Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008032.1 Hibiscus syriacus cultivar Beakdansim tig00110514_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1200719
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 5
Found at i:558592 original size:131 final size:132
Alignment explanation
Indices: 558363--558679 Score: 329
Period size: 131 Copynumber: 2.4 Consensus size: 132
558353 AAATCTAGTT
* *
558363 GGTGGATGACATGGTTCCTACGC-GATGAGGACGGTAGACAATCTTTAGGGAGGGTGATAACACG
1 GGTGGATGACATAGTTCCTAC-CTGATGAGGACGGTAGACAATCTTTA--GAGGATGATAACACG
* * * * ** * *
558427 GTTCCTATGCGATGAGGAAGGTTGGTTATATAGGGGTGACATGGCTGTTACGCAATGAGGAGGTC
63 GTTCCTATACGATGAGGAAGGTTGGTTATATAGGGATGACACGACTCCTACACAATGAGGAGGTA
558492 TGGTC
128 TGGTC
* * * *
558497 GGTGGATGACATAGTTCTTACCTGATGAGGACTGTA-AGCCATCTTTA-AGGATGATAACATGGT
1 GGTGGATGACATAGTTCCTACCTGATGAGGACGGTAGA-CAATCTTTAGAGGATGATAACACGGT
* * * * **
558560 TCCTATATGATGAGGACGGTTGGTTATCTAGGGATGACACGATTCCTACATGATGAGGAGGTATG
65 TCCTATACGATGAGGAAGGTTGGTTATATAGGGATGACACGACTCCTACACAATGAGGAGGTATG
558625 GTC
130 GTC
* ** * *
558628 GGTGGATGACACAGTTCCTAAGTGATGAGGATGGCT-GACCATCTTTAG-GGAT
1 GGTGGATGACATAGTTCCTACCTGATGAGGACGG-TAGACAATCTTTAGAGGAT
558680 TTATTTCAAG
Statistics
Matches: 152, Mismatches: 26, Indels: 13
0.80 0.14 0.07
Matches are distributed among these distances:
131 109 0.72
132 2 0.01
133 2 0.01
134 39 0.26
ACGTcount: A:0.25, C:0.15, G:0.33, T:0.27
Consensus pattern (132 bp):
GGTGGATGACATAGTTCCTACCTGATGAGGACGGTAGACAATCTTTAGAGGATGATAACACGGTT
CCTATACGATGAGGAAGGTTGGTTATATAGGGATGACACGACTCCTACACAATGAGGAGGTATGG
TC
Found at i:558731 original size:36 final size:35
Alignment explanation
Indices: 558678--558863 Score: 137
Period size: 36 Copynumber: 5.5 Consensus size: 35
558668 ATCTTTAGGG
*
558678 ATTTATTTCAAGAGAAACTGTCTCAGGAGAGACAAA
1 ATTTGTTTCAAGAGAAACTGTCTCA-GAGAGACAAA
* * *
558714 ATTTGTTTCAAGGGAAACAGACTCA-A-AGAC---
1 ATTTGTTTCAAGAGAAACTGTCTCAGAGAGACAAA
* * *
558744 ATTTGTTTCAAGAAAAATTATCTCAAGAGAGACAAA
1 ATTTGTTTCAAGAGAAACTGTCTC-AGAGAGACAAA
**
558780 ACTTTGTTTCAA-ATGAAACAATCTCA-A-AG-----
1 A-TTTGTTTCAAGA-GAAACTGTCTCAGAGAGACAAA
*
558809 TTTGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAA
1 ATT-TGTTTCAAGAGAAACTGTCTC-AGAGAGACAAA
558846 ATTTGTTTCAAGAGAAAC
1 ATTTGTTTCAAGAGAAAC
558864 AATCTCAAAT
Statistics
Matches: 115, Mismatches: 17, Indels: 36
0.68 0.10 0.21
Matches are distributed among these distances:
28 2 0.02
29 17 0.15
30 20 0.17
31 2 0.02
32 3 0.03
33 8 0.07
34 3 0.03
35 1 0.01
36 39 0.34
37 20 0.17
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.27
Consensus pattern (35 bp):
ATTTGTTTCAAGAGAAACTGTCTCAGAGAGACAAA
Found at i:558878 original size:65 final size:65
Alignment explanation
Indices: 558683--558878 Score: 254
Period size: 66 Copynumber: 3.0 Consensus size: 65
558673 TAGGGATTTA
* * *
558683 TTTCAAGAGAAACTGTCTCAGGAGAGACAAAATTTGTTTCAAGGGAAACAGA-CTCAAAGACATT
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACA-ATCTC-AA-ACTTT
558747 -TG
63 GTG
* * * *
558749 TTTCAAGAAAAATTATCTCAAGAGAGACAAAACTTTGTTTCAA-ATGAAACAATCTCAAAGTTTG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTCAAGA-GAAACAATCTCAAACTTTG
558813 TG
64 TG
*
558815 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAATTTTGT
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAACTTTGT
558879 CAATTTTGTT
Statistics
Matches: 114, Mismatches: 11, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
65 32 0.28
66 63 0.55
67 19 0.17
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (65 bp):
TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAACTTTGTG
Found at i:559093 original size:36 final size:36
Alignment explanation
Indices: 559016--559104 Score: 106
Period size: 36 Copynumber: 2.4 Consensus size: 36
559006 TCGTATTCCG
* ** *
559016 AGAGAAATTATCTCAAGTGAGACAAAATTTGTTTCA
1 AGAGAAATTGTCTCAAACGAGACAAAACTTGTTTCA
**
559052 AGAGAAATTGTCTCAAACGAGACAAAACTTGTTTTT
1 AGAGAAATTGTCTCAAACGAGACAAAACTTGTTTCA
*
559088 TGAGAAAATTGTCTCAA
1 AGAG-AAATTGTCTCAA
559105 GCGATATGAT
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
36 33 0.73
37 12 0.27
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.30
Consensus pattern (36 bp):
AGAGAAATTGTCTCAAACGAGACAAAACTTGTTTCA
Found at i:562720 original size:32 final size:32
Alignment explanation
Indices: 562679--562751 Score: 137
Period size: 32 Copynumber: 2.3 Consensus size: 32
562669 ATCTACCCAA
562679 ACATGCTTTTATTAAATAACATTCCTATATGG
1 ACATGCTTTTATTAAATAACATTCCTATATGG
*
562711 ACATGCTTTTATTAAATAACATTCCTATCTGG
1 ACATGCTTTTATTAAATAACATTCCTATATGG
562743 ACATGCTTT
1 ACATGCTTT
562752 CTACCAAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.41
Consensus pattern (32 bp):
ACATGCTTTTATTAAATAACATTCCTATATGG
Found at i:566028 original size:3 final size:3
Alignment explanation
Indices: 566022--566056 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
566012 GTTAATGATG
566022 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
566057 ATAAATGACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:567891 original size:2 final size:2
Alignment explanation
Indices: 567884--567927 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
567874 TTCTCAAGTT
567884 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
567926 TA
1 TA
567928 CATGTCTGAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:569648 original size:19 final size:20
Alignment explanation
Indices: 569610--569648 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
569600 CGTTGAACAG
569610 GGGGGAATCGGTACTCCCTAT
1 GGGGGAATCGGTA-TCCCTAT
569631 GGGGGAATCGGT-TCCCTA
1 GGGGGAATCGGTATCCCTA
569649 CGAGCATTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
21 12 0.67
ACGTcount: A:0.18, C:0.23, G:0.36, T:0.23
Consensus pattern (20 bp):
GGGGGAATCGGTATCCCTAT
Found at i:573262 original size:21 final size:21
Alignment explanation
Indices: 573226--573338 Score: 109
Period size: 23 Copynumber: 5.1 Consensus size: 21
573216 GCACCAAAGT
*
573226 ACCACATATAATGTCCCGAAGG
1 ACCACATA-GATGTCCCGAAGG
*
573248 ACCACATAGATGTCCCGAAGA
1 ACCACATAGATGTCCCGAAGG
* * * *
573269 ACCGCGTAGAAATGCCCCCAAGG
1 ACCACATAG--ATGTCCCGAAGG
* *
573292 ACCACGTAGAATTATCCCGAAGG
1 ACCACATAG-A-TGTCCCGAAGG
573315 ACCACATAGATGTCCCGAAGG
1 ACCACATAGATGTCCCGAAGG
573336 ACC
1 ACC
573339 GGGTAGAACC
Statistics
Matches: 75, Mismatches: 13, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
21 31 0.41
22 11 0.15
23 33 0.44
ACGTcount: A:0.35, C:0.30, G:0.21, T:0.14
Consensus pattern (21 bp):
ACCACATAGATGTCCCGAAGG
Found at i:573314 original size:23 final size:21
Alignment explanation
Indices: 573288--573338 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
573278 AAATGCCCCC
* *
573288 AAGGACCACGTAGAATTATCCCG
1 AAGGACCACATAG-A-TGTCCCG
573311 AAGGACCACATAGATGTCCCG
1 AAGGACCACATAGATGTCCCG
573332 AAGGACC
1 AAGGACC
573339 GGGTAGAACC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 13 0.50
22 1 0.04
23 12 0.46
ACGTcount: A:0.35, C:0.27, G:0.24, T:0.14
Consensus pattern (21 bp):
AAGGACCACATAGATGTCCCG
Found at i:573336 original size:44 final size:42
Alignment explanation
Indices: 573226--573338 Score: 109
Period size: 44 Copynumber: 2.6 Consensus size: 42
573216 GCACCAAAGT
* *
573226 ACCACATATAATGTCCCGAAGGACCACATAGATGTCCCGAAGA
1 ACCACATA-GATGTCCCGAAGGACCACATAGATATCCCGAAGA
* * * * * *
573269 ACCGCGTAGAAATGCCCCCAAGGACCACGTAGAATTATCCCGAAGG
1 ACCACATAG--ATGTCCCGAAGGACCACATAG-A-TATCCCGAAGA
573315 ACCACATAGATGTCCCGAAGGACC
1 ACCACATAGATGTCCCGAAGGACC
573339 GGGTAGAACC
Statistics
Matches: 54, Mismatches: 12, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
43 6 0.11
44 31 0.57
45 1 0.02
46 16 0.30
ACGTcount: A:0.35, C:0.30, G:0.21, T:0.14
Consensus pattern (42 bp):
ACCACATAGATGTCCCGAAGGACCACATAGATATCCCGAAGA
Found at i:577901 original size:60 final size:59
Alignment explanation
Indices: 577792--577961 Score: 164
Period size: 60 Copynumber: 2.8 Consensus size: 59
577782 AACATATACG
* * * *
577792 TATAGTTTATGATGAAATTGAAATGTTCAAAACATTTAGGGA-TCAATTTAGAATGA-AGGT
1 TATAGTTTAGGATGAAATTAAAATATTCAAAA-ATTTAGGGACT-AATTTAGAATGATA-AT
* * * *
577852 TATAGTTTGAGGATGAAAATAAAATATTCAAAAGTTTAAGGACTAATTTATAATGATAAT
1 TATAGTTT-AGGATGAAATTAAAATATTCAAAAATTTAGGGACTAATTTAGAATGATAAT
* * * * *
577912 CATAGCTTAGGGATGAAATTAGAATATTTAAAATTTTAGGGACTAATTTA
1 TATAGTTTA-GGATGAAATTAAAATATTCAAAAATTTAGGGACTAATTTA
577962 ATATAAGAAT
Statistics
Matches: 91, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
59 1 0.01
60 68 0.75
61 22 0.24
ACGTcount: A:0.42, C:0.05, G:0.18, T:0.35
Consensus pattern (59 bp):
TATAGTTTAGGATGAAATTAAAATATTCAAAAATTTAGGGACTAATTTAGAATGATAAT
Found at i:577973 original size:60 final size:60
Alignment explanation
Indices: 577862--577975 Score: 149
Period size: 60 Copynumber: 1.9 Consensus size: 60
577852 TATAGTTTGA
* *
577862 GGATGAAAATAAAATATTCAAAAGTTTAAGGACTAATTTATAATGATAATCATAGCTTAG
1 GGATGAAAATAAAATATTCAAAAGTTTAAGGACTAATTTATAATAAGAATCATAGCTTAG
* * * * *
577922 GGATGAAATTAGAATATTTAAAATTTTAGGGACTAATTTA-ATATAAGAATCATA
1 GGATGAAAATAAAATATTCAAAAGTTTAAGGACTAATTTATA-ATAAGAATCATA
577976 CTTTAAAGAC
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
59 1 0.02
60 45 0.98
ACGTcount: A:0.46, C:0.05, G:0.15, T:0.33
Consensus pattern (60 bp):
GGATGAAAATAAAATATTCAAAAGTTTAAGGACTAATTTATAATAAGAATCATAGCTTAG
Found at i:578237 original size:17 final size:17
Alignment explanation
Indices: 578198--578237 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
578188 TAAAAATAAC
*
578198 TTAAAATTATATTTCCT
1 TTAAAACTATATTTCCT
* *
578215 TAAAAACTATATTTTCT
1 TTAAAACTATATTTCCT
578232 TTAAAA
1 TTAAAA
578238 TGACCAAAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.47
Consensus pattern (17 bp):
TTAAAACTATATTTCCT
Found at i:586489 original size:18 final size:18
Alignment explanation
Indices: 586452--586485 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
586442 TTTTAAGATT
586452 TTATATTCGATTCAAATA
1 TTATATTCGATTCAAATA
586470 TTATATTCGATT-AAAT
1 TTATATTCGATTCAAAT
586486 TATTCGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (18 bp):
TTATATTCGATTCAAATA
Found at i:586720 original size:18 final size:18
Alignment explanation
Indices: 586697--586746 Score: 100
Period size: 18 Copynumber: 2.8 Consensus size: 18
586687 ATCCAAAAGA
586697 GGTATCGATACCCTACAT
1 GGTATCGATACCCTACAT
586715 GGTATCGATACCCTACAT
1 GGTATCGATACCCTACAT
586733 GGTATCGATACCCT
1 GGTATCGATACCCT
586747 TATATATAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (18 bp):
GGTATCGATACCCTACAT
Found at i:586901 original size:20 final size:22
Alignment explanation
Indices: 586851--586905 Score: 69
Period size: 24 Copynumber: 2.5 Consensus size: 22
586841 TACCATGACC
586851 GGTATCGATACTACTTTACATA
1 GGTATCGATACTACTTTACATA
*
586873 GTAGTATCGATACTCCTTTA-A-A
1 G--GTATCGATACTACTTTACATA
586895 GGTATCGATAC
1 GGTATCGATAC
586906 CGTTGGTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
20 10 0.33
22 3 0.10
23 1 0.03
24 16 0.53
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (22 bp):
GGTATCGATACTACTTTACATA
Found at i:595065 original size:18 final size:18
Alignment explanation
Indices: 595042--595080 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
595032 TTTTAAGATT
595042 TTATATTCGATTTAAA-TA
1 TTATATTCGA-TTAAATTA
595060 TTATATTCGATTAAATTA
1 TTATATTCGATTAAATTA
595078 TTA
1 TTA
595081 GAATATTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.51
Consensus pattern (18 bp):
TTATATTCGATTAAATTA
Found at i:603191 original size:24 final size:26
Alignment explanation
Indices: 603137--603191 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 26
603127 CAAACCTTCG
* *
603137 GCTATACACTTTGTTCTCATTTTCCT
1 GCTATACACTTTGTTCTCACTTTCAT
* *
603163 TCTATACA-TTT-TTCTCCCTTTCAT
1 GCTATACACTTTGTTCTCACTTTCAT
603187 GCTAT
1 GCTAT
603192 TTGTTTAGAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
24 14 0.58
25 3 0.12
26 7 0.29
ACGTcount: A:0.16, C:0.27, G:0.05, T:0.51
Consensus pattern (26 bp):
GCTATACACTTTGTTCTCACTTTCAT
Found at i:613289 original size:30 final size:30
Alignment explanation
Indices: 613253--613325 Score: 128
Period size: 30 Copynumber: 2.4 Consensus size: 30
613243 CCCGAAGGAC
613253 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
613283 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* *
613313 CTGTCCATAGGTC
1 CTATCCAGAGGTC
613326 CCGAAGAACC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:613349 original size:31 final size:31
Alignment explanation
Indices: 613311--613436 Score: 137
Period size: 31 Copynumber: 4.1 Consensus size: 31
613301 GATCCTCGGT
* *
613311 AACTGTCCATAGGTCCCGAAGAACCTAGGTA
1 AACTGTCCATATGTCCCGAAGAACATAGGTA
* **
613342 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTCCCGAAGAACATAGGTA
* * **
613373 TACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTCCCGAAGAACATAGGTA
* *
613404 TACTGTCCATATGTCTCGAA-AGACATAGGTA
1 AACTGTCCATATGTCCCGAAGA-ACATAGGTA
613435 AA
1 AA
613437 ACCCTCGACT
Statistics
Matches: 83, Mismatches: 11, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
30 1 0.01
31 82 0.99
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.29
Consensus pattern (31 bp):
AACTGTCCATATGTCCCGAAGAACATAGGTA
Found at i:614099 original size:2 final size:2
Alignment explanation
Indices: 614092--614122 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
614082 ATACAATTCC
*
614092 TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
614123 CTAACTCATG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:614745 original size:64 final size:62
Alignment explanation
Indices: 614612--614772 Score: 189
Period size: 64 Copynumber: 2.5 Consensus size: 62
614602 TAATGAAGGT
* * *
614612 ATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGTTTGTATTTAATGGGG
1 ATGCATCGATGCACT-C-CTATGCATCGATGCATAAATCCTATTCGATGTTTCTATTTAAT-GGA
* *
614677 ATGCATCGATGCACTCCTTATGCATCGATGCATAAATCCTATTCGATGTTTTCTTTTTAAAT-TA
1 ATGCATCGATGCACTCC-TATGCATCGATGCATAAATCCTATTCGATG-TTTCTATTT-AATGGA
* *
614741 ATGCATCGATGCACTGCATGTGCATCGATGCA
1 ATGCATCGATGCACT-CCTATGCATCGATGCA
614773 CCTTAAACAA
Statistics
Matches: 85, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
63 1 0.01
64 58 0.68
65 23 0.27
66 3 0.04
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (62 bp):
ATGCATCGATGCACTCCTATGCATCGATGCATAAATCCTATTCGATGTTTCTATTTAATGGA
Found at i:616101 original size:29 final size:29
Alignment explanation
Indices: 616059--616128 Score: 131
Period size: 29 Copynumber: 2.4 Consensus size: 29
616049 ACTGTTTTAT
616059 TGATTATATGTTAATAATTAGAATGCATA
1 TGATTATATGTTAATAATTAGAATGCATA
*
616088 TGATTATATGTTAATAATTAGTATGCATA
1 TGATTATATGTTAATAATTAGAATGCATA
616117 TGATTATATGTT
1 TGATTATATGTT
616129 TATTGTTTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.37, C:0.03, G:0.14, T:0.46
Consensus pattern (29 bp):
TGATTATATGTTAATAATTAGAATGCATA
Found at i:618888 original size:31 final size:31
Alignment explanation
Indices: 618829--618888 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
618819 ATTTTTATGG
* * *
618829 TGTAATTTGAATATTAAATTTTTATTTTTTA
1 TGTAATTTAAATAATAAACTTTTATTTTTTA
618860 TGTAA-TTAAATAATAAACTTTTATTTTTT
1 TGTAATTTAAATAATAAACTTTTATTTTTT
618889 GAAAAAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (31 bp):
TGTAATTTAAATAATAAACTTTTATTTTTTA
Found at i:619364 original size:2 final size:2
Alignment explanation
Indices: 619359--619391 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
619349 ACACACACAC
619359 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
619392 AATTTTAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:620391 original size:75 final size:74
Alignment explanation
Indices: 620301--620479 Score: 243
Period size: 75 Copynumber: 2.4 Consensus size: 74
620291 TGCACAAAAA
* * * *
620301 AATGTCATGGTTCACTAAGAAATATGTTGCGATCT-AGTGTTAATATTTTTATTAATAAAATAGG
1 AATGTCATGGTTCACTAAGAAATAGGTTGAGATCTGAATGCTAAT-TTTTTATTAATAAAATAGG
620365 TTACACCCAAG
65 TTAC-CCCAAG
* *
620376 AATGTCATGGTTCACTCAGAAATAGGTTGAGATCTGGAATGCTAATTTTTTATTAATAAAATGGG
1 AATGTCATGGTTCACTAAGAAATAGGTTGAGATCT-GAATGCTAATTTTTTATTAATAAAATAGG
* *
620441 TTGCCTCAAG
65 TTACCCCAAG
*
620451 AATATCATGGTTCACTAAGAAATAGGTTG
1 AATGTCATGGTTCACTAAGAAATAGGTTG
620480 TGAACCATAA
Statistics
Matches: 92, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
75 64 0.70
76 21 0.23
77 7 0.08
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.35
Consensus pattern (74 bp):
AATGTCATGGTTCACTAAGAAATAGGTTGAGATCTGAATGCTAATTTTTTATTAATAAAATAGGT
TACCCCAAG
Found at i:631149 original size:52 final size:52
Alignment explanation
Indices: 631089--631202 Score: 228
Period size: 52 Copynumber: 2.2 Consensus size: 52
631079 ATGAAACCAT
631089 AATTTCGTATAGCTAGGACACCTACTGATGGTTTACTGCAACAAAGTCGTCC
1 AATTTCGTATAGCTAGGACACCTACTGATGGTTTACTGCAACAAAGTCGTCC
631141 AATTTCGTATAGCTAGGACACCTACTGATGGTTTACTGCAACAAAGTCGTCC
1 AATTTCGTATAGCTAGGACACCTACTGATGGTTTACTGCAACAAAGTCGTCC
631193 AATTTCGTAT
1 AATTTCGTAT
631203 CAATAGAAGA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 62 1.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (52 bp):
AATTTCGTATAGCTAGGACACCTACTGATGGTTTACTGCAACAAAGTCGTCC
Found at i:631801 original size:30 final size:32
Alignment explanation
Indices: 631767--631852 Score: 90
Period size: 33 Copynumber: 2.7 Consensus size: 32
631757 ATAGTTTTTA
631767 TATTTTATATT-AAT-ATAATTATATAAATAT
1 TATTTTATATTAAATAATAATTATATAAATAT
* * *
631797 TATTTTTTATTAAAATAATATTTATATAATTAT
1 TATTTTATATT-AAATAATAATTATATAAATAT
631830 TA-TTTAT-TTAAATTAATTAATTA
1 TATTTTATATTAAA-TAA-TAATTA
631853 ATTATTTTTA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
30 13 0.28
31 5 0.11
32 12 0.26
33 16 0.35
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (32 bp):
TATTTTATATTAAATAATAATTATATAAATAT
Found at i:631869 original size:23 final size:24
Alignment explanation
Indices: 631823--631871 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
631813 AATATTTATA
*
631823 TAATTATTATTTATTTAAATTAAT
1 TAATTATTATTTATTTAAACTAAT
631847 TAATTAATTA-TT-TTTAAACTAAT
1 TAATT-ATTATTTATTTAAACTAAT
631870 TA
1 TA
631872 TATTTTTTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 12 0.52
24 7 0.30
25 4 0.17
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (24 bp):
TAATTATTATTTATTTAAACTAAT
Found at i:636159 original size:10 final size:10
Alignment explanation
Indices: 636144--636170 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
636134 TGATTATTTG
636144 TAATATAATT
1 TAATATAATT
636154 TAATATAATT
1 TAATATAATT
636164 TAATATA
1 TAATATA
636171 GGAAGTTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
TAATATAATT
Found at i:636960 original size:22 final size:22
Alignment explanation
Indices: 636932--636978 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
636922 TACTTATGGT
636932 TCCTAGTATCATAGCTAGTGGG
1 TCCTAGTATCATAGCTAGTGGG
636954 TCCTAGTATCATAGCTAGTGGG
1 TCCTAGTATCATAGCTAGTGGG
636976 TCC
1 TCC
636979 AAATCCTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (22 bp):
TCCTAGTATCATAGCTAGTGGG
Found at i:648347 original size:129 final size:133
Alignment explanation
Indices: 648105--648372 Score: 490
Period size: 129 Copynumber: 2.0 Consensus size: 133
648095 AGAGCTGCTG
648105 TTGAACGCAAAGTAAAAATGCTCAAGGTGTATGGGGATTCAACTTTGGTAATTTACCAGCTCAGA
1 TTGAACGCAAAGTAAAAATGCTCAAGGTGTATGGGGATTCAACTTTGGTAATTTACCA-CTCAGA
648170 GGAGAATGAGATATAAATATCCTAAGCTTGTAGAATACTGTAAGTTGGTTATGGAACTTGTTGAA
65 GGAGAATGAGATATAAATATCCTAAGCTTGTAGAATACTGTAAGTTGGTTATGGAACTTGTTGAA
648235 G-AT
130 GAAT
*
648238 TTGAACGCAAAGTAAAAATGCTCAAGGTGTAT-GGGATTCAGCTTTGGTAATTTACC-CTCAGAG
1 TTGAACGCAAAGTAAAAATGCTCAAGGTGTATGGGGATTCAACTTTGGTAATTTACCACTCAGAG
648301 GAGAATGAGATA-AAATATCCTAAGCTTGTAGAATACTGTAAGTTGGTTATGGAACTTGTTGAAG
66 GAGAATGAGATATAAATATCCTAAGCTTGTAGAATACTGTAAGTTGGTTATGGAACTTGTTGAAG
648365 AAT
131 AAT
648368 TTGAA
1 TTGAA
648373 GAAGTAACTT
Statistics
Matches: 133, Mismatches: 1, Indels: 5
0.96 0.01 0.04
Matches are distributed among these distances:
129 52 0.39
130 26 0.20
132 23 0.17
133 32 0.24
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (133 bp):
TTGAACGCAAAGTAAAAATGCTCAAGGTGTATGGGGATTCAACTTTGGTAATTTACCACTCAGAG
GAGAATGAGATATAAATATCCTAAGCTTGTAGAATACTGTAAGTTGGTTATGGAACTTGTTGAAG
AAT
Found at i:648883 original size:21 final size:21
Alignment explanation
Indices: 648858--648899 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
648848 CAAATGTCAT
648858 TTTATGGAGATAAGATATATA
1 TTTATGGAGATAAGATATATA
648879 TTTATGGAGATAAGATATATA
1 TTTATGGAGATAAGATATATA
648900 CCTCCTCATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.19, T:0.38
Consensus pattern (21 bp):
TTTATGGAGATAAGATATATA
Found at i:649821 original size:14 final size:13
Alignment explanation
Indices: 649805--649938 Score: 74
Period size: 14 Copynumber: 9.8 Consensus size: 13
649795 GAAAAAATAA
*
649805 AAAAAGGAAAAAG
1 AAAAAGAAAAAAG
*
649818 AAAAAAGAAAAATG
1 -AAAAAGAAAAAAG
* *
649832 AGAAA-AAAAATG
1 AAAAAGAAAAAAG
***
649844 AAAAATGGTGAAAG
1 AAAAA-GAAAAAAG
649858 AAAAAGAAGAAAAG
1 AAAAAGAA-AAAAG
*
649872 AGAAAATAAAAAATG
1 A-AAAAGAAAAAA-G
*
649887 AAAAAAGAATAAAG
1 -AAAAAGAAAAAAG
649901 AAGAAAGATAAAAA-
1 AA-AAAGA-AAAAAG
** *
649915 ATGATGAAAAAAG
1 AAAAAGAAAAAAG
649928 AAAAAGAAAAA
1 AAAAAGAAAAA
649939 TAAATAAAAG
Statistics
Matches: 90, Mismatches: 21, Indels: 19
0.69 0.16 0.15
Matches are distributed among these distances:
12 16 0.18
13 18 0.20
14 35 0.39
15 20 0.22
16 1 0.01
ACGTcount: A:0.75, C:0.00, G:0.18, T:0.07
Consensus pattern (13 bp):
AAAAAGAAAAAAG
Found at i:649892 original size:30 final size:31
Alignment explanation
Indices: 649858--649942 Score: 97
Period size: 30 Copynumber: 2.8 Consensus size: 31
649848 ATGGTGAAAG
649858 AAAAAGAAGAAAAGAGAAAATAAAAAATGA-
1 AAAAAGAAGAAAAGAGAAAATAAAAAATGAT
*
649888 AAAAAGAA-TAAAGAAGAAAGATAAAAAATGAT
1 AAAAAGAAGAAAAG-AGAAA-ATAAAAAATGAT
*
649920 GAAAA-AAGAAAA-AGAAAAATAAA
1 AAAAAGAAGAAAAGAG-AAAATAAA
649943 TAAAAGGGGG
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
29 4 0.09
30 20 0.43
31 16 0.34
32 7 0.15
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.08
Consensus pattern (31 bp):
AAAAAGAAGAAAAGAGAAAATAAAAAATGAT
Found at i:649934 original size:76 final size:76
Alignment explanation
Indices: 649798--649938 Score: 178
Period size: 76 Copynumber: 1.9 Consensus size: 76
649788 GCTTGATGAA
* * **
649798 AAAATAAAAAAAGGAAAAAGAAAAAAGAAAAATGAGAAAAAAAATGAAAAATGGTGAAAGAAAAA
1 AAAATAAAAAAAGAAAAAAGAAAAAAGAAAAATGAGAAAAAAAATGAAAAATAGAAAAAGAAAAA
649863 GAAGAAAAGAG
66 GAAGAAAAGAG
* * * *
649874 AAAATAAAAAATGAAAAAAGAATAAAGAAGAAA-GATAAAAAATGATGAAAAA-AGAAAAAGAAA
1 AAAATAAAAAAAGAAAAAAGAAAAAAGAA-AAATGAGAAAAAA-AATGAAAAATAGAAAAAGAAA
649937 AA
64 AA
649939 TAAATAAAAG
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
76 44 0.80
77 11 0.20
ACGTcount: A:0.75, C:0.00, G:0.17, T:0.08
Consensus pattern (76 bp):
AAAATAAAAAAAGAAAAAAGAAAAAAGAAAAATGAGAAAAAAAATGAAAAATAGAAAAAGAAAAA
GAAGAAAAGAG
Found at i:651003 original size:17 final size:17
Alignment explanation
Indices: 650972--651004 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
650962 GTTTCACAGG
650972 GATAGTTGAAGATTGAA
1 GATAGTTGAAGATTGAA
650989 GATA-TTGAAGCATTGA
1 GATAGTTGAAG-ATTGA
651005 GACGAAGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.39, C:0.03, G:0.27, T:0.30
Consensus pattern (17 bp):
GATAGTTGAAGATTGAA
Found at i:651314 original size:36 final size:36
Alignment explanation
Indices: 651230--651373 Score: 207
Period size: 36 Copynumber: 3.9 Consensus size: 36
651220 AGTTCAATCT
* * * * * * *
651230 TAAGCCTTCATGAAAGAGCAATGAAGCAATTCAAACT
1 TAAGCCTTCACGGAAGAGTAGTGAAGCAAATC-ATCA
651267 TAAGCCTTCACGGAAGAGTAGTGAAGCAAATCATCA
1 TAAGCCTTCACGGAAGAGTAGTGAAGCAAATCATCA
651303 TAAGCCTTCACGGAAGAGTAGTGAAGCAAATCATCA
1 TAAGCCTTCACGGAAGAGTAGTGAAGCAAATCATCA
651339 TAAGCCTTCACGGAAGAGTAGTGAAGCAAACTCAT
1 TAAGCCTTCACGGAAGAGTAGTGAAGCAAA-TCAT
651374 TTTATGAAGA
Statistics
Matches: 99, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
36 68 0.69
37 31 0.31
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.20
Consensus pattern (36 bp):
TAAGCCTTCACGGAAGAGTAGTGAAGCAAATCATCA
Found at i:651454 original size:55 final size:55
Alignment explanation
Indices: 651371--651691 Score: 320
Period size: 55 Copynumber: 5.9 Consensus size: 55
651361 GAAGCAAACT
* * *
651371 CATTTTATGAAGA---TT-GAGTTCTATACTCTCTGATA-AAATAGGGAGCGAACC
1 CATTTTATGAAGATTGTTCGAGTTCTATACTCTCTGA-AGGAATAGAGAGCGGACC
*
651422 CATTTTATGAAGATTGTTTGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACC
1 CATTTTATGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACC
*
651477 CATTTGT-TGAAGATTATTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACC
1 CATTT-TATGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACC
* * * * *
651532 CGTTTTATGAAGATTGTTCGAGTTCTATACTCCCTGAACGAATAGGGAGCGGACT
1 CATTTTATGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACC
* * * * * * ** **
651587 C-GTTTATTGAAGATTATTCAAG-TCTTATACTCCCTGAACGAATAGGGAGCAAATA
1 CATTTTA-TGAAGATTGTTCGAGTTC-TATACTCTCTGAAGGAATAGAGAGCGGACC
* *
651642 CATTTTATGAATATTGTTCGAG-TCTTATACT-TCCTGAAGGAATAGGGAGC
1 CATTTTATGAAGATTGTTCGAGTTC-TATACTCT-CTGAAGGAATAGAGAGC
651692 AGGCTTGTTA
Statistics
Matches: 235, Mismatches: 24, Indels: 18
0.85 0.09 0.06
Matches are distributed among these distances:
51 13 0.06
54 10 0.04
55 207 0.88
56 5 0.02
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (55 bp):
CATTTTATGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACC
Found at i:651582 original size:110 final size:109
Alignment explanation
Indices: 651386--651691 Score: 391
Period size: 110 Copynumber: 2.8 Consensus size: 109
651376 TATGAAGATT
* *
651386 GAGTTCTATACTCTCTGATAAAATAGGGAGCGAACCCATTTTATGAAGATTGTTTGAGTTCTATA
1 GAGTTCTATACTCTCTGA-AGAATAGGGAGCGAACCCATTTTATGAAGATTGTTCGAGTTCTATA
* * *
651451 CTCTCTGAAGGAATAGAGAGCGGACCCATTTGTTGAAGATTATTC
65 CTCCCTGAAGGAATAGGGAGCGGACCCATTTATTGAAGATTATTC
* * *
651496 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATGAAGATTGTTCGAGTTCTATA
1 GAGTTCTATACTCTCTGAA-GAATAGGGAGCGAACCCATTTTATGAAGATTGTTCGAGTTCTATA
* * *
651561 CTCCCTGAACGAATAGGGAGCGGACTCGTTTATTGAAGATTATTC
65 CTCCCTGAAGGAATAGGGAGCGGACCCATTTATTGAAGATTATTC
* * * ** *
651606 AAG-TCTTATACTCCCTGAACGAATAGGGAGCAAATACATTTTATGAATATTGTTCGAG-TCTTA
1 GAGTTC-TATACTCTCTGAA-GAATAGGGAGCGAACCCATTTTATGAAGATTGTTCGAGTTC-TA
*
651669 TACTTCCTGAAGGAATAGGGAGC
63 TACTCCCTGAAGGAATAGGGAGC
651692 AGGCTTGTTA
Statistics
Matches: 170, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
109 5 0.03
110 165 0.97
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (109 bp):
GAGTTCTATACTCTCTGAAGAATAGGGAGCGAACCCATTTTATGAAGATTGTTCGAGTTCTATAC
TCCCTGAAGGAATAGGGAGCGGACCCATTTATTGAAGATTATTC
Found at i:656905 original size:3 final size:3
Alignment explanation
Indices: 656899--656939 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
656889 TATTATTATT
656899 TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA TAA -AA -AA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
656940 TGGGACAAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 6 0.17
3 30 0.83
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:657926 original size:42 final size:41
Alignment explanation
Indices: 657845--657927 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 41
657835 AGGTCTTATG
* * * * *
657845 GATGACCCGAAGGCTTTATCATCTTTCTCGAAAGGCTTACA
1 GATGACCCGAAGGATTTAACATCATGCTCGAAAGACTTACA
657886 GATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACA
1 GATGACCCGAAGGATTT-AACATCATGCTCGAAAGACTTACA
657928 AATGGCCTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 16 0.44
42 20 0.56
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (41 bp):
GATGACCCGAAGGATTTAACATCATGCTCGAAAGACTTACA
Found at i:659088 original size:18 final size:18
Alignment explanation
Indices: 659065--659131 Score: 90
Period size: 18 Copynumber: 4.0 Consensus size: 18
659055 GGTCACAACT
659065 CGACCCGACCCGTTGACC
1 CGACCCGACCCGTTGACC
*
659083 CGACCCGACCCGTTTACC
1 CGACCCGACCCGTTGACC
659101 CGACCC-A----TTGACC
1 CGACCCGACCCGTTGACC
659114 CGACCCGACCCGTTGACC
1 CGACCCGACCCGTTGACC
659132 GTTGACCCGT
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
17 1 0.02
18 29 0.69
ACGTcount: A:0.18, C:0.49, G:0.19, T:0.13
Consensus pattern (18 bp):
CGACCCGACCCGTTGACC
Found at i:659103 original size:31 final size:31
Alignment explanation
Indices: 659066--659146 Score: 117
Period size: 31 Copynumber: 2.5 Consensus size: 31
659056 GTCACAACTC
659066 GACCCGACCCGTTGACCCGACCCGACCCGTT
1 GACCCGACCCGTTGACCCGACCCGACCCGTT
* *
659097 TACCCGACCCATTGACCCGACCCGACCCGTT
1 GACCCGACCCGTTGACCCGACCCGACCCGTT
*
659128 GACCGTTGACCCGTTGACC
1 GACC--CGACCCGTTGACC
659147 GGAGTTGACC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
31 32 0.74
33 11 0.26
ACGTcount: A:0.17, C:0.46, G:0.21, T:0.16
Consensus pattern (31 bp):
GACCCGACCCGTTGACCCGACCCGACCCGTT
Found at i:659131 original size:13 final size:13
Alignment explanation
Indices: 659084--659120 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
659074 CCGTTGACCC
659084 GACCCGACCCGTT
1 GACCCGACCCGTT
* *
659097 TACCCGACCCATT
1 GACCCGACCCGTT
659110 GACCCGACCCG
1 GACCCGACCCG
659121 ACCCGTTGAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.19, C:0.49, G:0.19, T:0.14
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:661692 original size:24 final size:24
Alignment explanation
Indices: 661598--661704 Score: 81
Period size: 24 Copynumber: 4.5 Consensus size: 24
661588 ATATTTTATA
* * *
661598 TGATTTCTGATTTGAATTCTGTTT
1 TGATATCTGATCTGAATTCTGTTC
* * * *
661622 TGACATATGATCTAAAATCTGTTC
1 TGATATCTGATCTGAATTCTGTTC
* * *
661646 TGAT-TCCTAACCTGGATTCTGTTC
1 TGATAT-CTGATCTGAATTCTGTTC
* *
661670 TGATATCTGATCTGAATTATGTTT
1 TGATATCTGATCTGAATTCTGTTC
*
661694 TGATTTCTGAT
1 TGATATCTGAT
661705 ATCTCCGTTT
Statistics
Matches: 61, Mismatches: 20, Indels: 4
0.72 0.24 0.05
Matches are distributed among these distances:
23 1 0.02
24 59 0.97
25 1 0.02
ACGTcount: A:0.22, C:0.14, G:0.16, T:0.48
Consensus pattern (24 bp):
TGATATCTGATCTGAATTCTGTTC
Found at i:665112 original size:17 final size:18
Alignment explanation
Indices: 665092--665133 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
665082 ATTTTTCATA
665092 TCTTTTTTCTT-TTCCTT
1 TCTTTTTTCTTCTTCCTT
*
665109 TC-TTTTTCTTCTTTCTT
1 TCTTTTTTCTTCTTCCTT
665126 TCTTTTTT
1 TCTTTTTT
665134 TTCCTAATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 8 0.36
17 9 0.41
18 5 0.23
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (18 bp):
TCTTTTTTCTTCTTCCTT
Found at i:665604 original size:10 final size:10
Alignment explanation
Indices: 665589--665629 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
665579 TTTAAATCAA
665589 TATCTTTTTT
1 TATCTTTTTT
665599 TATCTTTTTT
1 TATCTTTTTT
665609 T-TCTTCTTTT
1 TATCTT-TTTT
*
665619 TTTCTTTTTT
1 TATCTTTTTT
665629 T
1 T
665630 CTTCTTACTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
9 4 0.14
10 21 0.72
11 4 0.14
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.83
Consensus pattern (10 bp):
TATCTTTTTT
Found at i:665616 original size:22 final size:20
Alignment explanation
Indices: 665591--665635 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 20
665581 TAAATCAATA
665591 TCTTTTTTTATCTTTTTTTTCT
1 TCTTTTTTT-TC-TTTTTTTCT
665613 TC-TTTTTTTCTTTTTTTCT
1 TCTTTTTTTTCTTTTTTTCT
665632 TCTT
1 TCTT
665636 ACTTTGAGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 11 0.50
20 3 0.14
21 6 0.27
22 2 0.09
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (20 bp):
TCTTTTTTTTCTTTTTTTCT
Found at i:665634 original size:11 final size:11
Alignment explanation
Indices: 665591--665640 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
665581 TAAATCAATA
*
665591 TCTTTTTTT-A
1 TCTTTTTTTCT
665601 TCTTTTTTTTCT
1 TC-TTTTTTTCT
665613 TCTTTTTTTCT
1 TCTTTTTTTCT
665624 T-TTTTTCTTCT
1 TCTTTTT-TTCT
665635 TACTTT
1 T-CTTT
665641 GAGGATTCCC
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
10 7 0.21
11 22 0.65
12 2 0.06
13 3 0.09
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (11 bp):
TCTTTTTTTCT
Found at i:667599 original size:14 final size:14
Alignment explanation
Indices: 667580--667619 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
667570 TTAATTATGC
667580 AAAGATGCAAATGT
1 AAAGATGCAAATGT
**
667594 AAAGATGTGAATGT
1 AAAGATGCAAATGT
667608 AAA-ATGCAAATG
1 AAAGATGCAAATG
667620 AAAATGTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 7 0.32
14 15 0.68
ACGTcount: A:0.50, C:0.05, G:0.23, T:0.23
Consensus pattern (14 bp):
AAAGATGCAAATGT
Found at i:667677 original size:19 final size:20
Alignment explanation
Indices: 667603--667678 Score: 63
Period size: 19 Copynumber: 4.0 Consensus size: 20
667593 TAAAGATGTG
*
667603 AATGTAAAATGCAAATG-AA
1 AATGTAAAATACAAATGCAA
*
667622 AATGTAAAAAGACAAATGC-A
1 AATGT-AAAATACAAATGCAA
* **
667642 AA--TAAAGTATGAATGCAA
1 AATGTAAAATACAAATGCAA
667660 AATG-AAAATACAAATGCAA
1 AATGTAAAATACAAATGCAA
667679 CGAAGGAGTT
Statistics
Matches: 43, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
17 9 0.21
18 4 0.09
19 17 0.40
20 13 0.30
ACGTcount: A:0.59, C:0.08, G:0.14, T:0.18
Consensus pattern (20 bp):
AATGTAAAATACAAATGCAA
Found at i:670671 original size:14 final size:15
Alignment explanation
Indices: 670649--670677 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
670639 TCAATATTAA
670649 AAAATAAATATATTT
1 AAAATAAATATATTT
670664 AAAA-AAATATATTT
1 AAAATAAATATATTT
670678 TTTCCTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AAAATAAATATATTT
Found at i:670713 original size:2 final size:2
Alignment explanation
Indices: 670706--670736 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
670696 GATAAAACTA
670706 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
670737 TTTTCAGTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:671331 original size:17 final size:17
Alignment explanation
Indices: 671309--671345 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
671299 GTGTTCGGCC
671309 GGCGTGGTGCTTCTGGA
1 GGCGTGGTGCTTCTGGA
671326 GGCGTGGTGCTTCTGGA
1 GGCGTGGTGCTTCTGGA
671343 GGC
1 GGC
671346 TTCGATGGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.05, C:0.19, G:0.49, T:0.27
Consensus pattern (17 bp):
GGCGTGGTGCTTCTGGA
Found at i:672138 original size:3 final size:3
Alignment explanation
Indices: 672130--672182 Score: 60
Period size: 3 Copynumber: 19.0 Consensus size: 3
672120 TAGTTTATTT
* *
672130 ATA ATA ATA ATT AT- TTA ATA ATA ATA ATA ATA ATA AT- ATA ATA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
672175 A-A ATA ATA
1 ATA ATA ATA
672183 TGGTATAAGA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
2 7 0.16
3 37 0.84
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:672152 original size:17 final size:16
Alignment explanation
Indices: 672124--672157 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
672114 CTGTTATAGT
672124 TTATTTATAATAATAA
1 TTATTTATAATAATAA
672140 TTATTTAATAATAATAA
1 TTATTT-ATAATAATAA
672157 T
1 T
672158 AATAATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTATTTATAATAATAA
Found at i:672170 original size:20 final size:21
Alignment explanation
Indices: 672130--672183 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 21
672120 TAGTTTATTT
* *
672130 ATAATAATAATTATTTA-ATA
1 ATAATAATAATAATATATATA
672150 ATAATAATAATAATA-ATATA
1 ATAATAATAATAATATATATA
672170 ATAA-AA-AATAATAT
1 ATAATAATAATAATAT
672184 GGTATAAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 7 0.23
19 3 0.10
20 20 0.67
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
ATAATAATAATAATATATATA
Found at i:672633 original size:41 final size:42
Alignment explanation
Indices: 672571--672683 Score: 115
Period size: 42 Copynumber: 2.7 Consensus size: 42
672561 CATTCTGCCC
* * * *
672571 AAAGGTCTTAT-GAATGGCCCGAATGACTT-ATCATCTTGCTCG
1 AAAGG-CTTATAG-ATGACCCGAAGGACTTAAGCATCATGCTCG
*
672613 AAAGGCTTATAGATGACCCGAAGGATTTAAGCATCATGCTCG
1 AAAGGCTTATAGATGACCCGAAGGACTTAAGCATCATGCTCG
* *
672655 AAAGACTTATAGATGGA-CTGAAGGACTTA
1 AAAGGCTTATAGAT-GACCCGAAGGACTTA
672684 CGAATCAAGA
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
41 18 0.30
42 40 0.67
43 2 0.03
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.27
Consensus pattern (42 bp):
AAAGGCTTATAGATGACCCGAAGGACTTAAGCATCATGCTCG
Found at i:673186 original size:260 final size:264
Alignment explanation
Indices: 672572--673209 Score: 948
Period size: 265 Copynumber: 2.4 Consensus size: 264
672562 ATTCTGCCCA
* * * * *
672572 AAGGTCTTATGAATGGCCCGAATGAC-TTATCATCTTGCTCGAAAGGCTTATAGATGACCCGAAG
1 AAGGTCTTATGGATGACCTGAA-GGCTTTATCATCTTGCTCGAAAGGCTTACAGATGACCCGAAG
* * * *
672636 GATTTAAGCATCATGCTCGAAAGACTTATAGATGGACTGAAGGACTTACGAATCAAGAAACCCTC
65 GATTTAAACATCATGCTCGAAAGACTTACAGATGGCCCGAAGGACTTACGAATCAAGAAACCCTC
* * *
672701 GAAAGCTTAGTTTATTAGTTGTCAAGGAACCCCTTTGTTTGGCTTACCTTCCTTTAACAACTCTT
130 GAAAACTTAGTTTATTAGTTGTCAAGGAACCCCTTTATTAGGCTTACCTTCCTTTAACAACTCTT
*
672766 TTGAGATAATTAGAAAACCCCTTAAAATTAGGCTTAGTTTCTAAAATCTCATTTGAAAACATCCA
195 TTGAGATAATTAGAAAACCCCTTAAAA-TAGGCTTAGTTTCTAAAATCGCATTTGAAAACATCCA
672831 ACACTG
259 ACACTG
** * *
672837 AAGGTCTTATGGAT-TTCTCGAAGGCTTTATCATCTTACTC-AAAAGCTTGACAGATGACCCGAA
1 AAGGTCTTATGGATGACCT-GAAGGCTTTATCATCTTGCTCGAAAGGCTT-ACAGATGACCCGAA
*
672900 GGATTTAAACATCATGCTCAAAAGACTTACAGATGGCCCGAAGGACTTACGAATCAAGAAACCCT
64 GGATTTAAACATCATGCTCGAAAGACTTACAGATGGCCCGAAGGACTTACGAATCAAGAAACCCT
* *
672965 CGAAAACTTAGTTTCTTAGTTGTCAAGGAACCCCTTTATTAGGCTTAGCTTCCTTTAACAACTCT
129 CGAAAACTTAGTTTATTAGTTGTCAAGGAACCCCTTTATTAGGCTTACCTTCCTTTAACAACTCT
* * * * *
673030 TTTTAGATAATTAGGAAA-TCC-T-GAA-AGGCTTAGTTTCTAAAATCGCATTTGAAAGCATCCA
194 TTTGAGATAATTAGAAAACCCCTTAAAATAGGCTTAGTTTCTAAAATCGCATTTGAAAACATCCA
*
673091 GCACTG
259 ACACTG
673097 AAGGTCTTATGGATGACCTGAAGGCTTTATCATCTTGCTCGAAAGGCTTACAGATGACCCGAAGG
1 AAGGTCTTATGGATGACCTGAAGGCTTTATCATCTTGCTCGAAAGGCTTACAGATGACCCGAAGG
*
673162 ATTTAAACATCATGCTCGAAAGACTTACAGATGGCCCGAATGACTTAC
66 ATTTAAACATCATGCTCGAAAGACTTACAGATGGCCCGAAGGACTTAC
673210 AAATTTAGGA
Statistics
Matches: 337, Mismatches: 31, Indels: 15
0.88 0.08 0.04
Matches are distributed among these distances:
260 135 0.40
261 9 0.03
262 2 0.01
263 1 0.00
264 12 0.04
265 178 0.53
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (264 bp):
AAGGTCTTATGGATGACCTGAAGGCTTTATCATCTTGCTCGAAAGGCTTACAGATGACCCGAAGG
ATTTAAACATCATGCTCGAAAGACTTACAGATGGCCCGAAGGACTTACGAATCAAGAAACCCTCG
AAAACTTAGTTTATTAGTTGTCAAGGAACCCCTTTATTAGGCTTACCTTCCTTTAACAACTCTTT
TGAGATAATTAGAAAACCCCTTAAAATAGGCTTAGTTTCTAAAATCGCATTTGAAAACATCCAAC
ACTG
Found at i:673189 original size:42 final size:41
Alignment explanation
Indices: 673108--673201 Score: 125
Period size: 42 Copynumber: 2.3 Consensus size: 41
673098 AGGTCTTATG
* * * * *
673108 GATGACCTGAAGGCTTTATCATCTTGCTCGAAAGGCTTACA
1 GATGACCCGAAGGATTTAACATCATGCTCGAAAGACTTACA
673149 GATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACA
1 GATGACCCGAAGGATTT-AACATCATGCTCGAAAGACTTACA
*
673191 GATGGCCCGAA
1 GATGACCCGAA
673202 TGACTTACAA
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
41 15 0.33
42 31 0.67
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.23
Consensus pattern (41 bp):
GATGACCCGAAGGATTTAACATCATGCTCGAAAGACTTACA
Found at i:675860 original size:17 final size:17
Alignment explanation
Indices: 675838--675872 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
675828 TCTGGATCCC
675838 TCTAAACTGGCAATTTT
1 TCTAAACTGGCAATTTT
675855 TCTAAACTGGCAATTTT
1 TCTAAACTGGCAATTTT
675872 T
1 T
675873 GGGTTTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.43
Consensus pattern (17 bp):
TCTAAACTGGCAATTTT
Found at i:676064 original size:15 final size:16
Alignment explanation
Indices: 676044--676082 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
676034 TTTCTATCCT
676044 TTTTTTTC-TT-TTTC
1 TTTTTTTCTTTCTTTC
676058 GTTTTTTTCTTTCTTTC
1 -TTTTTTTCTTTCTTTC
676075 TTTTTTTC
1 TTTTTTTC
676083 AAATAGATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 8 0.36
16 10 0.45
17 4 0.18
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (16 bp):
TTTTTTTCTTTCTTTC
Found at i:676570 original size:19 final size:20
Alignment explanation
Indices: 676548--676585 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
676538 TTTGTTTATC
676548 TCTTTTCTCTTCTT-TTTTT
1 TCTTTTCTCTTCTTATTTTT
*
676567 TCTTTTTTCTTCTTATTTT
1 TCTTTTCTCTTCTTATTTT
676586 GAGCATTCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (20 bp):
TCTTTTCTCTTCTTATTTTT
Found at i:676580 original size:22 final size:21
Alignment explanation
Indices: 676536--676585 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 21
676526 TAAATCAATC
676536 TCTTTGTTTATCTCTTTTCTCT
1 TCTTT-TTTATCTCTTTTCTCT
*
676558 TCTTTTTT-T-TCTTTTTTCT
1 TCTTTTTTATCTCTTTTCTCT
676577 TCTTATTTT
1 TCTT-TTTT
676586 GAGCATTCCC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 13 0.50
20 5 0.19
21 3 0.12
22 5 0.19
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.76
Consensus pattern (21 bp):
TCTTTTTTATCTCTTTTCTCT
Found at i:681627 original size:18 final size:21
Alignment explanation
Indices: 681604--681648 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
681594 CTCTTTCTTC
681604 AATATT-A-AAAATTA-AATA
1 AATATTAATAAAATTATAATA
681622 AATATTAATAAAATTATAATA
1 AATATTAATAAAATTATAATA
*
681643 ATTATT
1 AATATT
681649 CCTAAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 6 0.26
19 1 0.04
20 7 0.30
21 9 0.39
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AATATTAATAAAATTATAATA
Found at i:691960 original size:21 final size:21
Alignment explanation
Indices: 691936--692031 Score: 63
Period size: 20 Copynumber: 4.5 Consensus size: 21
691926 ATTAATTTCG
691936 TTTATACATCCTTTCATGCCT
1 TTTATACATCCTTTCATGCCT
* ** *
691957 TTTATACA-CCATGGTACATTTCA
1 TTTATACATCC-T--TTCATGCCT
*
691980 TTTATGGCATCCTTTCATGCCT
1 TTTAT-ACATCCTTTCATGCCT
* *
692002 TTTATACA-CCATT-ATGCAT
1 TTTATACATCCTTTCATGCCT
692021 TGTTATACATC
1 T-TTATACATC
692032 AAATCTTTTA
Statistics
Matches: 56, Mismatches: 12, Indels: 14
0.68 0.15 0.17
Matches are distributed among these distances:
19 6 0.11
20 13 0.23
21 12 0.21
22 10 0.18
23 10 0.18
24 3 0.05
25 2 0.04
ACGTcount: A:0.24, C:0.24, G:0.08, T:0.44
Consensus pattern (21 bp):
TTTATACATCCTTTCATGCCT
Found at i:692330 original size:55 final size:55
Alignment explanation
Indices: 692270--692554 Score: 390
Period size: 55 Copynumber: 5.2 Consensus size: 55
692260 GATGCACCCG
** **
692270 TAGTGCCTATTTGGTTATTCATCAACTCATGATGAATTATGTGGATTTGCACACA
1 TAGTGCCTATACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACA
* * *
692325 TAGTGCATATACGGTTAATCATCAAATCATGATGAATTCCGTGGATTTGCACACA
1 TAGTGCCTATACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACA
* * * *
692380 TAGTGCCTGTACGGATATTCATCAACTCATGATCAATTCCGTTGATTTGCACACA
1 TAGTGCCTATACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACA
* * * * *
692435 TAGTGCATGTACGGTTATTCATTAACTCATGATGAATTCTGTGGATTTGCAAACA
1 TAGTGCCTATACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACA
* * * *
692490 TAGTGCTTGTACGGTTATTCATCAACTCATAATGAATTCCATGGATTTGCACACA
1 TAGTGCCTATACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACA
692545 TAGTGCCTAT
1 TAGTGCCTAT
692555 TTGGTAATCA
Statistics
Matches: 201, Mismatches: 29, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
55 201 1.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35
Consensus pattern (55 bp):
TAGTGCCTATACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACA
Found at i:696581 original size:45 final size:45
Alignment explanation
Indices: 696519--696632 Score: 174
Period size: 45 Copynumber: 2.5 Consensus size: 45
696509 TTTGTTTATA
* *
696519 CATCTTTTCATGCCTTTTATACACCATGATATATTTCATTTATGG
1 CATCCTTTCATGCCTTTTATACACCATGATACATTTCATTTATGG
* *
696564 CATCCTTTCATGTCTTTTATGCACCATGATACATTTCATTTATGG
1 CATCCTTTCATGCCTTTTATACACCATGATACATTTCATTTATGG
* *
696609 CATTCTTTCTTGCCTTTTATACAC
1 CATCCTTTCATGCCTTTTATACAC
696633 TATTATGCAT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 61 1.00
ACGTcount: A:0.22, C:0.23, G:0.09, T:0.46
Consensus pattern (45 bp):
CATCCTTTCATGCCTTTTATACACCATGATACATTTCATTTATGG
Found at i:696987 original size:15 final size:15
Alignment explanation
Indices: 696963--696993 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
696953 TGTAAAGTTC
696963 TTCATCAACTCATGA
1 TTCATCAACTCATGA
*
696978 TTCATTAACTCATGA
1 TTCATCAACTCATGA
696993 T
1 T
696994 GAATTTCGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.23, G:0.06, T:0.39
Consensus pattern (15 bp):
TTCATCAACTCATGA
Found at i:697044 original size:70 final size:69
Alignment explanation
Indices: 696909--697044 Score: 175
Period size: 70 Copynumber: 2.0 Consensus size: 69
696899 TATACGGTAG
* * *
696909 TTCATCAACTCATGATGACTTCCGTGGGTTGCACACATCATGCCTGTAAAGTTCTTCATCAACTC
1 TTCATCAACTCATGATGAATTCCGTGGGTTGCACACATCATGCATGTAAAGTTATTCATCAACTC
696974 ATGA
66 ATGA
* * * **
696978 TTCATTAACTCATGATGAATTTCGTGGATTTGCACACAT-ACTGCATGTACGGTTATTCATCAAC
1 TTCATCAACTCATGATGAATTCCGTGG-GTTGCACACATCA-TGCATGTAAAGTTATTCATCAAC
697042 TCA
64 TCA
697045 ATATGAATTC
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
69 25 0.44
70 32 0.56
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (69 bp):
TTCATCAACTCATGATGAATTCCGTGGGTTGCACACATCATGCATGTAAAGTTATTCATCAACTC
ATGA
Found at i:697061 original size:55 final size:55
Alignment explanation
Indices: 696977--697406 Score: 630
Period size: 55 Copynumber: 7.8 Consensus size: 55
696967 TCAACTCATG
* * *
696977 ATTCATTAACTCATGATGAATTTCGTGGATTTGCACACATACTGCATGTACGGTT
1 ATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCATGTACGGTT
* * * * *
697032 ATTCATCAACTCAAT-ATGAATTCTGTGGATTTACACATATAGTGTATGTACAGTT
1 ATTCATCAACTC-ATGATGAATTCCGTGGATTTGCACACATAGTGCATGTACGGTT
* *
697087 ATTCATCAACTCATGATGAATTCCGTGGATTTGCAAACATAGTGCATGTACTGTT
1 ATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCATGTACGGTT
** *
697142 ATTCATCAACTCATGATGAATTCCGTGGATTTGCACATGTAGTGCGTGTACGGTT
1 ATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCATGTACGGTT
* *
697197 ATTCATCAACTGATGATGAATTCCGTGGATTTGCACACATAGTGCCTGTACGGTT
1 ATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCATGTACGGTT
* * *
697252 TTTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCCTATACGGTT
1 ATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCATGTACGGTT
** *
697307 ATTCATCAACTCATGATGAATTCTATGGATTTGCACACATAGTGTC-TGGACGGTT
1 ATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTG-CATGTACGGTT
*
697362 ATTCATCAACTCATGATGAATTCCATGGATTTGCACACATAGTGC
1 ATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGC
697407 CTATTTGGTA
Statistics
Matches: 340, Mismatches: 32, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
54 3 0.01
55 334 0.98
56 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (55 bp):
ATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCATGTACGGTT
Found at i:702277 original size:43 final size:43
Alignment explanation
Indices: 702216--702303 Score: 140
Period size: 43 Copynumber: 2.0 Consensus size: 43
702206 GAACGTTAAT
* *
702216 TTGTTGACTAAGATATGATAAAATCATATTTTGAAGATATATA
1 TTGTTGACTAAGATATGATAAAATAATATTTTAAAGATATATA
* *
702259 TTGTTGACTAAGCTATGATAAAATAATATTTTAAATATATATA
1 TTGTTGACTAAGATATGATAAAATAATATTTTAAAGATATATA
702302 TT
1 TT
702304 TTAAAGATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.42
Consensus pattern (43 bp):
TTGTTGACTAAGATATGATAAAATAATATTTTAAAGATATATA
Found at i:702315 original size:17 final size:15
Alignment explanation
Indices: 702284--702322 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
702274 TGATAAAATA
702284 ATATTTTAAATATAT
1 ATATTTTAAATATAT
*
702299 ATATTTTAAAGATAT
1 ATATTTTAAATATAT
702314 ATATTTTAA
1 ATATTTTAA
702323 TGGCAAAGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (15 bp):
ATATTTTAAATATAT
Found at i:702422 original size:15 final size:16
Alignment explanation
Indices: 702391--702423 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
702381 AAGATATAAC
*
702391 TCAAATTATTATGAGA
1 TCAAATTATTATCAGA
702407 TCAAATT-TTATCAGA
1 TCAAATTATTATCAGA
702422 TC
1 TC
702424 TTAGTTAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.39
Consensus pattern (16 bp):
TCAAATTATTATCAGA
Found at i:704800 original size:34 final size:34
Alignment explanation
Indices: 704762--704865 Score: 92
Period size: 34 Copynumber: 3.1 Consensus size: 34
704752 GAAATAAAAT
704762 ATTATTGGAATGTATATTTGACCAAATTGTCCTA
1 ATTATTGGAATGTATATTTGACCAAATTGTCCTA
* * * * ***
704796 ATTATAT--ATTTGTCT-TTT-AACAAGTTGGAAT-
1 ATTAT-TGGA-ATGTATATTTGACCAAATTGTCCTA
704827 ATTATTGGAATGTATATTTGACCAAATTGTCCTA
1 ATTATTGGAATGTATATTTGACCAAATTGTCCTA
704861 ATTAT
1 ATTAT
704866 ATATTTGTCT
Statistics
Matches: 49, Mismatches: 14, Indels: 14
0.64 0.18 0.18
Matches are distributed among these distances:
30 1 0.02
31 9 0.18
32 12 0.24
33 12 0.24
34 14 0.29
35 1 0.02
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44
Consensus pattern (34 bp):
ATTATTGGAATGTATATTTGACCAAATTGTCCTA
Found at i:704863 original size:65 final size:65
Alignment explanation
Indices: 704759--704890 Score: 264
Period size: 65 Copynumber: 2.0 Consensus size: 65
704749 AAAGAAATAA
704759 AATATTATTGGAATGTATATTTGACCAAATTGTCCTAATTATATATTTGTCTTTTAACAAGTTGG
1 AATATTATTGGAATGTATATTTGACCAAATTGTCCTAATTATATATTTGTCTTTTAACAAGTTGG
704824 AATATTATTGGAATGTATATTTGACCAAATTGTCCTAATTATATATTTGTCTTTTAACAAGTTGG
1 AATATTATTGGAATGTATATTTGACCAAATTGTCCTAATTATATATTTGTCTTTTAACAAGTTGG
704889 AA
1 AA
704891 AATATTTATA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 67 1.00
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.44
Consensus pattern (65 bp):
AATATTATTGGAATGTATATTTGACCAAATTGTCCTAATTATATATTTGTCTTTTAACAAGTTGG
Found at i:705351 original size:39 final size:40
Alignment explanation
Indices: 705297--705379 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 40
705287 TATTGCTGTC
705297 AATTTGGTTATACTGTTC-TTCTTTTTTTTGTATTTAAAA
1 AATTTGGTTATACTGTTCTTTCTTTTTTTTGTATTTAAAA
*
705336 AATTTGGTTATACTGTTCTTTTTTTTTTTTTTGTATTTAAAA
1 AATTTGGTTATACTGTTC--TTTCTTTTTTTTGTATTTAAAA
705378 AA
1 AA
705380 ATTACTGAAG
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
39 18 0.45
42 22 0.55
ACGTcount: A:0.24, C:0.06, G:0.10, T:0.60
Consensus pattern (40 bp):
AATTTGGTTATACTGTTCTTTCTTTTTTTTGTATTTAAAA
Found at i:706265 original size:117 final size:117
Alignment explanation
Indices: 706056--706347 Score: 453
Period size: 117 Copynumber: 2.5 Consensus size: 117
706046 TTTTCCCGAA
* * **
706056 CATACACCTACCTACACACCAGTAAGGACTTACCCTAAGCACGA-AGCTGAGGAGCCTGCAGTAA
1 CATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCAC-ACAGCAAAGGAGCCTGCAGTAA
* *
706120 TAACGTCTCTATCCAGTCGCTTCCATCACTACAATGTGTAGGTTCCCCAGAAC
65 TAACGTCCCTATCCAGTCACTTCCATCACTACAATGTGTAGGTTCCCCAGAAC
* *
706173 CATACACCCACCTGCACACCAGTAAGGACTTTCCTTAAGCACACAGCAAAGGAGCCTGCAGTAAT
1 CATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACACAGCAAAGGAGCCTGCAGTAAT
*
706238 AACTTCCCTATCCAGTCAC-TCCAATCACTACAATGTGTAGGTTCCCCAGAAC
66 AACGTCCCTATCCAGTCACTTCC-ATCACTACAATGTGTAGGTTCCCCAGAAC
* *
706290 CATACACCCACCTGTACACCAGTAAGGACTTACCCTGAGCACACAGCAAAGGAGCCTG
1 CATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACACAGCAAAGGAGCCTG
706348 AAATACTTCC
Statistics
Matches: 160, Mismatches: 13, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
116 4 0.03
117 156 0.98
ACGTcount: A:0.31, C:0.33, G:0.16, T:0.20
Consensus pattern (117 bp):
CATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACACAGCAAAGGAGCCTGCAGTAAT
AACGTCCCTATCCAGTCACTTCCATCACTACAATGTGTAGGTTCCCCAGAAC
Found at i:707346 original size:28 final size:29
Alignment explanation
Indices: 707276--707424 Score: 144
Period size: 29 Copynumber: 5.2 Consensus size: 29
707266 CATTTTACAG
** * *
707276 AAAATAGCACCCTTTTTAAAAT-AATTACC
1 AAAATAGCA-CCTTTTCGAATTAAATTCCC
*
707305 AAAATAGCACCTTTTCGAATTAAATTCCT
1 AAAATAGCACCTTTTCGAATTAAATTCCC
*
707334 TAAATAGCA-CTTTTCGAATTAAATTCCC
1 AAAATAGCACCTTTTCGAATTAAATTCCC
* *
707362 AAAATATCACCCTTTCTGAATT-AATTCCC
1 AAAATAGCACCTTTTC-GAATTAAATTCCC
* * *
707391 AAAATAGCACGCATTTCAAATT-AATTCCT
1 AAAATAGCAC-CTTTTCGAATTAAATTCCC
707420 AAAAT
1 AAAAT
707425 GTCACTCGGT
Statistics
Matches: 102, Mismatches: 14, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
28 34 0.33
29 58 0.57
30 10 0.10
ACGTcount: A:0.40, C:0.21, G:0.05, T:0.33
Consensus pattern (29 bp):
AAAATAGCACCTTTTCGAATTAAATTCCC
Found at i:713766 original size:117 final size:117
Alignment explanation
Indices: 713557--713848 Score: 462
Period size: 117 Copynumber: 2.5 Consensus size: 117
713547 TTTTCCCGAA
**
713557 CATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACGA-AGCTGAGGAGCCTGCAGTAA
1 CATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCAC-ACAGCAAAGGAGCCTGCAGTAA
* *
713621 TAACGTCTCTATCCAGTCGCTTCCATCACTACAATGTGTAGGTTCCCCAGAAC
65 TAACGTCTCCATCCAGTCACTTCCATCACTACAATGTGTAGGTTCCCCAGAAC
*
713674 CATACACCCACCTGCACACCAGTAAGGACTTTCCCTAAGCACACAGCAAAGGAGCCTGCAGTAAT
1 CATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACACAGCAAAGGAGCCTGCAGTAAT
* * *
713739 AACTTCTCCATCCAGTCAC-TCCAATCACTACAATGTGTTGGTTCCCCATAAC
66 AACGTCTCCATCCAGTCACTTCC-ATCACTACAATGTGTAGGTTCCCCAGAAC
* *
713791 CATACACCCACCTGTACACCAGTAAGGACTTACCCTGAGCACACAGCAAAGGAGCCTG
1 CATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACACAGCAAAGGAGCCTG
713849 AAATACTTCC
Statistics
Matches: 162, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
116 4 0.02
117 158 0.98
ACGTcount: A:0.30, C:0.34, G:0.16, T:0.20
Consensus pattern (117 bp):
CATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACACAGCAAAGGAGCCTGCAGTAAT
AACGTCTCCATCCAGTCACTTCCATCACTACAATGTGTAGGTTCCCCAGAAC
Found at i:714398 original size:329 final size:327
Alignment explanation
Indices: 713974--714629 Score: 1210
Period size: 329 Copynumber: 2.0 Consensus size: 327
713964 AATTACATAA
*
713974 ACCATACATAAGACCAGTAATATCCGGTAAATCAGGTGTCGGTAACCGTATTCAAAACATGTATA
1 ACCATACATAAGACCAGTAATATCCGGTAAATCAGGTGTCGGTAACCGTATTCAAAACAAGTATA
714039 TGTTGTAATAATATTCAACATCATCATAAATTTGAAACCATTTATATGATAGTTTAAAACAGTAA
66 TGTTGTAATAATATTCAACATCATCATAAATTTGAAACCATTTATATGATAGTTTAAAACAGTAA
714104 GAAAACACCATCAGTAAACACACCTGTAACAGTCTGAGAAATCAGATAGGGAAGCTTATTGCTGG
131 GAAAACACCATCAGTAAACACACCTGTAACAGTCTGAGAAATCAGATAGGGAAGCTTATTGCTGG
714169 GTTTGTCGACCACGCTCTGCTGCAGCGCTAGATCATACG-ATTGGAAAAATCCATATTGGAAACC
196 GTTTGTCGACCACGCTCTGCTGCAGCGCTAGATCATACGAATTGGAAAAATCCATATTGGAAACC
714233 TAATATAAATAATCT-AA-ATTATTTAAATAATATACGAAAACCTACGGGTAATTCTCGTAGTAC
261 TAATATAAATAATCTAAATATTATTTAAATAATATACGAAAACCTACGGGTAATTCTCGTAGTAC
714296 GC
326 GC
714298 ACCATACATAAGACCAGTAATATCCGGTAAATCAGTGTGTCGGTAACCAGTATTCATAAAACAAG
1 ACCATACATAAGACCAGTAATATCCGGTAAATCAG-GTGTCGGTAACC-GTATTC--AAAACAAG
714363 TATCATGTTGTAATAATATTCAACATCATCATAAATTTGAAACCATTTATATGATAGTTTAAAAC
62 TAT-ATGTTGTAATAATATTCAACATCATCATAAATTTGAAACCATTTATATGATAGTTTAAAAC
* *
714428 AGTAAGATAACACCATCAGTAAACACACCTGTAACAGTCTGAGAAATTAGATAGGGAAGCTTATT
126 AGTAAGAAAACACCATCAGTAAACACACCTGTAACAGTCTGAGAAATCAGATAGGGAAGCTTATT
*
714493 GTTGGGTTTGTCGACCACGCTCTGCTGCAGCGCTAGATCATACGAATTGGAAAAATCCATATTGG
191 GCTGGGTTTGTCGACCACGCTCTGCTGCAGCGCTAGATCATACGAATTGGAAAAATCCATATTGG
714558 AAACCTAATATAAATAATCTAAATATTATTTAAATAATATACGAAAACCTACGGGTAATTCTCGT
256 AAACCTAATATAAATAATCTAAATATTATTTAAATAATATACGAAAACCTACGGGTAATTCTCGT
714623 AGTACGC
321 AGTACGC
714630 GGTTCAGGCT
Statistics
Matches: 320, Mismatches: 4, Indels: 8
0.96 0.01 0.02
Matches are distributed among these distances:
324 35 0.11
325 12 0.04
326 6 0.02
328 10 0.03
329 167 0.52
330 40 0.12
331 2 0.01
332 48 0.15
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (327 bp):
ACCATACATAAGACCAGTAATATCCGGTAAATCAGGTGTCGGTAACCGTATTCAAAACAAGTATA
TGTTGTAATAATATTCAACATCATCATAAATTTGAAACCATTTATATGATAGTTTAAAACAGTAA
GAAAACACCATCAGTAAACACACCTGTAACAGTCTGAGAAATCAGATAGGGAAGCTTATTGCTGG
GTTTGTCGACCACGCTCTGCTGCAGCGCTAGATCATACGAATTGGAAAAATCCATATTGGAAACC
TAATATAAATAATCTAAATATTATTTAAATAATATACGAAAACCTACGGGTAATTCTCGTAGTAC
GC
Found at i:715154 original size:29 final size:28
Alignment explanation
Indices: 715121--715272 Score: 162
Period size: 29 Copynumber: 5.2 Consensus size: 28
715111 AAAATAATAA
715121 CCAAAATAGCACCTTTTTGAATTAAATTC
1 CCAAAATAGCACCTTTTTGAATT-AATTC
* *
715150 TCAAAATAGCA-CTTTTTCAAATTAAATTC
1 CCAAAATAGCACCTTTTT-GAATT-AATTC
*
715179 CCAAAATATCACCTTTTTCGAATTAATTC
1 CCAAAATAGCACCTTTTT-GAATTAATTC
* * * *
715208 CCACAATTGCACCCATTTCGAATTAATTC
1 CCAAAATAGCA-CCTTTTTGAATTAATTC
* *
715237 CCAAAATAGCACACATTTCGAATTAATTC
1 CCAAAATAGCAC-CTTTTTGAATTAATTC
715266 CCAAAAT
1 CCAAAAT
715273 CACTCGGTCA
Statistics
Matches: 107, Mismatches: 12, Indels: 8
0.84 0.09 0.06
Matches are distributed among these distances:
28 7 0.07
29 84 0.79
30 16 0.15
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.33
Consensus pattern (28 bp):
CCAAAATAGCACCTTTTTGAATTAATTC
Found at i:715185 original size:58 final size:57
Alignment explanation
Indices: 715121--715272 Score: 180
Period size: 58 Copynumber: 2.6 Consensus size: 57
715111 AAAATAATAA
* **
715121 CCAAAATAGCACCTTTTTGAATTAAATTCTCAAAATAGCA-CTTTTTCAAATTAAATTC
1 CCAAAATAGCACCTTTTTGAATT-AATTCCCAAAATAGCACCCATTTCAAATT-AATTC
* * * *
715179 CCAAAATATCACCTTTTTCGAATTAATTCCCACAATTGCACCCATTTCGAATTAATTC
1 CCAAAATAGCACCTTTTT-GAATTAATTCCCAAAATAGCACCCATTTCAAATTAATTC
* *
715237 CCAAAATAGCACACATTTCGAATTAATTCCCAAAAT
1 CCAAAATAGCAC-CTTTTTGAATTAATTCCCAAAAT
715273 CACTCGGTCA
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
58 62 0.77
59 18 0.22
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.33
Consensus pattern (57 bp):
CCAAAATAGCACCTTTTTGAATTAATTCCCAAAATAGCACCCATTTCAAATTAATTC
Found at i:717093 original size:11 final size:10
Alignment explanation
Indices: 717079--717128 Score: 57
Period size: 10 Copynumber: 5.0 Consensus size: 10
717069 ATTTAAAAGT
717079 CAATAAAAATA
1 CAATAAAAA-A
717090 CAATAAAAAA
1 CAATAAAAAA
*
717100 -ATTAAAAAA
1 CAATAAAAAA
* *
717109 GAATAAAAAT
1 CAATAAAAAA
717119 CAATAAAAAA
1 CAATAAAAAA
717129 AGAAGAAGGT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
9 8 0.24
10 16 0.48
11 9 0.27
ACGTcount: A:0.76, C:0.06, G:0.02, T:0.16
Consensus pattern (10 bp):
CAATAAAAAA
Found at i:717128 original size:21 final size:21
Alignment explanation
Indices: 717072--717132 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
717062 CTCGTATATT
* * *
717072 TAAAAGTCAATAAAAATACAA
1 TAAAAATCAATAAAAAAAGAA
*
717093 TAAAAA--AATTAAAAAAGAA
1 TAAAAATCAATAAAAAAAGAA
717112 TAAAAATCAATAAAAAAAGAA
1 TAAAAATCAATAAAAAAAGAA
717133 GAAGGTAAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
19 16 0.48
21 17 0.52
ACGTcount: A:0.74, C:0.05, G:0.05, T:0.16
Consensus pattern (21 bp):
TAAAAATCAATAAAAAAAGAA
Found at i:720815 original size:170 final size:176
Alignment explanation
Indices: 720575--720918 Score: 583
Period size: 170 Copynumber: 2.0 Consensus size: 176
720565 ATGGAAAAAT
* * *
720575 ATTTACTGAAAATAGTTGAAGCACCAGGGGAATAATTTACCACAAAGTCCAAATTCCAGTTGGTT
1 ATTTACTGAAAATAATTGAAGCACCAGGGGAAGAATTTACCACAAAGTCCAAATTCCAGTTGGCT
720640 TAATTATTTCCTCGACATTTCATA-TGGAATGGGTTCCAGGTA-T-TTCATCACCGTGAAATGGA
66 TAATTATTTCCTCGACATTTCATACTGGAATGGGTTCCAGGTATTATTCATCACCGTGAAATGGA
720702 TGAAAAC-GTTCGGTGTTATTTCGCTTGATCC-GTTCAGTCGGGAA
131 TGAAAACTGTTCGGTGTTATTTCGCTTGATCCGGTTCAGTCGGGAA
*
720746 ATTTACTGAAAATAATTGAAGCACCAGGGGAAGAA-TTACCACAAAGTCCAAATTCCTGTTGGCT
1 ATTTACTGAAAATAATTGAAGCACCAGGGGAAGAATTTACCACAAAGTCCAAATTCCAGTTGGCT
720810 TAATTATTTCCTCGACATTTCATATCTGGAATGGGTTCCAGGTATTTCATTCATCACCGTGAAAT
66 TAATTATTTCCTCGACATTTCATA-CTGGAATGGGTTCCAGGTA-TT-ATTCATCACCGTGAAAT
720875 GGATGAAAACTGTTCGGTGTTATTTCGCTTGATCCGGTTCAGTC
128 GGATGAAAACTGTTCGGTGTTATTTCGCTTGATCCGGTTCAGTC
720919 CACCGTCGGA
Statistics
Matches: 161, Mismatches: 4, Indels: 9
0.93 0.02 0.05
Matches are distributed among these distances:
170 51 0.32
171 33 0.20
172 18 0.11
174 1 0.01
176 26 0.16
177 24 0.15
178 8 0.05
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (176 bp):
ATTTACTGAAAATAATTGAAGCACCAGGGGAAGAATTTACCACAAAGTCCAAATTCCAGTTGGCT
TAATTATTTCCTCGACATTTCATACTGGAATGGGTTCCAGGTATTATTCATCACCGTGAAATGGA
TGAAAACTGTTCGGTGTTATTTCGCTTGATCCGGTTCAGTCGGGAA
Found at i:721844 original size:24 final size:25
Alignment explanation
Indices: 721791--721847 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
721781 ACTTTGTTGA
* *
721791 ATGATTTGTGCAGCTTCAATGGTAGT
1 ATGA-TTGTGCAGCTTCAATGATAGC
*
721817 ATGATTG-GCAGCTTCAATGATGGC
1 ATGATTGTGCAGCTTCAATGATAGC
721841 ATGATTG
1 ATGATTG
721848 ACGGTATCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 21 0.75
25 3 0.11
26 4 0.14
ACGTcount: A:0.25, C:0.12, G:0.28, T:0.35
Consensus pattern (25 bp):
ATGATTGTGCAGCTTCAATGATAGC
Found at i:722753 original size:41 final size:41
Alignment explanation
Indices: 722703--722804 Score: 132
Period size: 42 Copynumber: 2.5 Consensus size: 41
722693 AGGTCTTATG
* *
722703 GATGGCCCGAAGGACTTATCATCTTGCTCAAAAGGCTTACA
1 GATGGCCCGAAGGACTTATCATCATGCTCAAAAGACTTACA
* * * * *
722744 GATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACT
1 GATGGCCCGAAGGACTT-ATCATCATGCTCAAAAGACTTACA
722786 GATGGCCCGAAGGACTTAT
1 GATGGCCCGAAGGACTTAT
722805 AAATTGTGAA
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
41 16 0.32
42 34 0.68
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.24
Consensus pattern (41 bp):
GATGGCCCGAAGGACTTATCATCATGCTCAAAAGACTTACA
Found at i:723192 original size:214 final size:214
Alignment explanation
Indices: 722464--723605 Score: 1804
Period size: 214 Copynumber: 5.3 Consensus size: 214
722454 ATCTTGGTGA
** * * * * * *
722464 AAAACATCCTGTCCGAAGGTCTTATGGATGACCCGAAGGATTTATTC-TCTTGCTCGAGAGACTC
1 AAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTA-TCATCTTGCTCTAAAGGCTT
* * * * *
722528 ATAAATAACCCGAAGGATTTAAGCTTCATGCTCGAAAGACTTACTGATGGCTCGAAGGACTTATA
65 ACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATA
* ** *
722593 AATTGTGAAATTTTAAAAATCAAATTCTTAGTTTTCAAAAATTTCATCTTCTTAAAACATCATTT
130 AATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACATCATTT
722658 TT-ATTTTCAAATTCATGTG
195 TTCATTTTCAAATTCATGTG
* *
722677 AAAACATCATACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCAAAAGGCTTA
1 AAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
722742 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
66 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
* * *
722807 ATTGTGAAATTTTGAAAATAGCATTCTTCATTTTCAAAAATTCCATCTTCTTAAAACATCATTTT
131 ATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACATCA--TT
722872 TTTCATTTTCAAATTCATGTG
194 TTTCATTTTCAAATTCATGTG
* * *
722893 AAAACATCCTACCTGAAGGTTTTATGAATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
1 AAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
*
722958 CAGATGACCCGAATGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
66 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
* * *
723023 ATTGTGAAATTTTAAAAATCGCATTCTTCGTTTTAAAAAATTTAATCTTCTTAAAACATCATTTT
131 ATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACATCATTTT
723088 TCATTTTCAAATTCATGTG
196 TCATTTTCAAATTCATGTG
* * *
723107 AAAATATCCTACCTGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
1 AAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
* *
723172 CAGATGACCTGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACATATAA
66 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
* * *
723237 ATTGTGAAATTTTGAAAATCGCATTCTTCGTTCTCAAAAATTCCATATTCTTAAAACATCATTTT
131 ATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACATCATTTT
723302 TCATTTTCAAATTCATGTG
196 TCATTTTCAAATTCATGTG
* *
723321 AAAACATCCTACCCGAAGGTTTTACGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
1 AAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
*
723386 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGCCCCGAAGGACTTATAA
66 CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
* * *
723451 ATTGTGAAATTTTGAAAATCGTATTCTTAGTTTTCAAAAATTTTATCTTCTTAAAACATCA-TTT
131 ATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACATCATTTT
*
723515 TCATTTTCAAATTCATGCG
196 TCATTTTCAAATTCATGTG
* * *
723534 AAAATATCCTACCCGAAGGTCTTATGGATGTCCCGAAGGACTTATCATCTTGCCCTAAAGGCTTA
1 AAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
*
723599 CATATGA
66 CAGATGA
723606 GTTTGCTTCA
Statistics
Matches: 862, Mismatches: 63, Indels: 8
0.92 0.07 0.01
Matches are distributed among these distances:
212 2 0.00
213 254 0.29
214 405 0.47
215 5 0.01
216 196 0.23
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.33
Consensus pattern (214 bp):
AAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTA
CAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
ATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACATCATTTT
TCATTTTCAAATTCATGTG
Found at i:723428 original size:42 final size:41
Alignment explanation
Indices: 723342--723447 Score: 122
Period size: 42 Copynumber: 2.6 Consensus size: 41
723332 CCCGAAGGTT
* * * * * *
723342 TTACGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGC
1 TTACAGATGACCCGAAGGACTTAGCATCATGCTCGAAAGAC
*
723383 TTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGAC
1 TTACAGATGACCCGAAGGACTT-AGCATCATGCTCGAAAGAC
* *
723425 TTACTGATGCCCCGAAGGACTTA
1 TTACAGATGACCCGAAGGACTTA
723448 TAAATTGTGA
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
41 20 0.37
42 34 0.63
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.25
Consensus pattern (41 bp):
TTACAGATGACCCGAAGGACTTAGCATCATGCTCGAAAGAC
Found at i:724617 original size:125 final size:125
Alignment explanation
Indices: 724409--724710 Score: 415
Period size: 125 Copynumber: 2.4 Consensus size: 125
724399 TCAATAACTT
* ** * * * *
724409 CTTGGTCTGAATCTCGTTTTCTCATCATGACGTGGGTTCAGTTGTGCCCCAACCTTATCTTATAC
1 CTTGGTCTGAATCTTGTCATCTCAACATGATGTGGGTTCAGTCGTGCCCCAACATTATCTTATAC
* * * *
724474 TGGTACAGGCCTTCAAAATGCCCCATCACCTCAAATTGTAAGGCTTATTCTTCATTCTTC
66 TAGTACAGGCCTTCAAAATGCCCCATCACCTCAAATTGTAAGGCTCATTCTTCATGCCTC
* * *
724534 CTTGGTTTGAATCTTGTCATCTCAACATGATATGGGTTCAGTCGTGCCCCCACATTATCTTATAC
1 CTTGGTCTGAATCTTGTCATCTCAACATGATGTGGGTTCAGTCGTGCCCCAACATTATCTTATAC
* *
724599 TAGTACGGGCCTTCAAAATGCCCTATCACCTCAAATTGTAAGGCTCATTCTTCATGCCTC
66 TAGTACAGGCCTTCAAAATGCCCCATCACCTCAAATTGTAAGGCTCATTCTTCATGCCTC
* ** * *
724659 ATTGGTCTGAAAGTTGTCATCTCAACATAATGTGGGTTCAGTCATGCCCCAA
1 CTTGGTCTGAATCTTGTCATCTCAACATGATGTGGGTTCAGTCGTGCCCCAA
724711 TATATCCTAA
Statistics
Matches: 153, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
125 153 1.00
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (125 bp):
CTTGGTCTGAATCTTGTCATCTCAACATGATGTGGGTTCAGTCGTGCCCCAACATTATCTTATAC
TAGTACAGGCCTTCAAAATGCCCCATCACCTCAAATTGTAAGGCTCATTCTTCATGCCTC
Found at i:733729 original size:24 final size:24
Alignment explanation
Indices: 733700--733786 Score: 102
Period size: 24 Copynumber: 3.5 Consensus size: 24
733690 AATGATTTGT
733700 TCAGCTTCAATGGTAGCATAATTG
1 TCAGCTTCAATGGTAGCATAATTG
* *
733724 TCAGCTTTAATGGTGGCATAATTGGCG
1 TCAGCTTCAATGGTAGCATAATT---G
* * *
733751 GCAGCTTCAATAGTAGCATGATTG
1 TCAGCTTCAATGGTAGCATAATTG
733775 TCAGCTTCAATG
1 TCAGCTTCAATG
733787 TGACATGATT
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
24 32 0.63
27 19 0.37
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.32
Consensus pattern (24 bp):
TCAGCTTCAATGGTAGCATAATTG
Found at i:733777 original size:51 final size:50
Alignment explanation
Indices: 733701--733803 Score: 152
Period size: 51 Copynumber: 2.0 Consensus size: 50
733691 ATGATTTGTT
* * *
733701 CAGCTTCAATGGTAGCATAATTGTCAGCTTTAATGGTGGCATAATTGGCGG
1 CAGCTTCAATAGTAGCATAATTGTCAGCTTCAAT-GTGACATAATTGGCGG
* *
733752 CAGCTTCAATAGTAGCATGATTGTCAGCTTCAATGTGACATGATTGGCGG
1 CAGCTTCAATAGTAGCATAATTGTCAGCTTCAATGTGACATAATTGGCGG
733802 CA
1 CA
733804 TCTTATTCAC
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
50 16 0.34
51 31 0.66
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (50 bp):
CAGCTTCAATAGTAGCATAATTGTCAGCTTCAATGTGACATAATTGGCGG
Found at i:733797 original size:23 final size:24
Alignment explanation
Indices: 733691--733797 Score: 83
Period size: 24 Copynumber: 4.3 Consensus size: 24
733681 ACTTTGCTGA
*
733691 ATGATTTGTTCAGCTTCAATGGTAGC
1 ATGA-TTG-TCAGCTTCAATAGTAGC
* * * *
733717 ATAATTGTCAGCTTTAATGGTGGC
1 ATGATTGTCAGCTTCAATAGTAGC
* *
733741 ATAATTGGCGGCAGCTTCAATAGTAGC
1 ATGATT---GTCAGCTTCAATAGTAGC
733768 ATGATTGTCAGCTTCAAT-GT-GAC
1 ATGATTGTCAGCTTCAATAGTAG-C
733791 ATGATTG
1 ATGATTG
733798 GCGGCATCTT
Statistics
Matches: 68, Mismatches: 9, Indels: 11
0.77 0.10 0.12
Matches are distributed among these distances:
22 1 0.01
23 10 0.15
24 32 0.47
25 3 0.04
26 3 0.04
27 19 0.28
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (24 bp):
ATGATTGTCAGCTTCAATAGTAGC
Found at i:735011 original size:20 final size:20
Alignment explanation
Indices: 734971--735011 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
734961 TATTCTCTAT
*
734971 TTTTCATTTTATGATTTTTC
1 TTTTCATTTTATGATTATTC
* *
734991 TTTTCATTTTTTTATTATTC
1 TTTTCATTTTATGATTATTC
735011 T
1 T
735012 GTTTATGTGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.10, G:0.02, T:0.73
Consensus pattern (20 bp):
TTTTCATTTTATGATTATTC
Found at i:742542 original size:22 final size:20
Alignment explanation
Indices: 742517--742566 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 20
742507 GGAAAAAATG
742517 GAAAAATGAAAAGAGAAAAAGA
1 GAAAAATGAAAA-A-AAAAAGA
*
742539 GAAAAGAATGAACAAAAAAAGA
1 G-AAA-AATGAAAAAAAAAAGA
742561 GAAAAA
1 GAAAAA
742567 AAGAGAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
20 2 0.08
21 3 0.12
22 9 0.36
23 4 0.16
24 7 0.28
ACGTcount: A:0.74, C:0.02, G:0.20, T:0.04
Consensus pattern (20 bp):
GAAAAATGAAAAAAAAAAGA
Found at i:742573 original size:32 final size:31
Alignment explanation
Indices: 742499--742588 Score: 107
Period size: 32 Copynumber: 2.9 Consensus size: 31
742489 ACAAAAAGGG
742499 GAAAAAAAG-GAAAAAATGGAA-AAATGAAAAGA
1 GAAAAAAAGAGAAAAAAT-GAACAAA--AAAAGA
742531 G--AAAAAGAGAAAAGAATGAACAAAAAAAGA
1 GAAAAAAAGAGAAAA-AATGAACAAAAAAAGA
742561 GAAAAAAAGAGAAAAAATGAAGCAAAAA
1 GAAAAAAAGAGAAAAAATGAA-CAAAAA
742589 TGAGGGTTCA
Statistics
Matches: 52, Mismatches: 0, Indels: 12
0.81 0.00 0.19
Matches are distributed among these distances:
30 13 0.25
31 14 0.27
32 25 0.48
ACGTcount: A:0.73, C:0.02, G:0.20, T:0.04
Consensus pattern (31 bp):
GAAAAAAAGAGAAAAAATGAACAAAAAAAGA
Found at i:742577 original size:22 final size:22
Alignment explanation
Indices: 742532--742577 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
742522 ATGAAAAGAG
* *
742532 AAAAAGAGAAAAGAATGAACAA
1 AAAAAGAGAAAAGAAAGAAAAA
*
742554 AAAAAGAGAAAA-AAAGAGAAA
1 AAAAAGAGAAAAGAAAGAAAAA
742575 AAA
1 AAA
742578 TGAAGCAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.78, C:0.02, G:0.17, T:0.02
Consensus pattern (22 bp):
AAAAAGAGAAAAGAAAGAAAAA
Found at i:743691 original size:55 final size:55
Alignment explanation
Indices: 743622--744070 Score: 658
Period size: 55 Copynumber: 8.4 Consensus size: 55
743612 TTGAAGCATC
*
743622 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCGGACACGATTGTTG
1 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTG
* * *
743677 AAGATTGTTTGAGTCTTATACTCTCTGAAGGAATAGGGAGCTGACACGATTATTG
1 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTG
* *
743732 AAGATTGTTCGAG--------TCT-T---GGAATAGGGAGCAAACATGATTGTTG
1 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTG
* * **
743775 AAGATTGTTTGAGTCTTATACTCTCTGAAGGAATAGGGAACAGACATAATTGTTG
1 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTG
*
743830 AAGATTGTTCGAGTCTTATACTCTCTGAA-GAATAGGGAGCAGACACGACTGTTG
1 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTG
*
743884 AAGATTGTTCAAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTG
1 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTG
* *
743939 AAGATTGTTCAAGTCTTATACTCTCTGAAGGAATATGGAGCAGACACGATTGTTG
1 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTG
743994 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTG
1 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTG
744049 AAGA-TGTTCGAGT-TCTATACTC
1 AAGATTGTTCGAGTCT-TATACTC
744071 CCTAAAGAAA
Statistics
Matches: 358, Mismatches: 22, Indels: 29
0.88 0.05 0.07
Matches are distributed among these distances:
43 34 0.09
46 1 0.00
47 3 0.01
51 3 0.01
52 1 0.00
53 1 0.00
54 65 0.18
55 250 0.70
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.31
Consensus pattern (55 bp):
AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTG
Found at i:743776 original size:43 final size:43
Alignment explanation
Indices: 743706--743791 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
743696 ACTCTCTGAA
**
743706 GGAATAGGGAGCTGACACGATTATTGAAGATTGTTCGAGTCTT
1 GGAATAGGGAGCAAACACGATTATTGAAGATTGTTCGAGTCTT
* * *
743749 GGAATAGGGAGCAAACATGATTGTTGAAGATTGTTTGAGTCTT
1 GGAATAGGGAGCAAACACGATTATTGAAGATTGTTCGAGTCTT
743792 ATACTCTCTG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.29, C:0.09, G:0.30, T:0.31
Consensus pattern (43 bp):
GGAATAGGGAGCAAACACGATTATTGAAGATTGTTCGAGTCTT
Found at i:743941 original size:109 final size:109
Alignment explanation
Indices: 743750--744079 Score: 520
Period size: 109 Copynumber: 3.0 Consensus size: 109
743740 TCGAGTCTTG
* * * *
743750 GAATAGGGAGCAAACATGATTGTTGAAGATTGTTTGAGTCTTATACTCTCTGAAGGAATAGGGAA
1 GAATAGGGAGCAGACACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAG
**
743815 CAGACATAATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAA
66 CAGACACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAA
* *
743859 GAATAGGGAGCAGACACGACTGTTGAAGATTGTTCAAGTCTTATACTCTCTGAAGGAATAGGGAG
1 GAATAGGGAGCAGACACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAG
*
743924 CAGACACGATTGTTGAAGATTGTTCAAGTCTTATACTCTCTGAA
66 CAGACACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAA
*
743968 GGAATATGGAGCAGACACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGA
1 -GAATAGGGAGCAGACACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGA
* *
744033 GCAGACACGATTGTTGAAGA-TGTTCGAGT-TCTATACTCCCTAAA
65 GCAGACACGATTGTTGAAGATTGTTCGAGTCT-TATACTCTCTGAA
744077 GAA
1 GAA
744080 AGAGGGGGCG
Statistics
Matches: 204, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
108 4 0.02
109 119 0.58
110 81 0.40
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (109 bp):
GAATAGGGAGCAGACACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAG
CAGACACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAA
Found at i:744020 original size:164 final size:159
Alignment explanation
Indices: 743622--744070 Score: 644
Period size: 164 Copynumber: 2.8 Consensus size: 159
743612 TTGAAGCATC
* *
743622 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCGGACACGATTGTTGAAGATTGTTT
1 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTGAAGATTGTTC
* * *
743687 GAGTCTTATACTCTCTGAAGGAATAGGGAGCTGACACGATTATTGAAGATTGTTC-G-----AGT
66 GAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTGAAGATTGTTCAGTTTATACT
*
743746 CTTGGAATAGGGAGCAAACATGATTGTTG
131 CTTGGAATAGGGAGCAAACACGATTGTTG
* * **
743775 AAGATTGTTTGAGTCTTATACTCTCTGAAGGAATAGGGAACAGACATAATTGTTGAAGATTGTTC
1 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTGAAGATTGTTC
*
743840 GAGTCTTATACTCTCTGAA-GAATAGGGAGCAGACACGACTGTTGAAGATTGTTCAAGTCTTATA
66 GAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTGAAGATTGTTC-AGT-TTATA
*
743904 CTCTCTGAAGGAATAGGGAGCAGACACGATTGTTG
129 CTCT-T---GGAATAGGGAGCAAACACGATTGTTG
* *
743939 AAGATTGTTCAAGTCTTATACTCTCTGAAGGAATATGGAGCAGACACGATTGTTGAAGATTGTTC
1 AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTGAAGATTGTTC
744004 GAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTGAAGA-TGTTCGAGTTCTATA
66 GAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTGAAGATTGTTC-AGTT-TATA
744068 CTC
129 CTC
744071 CCTAAAGAAA
Statistics
Matches: 262, Mismatches: 20, Indels: 17
0.88 0.07 0.06
Matches are distributed among these distances:
152 32 0.12
153 78 0.30
154 1 0.00
160 4 0.02
161 1 0.00
163 1 0.00
164 117 0.45
165 28 0.11
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.31
Consensus pattern (159 bp):
AAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTGAAGATTGTTC
GAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTGTTGAAGATTGTTCAGTTTATACT
CTTGGAATAGGGAGCAAACACGATTGTTG
Found at i:744317 original size:111 final size:110
Alignment explanation
Indices: 743993--744533 Score: 472
Period size: 111 Copynumber: 4.9 Consensus size: 110
743983 CACGATTGTT
* * * * **
743993 GAAGATTGTTCGAG-TCTTATACTCTCTG-AAGGAATAGGGAGC-AGACACGATTG-TTGAAGAT
1 GAAGATTATTCGAGTTC-TATACTCCCTGAAAGAAAGAGGGAGCGA-ACACG-TTGACAGAAGAT
* * * * ** *
744054 GTTCGAGTTCTATACTCCCTAAAGAAAGAGGGGGCGAACCCGTGCGAA
63 TTTCGAGTTCTATACTCCCTGAAGAAATAGGGAGCGAACCCGTTTGCA
* * * * * * *
744102 GAAGA-TATTCGAGTTCCATACTCCCT-AAAGAGAGAGAGAGTGAACCCGTAGGA-AGAAGATGT
1 GAAGATTATTCGAGTTCTATACTCCCTGAAAGAAAGAGGGAGCGAACACGT-TGACAGAAGATTT
* * * * * *
744164 TCGAGTTCTATACTCCTTAAAAGAAAGAGGGAGTGAAACCGTTTGGA
65 TCGAGTTCTATACTCCCT-GAAGAAATAGGGAGCGAACCCGTTTGCA
* * *
744211 GAAGATTATTCGAGTTCTATACTCCTTGAAAGAAAGAGGGAGCAAACCCGTTGACAGAAGATTTC
1 GAAGATTATTCGAGTTCTATACTCCCTGAAAGAAAGAGGGAGCGAACACGTTGACAGAAGATTT-
* *
744276 TCGAGTTCTATACTCCCTGAAGTAATAAGGAGCGAACCCGTTTGCA
65 TCGAGTTCTATACTCCCTGAAGAAATAGGGAGCGAACCCGTTTGCA
* * ** * * * * *
744322 GAAGATTATTAGAGTTCTATGCTCTTTGAAAGAAAGAGGAAACGAATACGTAGGCAGAAGATTAT
1 GAAGATTATTCGAGTTCTATACTCCCTGAAAGAAAGAGGGAGCGAACACGTTGACAGAAGATT-T
** *
744387 TCGAGTTCTATACTCCCTGAAGCGATAGGGAGC-AAACCG-TTGACA
65 TCGAGTTCTATACTCCCTGAAGAAATAGGGAGCGAACCCGTTTG-CA
* * * * ** *
744432 GAAGATTGTTCGAGTTCTATACTCCCCG-AAGCAATAGGGAGCGAACACGTTTTCAAAAGATTTC
1 GAAGATTATTCGAGTTCTATACTCCCTGAAAGAAAGAGGGAGCGAACACGTTGACAGAAGATTT-
*
744496 TCGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACC
65 TCGAGTTCTATACTCCCTGAAGAAATAGGGAGCGAACC
744534 AGCTAGTCGA
Statistics
Matches: 353, Mismatches: 65, Indels: 27
0.79 0.15 0.06
Matches are distributed among these distances:
107 1 0.00
108 55 0.16
109 95 0.27
110 53 0.15
111 131 0.37
112 18 0.05
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (110 bp):
GAAGATTATTCGAGTTCTATACTCCCTGAAAGAAAGAGGGAGCGAACACGTTGACAGAAGATTTT
CGAGTTCTATACTCCCTGAAGAAATAGGGAGCGAACCCGTTTGCA
Found at i:744518 original size:55 final size:55
Alignment explanation
Indices: 743829--744532 Score: 396
Period size: 55 Copynumber: 12.8 Consensus size: 55
743819 CATAATTGTT
* * * **
743829 GAAGATTGTTCGAG-TCTTATACTCTCTGAAG-AATAGGGAGC-AGACACGACTG-TT
1 GAAGATTATTCGAGTTC-TATACTCCCTGAAGCAATAGGGAGCGA-ACACG-TTGACA
* * * * **
743883 GAAGATTGTTCAAG-TCTTATACTCTCTGAAGGAATAGGGAGC-AGACACGATTG-TT
1 GAAGATTATTCGAGTTC-TATACTCCCTGAAGCAATAGGGAGCGA-ACACG-TTGACA
* * * * * **
743938 GAAGATTGTTCAAG-TCTTATACTCTCTGAAGGAATATGGAGC-AGACACGATTG-TT
1 GAAGATTATTCGAGTTC-TATACTCCCTGAAGCAATAGGGAGCGA-ACACG-TTGACA
* * * **
743993 GAAGATTGTTCGAG-TCTTATACTCTCTGAAGGAATAGGGAGC-AGACACGATTG-TT
1 GAAGATTATTCGAGTTC-TATACTCCCTGAAGCAATAGGGAGCGA-ACACG-TTGACA
* * * * * * *
744048 GAAGA-TGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGGGCGAACCCGTGCGA-A
1 GAAGATTATTCGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACACGT-TGACA
* * * * * * *
744102 GAAGA-TATTCGAGTTCCATACTCCCTAAAG-AGAGAGAGAGTGAACCCGTAGGA-A
1 GAAGATTATTCGAGTTCTATACTCCCTGAAGCA-ATAGGGAGCGAACACGT-TGACA
* * * * * * *
744156 GAAGA-TGTTCGAGTTCTATACTCCTTAAAAGAAAGAGGGAGTGAA-ACCGTTTG-GA
1 GAAGATTATTCGAGTTCTATACTCCCT-GAAGCAATAGGGAGCGAACA-CG-TTGACA
* * * * *
744211 GAAGATTATTCGAGTTCTATACTCCTTGAAAGAAAGAGGGAGCAAACCCGTTGACA
1 GAAGATTATTCGAGTTCTATACTCCCTG-AAGCAATAGGGAGCGAACACGTTGACA
* * *
744267 GAAGATT-TCTCGAGTTCTATACTCCCTGAAGTAATAAGGAGCGAACCCGTTTG-CA
1 GAAGATTAT-TCGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACACG-TTGACA
* * ** * * * * * * *
744322 GAAGATTATTAGAGTTCTATGCTCTTTGAAAGAAAGAGGAAACGAATACGTAGGCA
1 GAAGATTATTCGAGTTCTATACTCCCTG-AAGCAATAGGGAGCGAACACGTTGACA
* *
744378 GAAGATTATTCGAGTTCTATACTCCCTGAAGCGATAGGGAGCAAAC-CGTTGACA
1 GAAGATTATTCGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACACGTTGACA
* * **
744432 GAAGATTGTTCGAGTTCTATACTCCCCGAAGCAATAGGGAGCGAACACGTTTTCA
1 GAAGATTATTCGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACACGTTGACA
*
744487 AAAGATT-TCTCGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAAC
1 GAAGATTAT-TCGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAAC
744533 CAGCTAGTCG
Statistics
Matches: 558, Mismatches: 70, Indels: 43
0.83 0.10 0.06
Matches are distributed among these distances:
53 2 0.00
54 180 0.32
55 267 0.48
56 109 0.20
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.25
Consensus pattern (55 bp):
GAAGATTATTCGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACACGTTGACA
Found at i:744724 original size:3 final size:3
Alignment explanation
Indices: 744711--744793 Score: 116
Period size: 3 Copynumber: 28.0 Consensus size: 3
744701 GGGTTATAAA
* * *
744711 TAT TA- TAT TAT TAT TAT TAT TAT TAT AAC TAT TA- TAT TAT AAT ATAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
744758 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
744794 GTTACATATT
Statistics
Matches: 71, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
2 4 0.06
3 65 0.92
4 2 0.03
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:747569 original size:21 final size:22
Alignment explanation
Indices: 747533--747603 Score: 108
Period size: 22 Copynumber: 3.2 Consensus size: 22
747523 GCGTTTAACA
*
747533 AAAAATTCATTCTTTTTAGAAAT
1 AAAAA-TCATTTTTTTTAGAAAT
*
747556 AAAAAT-TTTTTTTTTAGAAAT
1 AAAAATCATTTTTTTTAGAAAT
747577 AAAAATCATTTTTTTTAGAAAT
1 AAAAATCATTTTTTTTAGAAAT
747599 AAAAA
1 AAAAA
747604 AAGGGATTTG
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
21 19 0.43
22 20 0.45
23 5 0.11
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (22 bp):
AAAAATCATTTTTTTTAGAAAT
Found at i:747953 original size:2 final size:2
Alignment explanation
Indices: 747948--748030 Score: 166
Period size: 2 Copynumber: 41.5 Consensus size: 2
747938 AATGAAGTAA
747948 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
747990 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
748031 GCAGAATATT
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 81 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:748897 original size:20 final size:20
Alignment explanation
Indices: 748872--748916 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
748862 TTTTTTTCTT
748872 CTCTCTCTAGGAGAGATTTA
1 CTCTCTCTAGGAGAGATTTA
748892 CTCTCTCTAGGAGAGATTTA
1 CTCTCTCTAGGAGAGATTTA
748912 CTCTC
1 CTCTC
748917 CATTCTCTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (20 bp):
CTCTCTCTAGGAGAGATTTA
Found at i:749695 original size:3 final size:3
Alignment explanation
Indices: 749687--749751 Score: 105
Period size: 3 Copynumber: 21.7 Consensus size: 3
749677 ATTTTTTATT
*
749687 TAA TAA TAA TAA TAA T-A TATA TAA TAA TAA TGA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
749732 TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA
749752 TGTAAACTAA
Statistics
Matches: 58, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
2 2 0.03
3 53 0.91
4 3 0.05
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:750056 original size:74 final size:74
Alignment explanation
Indices: 749930--750099 Score: 259
Period size: 74 Copynumber: 2.3 Consensus size: 74
749920 CTTATAATCT
* * * *
749930 TGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTCCCGAATGCTTTTTG
1 TGCACTGTAGGTCTTACGGATGACCCGAAGGCTTTAAATATAAAAAAGCTCCCGAAGGATTTTTG
*
749995 AAAACATCC
66 AAAACATCA
* *
750004 TGCACTGTAGGTCTTACGGATGACCCGGAGGCTTTAAATATAAAAAATCTCCCGAAGGATTTTTG
1 TGCACTGTAGGTCTTACGGATGACCCGAAGGCTTTAAATATAAAAAAGCTCCCGAAGGATTTTTG
750069 AAAACATCA
66 AAAACATCA
* *
750078 TGCACTATAGGTCTTATGGATG
1 TGCACTGTAGGTCTTACGGATG
750100 GCCTTGAGGT
Statistics
Matches: 87, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
74 87 1.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (74 bp):
TGCACTGTAGGTCTTACGGATGACCCGAAGGCTTTAAATATAAAAAAGCTCCCGAAGGATTTTTG
AAAACATCA
Found at i:750208 original size:116 final size:116
Alignment explanation
Indices: 749999--750215 Score: 355
Period size: 116 Copynumber: 1.9 Consensus size: 116
749989 TTTTTGAAAA
* * *
749999 CATCCTGCACTGTAGGTCTTACGGATGACCCGGAGGCTTTAAATATAAAAAATCTCCCGAAGGAT
1 CATCCTGCACTATAGGTCTTACAGATGACCCGGAGGCTTTAAATATAAAAAAGCTCCCGAAGGAT
750064 TTTTGAAAACATCATGCACTATAGGTCTTATGGATGGCCTTGAGGTCTTAT
66 TTTTGAAAACATCATGCACTATAGGTCTTATGGATGGCCTTGAGGTCTTAT
* *
750115 CATCTTGCACTATAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAA-GAC
1 CATCCTGCACTATAGGTCTTACAGATGACCCGGAGGCTTTAAATATAAAAAAGCTCCCGAAGGA-
* *
750179 TTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATG
65 TTTTTGAAAACATCATGCACTATAGGTCTTATGGATG
750216 TGGGAAATAG
Statistics
Matches: 93, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
115 2 0.02
116 91 0.98
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (116 bp):
CATCCTGCACTATAGGTCTTACAGATGACCCGGAGGCTTTAAATATAAAAAAGCTCCCGAAGGAT
TTTTGAAAACATCATGCACTATAGGTCTTATGGATGGCCTTGAGGTCTTAT
Found at i:750912 original size:22 final size:22
Alignment explanation
Indices: 750874--750951 Score: 104
Period size: 22 Copynumber: 3.5 Consensus size: 22
750864 AATAAGGCTT
*
750874 TCATCTTTAAAAAAGAGAATCTA
1 TCATCTTT-GAAAAGAGAATCTA
750897 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
* *
750919 TCATCTTTGAAGAA-TGTATCTA
1 TCATCTTTGAA-AAGAGAATCTA
750941 TCATCTTTGAA
1 TCATCTTTGAA
750952 GAATGTAGAT
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
22 41 0.80
23 10 0.20
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:750952 original size:22 final size:22
Alignment explanation
Indices: 750892--750958 Score: 100
Period size: 22 Copynumber: 3.0 Consensus size: 22
750882 AAAAAAGAGA
* *
750892 ATCTATCATCTTTGAA-AAGAGA
1 ATCTATCATCTTTGAAGAA-TGT
750914 ATCTATCATCTTTGAAGAATGT
1 ATCTATCATCTTTGAAGAATGT
750936 ATCTATCATCTTTGAAGAATGT
1 ATCTATCATCTTTGAAGAATGT
750958 A
1 A
750959 GATGTAGATA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
22 40 0.95
23 2 0.05
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.37
Consensus pattern (22 bp):
ATCTATCATCTTTGAAGAATGT
Found at i:760422 original size:157 final size:154
Alignment explanation
Indices: 760254--760691 Score: 433
Period size: 157 Copynumber: 2.8 Consensus size: 154
760244 TCTAAGGATT
*
760254 AAATATATATATATATTTAGGGTTTTGTAAATAGGATATTTATTTATTTTCAAATATCAGAA-AG
1 AAATATATATATATATTTA-GGTTTT-TAAATAGGATATTTATTTATTTTAAAATATCAGAATAG
*
760318 GACATCTAGTTGCTTTAAGACTGCATTTTCTTTAATATTAATAAATAAATATTAATAAGAATATA
64 GACATCTAGTTGCTTTAAGACTGCATTTTCTTTAATATTAA-AAATAAATA--AATAAGAAAATA
*
760383 ATAATTTCCCTAA-AAAATAA-TGAAGTA
126 ATAATTTCCCTAAGAAAATAATTGAAATA
** * * * * *
760410 AATATATATATATATATATATATATATATATATAGCATGATATATTTTATTTTTAAAATATCAGA
1 AA-ATATATATATATAT-T-TAGGTTTTTAAATAGGAT-ATTTA-TTTA-TTTTAAAATATCAGA
* * * **
760475 ATAAGACATCTACTTGCTTTAAGACT--ATCCTTTC-TTAATATTTGGAAAATAAATAAATATTA
60 ATAGGACATCTAGTTGCTTTAAGACTGCAT--TTTCTTTAATA-TT-AAAAATAAATAAATAAGA
* *
760537 AAATAATAATTTTCCTAAGAAAATAATTTAAATA
121 AAATAATAATTTCCCTAAGAAAATAATTGAAATA
* * * *
760571 AAACA-ATATGTAT-TTTCTGGTTTTTATAAGTAGGATATTTATTTATTTTAAAATATCAGAATG
1 AAATATATATATATATTT-AGGTTTTTA-AA-TAGGATATTTATTTATTTTAAAATATCAGAATA
* *
760634 GGACATCTAGTTGCTTTAAGACTGTCCTTTTCTTTATATATAAAAAATAAATAAATAA
63 GGACATCTAGTTGCTTTAAGACTG-CATTTTCTTTA-ATATTAAAAATAAATAAATAA
760692 TTATTATTTA
Statistics
Matches: 227, Mismatches: 34, Indels: 41
0.75 0.11 0.14
Matches are distributed among these distances:
156 41 0.18
157 49 0.22
158 17 0.07
159 45 0.20
160 30 0.13
161 44 0.19
162 1 0.00
ACGTcount: A:0.43, C:0.08, G:0.09, T:0.41
Consensus pattern (154 bp):
AAATATATATATATATTTAGGTTTTTAAATAGGATATTTATTTATTTTAAAATATCAGAATAGGA
CATCTAGTTGCTTTAAGACTGCATTTTCTTTAATATTAAAAATAAATAAATAAGAAAATAATAAT
TTCCCTAAGAAAATAATTGAAATA
Found at i:760454 original size:2 final size:2
Alignment explanation
Indices: 760411--760443 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
760401 AATGAAGTAA
760411 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
760444 GCATGATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:760714 original size:2 final size:2
Alignment explanation
Indices: 760707--760748 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
760697 ATTTAAACAA
*
760707 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
760749 GACTAATATA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:762108 original size:3 final size:3
Alignment explanation
Indices: 762100--762134 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
762090 ATTTTTTATT
762100 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
762135 TGTAAACTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:762636 original size:3 final size:3
Alignment explanation
Indices: 762630--762662 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
762620 CATCTTCTTC
762630 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
762663 AATGATTACA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Done.