
* *
35212959 AATCACGGGTAC-TAAAGTAC
1 AATCAGGGGCACGT-AAGTAC
*** * *
35212979 AAAT-AGTTACACGTATGTGC
1 -AATCAGGGGCACGTAAGTAC
* *
35212999 AATCAAGGGTATCG-AAGTAC
1 AATCAGGGGCA-CGTAAGTAC
* * *
35213019 AAACAGGGGCACGTATGTGC
1 AATCAGGGGCACGTAAGTAC
*
35213039 AATCAGGGGTATCG-AAGTAC
1 AATCAGGGGCA-CGTAAGTAC
* * *
35213059 AAACAGGGGCACGTATGTGC
1 AATCAGGGGCACGTAAGTAC
*
35213079 AATCAGGGGTACCG-AAGTAC
1 AATCAGGGGCA-CGTAAGTAC
* *
35213099 AAT-AGGGGCACGTATGTGC
1 AATCAGGGGCACGTAAGTAC
* * * *
35213118 AATCAGGAGTATGGAAGTAC
1 AATCAGGGGCACGTAAGTAC
* * * *
35213138 AAACAGGGGCATGTATGTGC
1 AATCAGGGGCACGTAAGTAC
* *
35213158 AATCAGGGGTATC-AAAGTAC
1 AATCAGGGGCA-CGTAAGTAC
* *
35213178 AAT-AGGGGTA-ATGAAGTAC
1 AATCAGGGGCACGT-AAGTAC
* * * *
35213197 AA-CAAGGGCATGTATGTGC
1 AATCAGGGGCACGTAAGTAC
*
35213216 AATCAGGGGTATCG-AAGTAC
1 AATCAGGGGCA-CGTAAGTAC
* *
35213236 AA-CAAGGGCACGTATA-TGC
1 AATCAGGGGCACGTA-AGTAC
*
35213255 AATCA-AGGCTAC-TAAAGTAC
1 AATCAGGGGC-ACGT-AAGTAC
* **
35213275 AAT-AGGGGCACGTATGTGT
1 AATCAGGGGCACGTAAGTAC
*** *
35213294 AATCACATGTA-GTAAAGTAC
1 AATCAGGGGCACGT-AAGTAC
* * * *
35213314 AAACAGTGGCACGTATGTGC
1 AATCAGGGGCACGTAAGTAC
* ** * *
35213334 AATTAAAGGTATC-AAAGTAC
1 AATCAGGGGCA-CGTAAGTAC
* *
35213354 AAAT-AGGGGCACGTATGTGC
1 -AATCAGGGGCACGTAAGTAC
* *
35213374 AATCAAGGGTATCG-AAGTAC
1 AATCAGGGGCA-CGTAAGTAC
* * *
35213394 AAAT-AGGGGAACTTATGTAC
1 -AATCAGGGGCACGTAAGTAC
* *
35213414 AATCAGGGGTACCG-AAGAAC
1 AATCAGGGGCA-CGTAAGTAC
* *
35213434 AA-CAGGGGCACGTATGTGC
1 AATCAGGGGCACGTAAGTAC
* * * *
35213453 AATCAGGAGTATGGAAGTAC
1 AATCAGGGGCACGTAAGTAC
* * * * *
35213473 AAACAGGGGAAAGTATGTGC
1 AATCAGGGGCACGTAAGTAC
*
35213493 AATCAAGGGCATCG-AAGTAC
1 AATCAGGGGCA-CGTAAGTAC
* **
35213513 AA-CAGGGGCACGTATGTGT
1 AATCAGGGGCACGTAAGTAC
*
35213532 AATCAGGGGTAC-TGAAGTAC
1 AATCAGGGGCACGT-AAGTAC
* *
35213552 AAACAGGGGCACGTATGTAC
1 AATCAGGGGCACGTAAGTAC
* *
35213572 AATTA-GGGTATCG-AAGTAC
1 AATCAGGGGCA-CGTAAGTAC
* * * **
35213591 AAAT-AAGGGCACATATGTGT
1 -AATCAGGGGCACGTAAGTAC
* *
35213611 AATCAGGGGCACGTATGTGC
1 AATCAGGGGCACGTAAGTAC
35213631 AATCAGGGG
1 AATCAGGGG
35213640 TATTGAAGTA
Statistics
Matches: 959, Mismatches: 350, Indels: 198
0.64 0.23 0.13
Matches are distributed among these distances:
17 2 0.00
18 26 0.03
19 278 0.29
20 605 0.63
21 48 0.05
ACGTcount: A:0.35, C:0.16, G:0.29, T:0.20
Consensus pattern (20 bp):
AATCAGGGGCACGTAAGTAC
Found at i:35212848 original size:19 final size:19
Alignment explanation
Indices: 35212826--35212904 Score: 72
Period size: 19 Copynumber: 4.1 Consensus size: 19
35212816 TATGTGCAAT
*
35212826 CAGGGGTATCAAAGTACAA
1 CAGGGGTATCGAAGTACAA
35212845 CAGGGGTA-CTGAAGTACAA
1 CAGGGGTATC-GAAGTACAA
* * * *
35212864 CAAGGGCAT-GTATGTGCAA
1 CAGGGGTATCG-AAGTACAA
35212883 TCAGGGGTATCGAAGTACAA
1 -CAGGGGTATCGAAGTACAA
35212903 CA
1 CA
35212905 AGGGCACGTA
Statistics
Matches: 46, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
18 2 0.04
19 30 0.65
20 13 0.28
21 1 0.02
ACGTcount: A:0.37, C:0.16, G:0.29, T:0.18
Consensus pattern (19 bp):
CAGGGGTATCGAAGTACAA
Found at i:35212995 original size:40 final size:40
Alignment explanation
Indices: 35212845--35213179 Score: 430
Period size: 40 Copynumber: 8.5 Consensus size: 40
35212835 CAAAGTACAA
* *
35212845 CAGGGGTA-CTGAAGTAC-AACAAGGGCATGTATGTGCAAT
1 CAGGGGTATC-GAAGTACAAACAGGGGCACGTATGTGCAAT
*
35212884 CAGGGGTATCGAAGTAC-AACAAGGGCACGTATGTGCAAT
1 CAGGGGTATCGAAGTACAAACAGGGGCACGTATGTGCAAT
* * * *
35212923 TAGGGGTACCGAAGTAC-AATAGGGGCACGTATGTGTAAT
1 CAGGGGTATCGAAGTACAAACAGGGGCACGTATGTGCAAT
* * * ***
35212962 CACGGGTA-CTAAAGTACAAATAGTTACACGTATGTGCAAT
1 CAGGGGTATC-GAAGTACAAACAGGGGCACGTATGTGCAAT
*
35213002 CAAGGGTATCGAAGTACAAACAGGGGCACGTATGTGCAAT
1 CAGGGGTATCGAAGTACAAACAGGGGCACGTATGTGCAAT
35213042 CAGGGGTATCGAAGTACAAACAGGGGCACGTATGTGCAAT
1 CAGGGGTATCGAAGTACAAACAGGGGCACGTATGTGCAAT
* *
35213082 CAGGGGTACCGAAGTAC-AATAGGGGCACGTATGTGCAAT
1 CAGGGGTATCGAAGTACAAACAGGGGCACGTATGTGCAAT
* * *
35213121 CAGGAGTATGGAAGTACAAACAGGGGCATGTATGTGCAAT
1 CAGGGGTATCGAAGTACAAACAGGGGCACGTATGTGCAAT
*
35213161 CAGGGGTATCAAAGTACAA
1 CAGGGGTATCGAAGTACAA
35213180 TAGGGGTAAT
Statistics
Matches: 261, Mismatches: 30, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
38 1 0.00
39 117 0.45
40 142 0.54
41 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.30, T:0.20
Consensus pattern (40 bp):
CAGGGGTATCGAAGTACAAACAGGGGCACGTATGTGCAAT
Found at i:35213057 original size:119 final size:118
Alignment explanation
Indices: 35212856--35213185 Score: 450
Period size: 119 Copynumber: 2.8 Consensus size: 118
35212846 AGGGGTACTG
* * * *
35212856 AAGTACAACAAGGG-CATGTATGTGCAATCAGGGGTATCGAAGTAC-AACAAGGGCACGTATGTG
1 AAGTACAA-TAGGGACACGTATGTGCAATCAAGGGTATCGAAGTACAAACAGGGGCACGTATGTG
* * * *
35212919 CAATTAGGGGTACCGAAGTACAATAGGGGCACGTATGTGTAATCACGGGTACTA
65 CAATCAGGGGTATCGAAGTACAATAGGGGCACGTATGTGCAATCACGGGTACCA
**
35212973 AAGTACAAATAGTTACACGTATGTGCAATCAAGGGTATCGAAGTACAAACAGGGGCACGTATGTG
1 AAGTAC-AATAGGGACACGTATGTGCAATCAAGGGTATCGAAGTACAAACAGGGGCACGTATGTG
* * *
35213038 CAATCAGGGGTATCGAAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTACCG
65 CAATCAGGGGTATCGAAGTAC-AATAGGGGCACGTATGTGCAATCACGGGTACCA
* * *
35213093 AAGTACAATAGGGGCACGTATGTGCAATC-AGGAGTATGGAAGTACAAACAGGGGCATGTATGTG
1 AAGTACAATAGGGACACGTATGTGCAATCAAGG-GTATCGAAGTACAAACAGGGGCACGTATGTG
*
35213157 CAATCAGGGGTATCAAAGTACAATAGGGG
65 CAATCAGGGGTATCGAAGTACAATAGGGG
35213186 TAATGAAGTA
Statistics
Matches: 188, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
117 8 0.04
118 41 0.22
119 105 0.56
120 34 0.18
ACGTcount: A:0.34, C:0.16, G:0.30, T:0.20
Consensus pattern (118 bp):
AAGTACAATAGGGACACGTATGTGCAATCAAGGGTATCGAAGTACAAACAGGGGCACGTATGTGC
AATCAGGGGTATCGAAGTACAATAGGGGCACGTATGTGCAATCACGGGTACCA
Found at i:35213154 original size:335 final size:334
Alignment explanation
Indices: 35212521--35213520 Score: 1452
Period size: 335 Copynumber: 3.0 Consensus size: 334
35212511 CAGAGGTATC
* * * * *
35212521 GAAGTACAACAAGGGCACGTATGTGCAATCAGGGGTACCGAAGTACAA-TAGGCCACGTATGTGT
1 GAAGTACAACAAGGGCATGTATGTGCAATCAGGGGTATCGAAGTACAACAAGGGCACGTATGTGC
* * * * * *
35212585 AATCACGGGTACTAAAGTACAAATAGTGCCACGTATGTGCAATCAAGGGTATCGAAGTACAAACA
66 AATCAAGGGTACTAAAGTAC-AATAGGGGCACGTATGTGTAATCACGGGTAT-AAAGTACAAACA
* * * *
35212650 GTGGCACGTATGTGCAATCAGGGGTACCAAAGTAC-AATAGGGGCATGTATGTGCAATCAGGAGT
129 GTGGCACGTATGTGCAATCAAGGGTATCAAAGTACAAATAGGGGCACGTATGTGCAATCAGGGGT
* * *
35212714 AT-GAAAGTACAAACAGGGGCACGTATGTACAATCAGGGGCATCGAAGTACAACAGGGGCAGGTA
194 ATCG-AAGTACAAACAGGGGCACGTATGTACAATCAGGGGTACCGAAGTACAACAGGGGCACGTA
** *
35212778 TGTGCAATCAAGG-GTACCGAAGTA-AGAACAAGGGAATGTATGTGCAATCAGGGGTATCAAAGT
258 TGTGCAATC-AGGAGTATGGAAGTACA-AACAGGGGAATGTATGTGCAATCAGGGGTATCAAAGT
*
35212841 ACAACAGGGGTACT
321 ACAACAGGGGTAAT
35212855 GAAGTACAACAAGGGCATGTATGTGCAATCAGGGGTATCGAAGTACAACAAGGGCACGTATGTGC
1 GAAGTACAACAAGGGCATGTATGTGCAATCAGGGGTATCGAAGTACAACAAGGGCACGTATGTGC
* * ** *
35212920 AATTAGGGGTACCGAAGTACAATAGGGGCACGTATGTGTAATCACGGGTACTAAAGTACAAATAG
66 AATCAAGGGTACTAAAGTACAATAGGGGCACGTATGTGTAATCACGGGTA-TAAAGTACAAACAG
** * *
35212985 TTACACGTATGTGCAATCAAGGGTATCGAAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTA
130 TGGCACGTATGTGCAATCAAGGGTATCAAAGTACAAATAGGGGCACGTATGTGCAATCAGGGGTA
* *
35213050 TCGAAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTACAATAGGGGCACGTATG
195 TCGAAGTACAAACAGGGGCACGTATGTACAATCAGGGGTACCGAAGTACAACAGGGGCACGTATG
*
35213115 TGCAATCAGGAGTATGGAAGTACAAACAGGGGCATGTATGTGCAATCAGGGGTATCAAAGTACAA
260 TGCAATCAGGAGTATGGAAGTACAAACAGGGGAATGTATGTGCAATCAGGGGTATCAAAGTACAA
*
35213180 TAGGGGTAAT
325 CAGGGGTAAT
*
35213190 GAAGTACAACAAGGGCATGTATGTGCAATCAGGGGTATCGAAGTACAACAAGGGCACGTATATGC
1 GAAGTACAACAAGGGCATGTATGTGCAATCAGGGGTATCGAAGTACAACAAGGGCACGTATGTGC
* **
35213255 AATCAAGGCTACTAAAGTACAATAGGGGCACGTATGTGTAATCACATGTAGTAAAGTACAAACAG
66 AATCAAGGGTACTAAAGTACAATAGGGGCACGTATGTGTAATCACGGGTA-TAAAGTACAAACAG
* * *
35213320 TGGCACGTATGTGCAATTAAAGGTATCAAAGTACAAATAGGGGCACGTATGTGCAATCAAGGGTA
130 TGGCACGTATGTGCAATCAAGGGTATCAAAGTACAAATAGGGGCACGTATGTGCAATCAGGGGTA
* * * *
35213385 TCGAAGTACAAATAGGGGAACTTATGTACAATCAGGGGTACCGAAGAACAACAGGGGCACGTATG
195 TCGAAGTACAAACAGGGGCACGTATGTACAATCAGGGGTACCGAAGTACAACAGGGGCACGTATG
* * * *
35213450 TGCAATCAGGAGTATGGAAGTACAAACAGGGGAAAGTATGTGCAATCAAGGGCATCGAAGTACAA
260 TGCAATCAGGAGTATGGAAGTACAAACAGGGGAATGTATGTGCAATCAGGGGTATCAAAGTACAA
35213515 CAGGGG
325 CAGGGG
35213521 CACGTATGTG
Statistics
Matches: 597, Mismatches: 63, Indels: 11
0.89 0.09 0.02
Matches are distributed among these distances:
334 115 0.19
335 480 0.80
336 2 0.00
ACGTcount: A:0.36, C:0.16, G:0.29, T:0.19
Consensus pattern (334 bp):
GAAGTACAACAAGGGCATGTATGTGCAATCAGGGGTATCGAAGTACAACAAGGGCACGTATGTGC
AATCAAGGGTACTAAAGTACAATAGGGGCACGTATGTGTAATCACGGGTATAAAGTACAAACAGT
GGCACGTATGTGCAATCAAGGGTATCAAAGTACAAATAGGGGCACGTATGTGCAATCAGGGGTAT
CGAAGTACAAACAGGGGCACGTATGTACAATCAGGGGTACCGAAGTACAACAGGGGCACGTATGT
GCAATCAGGAGTATGGAAGTACAAACAGGGGAATGTATGTGCAATCAGGGGTATCAAAGTACAAC
AGGGGTAAT
Found at i:35213212 original size:98 final size:97
Alignment explanation
Indices: 35213078--35213282 Score: 268
Period size: 98 Copynumber: 2.1 Consensus size: 97
35213068 CACGTATGTG
* * * *
35213078 CAATCAGGGGTACCGAAGTACAATAGGGGCACGTATGTGCAATCAGGAGTATGGAAGTACAAACA
1 CAAT-AGGGGTAACGAAGTACAACAAGGGCACGTATGTGCAATCAGGAGTATCGAAGTAC-AACA
* * * * *
35213143 GGGGCATGTATGTGCAATCAGGGGTA-TCAAAGTA
64 AGGGCACGTATATGCAATCAAGGCTACT-AAAGTA
* * *
35213177 CAATAGGGGTAATGAAGTACAACAAGGGCATGTATGTGCAATCAGGGGTATCGAAGTACAACAAG
1 CAATAGGGGTAACGAAGTACAACAAGGGCACGTATGTGCAATCAGGAGTATCGAAGTACAACAAG
35213242 GGCACGTATATGCAATCAAGGCTACTAAAGTA
66 GGCACGTATATGCAATCAAGGCTACTAAAGTA
35213274 CAATAGGGG
1 CAATAGGGG
35213283 CACGTATGTG
Statistics
Matches: 93, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
97 40 0.43
98 49 0.53
99 4 0.04
ACGTcount: A:0.36, C:0.15, G:0.30, T:0.19
Consensus pattern (97 bp):
CAATAGGGGTAACGAAGTACAACAAGGGCACGTATGTGCAATCAGGAGTATCGAAGTACAACAAG
GGCACGTATATGCAATCAAGGCTACTAAAGTA
Found at i:35213616 original size:79 final size:78
Alignment explanation
Indices: 35212247--35213619 Score: 538
Period size: 79 Copynumber: 17.4 Consensus size: 78
35212237 GGAGTACCGT
* * * * * * *
35212247 AGTACAAACAGGGGTACGTATGTGAAATCAGGGGTACCAAAGTA-TAACAGGGACACGTATGTGC
1 AGTAC-AACAGGGGCACGTATGTGCAATCAGGGGTATCGAAGTACAAACAGGGGCACGTATGTAC
35212311 AATTAGGAGTAT-GAA
65 AATTAGG-GTATCG-A
* * * * *
35212326 AGTACAAACAGGGGCACGTACGTGCAATCAGGGGCACCGAAGTAC-AATAGGGGCACATATGTAC
1 AGTAC-AACAGGGGCACGTATGTGCAATCAGGGGTATCGAAGTACAAACAGGGGCACGTATGTAC
* *
35212390 AATCAGGGGTACCGA
65 AATTA-GGGTATCGA
* * * * * * * **
35212405 AGTAAGAACAAGGGCATGTATGTGCAATCAGGGGTATCAAAGTAC-AATAGGGGAATGTATGTGT
1 AGT-ACAACAGGGGCACGTATGTGCAATCAGGGGTATCGAAGTACAAACAGGGGCACGTATGTAC
35212469 AATTAGGGGTA-CTGA
65 AATTA-GGGTATC-GA
* * * * *
35212484 AGTACAACAGGGGCATGTTTGTGCAATCAGAGGTATCGAAGTAC-AACAAGGGCACGTATGTGCA
1 AGTACAACAGGGGCACGTATGTGCAATCAGGGGTATCGAAGTACAAACAGGGGCACGTATGTACA
* *
35212548 ATCAGGGGTACCGA
66 ATTA-GGGTATCGA
* * * * * * * * *
35212562 AGTACAATA-GGCCACGTATGTGTAATCACGGGTA-CTAAAGTACAAATAGTGCCACGTATGTGC
1 AGTACAACAGGGGCACGTATGTGCAATCAGGGGTATC-GAAGTACAAACAGGGGCACGTATGTAC
*
35212625 AATCAAGGGTATCGA
65 AAT-TAGGGTATCGA
* * * * * *
35212640 AGTACAAACAGTGGCACGTATGTGCAATCAGGGGTACCAAAGTAC-AATAGGGGCATGTATGTGC
1 AGTAC-AACAGGGGCACGTATGTGCAATCAGGGGTATCGAAGTACAAACAGGGGCACGTATGTAC
*
35212704 AATCAGGAGTAT-GAA
65 AATTAGG-GTATCG-A
* * * *
35212719 AGTACAAACAGGGGCACGTATGTACAATCAGGGGCATCGAAGTAC-AACAGGGGCAGGTATGTGC
1 AGTAC-AACAGGGGCACGTATGTGCAATCAGGGGTATCGAAGTACAAACAGGGGCACGTATGTAC
* *
35212783 AATCAAGGGTACCGA
65 AAT-TAGGGTATCGA
* * * * * * *
35212798 AGTAAGAACAAGGGAATGTATGTGCAATCAGGGGTATCAAAGTAC-AACAGGGGTAC-TGAAGTA
1 AGT-ACAACAGGGGCACGTATGTGCAATCAGGGGTATCGAAGTACAAACAGGGGCACGT-ATGTA
** *
35212861 CAACAAGGGCAT-GTA
64 CAATTAGGGTATCG-A
* * * * * * * * * ** * *
35212876 TGTGCAATCAGGGGTATCG-AAGTACAA-CAAGGGCA-CGTATGTGCAATTAGGGGTACCG-AAG
1 AGTACAA-CAGGGGCA-CGTATGTGCAATCAGGGGTATCG-AAGTACAAACAGGGGCA-CGTATG
*
35212937 TACAA-TAGGGGCA-CGTA
62 TACAATTA-GGGTATCG-A
* ** * * * * * * * * * * *
35212954 TGTGTAATCACGGGTAC-TAAAGTACAAAT-A--GTTACACGTATGTGCAATCAAGGGTATCG-A
1 AGTACAA-CAGGGGCACGT-ATGTGC-AATCAGGGGTA-TCG-AAGTACAAACAGGGGCA-CGTA
* ** *
35213014 AGTACAAACAGGGGCA-CGTA
60 TGTACAATTA-GGGTATCG-A
* * * * * * * * * * * *
35213034 TGTGCAATCAGGGGTATCG-AAGTACAAACAGGGGCA-CGTATGTGCAATCAGGGGTACCG-AAG
1 AGTACAA-CAGGGGCA-CGTATGTGCAATCAGGGGTATCG-AAGTACAAACAGGGGCA-CGTATG
*
35213096 TACAA-TAGGGGCA-CGTA
62 TACAATTA-GGGTATCG-A
* * * * * * * * * * * * * * * *
35213113 TGTGCAATCAGGAGTATGGAAGTACAAACAGGGGCAT-GTATGTGCAATCAGGGGTATC-AAAGT
1 AGTACAA-CAGGGGCACGTATGTGCAATCAGGGGTATCG-AAGTACAAACAGGGGCA-CGTATGT
35213176 ACAA-TAGGGGTAAT-GA
63 ACAATTA-GGGT-ATCGA
* * * * *
35213192 AGTACAACAAGGGCATGTATGTGCAATCAGGGGTATCGAAGTAC-AACAAGGGCACGTATATGCA
1 AGTACAACAGGGGCACGTATGTGCAATCAGGGGTATCGAAGTACAAACAGGGGCACGTATGTACA
* * *
35213256 ATCAAGGCTA-CTAA
66 AT-TAGGGTATC-GA
* * *** * * *
35213270 AGTACAATAGGGGCACGTATGTGTAATCACATGTAGT-AAAGTACAAACAGTGGCACGTATGTGC
1 AGTACAACAGGGGCACGTATGTGCAATCAGGGGTA-TCGAAGTACAAACAGGGGCACGTATGTAC
* *
35213334 AATTAAAGGTATCAA
65 AATT-AGGGTATCGA
* * * * *
35213349 AGTACAAATAGGGGCACGTATGTGCAATCAAGGGTATCGAAGTACAAATAGGGGAACTTATGTAC
1 AGTAC-AACAGGGGCACGTATGTGCAATCAGGGGTATCGAAGTACAAACAGGGGCACGTATGTAC
* *
35213414 AATCAGGGGTACCGA
65 AATTA-GGGTATCGA
* * * * * *
35213429 AGAACAACAGGGGCACGTATGTGCAATCAGGAGTATGGAAGTACAAACAGGGGAAAGTATGTGCA
1 AGTACAACAGGGGCACGTATGTGCAATCAGGGGTATCGAAGTACAAACAGGGGCACGTATGTACA
* *
35213494 ATCAAGGGCATCGA
66 AT-TAGGGTATCGA
*
35213508 AGTACAACAGGGGCACGTATGTGTAATCAGGGGTA-CTGAAGTACAAACAGGGGCACGTATGTAC
1 AGTACAACAGGGGCACGTATGTGCAATCAGGGGTATC-GAAGTACAAACAGGGGCACGTATGTAC
35213572 AATTAGGGTATCGA
65 AATTAGGGTATCGA
* * * *
35213586 AGTACAAATAAGGGCACATATGTGTAATCAGGGG
1 AGTAC-AACAGGGGCACGTATGTGCAATCAGGGG
35213620 CACGTATGTG
Statistics
Matches: 1043, Mismatches: 191, Indels: 120
0.77 0.14 0.09
Matches are distributed among these distances:
76 3 0.00
77 55 0.05
78 250 0.24
79 569 0.55
80 162 0.16
81 2 0.00
82 2 0.00
ACGTcount: A:0.35, C:0.16, G:0.29, T:0.20
Consensus pattern (78 bp):
AGTACAACAGGGGCACGTATGTGCAATCAGGGGTATCGAAGTACAAACAGGGGCACGTATGTACA
ATTAGGGTATCGA
Found at i:35213652 original size:60 final size:59
Alignment explanation
Indices: 35213555--35213675 Score: 170
Period size: 60 Copynumber: 2.0 Consensus size: 59
35213545 GAAGTACAAA
* *
35213555 CAGGGGCACGTATGTACAATTAGGGTATCGAAGTACAAATAAGGGCACATATGTGTAAT
1 CAGGGGCACGTATGTACAATCAGGGTATCGAAGTACAAATAAGGGCACATATGTGCAAT
* * * **
35213614 CAGGGGCACGTATGTGCAATCAGGGGTATTGAAGTACAAATAGGGGCATGTATGTGCAAT
1 CAGGGGCACGTATGTACAATCA-GGGTATCGAAGTACAAATAAGGGCACATATGTGCAAT
35213674 CA
1 CA
35213676 AGGGTATCGA
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
59 20 0.37
60 34 0.63
ACGTcount: A:0.33, C:0.14, G:0.30, T:0.23
Consensus pattern (59 bp):
CAGGGGCACGTATGTACAATCAGGGTATCGAAGTACAAATAAGGGCACATATGTGCAAT
Found at i:35213670 original size:40 final size:39
Alignment explanation
Indices: 35213615--35213696 Score: 128
Period size: 40 Copynumber: 2.1 Consensus size: 39
35213605 ATGTGTAATC
* *
35213615 AGGGGCACGTATGTGCAATCAGGGGTATTGAAGTACAAAT
1 AGGGGCACGTATGTGCAATCAAGGGTATCGAAGTAC-AAT
*
35213655 AGGGGCATGTATGTGCAATCAAGGGTATCGAAGTACAAT
1 AGGGGCACGTATGTGCAATCAAGGGTATCGAAGTACAAT
35213694 AGG
1 AGG
35213697 TGTGACAGCC
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
39 6 0.15
40 33 0.85
ACGTcount: A:0.33, C:0.12, G:0.33, T:0.22
Consensus pattern (39 bp):
AGGGGCACGTATGTGCAATCAAGGGTATCGAAGTACAAT
Found at i:35215299 original size:40 final size:40
Alignment explanation
Indices: 35215268--35215597 Score: 493
Period size: 40 Copynumber: 8.3 Consensus size: 40
35215258 GGACTAAGAT
* * * *
35215268 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGTTATTAAA-TCCGGGTTAAGTC
* * * *
35215308 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
35215348 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
35215388 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
35215428 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
*
35215468 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
35215508 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
35215548 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
35215587 CCGAAGGCATT
1 CCGAAGGCATT
35215598 TGAACGAGGA
Statistics
Matches: 275, Mismatches: 14, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
39 34 0.12
40 238 0.87
41 3 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:35215352 original size:80 final size:80
Alignment explanation
Indices: 35215215--35215597 Score: 495
Period size: 80 Copynumber: 4.8 Consensus size: 80
35215205 TTGAATGCTG
* * * * * * **
35215215 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
* * *
35215278 TTGTGCGAGATA-CAAA
64 TCGTGCGAGTTATTAAA
* * * *
35215294 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 -TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
35215359 CGTGCGAGTTATTAAA
65 CGTGCGAGTTATTAAA
*
35215375 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
35215440 GTGCGAGTTATTAAA
66 GTGCGAGTTATTAAA
**
35215455 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
*
35215520 GTGCGAGTTGTTAAA
66 GTGCGAGTTATTAAA
* * * * *
35215535 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
35215598 TGAACGAGGA
Statistics
Matches: 274, Mismatches: 26, Indels: 7
0.89 0.08 0.02
Matches are distributed among these distances:
79 34 0.12
80 230 0.84
81 10 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
GTGCGAGTTATTAAA
Found at i:35215431 original size:120 final size:120
Alignment explanation
Indices: 35215215--35215597 Score: 495
Period size: 120 Copynumber: 3.2 Consensus size: 120
35215205 TTGAATGCTG
* * * * * **
35215215 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
* * * * *
35215278 TTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
64 TCGTGCGAGTTATTAAA-TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGTTACTAAA
*
35215335 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
* * *
35215400 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
66 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGTTACTAAA
* *
35215455 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
* * * *
35215520 GTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAA
66 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGTTACTAAA
* *
35215574 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
35215598 TGAACGAGGA
Statistics
Matches: 233, Mismatches: 27, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
119 36 0.15
120 188 0.81
121 9 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGTTACTAAA
Found at i:35223368 original size:40 final size:40
Alignment explanation
Indices: 35223285--35223467 Score: 131
Period size: 40 Copynumber: 4.6 Consensus size: 40
35223275 TTGAATGCTG
* * * * *
35223285 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGA-T-ACTAAA
* *
35223325 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTCGTGCGAGATACTAAA
** * * *
35223365 TCCGGGTTAAGTCCCGAAGGCATTCGTGTGAGTTATTAAA
1 TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
** * * *
35223405 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
* * *
35223444 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGACTAAGTCCCGAAGGCATT
35223468 TGAACGAGGA
Statistics
Matches: 124, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
39 37 0.30
40 76 0.61
41 10 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
Done.