Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 220 of 427
Found at i:62069908 original size:60 final size:60
Alignment explanation
Indices: 62069795--62069910 Score: 137
Period size: 60 Copynumber: 1.9 Consensus size: 60
62069785 GCTTGTCTAT
* * **
62069795 AATACTGGTGGTTAGATCACAATACTGGCAGTTTACTTGCAATATTGTCAGCTTGTTTGC
1 AATACTGGTGGCTAGATCACAATACTGACAGTTTACTTGCAATACGGTCAGCTTGTTTGC
* * *
62069855 AATACTGGTGGCTAGA-CTACAATATTGATAGTTTATTTGCAATACCGGT-AGCTTGT
1 AATACTGGTGGCTAGATC-ACAATACTGACAGTTTACTTGCAATA-CGGTCAGCTTGT
62069911 CCACAAATTG
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
59 1 0.02
60 44 0.94
61 2 0.04
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.36
Consensus pattern (60 bp):
AATACTGGTGGCTAGATCACAATACTGACAGTTTACTTGCAATACGGTCAGCTTGTTTGC
Found at i:62071720 original size:28 final size:29
Alignment explanation
Indices: 62071659--62071747 Score: 110
Period size: 28 Copynumber: 3.1 Consensus size: 29
62071649 TGAGCATGAC
* *
62071659 TATAAATGTGAATTGGGCCTGATGGGCCA
1 TATAAATGTGATTTGGGCCTAATGGGCCA
* *
62071688 TATAAATGTGATTTGGGTC-AATGGGCTA
1 TATAAATGTGATTTGGGCCTAATGGGCCA
* *
62071716 TATAAATGTGA-TTGGGCCTAGTGGGCAA
1 TATAAATGTGATTTGGGCCTAATGGGCCA
62071744 TATA
1 TATA
62071748 TAGGTATGTG
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
27 6 0.12
28 29 0.56
29 17 0.33
ACGTcount: A:0.29, C:0.10, G:0.29, T:0.31
Consensus pattern (29 bp):
TATAAATGTGATTTGGGCCTAATGGGCCA
Found at i:62076647 original size:14 final size:15
Alignment explanation
Indices: 62076628--62076662 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
62076618 CAAAACTAAT
*
62076628 ATTTTTACAA-TTTC
1 ATTTTTACAACATTC
62076642 ATTTTTACAACATTC
1 ATTTTTACAACATTC
62076657 ATTTTT
1 ATTTTT
62076663 CTTTAAAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.29, C:0.14, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTTTTACAACATTC
Found at i:62076995 original size:24 final size:24
Alignment explanation
Indices: 62076952--62076997 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
62076942 AACTCACTAG
*
62076952 ATTTTACAATTTAAGTTTTCATAA
1 ATTTTACAATTTAAGATTTCATAA
62076976 ATTTTACAATTTCAA-ATTTCAT
1 ATTTTACAATTT-AAGATTTCAT
62076998 CCGAGGTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.37, C:0.11, G:0.02, T:0.50
Consensus pattern (24 bp):
ATTTTACAATTTAAGATTTCATAA
Found at i:62077383 original size:41 final size:41
Alignment explanation
Indices: 62077326--62077412 Score: 156
Period size: 41 Copynumber: 2.1 Consensus size: 41
62077316 TATGCACCCC
*
62077326 AGTACATCGGTGCAGTTACAGTTAGGGACAATTGCCCGCTT
1 AGTACACCGGTGCAGTTACAGTTAGGGACAATTGCCCGCTT
*
62077367 AGTACACCGGTGCAGTTACAGTTAGTGACAATTGCCCGCTT
1 AGTACACCGGTGCAGTTACAGTTAGGGACAATTGCCCGCTT
62077408 AGTAC
1 AGTAC
62077413 TTCATTGGAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.26
Consensus pattern (41 bp):
AGTACACCGGTGCAGTTACAGTTAGGGACAATTGCCCGCTT
Found at i:62082094 original size:16 final size:15
Alignment explanation
Indices: 62082075--62082109 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
62082065 TAATTTAGCC
*
62082075 ATTTTTTTATTTTAA
1 ATTTTGTTATTTTAA
62082090 TATTTTGTTATTTTAA
1 -ATTTTGTTATTTTAA
62082106 ATTT
1 ATTT
62082110 AATTTTTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (15 bp):
ATTTTGTTATTTTAA
Found at i:62085666 original size:28 final size:27
Alignment explanation
Indices: 62085603--62085672 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
62085593 ATAGTGAGTC
62085603 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
62085630 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
62085658 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
62085673 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:62092200 original size:2 final size:2
Alignment explanation
Indices: 62092193--62092218 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
62092183 GACATTGTAC
62092193 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
62092219 TCGGCCATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:62092759 original size:28 final size:28
Alignment explanation
Indices: 62092690--62092790 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
62092680 GACAAGATTG
* * * *
62092690 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
62092720 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
62092748 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
62092777 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
62092791 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:62092784 original size:29 final size:28
Alignment explanation
Indices: 62092719--62092790 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
62092709 AAAATTGTAC
*
62092719 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
62092747 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
62092776 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
62092791 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:62100532 original size:28 final size:28
Alignment explanation
Indices: 62100500--62100559 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
62100490 TCAAACTAAG
62100500 CACTTAAGCGATAAATTTTCTTAATGAA
1 CACTTAAGCGATAAATTTTCTTAATGAA
62100528 CACTTAAGCGATAAATTTTCTTAATGAA
1 CACTTAAGCGATAAATTTTCTTAATGAA
62100556 -ACTT
1 CACTT
62100560 TCACACAAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 4 0.12
28 28 0.88
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (28 bp):
CACTTAAGCGATAAATTTTCTTAATGAA
Found at i:62113005 original size:24 final size:22
Alignment explanation
Indices: 62112962--62113008 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
62112952 GAGAGATTTA
*
62112962 GGAGAGAGAATGTGAGTGAAAG
1 GGAGAGAGAATGTGAATGAAAG
*
62112984 GGAGAGAGATGTGTGGAATGAAAG
1 GGAGAGAGA-ATGT-GAATGAAAG
62113008 G
1 G
62113009 TGTGTTGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 9 0.43
23 3 0.14
24 9 0.43
ACGTcount: A:0.38, C:0.00, G:0.47, T:0.15
Consensus pattern (22 bp):
GGAGAGAGAATGTGAATGAAAG
Found at i:62113018 original size:16 final size:17
Alignment explanation
Indices: 62112993--62113027 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
62112983 GGGAGAGAGA
62112993 TGTGTGGAATGAA-AGG
1 TGTGTGGAATGAATAGG
*
62113009 TGTGTTGAATGAATAGG
1 TGTGTGGAATGAATAGG
62113026 TG
1 TG
62113028 AAAGGGGGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.29, C:0.00, G:0.40, T:0.31
Consensus pattern (17 bp):
TGTGTGGAATGAATAGG
Found at i:62117135 original size:22 final size:22
Alignment explanation
Indices: 62117100--62117149 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
62117090 ACAAGATCAT
* * *
62117100 ACGCCCGTGTGGACATAGGGAC
1 ACGCCCATGAGGACACAGGGAC
62117122 ACGCCCATGAGGACACAGGGAC
1 ACGCCCATGAGGACACAGGGAC
62117144 ACGCCC
1 ACGCCC
62117150 GTGTCCTTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.26, C:0.34, G:0.32, T:0.08
Consensus pattern (22 bp):
ACGCCCATGAGGACACAGGGAC
Found at i:62120095 original size:28 final size:29
Alignment explanation
Indices: 62120055--62120153 Score: 105
Period size: 28 Copynumber: 3.5 Consensus size: 29
62120045 GTAATAAGCC
*
62120055 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
62120083 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * * *
62120111 TGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
62120140 CGCACACTTAGTGC
1 CGCACACTTAGTGC
62120154 CAATTTGTGA
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
27 2 0.03
28 36 0.61
29 18 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:62127724 original size:28 final size:29
Alignment explanation
Indices: 62127684--62127782 Score: 105
Period size: 28 Copynumber: 3.5 Consensus size: 29
62127674 GTAATAAGCC
*
62127684 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
62127712 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * * *
62127740 TGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
62127769 CGCACACTTAGTGC
1 CGCACACTTAGTGC
62127783 CAATTTGTGA
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
27 2 0.03
28 36 0.61
29 18 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:62135418 original size:28 final size:29
Alignment explanation
Indices: 62135378--62135476 Score: 105
Period size: 28 Copynumber: 3.5 Consensus size: 29
62135368 GTAATAAGCC
*
62135378 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
62135406 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * * *
62135434 TGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
62135463 CGCACACTTAGTGC
1 CGCACACTTAGTGC
62135477 CAATTTGTGA
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
27 2 0.03
28 36 0.61
29 18 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:62138086 original size:29 final size:29
Alignment explanation
Indices: 62138053--62138270 Score: 213
Period size: 29 Copynumber: 7.5 Consensus size: 29
62138043 TGACGAGATC
62138053 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
62138082 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
* *
62138111 GGCACTAAGTGTGCTTGCTGGAAATATAA
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
* *
62138140 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
* * ** * *
62138169 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
** * ***
62138198 GGCACTGGGTGTGCGAGCTCGG-AGGGTAT
1 GGCACTAAGTGTGCGTGCT-GGAAATATAT
** * * * **
62138227 GGCACTGTGTGTGCGGGCTTGAATTACGT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
62138256 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
62138271 AAATCGAGTA
Statistics
Matches: 160, Mismatches: 27, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
28 1 0.01
29 157 0.98
30 2 0.01
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAATATAT
Found at i:62140311 original size:8 final size:8
Alignment explanation
Indices: 62140300--62140346 Score: 76
Period size: 8 Copynumber: 5.9 Consensus size: 8
62140290 AGTGGGCCTG
62140300 TTGGCCCA
1 TTGGCCCA
*
62140308 TTGGCCCG
1 TTGGCCCA
62140316 TTGGCCCA
1 TTGGCCCA
*
62140324 TTGGCCCG
1 TTGGCCCA
62140332 TTGGCCCA
1 TTGGCCCA
62140340 TTGGCCC
1 TTGGCCC
62140347 GTTTTCGGCC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 35 1.00
ACGTcount: A:0.06, C:0.38, G:0.30, T:0.26
Consensus pattern (8 bp):
TTGGCCCA
Found at i:62140318 original size:16 final size:16
Alignment explanation
Indices: 62140294--62140349 Score: 103
Period size: 16 Copynumber: 3.5 Consensus size: 16
62140284 TACCAAAGTG
*
62140294 GGCCTGTTGGCCCATT
1 GGCCCGTTGGCCCATT
62140310 GGCCCGTTGGCCCATT
1 GGCCCGTTGGCCCATT
62140326 GGCCCGTTGGCCCATT
1 GGCCCGTTGGCCCATT
62140342 GGCCCGTT
1 GGCCCGTT
62140350 TTCGGCCCAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.05, C:0.36, G:0.32, T:0.27
Consensus pattern (16 bp):
GGCCCGTTGGCCCATT
Found at i:62140753 original size:27 final size:27
Alignment explanation
Indices: 62140704--62140760 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
62140694 ATAGTCATTT
* *
62140704 TACCCTCCAGGGGTAAATCGGTAGTCC
1 TACCCTACAGGGGTAAATCGGTAATCC
** *
62140731 TACCCTACAGGGGTATTTTGGTAATCC
1 TACCCTACAGGGGTAAATCGGTAATCC
62140758 TAC
1 TAC
62140761 AACTTATCCA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (27 bp):
TACCCTACAGGGGTAAATCGGTAATCC
Found at i:62142283 original size:16 final size:16
Alignment explanation
Indices: 62142264--62142301 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
62142254 TACTGCTGCT
62142264 GTCCAAAACTGTTTTA
1 GTCCAAAACTGTTTTA
62142280 GTCCAAAACTGTTTTA
1 GTCCAAAACTGTTTTA
62142296 GTCCAA
1 GTCCAA
62142302 TATAATGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.34
Consensus pattern (16 bp):
GTCCAAAACTGTTTTA
Found at i:62142883 original size:44 final size:44
Alignment explanation
Indices: 62142834--62142918 Score: 152
Period size: 44 Copynumber: 1.9 Consensus size: 44
62142824 TACTGTATTA
*
62142834 CATCCATAATGAACTCAGACCAACTCAACGAGCTTGGATGCTTG
1 CATCCATAATGAACTCAGACCAACTCAACGAGCTCGGATGCTTG
*
62142878 CATCCATAATGAACTCAGACCAACTCAACGATCTCGGATGC
1 CATCCATAATGAACTCAGACCAACTCAACGAGCTCGGATGC
62142919 CACATACATA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.21
Consensus pattern (44 bp):
CATCCATAATGAACTCAGACCAACTCAACGAGCTCGGATGCTTG
Found at i:62145690 original size:15 final size:15
Alignment explanation
Indices: 62145667--62145728 Score: 72
Period size: 15 Copynumber: 4.1 Consensus size: 15
62145657 CATGAAAACT
*
62145667 AAGATAAAGAAGTCC
1 AAGATAAAGAAATCC
*
62145682 AAGACAAAGAAATCC
1 AAGATAAAGAAATCC
*
62145697 TAGATAAAGAAATCC
1 AAGATAAAGAAATCC
*
62145712 AAGAGACAA-AAATCC
1 AAGATA-AAGAAATCC
62145727 AA
1 AA
62145729 TATACAATAT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
15 38 0.95
16 2 0.05
ACGTcount: A:0.58, C:0.16, G:0.15, T:0.11
Consensus pattern (15 bp):
AAGATAAAGAAATCC
Found at i:62147911 original size:40 final size:39
Alignment explanation
Indices: 62147867--62147991 Score: 137
Period size: 40 Copynumber: 3.1 Consensus size: 39
62147857 GGACTCAACT
*
62147867 CGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGTC
1 CGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGTC
* * * *
62147907 CGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGTC
1 CGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGTC
*
62147947 CGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGCC
1 CGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGTC
62147987 CGGAT
1 CGGAT
62147992 ATCATTCGAA
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 63 0.89
41 8 0.11
ACGTcount: A:0.22, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGTC
Found at i:62155691 original size:31 final size:31
Alignment explanation
Indices: 62155653--62155716 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
62155643 TGTGTAAACA
62155653 TATTAGATTCTTTAATTATTATTTATATACT
1 TATTAGATTCTTTAATTATTATTTATATACT
62155684 TATTAGATTCTTTAATTATTATTTATATACT
1 TATTAGATTCTTTAATTATTATTTATATACT
62155715 TA
1 TA
62155717 CTTACTAAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.58
Consensus pattern (31 bp):
TATTAGATTCTTTAATTATTATTTATATACT
Found at i:62157144 original size:26 final size:26
Alignment explanation
Indices: 62157108--62157169 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
62157098 CTCTTTTAAT
*
62157108 AACTGGGGCAAAAGCCATTTTTGATA
1 AACTGGGGCAAAAGCCATTTTCGATA
*
62157134 AACTGGGGCAAAAGCCCTTTTCGATA
1 AACTGGGGCAAAAGCCATTTTCGATA
62157160 AACTGGGGCA
1 AACTGGGGCA
62157170 TAGCCCTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (26 bp):
AACTGGGGCAAAAGCCATTTTCGATA
Found at i:62157174 original size:25 final size:25
Alignment explanation
Indices: 62157095--62157180 Score: 104
Period size: 26 Copynumber: 3.4 Consensus size: 25
62157085 CTGGAGGCCT
*
62157095 AGCCTCTTTTAAT-AACTGGGGCAAA
1 AGCC-CTTTTGATAAACTGGGGCAAA
*
62157120 AGCCATTTTTGATAAACTGGGGCAAA
1 AGCC-CTTTTGATAAACTGGGGCAAA
*
62157146 AGCCCTTTTCGATAAACTGGGGC-AT
1 AGCCCTTTT-GATAAACTGGGGCAAA
62157171 AGCCCTTTTG
1 AGCCCTTTTG
62157181 CACTTCCTCC
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
24 1 0.02
25 24 0.44
26 29 0.54
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (25 bp):
AGCCCTTTTGATAAACTGGGGCAAA
Found at i:62157359 original size:24 final size:25
Alignment explanation
Indices: 62157312--62157359 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
62157302 ATAATTAAAC
* **
62157312 CCTAGGGGTAAAATGGTCATTTTTA
1 CCTAGGGGAAAAATAATCATTTTTA
62157337 CCTAGGGGAAAAATAATCATTTT
1 CCTAGGGGAAAAATAATCATTTT
62157360 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.33
Consensus pattern (25 bp):
CCTAGGGGAAAAATAATCATTTTTA
Found at i:62159559 original size:3 final size:3
Alignment explanation
Indices: 62159553--62159598 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
62159543 TTACTACTAT
62159553 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
62159599 TTCATAAACA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:62167721 original size:20 final size:20
Alignment explanation
Indices: 62167696--62167736 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
62167686 AAATGAAATG
62167696 TCATGAATGAATGTGGTAGT
1 TCATGAATGAATGTGGTAGT
62167716 TCATGAATGAATGTGGTAGT
1 TCATGAATGAATGTGGTAGT
62167736 T
1 T
62167737 TGAGACTAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.05, G:0.29, T:0.37
Consensus pattern (20 bp):
TCATGAATGAATGTGGTAGT
Found at i:62169791 original size:29 final size:29
Alignment explanation
Indices: 62169724--62169818 Score: 111
Period size: 29 Copynumber: 3.3 Consensus size: 29
62169714 AAGTCTATAT
* * * *
62169724 ACATGCATATGGCCCACTAAGCCC-AATC
1 ACATTCATATGACCCATTAGGCCCAAATC
*
62169752 TCATTCATATGACCCATTAGGCCCAAATC
1 ACATTCATATGACCCATTAGGCCCAAATC
* * *
62169781 ATATTCGTATGACCTATTAGGCCCAAATC
1 ACATTCATATGACCCATTAGGCCCAAATC
62169810 ACATTCATA
1 ACATTCATA
62169819 CGGTCTAATA
Statistics
Matches: 55, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
28 19 0.35
29 36 0.65
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.26
Consensus pattern (29 bp):
ACATTCATATGACCCATTAGGCCCAAATC
Found at i:62170117 original size:30 final size:30
Alignment explanation
Indices: 62170081--62170141 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
62170071 GGCATTTTAG
62170081 GATCTGCCGATCTACTTGTGTGTATGCAGT
1 GATCTGCCGATCTACTTGTGTGTATGCAGT
62170111 GATCTGCCGATCTACTTGTGTGTATGCAGT
1 GATCTGCCGATCTACTTGTGTGTATGCAGT
62170141 G
1 G
62170142 TATGAACACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.16, C:0.20, G:0.28, T:0.36
Consensus pattern (30 bp):
GATCTGCCGATCTACTTGTGTGTATGCAGT
Found at i:62175970 original size:28 final size:28
Alignment explanation
Indices: 62175937--62176002 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
62175927 TAGATCACGG
62175937 AATTACCCCTAAAGAGCAAAATTACCGA
1 AATTACCCCTAAAGAGCAAAATTACCGA
*
62175965 AATTACCCCTAAAGAGCATAATTACCGA
1 AATTACCCCTAAAGAGCAAAATTACCGA
*
62175993 TA-TACCCCTA
1 AATTACCCCTA
62176003 GGGTTTTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 8 0.22
28 28 0.78
ACGTcount: A:0.42, C:0.27, G:0.09, T:0.21
Consensus pattern (28 bp):
AATTACCCCTAAAGAGCAAAATTACCGA
Found at i:62182659 original size:20 final size:20
Alignment explanation
Indices: 62182634--62182671 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
62182624 ATCATGTCTG
62182634 GGACATTGGCATTGTATTAA
1 GGACATTGGCATTGTATTAA
62182654 GGACATTGGCATTGTATT
1 GGACATTGGCATTGTATT
62182672 GAGATTACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.11, G:0.26, T:0.37
Consensus pattern (20 bp):
GGACATTGGCATTGTATTAA
Found at i:62182728 original size:43 final size:42
Alignment explanation
Indices: 62182654--62182751 Score: 108
Period size: 43 Copynumber: 2.3 Consensus size: 42
62182644 ATTGTATTAA
* *
62182654 GGACATTGGCATTGTATTGAGATTACATGTAAGACCATGTCTG
1 GGACATTGGCATTGTATT-AGATTACATGTAAAACCATGTCAG
* * *
62182697 GGACATTGGCATTGTTAATT-GATTTCGTGTAAAACCCTGTCAG
1 GGACATTGGCATTG-T-ATTAGATTACATGTAAAACCATGTCAG
*
62182740 GGACAGTGGCAT
1 GGACATTGGCAT
62182752 CGATATGTGG
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
43 43 0.91
44 1 0.02
45 3 0.06
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.32
Consensus pattern (42 bp):
GGACATTGGCATTGTATTAGATTACATGTAAAACCATGTCAG
Found at i:62189083 original size:2 final size:2
Alignment explanation
Indices: 62189076--62189106 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
62189066 TTAGTTTAGT
62189076 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
62189107 TGAATGGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:62193602 original size:23 final size:23
Alignment explanation
Indices: 62193576--62193653 Score: 129
Period size: 23 Copynumber: 3.4 Consensus size: 23
62193566 TTTACCGCTA
62193576 TTAGCAGCTTTGCTGCATTACTT
1 TTAGCAGCTTTGCTGCATTACTT
*
62193599 TTAGCATCTTTGCTGCATTACTT
1 TTAGCAGCTTTGCTGCATTACTT
* *
62193622 TTAGCAGCTTTGATGCATTACTA
1 TTAGCAGCTTTGCTGCATTACTT
62193645 TTAGCAGCT
1 TTAGCAGCT
62193654 ACGCTGTGAT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.42
Consensus pattern (23 bp):
TTAGCAGCTTTGCTGCATTACTT
Found at i:62193817 original size:28 final size:31
Alignment explanation
Indices: 62193781--62193861 Score: 87
Period size: 33 Copynumber: 2.6 Consensus size: 31
62193771 ATACTATTTT
* *
62193781 GGGCATAGGCCCACACTGT-TA-A-TACATA
1 GGGCTTAGGCCCAGACTGTATATACTACATA
* *
62193809 GGGCTTAGGCCTAGACTGTACTATTACTGCATA
1 GGGCTTAGGCCCAGACTGTA-TA-TACTACATA
62193842 GGGCTTAGGCCCAGACTGTA
1 GGGCTTAGGCCCAGACTGTA
62193862 CTGTTATTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
28 16 0.37
30 2 0.05
32 1 0.02
33 24 0.56
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (31 bp):
GGGCTTAGGCCCAGACTGTATATACTACATA
Found at i:62193847 original size:33 final size:33
Alignment explanation
Indices: 62193805--62193891 Score: 120
Period size: 33 Copynumber: 2.6 Consensus size: 33
62193795 ACTGTTAATA
*
62193805 CATAGGGCTTAGGCCTAGACTGTACTATTACTG
1 CATAGGGCTTAGGCCCAGACTGTACTATTACTG
* *
62193838 CATAGGGCTTAGGCCCAGACTGTACTGTTATTG
1 CATAGGGCTTAGGCCCAGACTGTACTATTACTG
* * *
62193871 AATAGGGCTCAGGCGCAGACT
1 CATAGGGCTTAGGCCCAGACT
62193892 ATTACTGTAT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 48 1.00
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (33 bp):
CATAGGGCTTAGGCCCAGACTGTACTATTACTG
Found at i:62195841 original size:25 final size:25
Alignment explanation
Indices: 62195813--62195874 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 25
62195803 ACGTCTGTTG
* * * *
62195813 CATCATCGTTGATAGTCTTCTGCTA
1 CATCACCGTTGATAGTCCTCTACAA
**
62195838 CATCACCGTCAATAGTCCTCTACAA
1 CATCACCGTTGATAGTCCTCTACAA
62195863 CATCACCGTTGA
1 CATCACCGTTGA
62195875 AAATCCTTCG
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.26, C:0.31, G:0.13, T:0.31
Consensus pattern (25 bp):
CATCACCGTTGATAGTCCTCTACAA
Found at i:62198496 original size:40 final size:39
Alignment explanation
Indices: 62198451--62198579 Score: 154
Period size: 40 Copynumber: 3.3 Consensus size: 39
62198441 CGGAATACAA
62198451 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
62198491 CCGGATAGAACGACTTGCACGAATG-CTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
62198530 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
62198570 CCGGATATAA
1 CCGGATATAA
62198580 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
38 3 0.04
39 29 0.39
40 43 0.57
ACGTcount: A:0.23, C:0.28, G:0.26, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:62206531 original size:39 final size:38
Alignment explanation
Indices: 62206488--62206615 Score: 134
Period size: 39 Copynumber: 3.3 Consensus size: 38
62206478 CGGAATACAA
62206488 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAG
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAG
* *
62206527 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAG
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAG
* * * *
62206566 CCCGGATGTAGCCGCTAGCA--AATTGCCTTCGGGTCTTAAC
1 -CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTT-AG
62206606 CCGGATATAA
1 CCGGATATAA
62206616 TTTCCAGCAT
Statistics
Matches: 74, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
38 2 0.03
39 59 0.80
40 13 0.18
ACGTcount: A:0.23, C:0.27, G:0.26, T:0.23
Consensus pattern (38 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAG
Found at i:62210293 original size:40 final size:39
Alignment explanation
Indices: 62210248--62210377 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
62210238 CGGAATACAA
62210248 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
62210288 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
62210328 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
62210368 CCGGATATAA
1 CCGGATATAA
62210378 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:62219531 original size:49 final size:48
Alignment explanation
Indices: 62219459--62219647 Score: 198
Period size: 49 Copynumber: 3.8 Consensus size: 48
62219449 TGAGGTCACG
* *
62219459 TGTGTAGTACTAAGTGTAGGCTACTACGTGTAGCGAATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAATAATTGGTCGCA
* * * * ***
62219508 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCAAAAACTGTGATCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAATAA-T-TGGTCGCA
* * *
62219559 TGTGTAGTACTAAGTGTAGGCTACTACATGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA-ATAATTGGTCGCA
* *
62219608 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA-ATAA
62219648 CTTCGGCTAC
Statistics
Matches: 112, Mismatches: 25, Indels: 6
0.78 0.17 0.04
Matches are distributed among these distances:
49 73 0.65
50 5 0.04
51 34 0.30
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (48 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAATAATTGGTCGCA
Found at i:62219631 original size:100 final size:100
Alignment explanation
Indices: 62219458--62219641 Score: 325
Period size: 100 Copynumber: 1.8 Consensus size: 100
62219448 GTGAGGTCAC
* *
62219458 GTGTGTAGTACTAAGTGTAGGCTACTACGTGTAGCGAATAATTGGTCGCATGTGTAGTACTAAGT
1 GTGTGTAGTACTAAGTGTAGGCTACTACATGTACCGAATAATTGGTCGCATGTGTAGTACTAAGT
62219523 GCAGGCTACTATGCGTACCCAAAAACTGTGATCAT
66 GCAGGCTACTATGCGTACCCAAAAACTGTGATCAT
*
62219558 GTGTGTAGTACTAAGTGTAGGCTACTACATGTACC-AGATTATTGGTCGCATGTGTAGTACTAAG
1 GTGTGTAGTACTAAGTGTAGGCTACTACATGTACCGA-ATAATTGGTCGCATGTGTAGTACTAAG
62219622 TGCAGGCTACTATGCGTACC
65 TGCAGGCTACTATGCGTACC
62219642 AGATAACTTC
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
99 1 0.01
100 79 0.99
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (100 bp):
GTGTGTAGTACTAAGTGTAGGCTACTACATGTACCGAATAATTGGTCGCATGTGTAGTACTAAGT
GCAGGCTACTATGCGTACCCAAAAACTGTGATCAT
Found at i:62222475 original size:59 final size:59
Alignment explanation
Indices: 62222294--62222624 Score: 504
Period size: 59 Copynumber: 5.6 Consensus size: 59
62222284 GAGGTGTTAC
* *
62222294 AATAATTTTATGAATAATTGATTAATTTTCAATTAATTAAATAAATAATCATATTTCAT
1 AATAATTCTATGAATAATTAATTAATTTTCAATTAATTAAATAAATAATCATATTTCAT
* *
62222353 AATAATTCTATGAATAATTAATTAATTTT-TATTAAATAAATAAATAATCATATTTCAT
1 AATAATTCTATGAATAATTAATTAATTTTCAATTAATTAAATAAATAATCATATTTCAT
* * * * *
62222411 AATAATTTTACGAATAATTAATTAATTTTCAATTAATTAATTAATTAATCATATTGCAT
1 AATAATTCTATGAATAATTAATTAATTTTCAATTAATTAAATAAATAATCATATTTCAT
**
62222470 AATAATTCTATGAATAATTAATTAATTTTTTATTAATTAAATAAATAATCATATTTCAT
1 AATAATTCTATGAATAATTAATTAATTTTCAATTAATTAAATAAATAATCATATTTCAT
* * *
62222529 AATAATTTTATGAGTAATTAATTAATTTTCAATTTAA-TAAATAAATAATCGTATTTCAT
1 AATAATTCTATGAATAATTAATTAATTTTCAA-TTAATTAAATAAATAATCATATTTCAT
*
62222588 AATAATTCTATGAATAATTAATTAATTTTCGATTAAT
1 AATAATTCTATGAATAATTAATTAATTTTCAATTAAT
62222625 CATTCATTTA
Statistics
Matches: 243, Mismatches: 26, Indels: 6
0.88 0.09 0.02
Matches are distributed among these distances:
58 58 0.24
59 181 0.74
60 4 0.02
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.46
Consensus pattern (59 bp):
AATAATTCTATGAATAATTAATTAATTTTCAATTAATTAAATAAATAATCATATTTCAT
Found at i:62226372 original size:43 final size:43
Alignment explanation
Indices: 62226325--62226459 Score: 112
Period size: 43 Copynumber: 3.1 Consensus size: 43
62226315 GATCATGGTA
62226325 TTTAGCGGCGCTTCTACTAAAAATGCCACTAAAGAACATAATC
1 TTTAGCGGCGCTTCTACTAAAAATGCCACTAAAGAACATAATC
** * * ** * *
62226368 TTTAGCAACACTTCT-CATAAAAACGCTGCTAAAGAACATTATA
1 TTTAGCGGCGCTTCTAC-TAAAAATGCCACTAAAGAACATAATC
* * * * * *
62226411 TTTAGTGGCGTTTGTA-AAAAAAGTGCCACTATAGAACATGATC
1 TTTAGCGGCGCTTCTACTAAAAA-TGCCACTAAAGAACATAATC
62226454 TTTAGC
1 TTTAGC
62226460 AGCATTTGTA
Statistics
Matches: 67, Mismatches: 22, Indels: 6
0.71 0.23 0.06
Matches are distributed among these distances:
42 6 0.09
43 61 0.91
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (43 bp):
TTTAGCGGCGCTTCTACTAAAAATGCCACTAAAGAACATAATC
Found at i:62226501 original size:86 final size:86
Alignment explanation
Indices: 62226303--62226505 Score: 223
Period size: 86 Copynumber: 2.4 Consensus size: 86
62226293 TTCTCTCATG
* * * *
62226303 AACGCCGTTAAAGATCATGGTATTTAGCGGCGCTTCTACTAAAAATGCCACTAAAGAACATAATC
1 AACGCCGCTAAAGATCATGTTATTTAGTGGCGCTTCTACAAAAAATGCCACTAAAGAACATAATC
*
62226368 TTTAGCAACACTTCTCATAAA
66 TTTAGCAACACTTCTCAGAAA
* * * * * *
62226389 AACGCTGCTAAAGAACAT-TATATTTAGTGGCGTTTGTA-AAAAAAGTGCCACTATAGAACATGA
1 AACGCCGCTAAAGATCATGT-TATTTAGTGGCGCTTCTACAAAAAA-TGCCACTAAAGAACATAA
* * *
62226452 TCTTTAGCAGCATTTGT-AGAAA
64 TCTTTAGCAACACTTCTCAGAAA
*
62226474 AAGCGCCGCTAAAGATCATGTTCTTTAGTGGC
1 AA-CGCCGCTAAAGATCATGTTATTTAGTGGC
62226506 ATTTTTGCGA
Statistics
Matches: 96, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
85 11 0.11
86 84 0.88
87 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (86 bp):
AACGCCGCTAAAGATCATGTTATTTAGTGGCGCTTCTACAAAAAATGCCACTAAAGAACATAATC
TTTAGCAACACTTCTCAGAAA
Found at i:62226508 original size:43 final size:43
Alignment explanation
Indices: 62226386--62226552 Score: 124
Period size: 43 Copynumber: 3.9 Consensus size: 43
62226376 CACTTCTCAT
* * * * *
62226386 AAAAA-CGCTGCTAAAGAACAT-TATATTTAGTGGCGTTTGTAA
1 AAAAAGCGCCGCTAAAGAACATGT-TCTTTAGCGGCATTTGTAG
* * * * *
62226428 AAAAAGTGCCACTATAGAACATGATCTTTAGCAGCATTTGTAG
1 AAAAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCATTTGTAG
* * *
62226471 AAAAAGCGCCGCTAAAGATCATGTTCTTTAGTGGCATTT-TTG
1 AAAAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCATTTGTAG
* * * * * *
62226513 CGAGAAGCACCGCAAAAGATCATGTTCTATAGCGGCATTT
1 -AAAAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCATTT
62226553 TTCAACATAA
Statistics
Matches: 98, Mismatches: 24, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
42 7 0.07
43 91 0.93
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (43 bp):
AAAAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCATTTGTAG
Found at i:62227588 original size:30 final size:30
Alignment explanation
Indices: 62227548--62227606 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
62227538 CCAAAATGAG
*
62227548 AAATTTCAAAAAATAATAATGA-ATTAGTAT
1 AAATTGCAAAAAATAA-AATGAGATTAGTAT
* *
62227578 AAATTGCAAAATATAAAATTAGATTAGTA
1 AAATTGCAAAAAATAAAATGAGATTAGTA
62227607 ACTAATAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.56, C:0.03, G:0.08, T:0.32
Consensus pattern (30 bp):
AAATTGCAAAAAATAAAATGAGATTAGTAT
Found at i:62229981 original size:16 final size:16
Alignment explanation
Indices: 62229960--62229991 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
62229950 AATAAACAAG
62229960 TAAAGACTTTTAAATT
1 TAAAGACTTTTAAATT
62229976 TAAAGACTTTTAAATT
1 TAAAGACTTTTAAATT
62229992 CTAAGGTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (16 bp):
TAAAGACTTTTAAATT
Found at i:62234558 original size:24 final size:24
Alignment explanation
Indices: 62234531--62234741 Score: 377
Period size: 24 Copynumber: 8.8 Consensus size: 24
62234521 CTTATTATGT
**
62234531 TCGCACACATAGTGCCATAGCGAA
1 TCGCACACATAGTGCCATAGTAAA
62234555 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
62234579 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
62234603 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
*
62234627 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
62234651 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
62234675 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
62234699 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
62234723 TCGCACACATAGTGCCATA
1 TCGCACACATAGTGCCATA
62234742 TATTTCCAGC
Statistics
Matches: 182, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 182 1.00
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.20
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:62238619 original size:14 final size:14
Alignment explanation
Indices: 62238600--62238627 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
62238590 AATTATGATT
62238600 TATGAACTGATTTG
1 TATGAACTGATTTG
62238614 TATGAACTGATTTG
1 TATGAACTGATTTG
62238628 GAATAATGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.43
Consensus pattern (14 bp):
TATGAACTGATTTG
Found at i:62239043 original size:48 final size:48
Alignment explanation
Indices: 62238972--62239198 Score: 230
Period size: 48 Copynumber: 4.8 Consensus size: 48
62238962 ATATGGCATC
*
62238972 GGCATCGGCATCGATATGTGATCCCATGTAAGACCATGTTTGAGACAT
1 GGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTTTGAGACAT
* *
62239020 GGCATTGGCATCGTTATGTGATCCCATGTAAGACCATGTTTGGGACAT
1 GGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTTTGAGACAT
* * * * **
62239068 GGCATTGGCATCGATATGAGAACATCGTGTAAGACCATAATTGAG-CTAT
1 GGCATTGGCATCGATATGTGATC-CCATGTAAGACCATGTTTGAGAC-AT
* * * * * *
62239117 CGGC-TTCG-AT--ATGTGTGATCCCATGAAAGACAATGTCTGGGACAT
1 -GGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTTTGAGACAT
* * *
62239162 GGCATTGGCATCTATAAGTGGTCCCATGTAAGACCAT
1 GGCATTGGCATCGATATGTGATCCCATGTAAGACCAT
62239199 ATCCGGGATA
Statistics
Matches: 142, Mismatches: 29, Indels: 16
0.76 0.16 0.09
Matches are distributed among these distances:
44 3 0.02
45 18 0.13
46 10 0.07
48 87 0.61
49 21 0.15
50 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (48 bp):
GGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTTTGAGACAT
Found at i:62245327 original size:14 final size:14
Alignment explanation
Indices: 62245308--62245337 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
62245298 CACTATGTGT
62245308 GTGAGTATTCCCGA
1 GTGAGTATTCCCGA
*
62245322 GTGAGTATTCTCGA
1 GTGAGTATTCCCGA
62245336 GT
1 GT
62245338 ATCTGATGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.17, G:0.30, T:0.33
Consensus pattern (14 bp):
GTGAGTATTCCCGA
Found at i:62250713 original size:66 final size:68
Alignment explanation
Indices: 62250635--62250821 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
62250625 TAGTACCACT
*
62250635 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
62250697 CACG
65 CACG
62250701 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
62250766 ATCACG
63 ATCACG
62250772 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
62250822 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:62250746 original size:71 final size:71
Alignment explanation
Indices: 62250658--62250821 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
62250648 CGATTTGTCT
62250658 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
62250723 CTTTCA
66 CTTTCA
62250729 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
62250794 CTTTCA
66 CTTTCA
62250800 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
62250822 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:62250859 original size:71 final size:70
Alignment explanation
Indices: 62250658--62250855 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
62250648 CGATTTGTCT
* * * *
62250658 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
62250723 CTTTCA
65 CTTTCA
* * * *
62250729 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
62250794 CTTTCA
65 CTTTCA
* *
62250800 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
62250856 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:62258314 original size:71 final size:71
Alignment explanation
Indices: 62258228--62258391 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
62258218 CGATTTGTCT
62258228 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
62258293 CTTTCA
66 CTTTCA
62258299 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
62258364 CTTTCA
66 CTTTCA
62258370 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
62258392 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:62258429 original size:71 final size:70
Alignment explanation
Indices: 62258228--62258425 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
62258218 CGATTTGTCT
* * * *
62258228 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
62258293 CTTTCA
65 CTTTCA
* * * *
62258299 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
62258364 CTTTCA
65 CTTTCA
* *
62258370 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
62258426 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:62260827 original size:18 final size:18
Alignment explanation
Indices: 62260804--62260862 Score: 55
Period size: 19 Copynumber: 3.2 Consensus size: 18
62260794 GTACGGGATT
62260804 ATGCACTTGTGCGCCAAG
1 ATGCACTTGTGCGCCAAG
** *
62260822 ATGCACTTTGTAAGCCAAT
1 ATGCAC-TTGTGCGCCAAG
* *
62260841 ATGCATTTTGTGCGTCAAG
1 ATGCA-CTTGTGCGCCAAG
62260860 ATG
1 ATG
62260863 TGTTTTGTAC
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
18 6 0.19
19 25 0.81
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (18 bp):
ATGCACTTGTGCGCCAAG
Found at i:62262936 original size:19 final size:19
Alignment explanation
Indices: 62262912--62262954 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
62262902 TAGTTTGTAT
62262912 TCAAACATATGTCTAAATA
1 TCAAACATATGTCTAAATA
62262931 TCAAACATATGTCTAAATA
1 TCAAACATATGTCTAAATA
62262950 TCAAA
1 TCAAA
62262955 TGGAATAGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.49, C:0.16, G:0.05, T:0.30
Consensus pattern (19 bp):
TCAAACATATGTCTAAATA
Found at i:62270047 original size:54 final size:54
Alignment explanation
Indices: 62269913--62270112 Score: 221
Period size: 53 Copynumber: 3.7 Consensus size: 54
62269903 TTTAAGGATC
* *
62269913 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTT-TCTAAGG-AAAGGAAA
1 CCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-GTTCTATAAGGCAAAGG-AA
* * ** *
62269968 TCATGTAAGACCATGTCAAGACATGGCATTTATAAGTTACTATAAGGCAAAGG-C
1 CCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-CTATAAGGCAAAGGAA
* *
62270022 CCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC-AAGGATA
1 CCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGCAAAGGA-A
* *
62270075 CCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 CCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT
62270113 TCAAAAGGAT
Statistics
Matches: 122, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
51 4 0.03
52 7 0.06
53 38 0.31
54 38 0.31
55 30 0.25
56 5 0.04
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (54 bp):
CCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGCAAAGGAA
Found at i:62270111 original size:107 final size:109
Alignment explanation
Indices: 62269912--62270112 Score: 309
Period size: 107 Copynumber: 1.9 Consensus size: 109
62269902 GTTTAAGGAT
*
62269912 CCCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGAAAGGAAATCATGTAAG
1 CCCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGAAAGGAAACCATGTAAG
* *
62269977 ACCATGTCAAGACATGGCATTTATAAGTTACTATAAGGCAAAGG
66 ACCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGG
* * *
62270021 CCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAA
1 CCCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGAAAGGAAACCATGTAA
*
62270083 GACCATGTCAAGACATGGCAATGGTAAGTT
65 GACCATGTCAAGACATGGCAATGATAAGTT
62270113 TCAAAAGGAT
Statistics
Matches: 84, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
106 3 0.04
107 46 0.55
108 7 0.08
109 28 0.33
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (109 bp):
CCCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGAAAGGAAACCATGTAAG
ACCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGG
Found at i:62270372 original size:16 final size:16
Alignment explanation
Indices: 62270351--62270381 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
62270341 ATAAATTTGA
62270351 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
62270367 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
62270382 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:62275681 original size:40 final size:40
Alignment explanation
Indices: 62275585--62275737 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
62275575 CGAATGGTAT
* * * *
62275585 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
62275626 CCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * *
62275666 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTATTACAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * *
62275706 CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
62275738 CGCTATATCC
Statistics
Matches: 94, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
40 69 0.73
41 25 0.27
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:62278333 original size:39 final size:38
Alignment explanation
Indices: 62278275--62278393 Score: 135
Period size: 33 Copynumber: 3.3 Consensus size: 38
62278265 GGGTCAATGC
*
62278275 TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG
1 TCCCGAAGGCATTTATGCGAGTTAC-AAA-CCGGGTTAAG
62278315 TCCCG-AGGCATTTATGCGAGTTACAAACCGGGTTAAG
1 TCCCGAAGGCATTTATGCGAGTTACAAACCGGGTTAAG
* * *
62278352 T-CCGAAGGC--TT-TGCGAGTT-TAAACCGGGCTATG
1 TCCCGAAGGCATTTATGCGAGTTACAAACCGGGTTAAG
62278385 T-CCGAAGGC
1 TCCCGAAGGC
62278394 TTTGAACGAG
Statistics
Matches: 74, Mismatches: 4, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
33 20 0.27
34 8 0.11
35 2 0.03
36 3 0.04
37 15 0.20
38 3 0.04
39 18 0.24
40 5 0.07
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (38 bp):
TCCCGAAGGCATTTATGCGAGTTACAAACCGGGTTAAG
Found at i:62285921 original size:38 final size:39
Alignment explanation
Indices: 62285870--62285978 Score: 141
Period size: 38 Copynumber: 2.8 Consensus size: 39
62285860 CTGGAAATTA
* *
62285870 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGT-GGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTAGGC
**
62285908 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGT-AGGC
*
62285948 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
62285979 ACATGATTAT
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
37 3 0.05
38 29 0.47
40 28 0.45
41 2 0.03
ACGTcount: A:0.23, C:0.25, G:0.29, T:0.23
Consensus pattern (39 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTAGGC
Found at i:62285992 original size:40 final size:39
Alignment explanation
Indices: 62285830--62285994 Score: 142
Period size: 40 Copynumber: 4.2 Consensus size: 39
62285820 AAATTGAATG
* *
62285830 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAA--ATT
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAATGATT
* * * *
62285869 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTA-G-TGG
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATGAT-T
* * * *
62285907 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATGATT
*
62285947 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCA-ATGATT
62285987 ATATCCGG
1 ATATCCGG
62285995 TTATATTCCG
Statistics
Matches: 101, Mismatches: 18, Indels: 13
0.77 0.14 0.10
Matches are distributed among these distances:
37 4 0.04
38 30 0.30
39 16 0.16
40 50 0.50
41 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.24
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATGATT
Found at i:62293906 original size:40 final size:40
Alignment explanation
Indices: 62293847--62293988 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
62293837 AAATTGAATG
* * *
62293847 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
62293887 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
62293927 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
62293967 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
62293989 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:62294012 original size:40 final size:40
Alignment explanation
Indices: 62293885--62294014 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
62293875 ATGCTGGAAA
* * *
62293885 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * **
62293925 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* *
62293965 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
62294005 TTATATCCGG
1 TTATATCCGG
62294015 TTATATTCCG
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
39 1 0.01
40 74 0.99
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:62298604 original size:43 final size:42
Alignment explanation
Indices: 62298541--62298660 Score: 134
Period size: 43 Copynumber: 2.8 Consensus size: 42
62298531 TACCATACCA
* * *
62298541 ATGCCATATCCCAAATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATAGCCCAGATATGGTCTTACATGTAATCTCATATCG
* * **
62298583 ATGCCAATAGGCCAGCTATGGTCTTAC-TCAAAGTCTCATATCG
1 ATGCC-ATAGCCCAGATATGGTCTTACATGTAA-TCTCATATCG
* *
62298626 ATGCCATATCCCAGATATGGTCTTACACGTAATCT
1 ATGCCATAGCCCAGATATGGTCTTACATGTAATCT
62298661 TAGTAACCCT
Statistics
Matches: 62, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
42 29 0.47
43 33 0.53
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (42 bp):
ATGCCATAGCCCAGATATGGTCTTACATGTAATCTCATATCG
Found at i:62300447 original size:45 final size:45
Alignment explanation
Indices: 62300393--62300609 Score: 319
Period size: 45 Copynumber: 4.8 Consensus size: 45
62300383 CATTTCACCG
* *
62300393 GCATTATAGCCTGCTAGGCTCGAAGGCCTGAATAGTATCTCATCA
1 GCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCATCA
*
62300438 GCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCA-CTG
1 GCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCATC-A
* * **
62300483 GCATCATAGCCTGCTAGGCTCAAAGGCCCAAATAGTATCTCATTG
1 GCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCATCA
* *
62300528 GCATTATAGCCTTCTAGGCTCAAAGGCCCGAATAGTATCTCACCA
1 GCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCATCA
* *
62300573 GCATCATAGCCTACTAGGCTCAAAGGCCCGAATAGTA
1 GCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
62300610 CCGTATAATA
Statistics
Matches: 156, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
44 1 0.01
45 155 0.99
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.24
Consensus pattern (45 bp):
GCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCATCA
Found at i:62300492 original size:90 final size:90
Alignment explanation
Indices: 62300387--62300609 Score: 356
Period size: 90 Copynumber: 2.5 Consensus size: 90
62300377 CGATATCATT
* * *
62300387 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCTGAATAGTATCTCATCAGCATTATAGCCTGC
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCATCAGCATTATAGCCTGC
62300452 TAGGCTCAAAGGCCCGAATAGTATC
66 TAGGCTCAAAGGCCCGAATAGTATC
* * ** *
62300477 TCACTGGCATCATAGCCTGCTAGGCTCAAAGGCCCAAATAGTATCTCATTGGCATTATAGCCTTC
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCATCAGCATTATAGCCTGC
62300542 TAGGCTCAAAGGCCCGAATAGTATC
66 TAGGCTCAAAGGCCCGAATAGTATC
* *
62300567 TCACCAGCATCATAGCCTACTAGGCTCAAAGGCCCGAATAGTA
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
62300610 CCGTATAATA
Statistics
Matches: 121, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
90 121 1.00
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (90 bp):
TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCATCAGCATTATAGCCTGC
TAGGCTCAAAGGCCCGAATAGTATC
Found at i:62305085 original size:43 final size:42
Alignment explanation
Indices: 62305023--62305142 Score: 143
Period size: 43 Copynumber: 2.8 Consensus size: 42
62305013 TACAATACCA
** *
62305023 ATGCCATATCCCAGATATGGTCTTACATGTAATCTGGTATTG
1 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCATATCG
* * **
62305065 ATGCCAATAGCCCAGCTATGGTCTTAC-TCAAAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACATGTAA-TCTCATATCG
*
62305108 ATGCCATATCCCAGATATGGTCTTACACGTAATCT
1 ATGCCATATCCCAGATATGGTCTTACATGTAATCT
62305143 TAGTAGCCCT
Statistics
Matches: 63, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
42 30 0.48
43 33 0.52
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGTAATCTCATATCG
Found at i:62308162 original size:13 final size:13
Alignment explanation
Indices: 62308144--62308169 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
62308134 TACTCGGACA
62308144 CTGTCATATTTCC
1 CTGTCATATTTCC
62308157 CTGTCATATTTCC
1 CTGTCATATTTCC
62308170 TTATTTGAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.08, T:0.46
Consensus pattern (13 bp):
CTGTCATATTTCC
Found at i:62309464 original size:30 final size:29
Alignment explanation
Indices: 62309428--62309500 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 29
62309418 GTAGGGGACA
*
62309428 CACGGCCAGACCACATTCCCATGTGTCACC
1 CACGGCCAGA-CACATGCCCATGTGTCACC
*
62309458 CACGGCCAAGACACATGCCCGTGTGTCACC
1 CACGGCC-AGACACATGCCCATGTGTCACC
*
62309488 CACAGCCAAGACA
1 CACGGCC-AGACA
62309501 TACGCCTCTG
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
30 36 0.92
31 3 0.08
ACGTcount: A:0.27, C:0.41, G:0.19, T:0.12
Consensus pattern (29 bp):
CACGGCCAGACACATGCCCATGTGTCACC
Found at i:62309513 original size:30 final size:30
Alignment explanation
Indices: 62309449--62309514 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
62309439 CACATTCCCA
* *
62309449 TGTGTCACCCACGGCCAAGACACATGCCCG
1 TGTGTCACCCACAGCCAAGACACACGCCCG
*
62309479 TGTGTCACCCACAGCCAAGACATACGCCTC-
1 TGTGTCACCCACAGCCAAGACACACGCC-CG
62309509 TGTGTC
1 TGTGTC
62309515 TACTCGTATG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
30 31 0.97
31 1 0.03
ACGTcount: A:0.23, C:0.38, G:0.21, T:0.18
Consensus pattern (30 bp):
TGTGTCACCCACAGCCAAGACACACGCCCG
Found at i:62314424 original size:30 final size:30
Alignment explanation
Indices: 62314390--62314449 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
62314380 ATTTAATACG
62314390 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
62314420 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
62314450 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:62323372 original size:20 final size:20
Alignment explanation
Indices: 62323344--62323382 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
62323334 CATGGGTGTT
*
62323344 GATATGATACAAATGTCATA
1 GATAAGATACAAATGTCATA
62323364 GATAAGATACAAATGTCAT
1 GATAAGATACAAATGTCAT
62323383 GACATTAGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.28
Consensus pattern (20 bp):
GATAAGATACAAATGTCATA
Found at i:62326850 original size:29 final size:29
Alignment explanation
Indices: 62326818--62326874 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
62326808 AATGAATGAG
62326818 ATTGGTGAGTTTAGTTTCCATTATACGAT
1 ATTGGTGAGTTTAGTTTCCATTATACGAT
62326847 ATTGGTGAGTTTAGTTTCCATTATACGA
1 ATTGGTGAGTTTAGTTTCCATTATACGA
62326875 ACTTACGAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.25, C:0.11, G:0.21, T:0.44
Consensus pattern (29 bp):
ATTGGTGAGTTTAGTTTCCATTATACGAT
Found at i:62334953 original size:2 final size:2
Alignment explanation
Indices: 62334946--62334971 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
62334936 CGGCTCTAGC
62334946 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
62334972 GTTTGCACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:62335774 original size:40 final size:40
Alignment explanation
Indices: 62335676--62335790 Score: 119
Period size: 40 Copynumber: 2.9 Consensus size: 40
62335666 TTCGAATGGT
* *
62335676 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAA
1 ATCCGGGCTATGTCCCGAAGGCTTTTGTGC-GAGTGACTAA
* * *
62335717 ATCCGGGTCAAT-TCCCGAAGGCATTTGTGCGAGCT-ATTACA
1 ATCCGGG-CTATGTCCCGAAGGCTTTTGTGCGAG-TGACTA-A
*
62335758 A-CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 ATCCGGGCTATGTCCCGAAGGCTTTTGTGCGAGT
62335791 CGCTATATCC
Statistics
Matches: 62, Mismatches: 8, Indels: 10
0.77 0.10 0.12
Matches are distributed among these distances:
39 4 0.06
40 29 0.47
41 27 0.44
42 2 0.03
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTATGTCCCGAAGGCTTTTGTGCGAGTGACTAA
Found at i:62340801 original size:55 final size:53
Alignment explanation
Indices: 62340692--62340946 Score: 227
Period size: 55 Copynumber: 4.8 Consensus size: 53
62340682 ATTAGGGTTT
* * * * * *
62340692 AAGGATCCCATGCAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-CAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGG-CATTGGTAA-G-TTCATAAGGC
* * * *
62340747 AAGGAAATCAAGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT-C-ATAAGGC
* * * *
62340802 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGC
* *
62340855 AAGGATACCATGTAAGACCATGTCAATACATGGCAATGGTAAGTT--TCAA---
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCAT-AAGGC
* * *
62340904 AAGGATACCATGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAG
62340947 GTACCCGCGT
Statistics
Matches: 167, Mismatches: 27, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
49 40 0.24
51 1 0.01
52 8 0.05
53 43 0.26
54 8 0.05
55 63 0.38
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGC
Found at i:62340888 original size:108 final size:111
Alignment explanation
Indices: 62340692--62340899 Score: 289
Period size: 108 Copynumber: 1.9 Consensus size: 111
62340682 ATTAGGGTTT
*
62340692 AAGGATCCCATGCAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCCAAGGCAAGGAAATCA
1 AAGGATCCCATGCAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCCAAGGCAAGGAAACCA
*
62340757 AGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCA
66 AGTAAGACCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCA
* * * * *
62340803 AAGG-TCCCATGTAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGATACC
1 AAGGATCCCATGCAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-CAAGGCAAGGAAACC
* * *
62340864 ATGTAAGACCATGTCAATACATGGCAATGGTAAGTT
65 AAGTAAGACCATGTCAAGACATGGCAATGATAAGTT
62340900 TCAAAAGGAT
Statistics
Matches: 86, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
107 3 0.03
108 45 0.52
109 7 0.08
110 27 0.31
111 4 0.05
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (111 bp):
AAGGATCCCATGCAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCCAAGGCAAGGAAACCA
AGTAAGACCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCA
Found at i:62343202 original size:32 final size:31
Alignment explanation
Indices: 62343159--62343230 Score: 87
Period size: 31 Copynumber: 2.3 Consensus size: 31
62343149 TAATAAATGC
62343159 AAAA-AATATAAAATTGTT-AAATATTAA-CTTA
1 AAAATAATATAAAATT-TTCAAATA--AATCTTA
*
62343190 AAAATAATATAAAATTTTCAAATAAATTTTA
1 AAAATAATATAAAATTTTCAAATAAATCTTA
62343221 AAAATAATAT
1 AAAATAATAT
62343231 TGGTGGGTCT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
30 2 0.05
31 19 0.51
32 16 0.43
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (31 bp):
AAAATAATATAAAATTTTCAAATAAATCTTA
Found at i:62349835 original size:10 final size:11
Alignment explanation
Indices: 62349816--62349840 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
62349806 TGACTATTTC
62349816 TTTTCTTTTTT
1 TTTTCTTTTTT
62349827 TTTTCTTTTTT
1 TTTTCTTTTTT
62349838 TTT
1 TTT
62349841 GCTCCAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:62354144 original size:45 final size:45
Alignment explanation
Indices: 62354095--62354195 Score: 130
Period size: 45 Copynumber: 2.2 Consensus size: 45
62354085 ACCAGAAACG
* * * * * *
62354095 AGTAAGACCTTGACTGAAAGACATTATGGCATCACGATTCTATCA
1 AGTAAGACCATGACTAAAAGAAAGTATGACATCACAATTCTATCA
*
62354140 AGTAAGACCATGACTAAAAGAAAGTATGACATCACAATTCTATCG
1 AGTAAGACCATGACTAAAAGAAAGTATGACATCACAATTCTATCA
*
62354185 AGTAAAACCAT
1 AGTAAGACCAT
62354196 AGCTGAAAGA
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.24
Consensus pattern (45 bp):
AGTAAGACCATGACTAAAAGAAAGTATGACATCACAATTCTATCA
Found at i:62354291 original size:46 final size:46
Alignment explanation
Indices: 62354230--62354352 Score: 201
Period size: 46 Copynumber: 2.7 Consensus size: 46
62354220 AAATCAAAGA
*
62354230 AATAAGACCATGGTTGAAAGACACTATGGCAACACGATAGAAAATG
1 AATAAGACCATGGTTGAAAGACACTATGACAACACGATAGAAAATG
* * * *
62354276 AATAAAACCATGGTTGAAATACATTATGACAACACGATGGAAAATG
1 AATAAGACCATGGTTGAAAGACACTATGACAACACGATAGAAAATG
62354322 AATAAGACCATGGTTGAAAGACACTATGACA
1 AATAAGACCATGGTTGAAAGACACTATGACA
62354353 TCAAGACGAG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.20
Consensus pattern (46 bp):
AATAAGACCATGGTTGAAAGACACTATGACAACACGATAGAAAATG
Found at i:62358918 original size:28 final size:27
Alignment explanation
Indices: 62358852--62358919 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 27
62358842 AGTCTTTTAA
*
62358852 AATTTGAAATTTAGTCTTTATATTTTT
1 AATTTAAAATTTAGTCTTTATATTTTT
*
62358879 ATTTTAAGAATTTAGTCTTT-TATGTTTT
1 AATTTAA-AATTTAGTCTTTATAT-TTTT
62358907 AGATTTAAAATTT
1 A-ATTTAAAATTT
62358920 TATATCCATT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
27 8 0.23
28 22 0.63
29 5 0.14
ACGTcount: A:0.31, C:0.03, G:0.09, T:0.57
Consensus pattern (27 bp):
AATTTAAAATTTAGTCTTTATATTTTT
Found at i:62360274 original size:6 final size:6
Alignment explanation
Indices: 62360265--62360289 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
62360255 TATAACTTAG
62360265 CGCTCT CGCTCT CGCTCT CGCTCT C
1 CGCTCT CGCTCT CGCTCT CGCTCT C
62360290 TCTTTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.52, G:0.16, T:0.32
Consensus pattern (6 bp):
CGCTCT
Found at i:62360326 original size:6 final size:6
Alignment explanation
Indices: 62360310--62360351 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
62360300 TTCAGAGAAG
*
62360310 AAAAG- AAAAGAA AAAGAGA AAAAGA AAAAGA AAAAGA GAAAG
1 AAAAGA AAAAG-A AAA-AGA AAAAGA AAAAGA AAAAGA AAAAG
62360352 GGGGAATGGA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
5 5 0.15
6 19 0.58
7 7 0.21
8 2 0.06
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:62360334 original size:14 final size:13
Alignment explanation
Indices: 62360315--62360350 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 13
62360305 AGAAGAAAAG
62360315 AAAAGAAAAAGAGA
1 AAAAGAAAAAGA-A
62360329 AAAAGAAAAAGAA
1 AAAAGAAAAAGAA
62360342 AAAGAGAAA
1 AAA-AGAAA
62360351 GGGGGAATGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 4 0.19
14 17 0.81
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAAGAA
Found at i:62360340 original size:20 final size:19
Alignment explanation
Indices: 62360310--62360350 Score: 73
Period size: 20 Copynumber: 2.1 Consensus size: 19
62360300 TTCAGAGAAG
62360310 AAAAGAAAAGAAAAAGAGA
1 AAAAGAAAAGAAAAAGAGA
62360329 AAAAGAAAAAGAAAAAGAGA
1 AAAAG-AAAAGAAAAAGAGA
62360349 AA
1 AA
62360351 GGGGGAATGG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (19 bp):
AAAAGAAAAGAAAAAGAGA
Found at i:62370330 original size:5 final size:5
Alignment explanation
Indices: 62370317--62370346 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
62370307 CTGCTAAACC
*
62370317 ATTTC ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
62370347 CATATTAGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:62376437 original size:12 final size:12
Alignment explanation
Indices: 62376420--62376451 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
62376410 TGTTTGGTTT
62376420 GGAAGAGGATTA
1 GGAAGAGGATTA
62376432 GGAAGAGGATTA
1 GGAAGAGGATTA
*
62376444 GGACGAGG
1 GGAAGAGG
62376452 TTTGGCCATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.38, C:0.03, G:0.47, T:0.12
Consensus pattern (12 bp):
GGAAGAGGATTA
Found at i:62377807 original size:40 final size:40
Alignment explanation
Indices: 62377627--62377778 Score: 209
Period size: 40 Copynumber: 3.8 Consensus size: 40
62377617 TCGAATGATG
* * ** *
62377627 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTCCCAAA
**
62377667 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTCCCAAA
62377707 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTCCCAAA
62377747 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG
62377779 CTATTATAAC
Statistics
Matches: 102, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
39 1 0.01
40 93 0.91
41 8 0.08
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTCCCAAA
Found at i:62377830 original size:80 final size:79
Alignment explanation
Indices: 62377627--62377845 Score: 223
Period size: 80 Copynumber: 2.7 Consensus size: 79
62377617 TCGAATGATG
62377627 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGT-GACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGC-AAGTCG-CCATATCCGGACTAAGATCCGAAGGCATT
* *
62377691 TGTGCGAGTTCCCAAA
64 TGTGCGAGCTACCAAA
* * * **
62377707 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTC-CCAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCAAG-TCGCCATATCCGGACTAAGAT-CCGAAGGCAT
**
62377770 TTGTGCGAGCTATTATAA
63 TTGTGCGAGCTACCA-AA
* * * *
62377788 -CCGGGCTATGTCCCGAAGGCTTTTGAGCAAGTCGCTATATCCGGA-TAAAATCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCAAGTCGCCATATCCGGACTAAGATCCGAAGG
62377846 TACGTGATTC
Statistics
Matches: 114, Mismatches: 18, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
79 13 0.11
80 91 0.80
81 10 0.09
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCAAGTCGCCATATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGCTACCAAA
Found at i:62389721 original size:49 final size:47
Alignment explanation
Indices: 62389609--62389789 Score: 145
Period size: 49 Copynumber: 3.7 Consensus size: 47
62389599 TAATGCCGAT
* * * * *
62389609 GCCATGTCCTAAACATGGTCTTACACTGGCTCATCCATCAAGTCGAT
1 GCCATGTCCCAAACATGGTCTTACACTGACTCATCAATCAAGTCAAC
* * *
62389656 GCCATGTCCCAGACATGGTCTTACACTGACT-ATCTTAATCGAGGTTAAC
1 GCCATGTCCCAAACATGGTCTTACACTGACTCATC--AATC-AAGTCAAC
* *
62389705 GCCATGTCCCAAACATGGTCTTACACT-AGCTC-TCAAAT-ATCCGTGCCAAT
1 GCCATGTCCCAAACATGGTCTTACACTGA-CTCATC-AATCA--AGT--CAAC
* *
62389755 GCCATGTCCCAGACATGGTCTTACACTGACACATC
1 GCCATGTCCCAAACATGGTCTTACACTGACTCATC
62389790 TTGTAGCTGA
Statistics
Matches: 108, Mismatches: 15, Indels: 18
0.77 0.11 0.13
Matches are distributed among these distances:
46 4 0.04
47 28 0.26
48 9 0.08
49 34 0.31
50 30 0.28
51 3 0.03
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.27
Consensus pattern (47 bp):
GCCATGTCCCAAACATGGTCTTACACTGACTCATCAATCAAGTCAAC
Found at i:62389771 original size:50 final size:49
Alignment explanation
Indices: 62389607--62389872 Score: 166
Period size: 46 Copynumber: 5.6 Consensus size: 49
62389597 TATAATGCCG
* * * * * * *
62389607 ATGCCATGTCCTAAACATGGTCTTACACTGGCTCATC--CATC-AAGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCAAAATCGAGGCCA
** **
62389654 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCTTAATCGAGGTTA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCGAGGCCA
* * * *
62389703 ACGCCATGTCCCAAACATGGTCTTACACT-AGCTCTCAAATATCCG-TGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGA-CTATCAAA-AT-CGAGGCCA
** * **
62389753 ATGCCATGTCCCAGACATGGTCTTACACTGAC-A-C-ATCTTGTA-GCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCG-AGGCCA
* **
62389799 ATG-CATGTCCCAGACAT-GTCTTACACTGGCT-T-ACATCTCGAGGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCA-AAATCGAGGCCA
62389845 ATG-CATGTCCCAGACAT-GTCTTACACTG
1 ATGCCATGTCCCAGACATGGTCTTACACTG
62389873 GCACACAAAT
Statistics
Matches: 178, Mismatches: 27, Indels: 29
0.76 0.12 0.12
Matches are distributed among these distances:
44 12 0.07
45 16 0.09
46 44 0.25
47 31 0.17
48 5 0.03
49 35 0.20
50 32 0.18
51 3 0.02
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (49 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCGAGGCCA
Found at i:62389852 original size:46 final size:44
Alignment explanation
Indices: 62389749--62389877 Score: 170
Period size: 46 Copynumber: 2.8 Consensus size: 44
62389739 AAATATCCGT
* *
62389749 GCCAATGCCATGTCCCAGACATGGTCTTACACTGACACATCTTGTA
1 GCCAATG-CATGTCCCAGACAT-GTCTTACACTGGCACATCTCGTA
**
62389795 GCTGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCG-A
1 GCCAATGCATGTCCCAGACATGTCTTACACTGGC--ACATCTCGTA
62389840 GGCCAATGCATGTCCCAGACATGTCTTACACTGGCACA
1 -GCCAATGCATGTCCCAGACATGTCTTACACTGGCACA
62389878 CAAATAACCT
Statistics
Matches: 74, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
44 15 0.20
45 15 0.20
46 44 0.59
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (44 bp):
GCCAATGCATGTCCCAGACATGTCTTACACTGGCACATCTCGTA
Found at i:62396066 original size:47 final size:49
Alignment explanation
Indices: 62395989--62396119 Score: 142
Period size: 50 Copynumber: 2.7 Consensus size: 49
62395979 AGGGTATAAT
* * * *
62395989 GCCGATGTCATGTCCCAAACTTGGTGTTACACTGGC-TCATC-CAT-CAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTCA-CACATCCAA
* * * *
62396036 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTTCACATATCCAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TTCACACATCCAA
*
62396086 GCCAATGCCATGTCCCAGACATGGTCTTACACTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTG
62396120 ACAAGTCTCG
Statistics
Matches: 69, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
47 30 0.43
48 1 0.01
49 5 0.07
50 33 0.48
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (49 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTCACACATCCAA
Found at i:62396175 original size:46 final size:47
Alignment explanation
Indices: 62396044--62396208 Score: 171
Period size: 46 Copynumber: 3.5 Consensus size: 47
62396034 AAGTCGATGC
* * * *
62396044 CATGTCCCAGACATGGTCTTACACTAGCTTTCACATATCCATGCCAATG
1 CATGTCCCAGACATGGTCTTACACTGGC-TT-ACATCTCGAGGCCAATG
*
62396093 CCATGTCCCAGACATGGTCTTACACTGAC--A-AGTCTCGTA-GCCAATG
1 -CATGTCCCAGACATGGTCTTACACTGGCTTACA-TCTCG-AGGCCAATG
* *
62396139 CATGTCCCAAACAT-GTCTTACACTGGCTTACATCTCGAGGCCTATG
1 CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAGGCCAATG
*
62396185 CATTTCCCAGACAT-GTCTTACACT
1 CATGTCCCAGACATGGTCTTACACT
62396209 AGCACACAAA
Statistics
Matches: 100, Mismatches: 9, Indels: 16
0.80 0.07 0.13
Matches are distributed among these distances:
44 12 0.12
45 15 0.15
46 45 0.45
47 2 0.02
50 26 0.26
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.28
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAGGCCAATG
Found at i:62400891 original size:202 final size:202
Alignment explanation
Indices: 62400545--62400951 Score: 753
Period size: 202 Copynumber: 2.0 Consensus size: 202
62400535 ATGATGGGGG
*
62400545 AGTCCCAGAAAGTATTGGCGATATACTCGCAATCATTAGTTAGTCATATCTTGCATCAGAGTATT
1 AGTCCCAGAAAGTATTGGCGATATACTCGCAATCATTAGTTAGTCATATCTTGCATCAAAGTATT
62400610 GAGGAGATTGACAACTTGTCTGTAGTTGATATTGGTGATTTATTTGCAACTTTAATTGGTAGTTT
66 GAGGAGATTGACAACTTGTCTGTAGTTGATATTGGTGATTTATTTGCAACTTTAATTGGTAGTTT
* *
62400675 TAATTGCAAGATTGATATTAGTGTTTCAACAACATTGAGCTTCAGCTCTAATTTTTTGGTGTTCA
131 TAATTGCAAGATTGATATTAGTGTTTCAACAACACTGAGCTTCAGCTCTAATTGTTTGGTGTTCA
62400740 GATGACA
196 GATGACA
62400747 AGTCCCAGAAAGTATTGGCGATATACTCGCAATCATTAGTTAGTCATATCTTGCATCAAAGTATT
1 AGTCCCAGAAAGTATTGGCGATATACTCGCAATCATTAGTTAGTCATATCTTGCATCAAAGTATT
62400812 GAGGAGATTGACAACTTGTCTGTAGTTGATATTGGTGATTTATTTGCAA-TTGTAATTGGTAGTT
66 GAGGAGATTGACAACTTGTCTGTAGTTGATATTGGTGATTTATTTGCAACTT-TAATTGGTAGTT
* *
62400876 TTAATTGTAAGATTGATATTAGTGTTTCAACAACACTGAGCTTCGGCTCTAATTGTTTGGTGTTC
130 TTAATTGCAAGATTGATATTAGTGTTTCAACAACACTGAGCTTCAGCTCTAATTGTTTGGTGTTC
62400941 AGATGACA
195 AGATGACA
62400949 AGT
1 AGT
62400952 TCTTGGGAAC
Statistics
Matches: 199, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
201 2 0.01
202 197 0.99
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.38
Consensus pattern (202 bp):
AGTCCCAGAAAGTATTGGCGATATACTCGCAATCATTAGTTAGTCATATCTTGCATCAAAGTATT
GAGGAGATTGACAACTTGTCTGTAGTTGATATTGGTGATTTATTTGCAACTTTAATTGGTAGTTT
TAATTGCAAGATTGATATTAGTGTTTCAACAACACTGAGCTTCAGCTCTAATTGTTTGGTGTTCA
GATGACA
Found at i:62403571 original size:40 final size:40
Alignment explanation
Indices: 62403436--62403660 Score: 244
Period size: 40 Copynumber: 5.7 Consensus size: 40
62403426 TCGAATGATG
* * *
62403436 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
62403476 TTCGGACTAGGAT-CCGAAGGCATTTGTGCGAGTTACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
62403515 TCCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 T-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
62403555 TCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
62403595 TCCGGGTTAAGTCCCGAAGGCGTTTATGCGAGTTGCTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
62403636 -CCGGGCTATGTCCTGAAGGCGTTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
62403661 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
39 35 0.22
40 116 0.72
41 10 0.06
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:62403667 original size:40 final size:40
Alignment explanation
Indices: 62403517--62403679 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
62403507 GTTACTAATC
* * * *
62403517 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCGTTTATACGAGTTGCTATAA
* * * *
62403555 TCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACTA-AA
1 -CCGGGCTAAGTCCCGAAGGCGTTTATACGAGTTGCTATAA
* *
62403595 TCCGGGTTAAGTCCCGAAGGCGTTTATGCGAGTTGCTATAA
1 -CCGGGCTAAGTCCCGAAGGCGTTTATACGAGTTGCTATAA
* * * *
62403636 CCGGGCTATGTCCTGAAGGCGTTTGA-ACGAGTAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCGTTT-ATACGAGTTGCTATAA
62403676 CCGG
1 CCGG
62403680 TTAAATTCCG
Statistics
Matches: 111, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
39 9 0.08
40 99 0.89
41 3 0.03
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCGTTTATACGAGTTGCTATAA
Found at i:62403667 original size:80 final size:80
Alignment explanation
Indices: 62403436--62403693 Score: 208
Period size: 80 Copynumber: 3.2 Consensus size: 80
62403426 TCGAATGATG
* * * * * * * *
62403436 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATTCGGACTAGGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTATGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCAT
* *
62403499 TTGTGCGAGTTACT-AA
64 TTATACGAGTTACTAAA
* * *
62403515 TCCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 T-CCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATT
*
62403579 TATGCGAGTTACTAAA
65 TATACGAGTTACTAAA
* * * * *
62403595 TCCGGGTTAAGTCCCGAAGGCGTTTATGCGAGTTGCTATAA-CCGGGCTATGTCCTGAAGGCGTT
1 TCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
*
62403659 TGA-ACGAG-TAGCTATA
65 T-ATACGAGTTA-CTAAA
* *
62403675 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
62403694 TACGTGATTC
Statistics
Matches: 151, Mismatches: 20, Indels: 16
0.81 0.11 0.09
Matches are distributed among these distances:
78 1 0.01
79 73 0.48
80 74 0.49
81 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
ATACGAGTTACTAAA
Found at i:62407304 original size:23 final size:23
Alignment explanation
Indices: 62407277--62407332 Score: 112
Period size: 23 Copynumber: 2.4 Consensus size: 23
62407267 CATGCTATTA
62407277 TACCAAAATGTGATTTCTATTTG
1 TACCAAAATGTGATTTCTATTTG
62407300 TACCAAAATGTGATTTCTATTTG
1 TACCAAAATGTGATTTCTATTTG
62407323 TACCAAAATG
1 TACCAAAATG
62407333 AGATAGTGGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.39
Consensus pattern (23 bp):
TACCAAAATGTGATTTCTATTTG
Found at i:62413698 original size:40 final size:39
Alignment explanation
Indices: 62413613--62413762 Score: 130
Period size: 40 Copynumber: 3.8 Consensus size: 39
62413603 AATTGAATGA
* * * *
62413613 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAG-CA-TAC
* *
62413653 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--G-AGCATAC
*
62413694 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGCATAC
*
62413732 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
62413763 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 10, Indels: 17
0.77 0.08 0.14
Matches are distributed among these distances:
37 2 0.02
38 3 0.03
39 29 0.32
40 56 0.61
41 1 0.01
43 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (39 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGCATAC
Found at i:62421648 original size:40 final size:40
Alignment explanation
Indices: 62421582--62421732 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
62421572 AAATTGAATG
* *
62421582 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* * ****
62421621 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* *
62421661 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GAAATT
* *
62421701 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
62421733 ACGTGGTTAT
Statistics
Matches: 90, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
39 16 0.18
40 72 0.80
41 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
Found at i:62421746 original size:40 final size:40
Alignment explanation
Indices: 62421619--62421748 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
62421609 ATGCTGGAAA
* * *
62421619 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * ***
62421659 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
62421699 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
62421739 TTATATCCGG
1 TTATATCCGG
62421749 TTTATTCCGA
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:62421747 original size:80 final size:79
Alignment explanation
Indices: 62421582--62421748 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
62421572 AAATTGAATG
*
62421582 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
62421647 TTGTGCTAGTGGCT
66 TTGTGCTAGTGGCT
* * * * *
62421661 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAG-CCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
62421724 CATTTGTGC-ACGTGGTT
63 CAATTGTGCTA-GTGGCT
62421741 ATATCCGG
1 ATATCCGG
62421749 TTTATTCCGA
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
79 18 0.24
80 57 0.76
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (79 bp):
ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCTAGTGGCT
Found at i:62429656 original size:40 final size:40
Alignment explanation
Indices: 62429571--62429721 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
62429561 AATTGAATGA
* * * *
62429571 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
62429611 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
62429652 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
62429691 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
62429722 ACGTGGTTAT
Statistics
Matches: 92, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 80 0.87
41 3 0.03
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:62429735 original size:40 final size:40
Alignment explanation
Indices: 62429608--62429737 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
62429598 ATGCTGGAAA
* * *
62429608 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * ***
62429648 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
62429688 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
62429728 TTATATCCGG
1 TTATATCCGG
62429738 TTATATTCCG
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:62429736 original size:80 final size:80
Alignment explanation
Indices: 62429570--62429737 Score: 207
Period size: 80 Copynumber: 2.1 Consensus size: 80
62429560 AAATTGAATG
* *
62429570 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
62429635 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * * *
62429650 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
62429713 CATTTGTGC-ACGTGGTT
64 CAATTGTGCTA-GTGGCT
62429730 ATATCCGG
1 ATATCCGG
62429738 TTATATTCCG
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
79 5 0.07
80 70 0.93
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:62431198 original size:51 final size:52
Alignment explanation
Indices: 62431096--62431198 Score: 156
Period size: 51 Copynumber: 2.0 Consensus size: 52
62431086 GGGTGTTACA
* * *
62431096 CCTACCCTGTGTAACTCTCTGATGGGTCACACGGCCAACCACACGTCTGTGT
1 CCTACCCTGTGTAACTCTCTAAGGGGTCACACGGCCAACCACACCTCTGTGT
62431148 CCTACCC-GTGTAACTCTCTAAGGGGTCACACGGCCAACCACACACT-TGTGT
1 CCTACCCTGTGTAACTCTCTAAGGGGTCACACGGCCAACCACAC-CTCTGTGT
62431199 GACTAGCCCA
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
51 39 0.83
52 8 0.17
ACGTcount: A:0.21, C:0.35, G:0.20, T:0.23
Consensus pattern (52 bp):
CCTACCCTGTGTAACTCTCTAAGGGGTCACACGGCCAACCACACCTCTGTGT
Found at i:62432476 original size:41 final size:41
Alignment explanation
Indices: 62432431--62432532 Score: 141
Period size: 41 Copynumber: 2.5 Consensus size: 41
62432421 ATCAACGGGT
* *
62432431 CTGCTCACACAAGCTAATGGTCAAGACGTAACTACATGATG
1 CTGCTCACACAAGCTAACGATCAAGACGTAACTACATGATG
*
62432472 CTGCTCACACAAGCTGACGATCAAGACGTAACTACATGATG
1 CTGCTCACACAAGCTAACGATCAAGACGTAACTACATGATG
*** *
62432513 AAACTCACACAAGCTGACGA
1 CTGCTCACACAAGCTAACGA
62432533 AGACCCACAA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.19
Consensus pattern (41 bp):
CTGCTCACACAAGCTAACGATCAAGACGTAACTACATGATG
Found at i:62438565 original size:44 final size:46
Alignment explanation
Indices: 62438358--62438626 Score: 174
Period size: 47 Copynumber: 5.7 Consensus size: 46
62438348 TGATTTGTGC
* * **
62438358 GCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATC-CAGACGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCACAGA-GATA
* * * * *
62438406 GCTAGTGTAAGACATGTCTGGGACATGCTTCAGCCAT-ATTATGA-CT-
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCC-TCA-CA-GAGATA
* *
62438452 TCCAGGGTAAGACATGTCTGGGACATGCATCGGCCTCGACAGAGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTC-ACAGAGATA
* * *
62438499 GCCAGTGTAAGACGTGTCTGGGACATGCATCGG-CT-A-AGAGTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCACAGAGAT-A
* * * * * * *
62438543 GCTAGTGTCAGACATGTCTGGGACATGCATCAGCACGCATATAAGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGC-CTCACA-GAGATA
* *
62438591 GCCAGTATAAGACCATGTTTGGGACATGGCATCGGC
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
62438627 AATTTATCCC
Statistics
Matches: 171, Mismatches: 34, Indels: 30
0.73 0.14 0.13
Matches are distributed among these distances:
43 5 0.03
44 30 0.18
45 3 0.02
46 41 0.24
47 46 0.27
48 22 0.13
49 17 0.10
50 7 0.04
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCACAGAGATA
Found at i:62443844 original size:47 final size:47
Alignment explanation
Indices: 62443791--62443884 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
62443781 TAACACGAAG
62443791 TAAGCTTCAAAGCTTAGTAAGCTAGTATATGAATAACTTAATTCGTC
1 TAAGCTTCAAAGCTTAGTAAGCTAGTATATGAATAACTTAATTCGTC
*
62443838 TAAGCTTCAAAGCTTAGTAAGCTCGTATATGAATAACTTAATTCGTC
1 TAAGCTTCAAAGCTTAGTAAGCTAGTATATGAATAACTTAATTCGTC
62443885 GCATAAATGC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (47 bp):
TAAGCTTCAAAGCTTAGTAAGCTAGTATATGAATAACTTAATTCGTC
Done.