Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 94 of 213
Found at i:26185308 original size:27 final size:28
Alignment explanation
Indices: 26185272--26185325 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
26185262 TCGAAATTCA
*
26185272 CACTTTAATTA-TAAAATAATTAATTTG
1 CACTTCAATTATTAAAATAATTAATTTG
* *
26185299 CACTTCAATTATTAACATATTTAATTT
1 CACTTCAATTATTAAAATAATTAATTT
26185326 TAATTATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.41, C:0.11, G:0.02, T:0.46
Consensus pattern (28 bp):
CACTTCAATTATTAAAATAATTAATTTG
Found at i:26197848 original size:28 final size:28
Alignment explanation
Indices: 26197809--26197927 Score: 168
Period size: 28 Copynumber: 4.3 Consensus size: 28
26197799 CTATTTAGTA
* **
26197809 ACAGT-ACAGTGTAGGCCTTAGCCTGAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
**
26197836 ACAGTAACAGTGTGGTTCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
* *
26197864 ACAGTAATAGTGTGGGACTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
26197892 ACAGTAACAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
26197920 ACAGTAAC
1 ACAGTAAC
26197928 CAGTACAGTG
Statistics
Matches: 81, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
27 5 0.06
28 76 0.94
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (28 bp):
ACAGTAACAGTGTGGGCCTTAGCCCAAT
Found at i:26198061 original size:26 final size:26
Alignment explanation
Indices: 26198032--26198086 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
26198022 AGCACACCAA
* *
26198032 TATCGCAGCAAAGCTTCCAGTAATAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
*
26198058 TATCGCAGCGAAGCTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
26198084 TAT
1 TAT
26198087 ATGTGGCAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.22
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAGTAACAG
Found at i:26198309 original size:27 final size:27
Alignment explanation
Indices: 26198279--26198678 Score: 426
Period size: 27 Copynumber: 14.9 Consensus size: 27
26198269 GGTATAACAA
26198279 TCATTTTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * *
26198306 TCATTCTA-CCTATAGGGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * * *
26198332 TTATTTTACCTTACGGGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
26198359 TCATTTTACCCTATAGGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
26198386 TCATTTTACCCTATCGGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* **** *
26198413 CCATTTTACCCTACAATGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
** * * **
26198440 TTGTTTTACCTTACGGGGGTATTTTAG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * *
26198467 TCATTCTATCCTATGGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
26198494 TCATTTTACCCTATGAGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGG
* * *
26198521 TCATTTTACTCTACGGGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
*
26198548 TCATTTTACCCTATGGGGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTCGG
** *
26198575 TCATTTTACCCTATAAGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
26198602 TTATTTTACCCTATGGAGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
26198629 TCATTTTACCCTACGGGGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTCGG
*
26198656 TCATTTTACCCTAT-GAGGTATTT
1 TCATTTTACCCTATGGGGGTATTT
26198679 TGGGGTCTCG
Statistics
Matches: 308, Mismatches: 64, Indels: 3
0.82 0.17 0.01
Matches are distributed among these distances:
26 30 0.10
27 278 0.90
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.43
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTATTTCGG
Found at i:26201773 original size:40 final size:41
Alignment explanation
Indices: 26201728--26201824 Score: 135
Period size: 40 Copynumber: 2.4 Consensus size: 41
26201718 ATCTTCAAGG
26201728 ATATGCAATCTTAGATATGATATGCAATCTT-AGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCTTGAGATATGAT
*
26201768 ATATGCAATCTTGGATATGATATGCAATCTTGGAAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCTT-G-AGATATGAT
* *
26201811 -TTTGTAATCTTAGA
1 ATATGCAATCTTAGA
26201825 GATTTAATTT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
40 30 0.60
42 11 0.22
43 9 0.18
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (41 bp):
ATATGCAATCTTAGATATGATATGCAATCTTGAGATATGAT
Found at i:26201801 original size:19 final size:19
Alignment explanation
Indices: 26201727--26201798 Score: 117
Period size: 19 Copynumber: 3.7 Consensus size: 19
26201717 AATCTTCAAG
26201727 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
26201746 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
26201765 GATATATGCAATCTTGGATAT
1 G--ATATGCAATCTTAGATAT
26201786 GATATGCAATCTT
1 GATATGCAATCTT
26201799 GGAAGATATG
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
19 32 0.64
21 18 0.36
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:26204167 original size:88 final size:88
Alignment explanation
Indices: 26204018--26205059 Score: 1219
Period size: 88 Copynumber: 11.9 Consensus size: 88
26204008 CAGATCAGTG
* * * * *
26204018 AAAATAACAGATCTTGCCTTCTTGCACCGACAGCGAAGCAGATCGAAGACTCCAACCTTGCCTCC
1 AAAATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
* *
26204083 CTGAGTTGTAGCGGAGCAGGTTA
66 CTGGGTTGCAGCGGAGCAGGTTA
* * * *
26204106 AAAATAGCAGATCTTGCCTTCCTGCACCGACAGCAAAGTAGATCGAAGACACCAACCTTGCCTCC
1 AAAATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
* *
26204171 CTGGGTTGCAGCGGAACAGGTTG
66 CTGGGTTGCAGCGGAGCAGGTTA
* ** * * * *
26204194 AAAATAGCAGATCTTGTCTTCCTGTACTAACAACGAAGCAGATCGAAGACACTAGTCTTGCCTCT
1 AAAATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
26204259 CTGGGTTGCAGCGGAGCAGGTTA
66 CTGGGTTGCAGCGGAGCAGGTTA
* * * *
26204282 AAAATAGCAGATCTTACCTTCCTGTACCGGCAGTGAAGCAGATCAAAGACACCAGCCTTGCCTCC
1 AAAATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
* * *
26204347 CCGGGTTGCAGCAGAGCAGGTTG
66 CTGGGTTGCAGCGGAGCAGGTTA
* ** * * * * * *
26204370 AAAATTGCAGATCTTATCTCCCT-AAGCAGTA-ATG-G-AGTAGATTGAAGACACTAGCCTTGCC
1 AAAATAGCAGATCTTGCCTTCCTGTA-CCG-ACA-GCGAAGCAGATCGAAGACACCAGCCTTGCC
* * *
26204431 TCCCTCGGTGGCAGCGGAGTAGGTTA
63 TCCCTGGGTTGCAGCGGAGCAGGTTA
* * * * * * *
26204457 AAGATAACAGATCTTACCTTCCTGTACTGACAGTGAAGCAGATTGAAGACACTAGCCTTGCCTCC
1 AAAATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
* * *
26204522 CTCGGTGGCAGCAGAGCAGGTTA
66 CTGGGTTGCAGCGGAGCAGGTTA
* * * * * *
26204545 AAGATAGCAGATCTTGCCTTTCTGTACTGACAGTGAAGCAGATTGAAGACACTAGCCTTGCCTCC
1 AAAATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
* * *
26204610 CTCGGTGGCAGTGGAGCAGGTTA
66 CTGGGTTGCAGCGGAGCAGGTTA
* ** * * *
26204633 AAGATAGCAGATCTTGCCTTCCTGTACTAACAGTGAAGCAGATTGAAGACACTAGCCTTGCCTCC
1 AAAATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
* * * *
26204698 CTCGATGGCAGTGGAGCAGGTTA
66 CTGGGTTGCAGCGGAGCAGGTTA
* * * * * * * * *
26204721 AAGATAGTAAATCTTTCCTTCCTGTACTGACAGTGAAGCAGATTGAAGACACTAGTCTTGCCTCC
1 AAAATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
26204786 CTGGGTTGCAGCGGAGCAGGTTA
66 CTGGGTTGCAGCGGAGCAGGTTA
* * *
26204809 AAAATAGCAGATCTTGCCTTCCTGCACCAACAGCGAAGCAGATCGAAGACACCAACCTTGCCTCC
1 AAAATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
* *
26204874 CTAGGTTGCAACGGAGCAGGTTA
66 CTGGGTTGCAGCGGAGCAGGTTA
* *
26204897 AAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATTGAAGACACCAGCCTTGCCTCC
1 AAAATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
26204962 CTGGGTTGCAGCGGAGCAGGTTA
66 CTGGGTTGCAGCGGAGCAGGTTA
** * * *
26204985 AAAATAGCAGATCTTGCCTTCCTACACCGACAACGAAGCAGATCGAAGACACAAGTCTTGCCTCC
1 AAAATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
*
26205050 CTGAGTTGCA
66 CTGGGTTGCA
26205060 TCAGATCAAG
Statistics
Matches: 843, Mismatches: 104, Indels: 14
0.88 0.11 0.01
Matches are distributed among these distances:
86 2 0.00
87 65 0.08
88 775 0.92
89 1 0.00
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (88 bp):
AAAATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
CTGGGTTGCAGCGGAGCAGGTTA
Found at i:26205468 original size:40 final size:41
Alignment explanation
Indices: 26205423--26205518 Score: 142
Period size: 40 Copynumber: 2.3 Consensus size: 41
26205413 TCTTCAAGCA
26205423 TATGCAATCTTAGATATGATATGCAATCTT-AGATATGATT
1 TATGCAATCTTAGATATGATATGCAATCTTGAGATATGATT
*
26205463 TATGCAATCTTGGATATGATATGCAATCTTGGAAGATATGATT
1 TATGCAATCTTAGATATGATATGCAATCTT-G-AGATATGATT
*
26205506 T-TGTAATCTTAGA
1 TATGCAATCTTAGA
26205519 GATTTAATTT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
40 29 0.58
42 10 0.20
43 11 0.22
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (41 bp):
TATGCAATCTTAGATATGATATGCAATCTTGAGATATGATT
Found at i:26205495 original size:19 final size:19
Alignment explanation
Indices: 26205422--26205492 Score: 115
Period size: 19 Copynumber: 3.6 Consensus size: 19
26205412 ATCTTCAAGC
26205422 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
26205441 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
*
26205460 ATTTATGCAATCTTGGATATG
1 A--TATGCAATCTTAGATATG
26205481 ATATGCAATCTT
1 ATATGCAATCTT
26205493 GGAAGATATG
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
19 31 0.63
21 18 0.37
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.39
Consensus pattern (19 bp):
ATATGCAATCTTAGATATG
Found at i:26206310 original size:19 final size:19
Alignment explanation
Indices: 26206286--26206323 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
26206276 AAAATGTTTT
*
26206286 TATACA-ATACTATTTTATA
1 TATACATATA-TAATTTATA
26206305 TATACATATATAATTTATA
1 TATACATATATAATTTATA
26206324 ATAAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (19 bp):
TATACATATATAATTTATA
Found at i:26215790 original size:13 final size:13
Alignment explanation
Indices: 26215772--26215796 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26215762 CTGAAACTAG
26215772 AAAGAAAAAAAAC
1 AAAGAAAAAAAAC
26215785 AAAGAAAAAAAA
1 AAAGAAAAAAAA
26215797 ATGCTCATCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.04, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAAAAC
Found at i:26216963 original size:40 final size:40
Alignment explanation
Indices: 26216874--26217057 Score: 213
Period size: 40 Copynumber: 4.7 Consensus size: 40
26216864 TTGAATGATG
*
26216874 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
26216912 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
26216953 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
26216992 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
26217031 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
26217058 AACGAGGAGC
Statistics
Matches: 129, Mismatches: 7, Indels: 17
0.84 0.05 0.11
Matches are distributed among these distances:
39 58 0.45
40 59 0.46
41 11 0.09
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:26224905 original size:39 final size:40
Alignment explanation
Indices: 26224810--26225071 Score: 310
Period size: 39 Copynumber: 6.7 Consensus size: 40
26224800 TTGAATGATG
*
26224810 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
26224848 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
*
26224889 TCCGGGCTAAG-CCCGAAGGCATTTGTACGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
26224928 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
26224967 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
26225006 TCCGAGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* * *
26225045 AACCGGGCTATGTCCCGAAGTCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
26225072 AACGAGGAGC
Statistics
Matches: 198, Mismatches: 16, Indels: 17
0.86 0.07 0.07
Matches are distributed among these distances:
39 129 0.65
40 57 0.29
41 11 0.06
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:26241597 original size:10 final size:10
Alignment explanation
Indices: 26241582--26241606 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
26241572 GGTTTCCATT
26241582 AAAAAAAAGA
1 AAAAAAAAGA
26241592 AAAAAAAAGA
1 AAAAAAAAGA
26241602 AAAAA
1 AAAAA
26241607 GGAAAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:26242057 original size:21 final size:22
Alignment explanation
Indices: 26242020--26242064 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
26242010 TTGCTTGTAC
26242020 TTAAGTACACTTTGTTA-CATT
1 TTAAGTACACTTTGTTAGCATT
*
26242041 TTAAG-ACATTTTAGTTAGCATT
1 TTAAGTACACTTT-GTTAGCATT
26242063 TT
1 TT
26242065 TACATTAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 6 0.29
21 9 0.43
22 6 0.29
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49
Consensus pattern (22 bp):
TTAAGTACACTTTGTTAGCATT
Found at i:26248574 original size:29 final size:30
Alignment explanation
Indices: 26248515--26248574 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 30
26248505 TGCTTTCTGA
* * *
26248515 AATATTTACAAAAAAAAAGCATCTAATTTTT
1 AATATTTAC-AAAAAAAAGCAACCAAATTTT
*
26248546 AATATTTAC-AAAAAGAGCAACCAAATTTT
1 AATATTTACAAAAAAAAGCAACCAAATTTT
26248575 TAAAAATAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
29 16 0.64
31 9 0.36
ACGTcount: A:0.52, C:0.12, G:0.05, T:0.32
Consensus pattern (30 bp):
AATATTTACAAAAAAAAGCAACCAAATTTT
Found at i:26255545 original size:19 final size:19
Alignment explanation
Indices: 26255523--26255560 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
26255513 AATTTTGGAA
26255523 TGGAAAAGA-AGAGAGAAAG
1 TGGAAAAGAGAGAG-GAAAG
*
26255542 TGGAGAAGAGAGAGGAAAG
1 TGGAAAAGAGAGAGGAAAG
26255561 ATGTGAATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.53, C:0.00, G:0.42, T:0.05
Consensus pattern (19 bp):
TGGAAAAGAGAGAGGAAAG
Found at i:26257303 original size:27 final size:27
Alignment explanation
Indices: 26257273--26257338 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 27
26257263 CTGTCAGGAA
* *
26257273 AGTAAACATGGGATAGTCCTCCA-AGAC
1 AGTAAACATGGGATAATCCACCAGA-AC
*
26257300 AGTAAACAAGGGATAATCCACCAGAAC
1 AGTAAACATGGGATAATCCACCAGAAC
26257327 AGTAAACATGGG
1 AGTAAACATGGG
26257339 GTACATTGTG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 33 0.97
28 1 0.03
ACGTcount: A:0.42, C:0.20, G:0.23, T:0.15
Consensus pattern (27 bp):
AGTAAACATGGGATAATCCACCAGAAC
Found at i:26268525 original size:10 final size:10
Alignment explanation
Indices: 26268512--26268541 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
26268502 ATGTGATTTT
*
26268512 TAAATATATA
1 TAAATAAATA
26268522 TAAATAAATA
1 TAAATAAATA
26268532 TAAATAAATA
1 TAAATAAATA
26268542 AAAGTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
TAAATAAATA
Found at i:26268531 original size:14 final size:14
Alignment explanation
Indices: 26268512--26268543 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
26268502 ATGTGATTTT
*
26268512 TAAATATATATAAA
1 TAAATATAAATAAA
26268526 TAAATATAAATAAA
1 TAAATATAAATAAA
26268540 TAAA
1 TAAA
26268544 AGTTAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
TAAATATAAATAAA
Found at i:26269016 original size:41 final size:41
Alignment explanation
Indices: 26268959--26269108 Score: 210
Period size: 41 Copynumber: 3.7 Consensus size: 41
26268949 TGTAAGTTCC
26268959 GGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATATCA
1 GGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATATCA
* *
26269000 GGCTTTATGCCTAGCAGGCTCTGTGCCGGTGAATTATATCA
1 GGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATATCA
** * * * * *
26269041 AACTTTATGTCTAGCAGGCTTTGTGCCGGTGAAATGTATCG
1 GGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATATCA
*
26269082 GGCTTTGTGCCTAGCAGGCTTTATGCC
1 GGCTTTATGCCTAGCAGGCTTTATGCC
26269109 AATGTTTTAT
Statistics
Matches: 95, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 95 1.00
ACGTcount: A:0.19, C:0.21, G:0.27, T:0.33
Consensus pattern (41 bp):
GGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATATCA
Found at i:26269132 original size:82 final size:83
Alignment explanation
Indices: 26268959--26269132 Score: 208
Period size: 82 Copynumber: 2.1 Consensus size: 83
26268949 TGTAAGTTCC
* * *
26268959 GGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATATCAGGCTTTATGCCTAGCAGGCTCTGT
1 GGCTTTATGTCTAGCAGGCTTTATGCCGGTGAAATATATCAGGCTTTATGCCTAGCAGGCTCTAT
**
26269024 GCCGGTGAATTATATCAA
66 GCCAATGAATTATATCAA
* * * * * *
26269042 -ACTTTATGTCTAGCAGGCTTTGTGCCGGTGAAATGTATCGGGCTTTGTGCCTAGCAGGCTTTAT
1 GGCTTTATGTCTAGCAGGCTTTATGCCGGTGAAATATATCAGGCTTTATGCCTAGCAGGCTCTAT
**
26269106 GCCAATGTTTTATA-CAA
66 GCCAATGAATTATATCAA
*
26269123 GGCTCTATGT
1 GGCTTTATGT
26269133 TCTATAAATC
Statistics
Matches: 75, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 3 0.04
82 72 0.96
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.34
Consensus pattern (83 bp):
GGCTTTATGTCTAGCAGGCTTTATGCCGGTGAAATATATCAGGCTTTATGCCTAGCAGGCTCTAT
GCCAATGAATTATATCAA
Found at i:26269960 original size:23 final size:23
Alignment explanation
Indices: 26269933--26270030 Score: 76
Period size: 23 Copynumber: 4.3 Consensus size: 23
26269923 GCTGTTAAAT
*
26269933 TTTGGTGTAAAAATGTTGCTCAA
1 TTTGGTGTAAAAATGCTGCTCAA
* *
26269956 TTTGGTACGT--ATATGCTGC-CCA
1 TTTGGT--GTAAAAATGCTGCTCAA
* * * * *
26269978 TTTGTTGTATATATGCTGTTAAA
1 TTTGGTGTAAAAATGCTGCTCAA
26270001 TTTTGGTGTAAAAATGCTGCTCAA
1 -TTTGGTGTAAAAATGCTGCTCAA
26270025 TTTGGT
1 TTTGGT
26270031 ATGTTTATGC
Statistics
Matches: 57, Mismatches: 12, Indels: 12
0.70 0.15 0.15
Matches are distributed among these distances:
20 2 0.04
22 15 0.26
23 20 0.35
24 18 0.32
25 2 0.04
ACGTcount: A:0.24, C:0.11, G:0.21, T:0.43
Consensus pattern (23 bp):
TTTGGTGTAAAAATGCTGCTCAA
Found at i:26269990 original size:22 final size:22
Alignment explanation
Indices: 26269965--26270064 Score: 78
Period size: 22 Copynumber: 4.4 Consensus size: 22
26269955 ATTTGGTACG
*
26269965 TATATGCTGCCCATTTGTTGTA
1 TATATGCTGCCAATTTGTTGTA
** *
26269987 TATATGCTGTTAAATTTTGGTGTA
1 TATATGCTG-CCAA-TTTGTTGTA
* *
26270011 AAAATGCTGCTCAATTTGGTATGT-
1 TATATGCTGC-CAATTT-GT-TGTA
*
26270035 T-TATGCTGCCCATTTGTTGTA
1 TATATGCTGCCAATTTGTTGTA
26270056 TATATGCTG
1 TATATGCTG
26270065 TTAAAATTTT
Statistics
Matches: 59, Mismatches: 12, Indels: 14
0.69 0.14 0.16
Matches are distributed among these distances:
20 3 0.05
21 3 0.05
22 21 0.36
23 11 0.19
24 18 0.31
25 3 0.05
ACGTcount: A:0.22, C:0.13, G:0.20, T:0.45
Consensus pattern (22 bp):
TATATGCTGCCAATTTGTTGTA
Found at i:26270111 original size:70 final size:69
Alignment explanation
Indices: 26269921--26270182 Score: 371
Period size: 70 Copynumber: 3.8 Consensus size: 69
26269911 TATTATGTAC
* *
26269921 ATGCTGTTAAATTTTGGTGTAAAAATGTTGCTCAATTTGGTACGTATATGCTGCCCATTTGTTGT
1 ATGCTGTTAAATTTTGGTGTAAAAATGCTGCTCAATTTGGTATGTATATGCTGCCCATTTGTTGT
26269986 ATAT
66 ATAT
*
26269990 ATGCTGTTAAATTTTGGTGTAAAAATGCTGCTCAATTTGGTATGTTTATGCTGCCCATTTGTTGT
1 ATGCTGTTAAATTTTGGTGTAAAAATGCTGCTCAATTTGGTATGTATATGCTGCCCATTTGTTGT
26270055 ATAT
66 ATAT
* ** * *
26270059 ATGCTGTTAAAATTTTGGTGTAAAAGTGCTATTAAATTTAGTATGTATATGCTGCCCATTTGTTG
1 ATGCTGTT-AAATTTTGGTGTAAAAATGCTGCTCAATTTGGTATGTATATGCTGCCCATTTGTTG
26270124 TATAT
65 TATAT
* * * * * * *
26270129 AAGCTGTCCAAATTTTGGTGTATAAATGCTGTTTAATTTGGTATATAAATGCTG
1 ATGCTGT-TAAATTTTGGTGTAAAAATGCTGCTCAATTTGGTATGTATATGCTG
26270183 TCCAAATTGA
Statistics
Matches: 173, Mismatches: 18, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
69 74 0.43
70 99 0.57
ACGTcount: A:0.26, C:0.10, G:0.20, T:0.44
Consensus pattern (69 bp):
ATGCTGTTAAATTTTGGTGTAAAAATGCTGCTCAATTTGGTATGTATATGCTGCCCATTTGTTGT
ATAT
Found at i:26270150 original size:25 final size:25
Alignment explanation
Indices: 26270117--26270190 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 25
26270107 ATGCTGCCCA
*
26270117 TTTGTTGTATATAA-GCTGTCCAAAT
1 TTTGGTGTATA-AATGCTGTCCAAAT
**
26270142 TTTGGTGTATAAATGCTGT-TTAA-
1 TTTGGTGTATAAATGCTGTCCAAAT
*
26270165 TTTGGTATATAAATGCTGTCCAAAT
1 TTTGGTGTATAAATGCTGTCCAAAT
26270190 T
1 T
26270191 GATGTATAAG
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
23 18 0.45
24 6 0.15
25 16 0.40
ACGTcount: A:0.28, C:0.09, G:0.18, T:0.45
Consensus pattern (25 bp):
TTTGGTGTATAAATGCTGTCCAAAT
Found at i:26270198 original size:23 final size:23
Alignment explanation
Indices: 26270122--26270199 Score: 77
Period size: 23 Copynumber: 3.3 Consensus size: 23
26270112 GCCCATTTGT
26270122 TGTATATAA-GCTGTCCAAATTTTGG
1 TGTATA-AATGCTGTCCAAA--TTGG
** *
26270147 TGTATAAATGCTGTTTAATTTGG
1 TGTATAAATGCTGTCCAAATTGG
* *
26270170 TATATAAATGCTGTCCAAATTGA
1 TGTATAAATGCTGTCCAAATTGG
26270193 TGTATAA
1 TGTATAA
26270200 GAGTTGTCCA
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
23 28 0.65
24 2 0.05
25 13 0.30
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (23 bp):
TGTATAAATGCTGTCCAAATTGG
Found at i:26273228 original size:109 final size:110
Alignment explanation
Indices: 26273036--26273233 Score: 371
Period size: 109 Copynumber: 1.8 Consensus size: 110
26273026 CTAAGTTACA
*
26273036 GTTCTAATTTTATATTAAATTTTTATGATTCTAACATTAATGTCATTCGATTTCAACATATTTTT
1 GTTCTAATTTTATATTAAAGTTTTATGATTCTAACATTAATGTCATTCGATTTCAACATATTTTT
26273101 AGAACTAGTAACATGGTAGCCTATACGCTTGTTAAATATGTTATG
66 AGAACTAGTAACATGGTAGCCTATACGCTTGTTAAATATGTTATG
*
26273146 GTTCTAATTTTATA-TAAAGTTTTATTATTCTAACATTAATGTCATTCGATTTCAACATATTTTT
1 GTTCTAATTTTATATTAAAGTTTTATGATTCTAACATTAATGTCATTCGATTTCAACATATTTTT
26273210 AGAACTAGTAACATGGTAGCCTAT
66 AGAACTAGTAACATGGTAGCCTAT
26273234 GTCCTCTTTG
Statistics
Matches: 86, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
109 72 0.84
110 14 0.16
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.44
Consensus pattern (110 bp):
GTTCTAATTTTATATTAAAGTTTTATGATTCTAACATTAATGTCATTCGATTTCAACATATTTTT
AGAACTAGTAACATGGTAGCCTATACGCTTGTTAAATATGTTATG
Found at i:26278773 original size:24 final size:25
Alignment explanation
Indices: 26278744--26278816 Score: 73
Period size: 24 Copynumber: 3.0 Consensus size: 25
26278734 AGTGAAAGAA
26278744 AAAGAAAAATAAGAAAATAGAAAGG
1 AAAGAAAAATAAGAAAATAGAAAGG
* *
26278769 -AAG-AAAATGAGGGAAAATA-ATAGG
1 AAAGAAAAAT-A-AGAAAATAGAAAGG
*
26278793 AAAGAAAAAAAAGAAAA-AGAAAGG
1 AAAGAAAAATAAGAAAATAGAAAGG
26278817 TACAAGAGGA
Statistics
Matches: 38, Mismatches: 5, Indels: 11
0.70 0.09 0.20
Matches are distributed among these distances:
23 6 0.16
24 17 0.45
25 11 0.29
26 4 0.11
ACGTcount: A:0.70, C:0.00, G:0.23, T:0.07
Consensus pattern (25 bp):
AAAGAAAAATAAGAAAATAGAAAGG
Found at i:26294204 original size:140 final size:140
Alignment explanation
Indices: 26293947--26294233 Score: 459
Period size: 140 Copynumber: 2.1 Consensus size: 140
26293937 AAATAGAACA
*
26293947 TATTC-TTATTTTGCGATTGAAACCAATGATCCATTCACCATTTTGGTCTCTCAAAACTCCTCCT
1 TATTCATTATTTTGCGATTGAAACCAATGATCCATTCACCATTTTAGTCTCTCAAAACTCCTCCT
* * *
26294011 GCCGAAGCAGAACCTGTGTTGATTTTAACAGCTCCATCAAACCATATGGTGATAAATTCTCTTCA
66 GCCGAAGCAGAACCTATGTTGATTTTAACAGCTCCACCAAACCATATGGTGATAAAGTCTCTTCA
*
26294076 AATTTTAAGT
131 AAGTTTAAGT
* * *
26294086 TATTCATTATTTTGTGATTGAACCCAATGATCTATTCACCATTTTAGTCTCTCAAAACTCCTCCT
1 TATTCATTATTTTGCGATTGAAACCAATGATCCATTCACCATTTTAGTCTCTCAAAACTCCTCCT
* * * *
26294151 GCCGAAGCGGAACCTATGTTGATTTTAATAGCTCCACCAGACCGTATGGTGATAAAGTCTCTTCA
66 GCCGAAGCAGAACCTATGTTGATTTTAACAGCTCCACCAAACCATATGGTGATAAAGTCTCTTCA
26294216 AAGTTTAAGT
131 AAGTTTAAGT
26294226 TATTCATT
1 TATTCATT
26294234 TAGTTTGTAT
Statistics
Matches: 135, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
139 5 0.04
140 130 0.96
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (140 bp):
TATTCATTATTTTGCGATTGAAACCAATGATCCATTCACCATTTTAGTCTCTCAAAACTCCTCCT
GCCGAAGCAGAACCTATGTTGATTTTAACAGCTCCACCAAACCATATGGTGATAAAGTCTCTTCA
AAGTTTAAGT
Found at i:26298630 original size:26 final size:24
Alignment explanation
Indices: 26298600--26298685 Score: 86
Period size: 26 Copynumber: 3.5 Consensus size: 24
26298590 AGCTATGATT
26298600 GGTAAGCTCATTCTGAGCTGAAGAAC
1 GGTAAGCTCATTC-GAGCTGAA-AAC
26298626 GGTAAGCTC-TATCGAGCTG-AAAC
1 GGTAAGCTCAT-TCGAGCTGAAAAC
** *
26298649 GGTAAGCTCATAAGAGCTGATATATC
1 GGTAAGCTCATTCGAGCTGA-A-AAC
26298675 GGTAAGCTCAT
1 GGTAAGCTCAT
26298686 ACAAGCTATG
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
23 18 0.35
24 2 0.04
25 8 0.15
26 24 0.46
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (24 bp):
GGTAAGCTCATTCGAGCTGAAAAC
Found at i:26300961 original size:19 final size:19
Alignment explanation
Indices: 26300925--26300961 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
26300915 GGATGATTTG
*
26300925 TCCCAATTTGACGGATTCA
1 TCCCAATTTGACGAATTCA
*
26300944 TCCCAATTTGGCGAATTC
1 TCCCAATTTGACGAATTC
26300962 TTACCACGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.32
Consensus pattern (19 bp):
TCCCAATTTGACGAATTCA
Found at i:26302419 original size:19 final size:19
Alignment explanation
Indices: 26302395--26302456 Score: 115
Period size: 19 Copynumber: 3.3 Consensus size: 19
26302385 AATCTTCAAG
26302395 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
26302414 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
26302433 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
26302452 GATAT
1 GATAT
26302457 TAGATATGAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 41 1.00
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.39
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:26302461 original size:12 final size:12
Alignment explanation
Indices: 26302444--26302468 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
26302434 ATATGCAATC
26302444 TTAGATATGATA
1 TTAGATATGATA
26302456 TTAGATATGATA
1 TTAGATATGATA
26302468 T
1 T
26302469 GCAATCTTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (12 bp):
TTAGATATGATA
Found at i:26302484 original size:22 final size:23
Alignment explanation
Indices: 26302458--26302502 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
26302448 ATATGATATT
26302458 AGATATGA-TATGCAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
* *
26302480 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
26302503 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.38
Consensus pattern (23 bp):
AGATATGATTATGCAATCTTAGA
Found at i:26302732 original size:23 final size:23
Alignment explanation
Indices: 26302688--26302732 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
26302678 CTTATTTTTG
* *
26302688 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
26302711 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
26302733 CAAATCTTTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:26302977 original size:16 final size:16
Alignment explanation
Indices: 26302956--26302987 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
26302946 ATCTTGTATC
26302956 ATTATTATTATTTATT
1 ATTATTATTATTTATT
26302972 ATTATTATTATTTATT
1 ATTATTATTATTTATT
26302988 CATGCGCATG
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
ATTATTATTATTTATT
Found at i:26302987 original size:13 final size:13
Alignment explanation
Indices: 26302956--26302980 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26302946 ATCTTGTATC
26302956 ATTATTATTATTT
1 ATTATTATTATTT
26302969 ATTATTATTATT
1 ATTATTATTATT
26302981 ATTTATTCAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
ATTATTATTATTT
Found at i:26305019 original size:50 final size:50
Alignment explanation
Indices: 26304899--26305132 Score: 218
Period size: 50 Copynumber: 4.6 Consensus size: 50
26304889 CATGCCAAAA
* ** * * * *
26304899 CCATGTCTCAGACATGGTCTTACATGGGATGTTTCCTGT-ACTGCCAATG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAATG
* * * * ** *
26304948 TCATATCCCAGATATGATCTTACATGGGAGTTCTCATATCAGTGCCCATG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAATG
** * * *
26304998 CCATGTCCCAGACATGGTCTTACGGGGGACCTCTTATCTCAGTGCCAACG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAATG
* *
26305048 CCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATAACCTCAATAATGCCAATG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---AGTGCCAATG
26305104 CCATGTCCCAGACATGGTCTTACATGGGA
1 CCATGTCCCAGACATGGTCTTACATGGGA
26305133 TCTCATTCTC
Statistics
Matches: 148, Mismatches: 30, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
49 29 0.20
50 81 0.55
53 2 0.01
56 36 0.24
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAATG
Found at i:26312376 original size:20 final size:20
Alignment explanation
Indices: 26312330--26312378 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
26312320 ATCATGGTCT
26312330 TTGCTT-CTTCTTTACTTAC
1 TTGCTTACTTCTTTACTTAC
* *
26312349 TCT-TTTACTTGTTTACTTAC
1 T-TGCTTACTTCTTTACTTAC
26312369 TTGCTTACTT
1 TTGCTTACTT
26312379 AAATAACTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.12, C:0.22, G:0.06, T:0.59
Consensus pattern (20 bp):
TTGCTTACTTCTTTACTTAC
Found at i:26312705 original size:50 final size:50
Alignment explanation
Indices: 26312631--26312773 Score: 155
Period size: 49 Copynumber: 2.9 Consensus size: 50
26312621 TCCTGTACTA
* * * * * ** *
26312631 CCAATGCCATATCCCAGATATGGTCTTACATGTGAGTTCTCATATCGGTG
1 CCAATGCCATGTCCTAGACATGGTCTTACAGGGGACCTCTCATATCGATG
* * *
26312681 CCCATGCCATGTCCTAGACATGGTCTTA-GGGGGACCTCTCATCTCGATG
1 CCAATGCCATGTCCTAGACATGGTCTTACAGGGGACCTCTCATATCGATG
*
26312730 CCAACGCCATGTCCTAGACATGGTCTTAC-GTGGGACCTCTCATA
1 CCAATGCCATGTCCTAGACATGGTCTTACAG-GGGACCTCTCATA
26312774 ACCTCAATAA
Statistics
Matches: 77, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
49 41 0.53
50 36 0.47
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.28
Consensus pattern (50 bp):
CCAATGCCATGTCCTAGACATGGTCTTACAGGGGACCTCTCATATCGATG
Found at i:26312740 original size:49 final size:50
Alignment explanation
Indices: 26312668--26312773 Score: 160
Period size: 49 Copynumber: 2.1 Consensus size: 50
26312658 ACATGTGAGT
* * *
26312668 TCTCATATCGGTGCCCATGCCATGTCCTAGACATGGTCTTA-GGGGGACC
1 TCTCATATCGATGCCAACGCCATGTCCTAGACATGGTCTTACGGGGGACC
* *
26312717 TCTCATCTCGATGCCAACGCCATGTCCTAGACATGGTCTTACGTGGGACC
1 TCTCATATCGATGCCAACGCCATGTCCTAGACATGGTCTTACGGGGGACC
26312767 TCTCATA
1 TCTCATA
26312774 ACCTCAATAA
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
49 37 0.74
50 13 0.26
ACGTcount: A:0.20, C:0.30, G:0.23, T:0.27
Consensus pattern (50 bp):
TCTCATATCGATGCCAACGCCATGTCCTAGACATGGTCTTACGGGGGACC
Found at i:26337414 original size:26 final size:26
Alignment explanation
Indices: 26337372--26337481 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 26
26337362 TTTTAGAGTT
*
26337372 TGCCATAAAGGCTTCCATTTCAGATA
1 TGCCACAAAGGCTTCCATTTCAGATA
* *
26337398 TGCTACAAAGGCTTCCATTTTAGATA
1 TGCCACAAAGGCTTCCATTTCAGATA
*
26337424 TGCCACAAAGGTTTCCATTTCAGATA
1 TGCCACAAAGGCTTCCATTTCAGATA
* *
26337450 TGCCACAAAGTCTTCCATTTTAGATA
1 TGCCACAAAGGCTTCCATTTCAGATA
26337476 TGCCAC
1 TGCCAC
26337482 TGATAGGGAT
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.32
Consensus pattern (26 bp):
TGCCACAAAGGCTTCCATTTCAGATA
Found at i:26337441 original size:52 final size:52
Alignment explanation
Indices: 26337362--26337481 Score: 186
Period size: 52 Copynumber: 2.3 Consensus size: 52
26337352 CATTTCTCTC
* * *
26337362 TTTTAGAGTTTGCCATAAAGGCTTCCATTTCAGATATGCTACAAAGGCTTCCA
1 TTTTAGA-TATGCCACAAAGGCTTCCATTTCAGATATGCCACAAAGGCTTCCA
* *
26337415 TTTTAGATATGCCACAAAGGTTTCCATTTCAGATATGCCACAAAGTCTTCCA
1 TTTTAGATATGCCACAAAGGCTTCCATTTCAGATATGCCACAAAGGCTTCCA
26337467 TTTTAGATATGCCAC
1 TTTTAGATATGCCAC
26337482 TGATAGGGAT
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
52 55 0.89
53 7 0.11
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (52 bp):
TTTTAGATATGCCACAAAGGCTTCCATTTCAGATATGCCACAAAGGCTTCCA
Found at i:26338900 original size:46 final size:46
Alignment explanation
Indices: 26338829--26338922 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
26338819 CGCGACACTA
*
26338829 AGATTTCCTTTGGGCTATTCACCCAACGTAGGACCCGTCAATTTTG
1 AGATTTCCTTCGGGCTATTCACCCAACGTAGGACCCGTCAATTTTG
*
26338875 AGATTTCCTTCGGGCTATTCGCCCAACGTAGGACCCGTCAATTTTG
1 AGATTTCCTTCGGGCTATTCACCCAACGTAGGACCCGTCAATTTTG
26338921 AG
1 AG
26338923 TGTTACATTA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.31
Consensus pattern (46 bp):
AGATTTCCTTCGGGCTATTCACCCAACGTAGGACCCGTCAATTTTG
Found at i:26344277 original size:38 final size:38
Alignment explanation
Indices: 26344190--26344298 Score: 134
Period size: 38 Copynumber: 2.9 Consensus size: 38
26344180 TGAGCTTTAT
* * *
26344190 TTCAGTATATCTA-TAGATTTTACTCATTTGAGC-TCCA
1 TTCAGTATAAC-AGTAGAATTTGCTCATTTGAGCTTCCA
26344227 TTCAGTATAACAGTAGAATTTGCTCATTTGAGCTTCACA
1 TTCAGTATAACAGTAGAATTTGCTCATTTGAGCTTC-CA
* *
26344266 -TCAGTATAACAGTAAAATTTGCTCGTTTGAGCT
1 TTCAGTATAACAGTAGAATTTGCTCATTTGAGCT
26344299 ACTTTCAGTA
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
36 1 0.02
37 28 0.44
38 33 0.52
39 2 0.03
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (38 bp):
TTCAGTATAACAGTAGAATTTGCTCATTTGAGCTTCCA
Found at i:26344396 original size:40 final size:39
Alignment explanation
Indices: 26344298--26344408 Score: 134
Period size: 39 Copynumber: 2.8 Consensus size: 39
26344288 TCGTTTGAGC
* *
26344298 TACTTTCAGTAGAATCATTAGGTATGGCTCGATAAAACA
1 TACTTTCAGTAGAACCAGTAGGTATGGCTCGATAAAACA
* * * **
26344337 TACTTTCAGTAGAATCAGTAGGTAAGGCTTGATAGCACA
1 TACTTTCAGTAGAACCAGTAGGTATGGCTCGATAAAACA
26344376 TACATTTCAGT-GAGACCAGTAGGTATGGCTCGA
1 TAC-TTTCAGTAGA-ACCAGTAGGTATGGCTCGA
26344409 AAGTGCATAC
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
39 39 0.63
40 23 0.37
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (39 bp):
TACTTTCAGTAGAACCAGTAGGTATGGCTCGATAAAACA
Found at i:26344418 original size:40 final size:40
Alignment explanation
Indices: 26344301--26344553 Score: 260
Period size: 40 Copynumber: 6.3 Consensus size: 40
26344291 TTTGAGCTAC
* * *
26344301 TTTCAGTAGAATCATTAGGTATGGCTCGATAA-AACATAC-
1 TTTCAGTAGATTCAGTAGGTATGGCTCGA-AAGCACATACA
* * * *
26344340 TTTCAGTAGAATCAGTAGGTAAGGCTTGATAGCACATACA
1 TTTCAGTAGATTCAGTAGGTATGGCTCGAAAGCACATACA
* ** *
26344380 TTTCAGTGAGA-CCAGTAGGTATGGCTCGAAAGTGCATACG
1 TTTCAGT-AGATTCAGTAGGTATGGCTCGAAAGCACATACA
* ** * **
26344420 TTTCAGTGGATTTTGTAAGTATGGCTCGAAAGCACATATG
1 TTTCAGTAGATTCAGTAGGTATGGCTCGAAAGCACATACA
* * * * *
26344460 TTTCAGTAGATTCAATAGATATCGCTCAAAAGCACATACC
1 TTTCAGTAGATTCAGTAGGTATGGCTCGAAAGCACATACA
*
26344500 TTTCAGTAGATTCAGTAGGTATGGCTCGAAAGCATATACA
1 TTTCAGTAGATTCAGTAGGTATGGCTCGAAAGCACATACA
26344540 TTTCAGTAGATTCA
1 TTTCAGTAGATTCA
26344554 ATAGATATCT
Statistics
Matches: 174, Mismatches: 36, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
38 1 0.01
39 34 0.20
40 136 0.78
41 3 0.02
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.30
Consensus pattern (40 bp):
TTTCAGTAGATTCAGTAGGTATGGCTCGAAAGCACATACA
Found at i:26352741 original size:27 final size:27
Alignment explanation
Indices: 26352708--26353026 Score: 312
Period size: 27 Copynumber: 12.0 Consensus size: 27
26352698 GGGTATAACA
* *
26352708 GTCATTTTACCTTATGAGGGTATTTTG
1 GTCATTTTACCCTATGAGGGTATTTCG
* * * *
26352735 GTTATTTTTCCCTATGGGGGTATCTT-A
1 GTCATTTTACCCTATGAGGGTAT-TTCG
*
26352762 GTCATTTTATCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* * * *
26352789 ATCAGTCTACCCTATGAGGGTATTTTG
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
26352816 GTTATTCTACCCTAT-AGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
26352842 GTCATTTTACTCTGTGAGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* **
26352869 ATCATTTTACCCTAT-AGGGGTATTTTA
1 GTCATTTTACCCTATGA-GGGTATTTCG
*
26352896 GTCA-TTTA-CCTATCAGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
*
26352921 GTCATTTTATCCTATG-GGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
26352947 ATCATTTCACCCTATTGA-GGTATTTCG
1 GTCATTTTACCCTA-TGAGGGTATTTCG
26352974 GTCATTTTACCCTATG-GGTGTATTTCG
1 GTCATTTTACCCTATGAGG-GTATTTCG
* * * *
26353001 ATCATTCTACTCTATGGGGGTATTTC
1 GTCATTTTACCCTATGAGGGTATTTC
26353027 AATCATACAG
Statistics
Matches: 240, Mismatches: 40, Indels: 24
0.79 0.13 0.08
Matches are distributed among these distances:
25 17 0.07
26 57 0.24
27 162 0.68
28 4 0.02
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.44
Consensus pattern (27 bp):
GTCATTTTACCCTATGAGGGTATTTCG
Found at i:26352952 original size:105 final size:105
Alignment explanation
Indices: 26352799--26352998 Score: 269
Period size: 105 Copynumber: 1.9 Consensus size: 105
26352789 ATCAGTCTAC
* * * * * *
26352799 CCTATGAGGGTATTTTGGTTATTCTACCCTATAGGGTATTTCGGTCATTTTACTCT-GTGAGGGT
1 CCTATCAGGGTATTTCGGTCATTCTACCCTATAGGGTATTTCGATCATTTCACCCTAGTGA-GGT
26352863 ATTTCGATCATTTTACCCTATAGGG-GTATTTTAGTCATTTA
65 ATTTCGATCATTTTACCCTAT-GGGTGTATTTTAGTCATTTA
* * * *
26352904 CCTATCAGGGTATTTCGGTCATTTTATCCTATGGGGTATTTCGATCATTTCACCCTATTGAGGTA
1 CCTATCAGGGTATTTCGGTCATTCTACCCTATAGGGTATTTCGATCATTTCACCCTAGTGAGGTA
*
26352969 TTTCGGTCATTTTACCCTATGGGTGTATTT
66 TTTCGATCATTTTACCCTATGGGTGTATTT
26352999 CGATCATTCT
Statistics
Matches: 82, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
104 3 0.04
105 76 0.93
106 3 0.04
ACGTcount: A:0.19, C:0.17, G:0.20, T:0.43
Consensus pattern (105 bp):
CCTATCAGGGTATTTCGGTCATTCTACCCTATAGGGTATTTCGATCATTTCACCCTAGTGAGGTA
TTTCGATCATTTTACCCTATGGGTGTATTTTAGTCATTTA
Found at i:26358761 original size:68 final size:68
Alignment explanation
Indices: 26358653--26358819 Score: 183
Period size: 68 Copynumber: 2.5 Consensus size: 68
26358643 AGTCCGCCAA
* * * * * * * **
26358653 GACATTAAACATGGGACCATATTGTGTCAGATCATCGCTCGACCGTGGAAATATATGGAGTTCT-
1 GACATTAAACATGAGATCATATTGTGTAAGACCATAGCTCGACCATGGAAACATAAAGAG-TCTG
26358717 CTAG
65 CTAG
* *
26358721 GACATTAAACATGAGATCATATTGTGTAAGACCATAGCTCGGCTATGGAAACATAAAGAGTCTGC
1 GACATTAAACATGAGATCATATTGTGTAAGACCATAGCTCGACCATGGAAACATAAAGAGTCTGC
26358786 TAG
66 TAG
** * *
26358789 GACATTAAACACAAGATCATGTTATGTAAGA
1 GACATTAAACATGAGATCATATTGTGTAAGA
26358820 TAACAGCTCA
Statistics
Matches: 83, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
67 3 0.04
68 80 0.96
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (68 bp):
GACATTAAACATGAGATCATATTGTGTAAGACCATAGCTCGACCATGGAAACATAAAGAGTCTGC
TAG
Found at i:26358850 original size:68 final size:67
Alignment explanation
Indices: 26358698--26358850 Score: 173
Period size: 68 Copynumber: 2.3 Consensus size: 67
26358688 CGCTCGACCG
* ** * * * *
26358698 TGGAAATATATGGAGTTCTCTAGGACATTAAACATGAGATCATATTGTGTAAGACCATAGCTCGG
1 TGGAAACATATGGAG-TCTCTAGGACATTAAACACAAGATCATATTATGTAAGACAACAGCTCAG
26358763 CTA
65 CTA
** * *
26358766 TGGAAACATAAAGAGTCTGCTAGGACATTAAACACAAGATCATGTTATGTAAGATAACAGCTCAG
1 TGGAAACATATGGAGTCT-CTAGGACATTAAACACAAGATCATATTATGTAAGACAACAGCTCAG
26358831 CTA
65 CTA
26358834 TGGCAAA-ATATGGAGTC
1 TGG-AAACATATGGAGTC
26358851 CACAGGACGT
Statistics
Matches: 70, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
67 3 0.04
68 64 0.91
69 3 0.04
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (67 bp):
TGGAAACATATGGAGTCTCTAGGACATTAAACACAAGATCATATTATGTAAGACAACAGCTCAGC
TA
Found at i:26362087 original size:7 final size:7
Alignment explanation
Indices: 26362077--26362109 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
26362067 TACATATTAG
26362077 GTATTTA
1 GTATTTA
26362084 GTATTTA
1 GTATTTA
26362091 GTATTTA
1 GTATTTA
26362098 GTATTTA
1 GTATTTA
26362105 GTATT
1 GTATT
26362110 ACATATTAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:26362088 original size:14 final size:13
Alignment explanation
Indices: 26362071--26362109 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
26362061 AATTATTACA
26362071 TATTAGGTATTTAG
1 TATTA-GTATTTAG
26362085 TATTTAGTATTTAG
1 TA-TTAGTATTTAG
26362099 TATTTAGTATT
1 TA-TTAGTATT
26362110 ACATATTAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 21 0.88
15 3 0.12
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.56
Consensus pattern (13 bp):
TATTAGTATTTAG
Found at i:26362088 original size:21 final size:21
Alignment explanation
Indices: 26362064--26362118 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
26362054 TATTATTAAT
26362064 TATTACATATTAGGTATTTAG
1 TATTACATATTAGGTATTTAG
*
26362085 TATTTA-GTATTTA-GTATTTAG
1 TA-TTACATA-TTAGGTATTTAG
26362106 TATTACATATTAG
1 TATTACATATTAG
26362119 TAAAATAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
20 6 0.21
21 16 0.57
22 6 0.21
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.51
Consensus pattern (21 bp):
TATTACATATTAGGTATTTAG
Found at i:26376937 original size:39 final size:38
Alignment explanation
Indices: 26376880--26377010 Score: 174
Period size: 39 Copynumber: 3.4 Consensus size: 38
26376870 TGTTTTTGAG
*
26376880 TATTGTGATATATGCTTGAATGTTATGTGATTATATGAT
1 TATTGTGATATATACTTGAATGTTATGTGATTATATG-T
* *
26376919 TATTGTGATATATACTTGAATGTTATATGATTATAAGTT
1 TATTGTGATATATACTTGAATGTTATGTGATTATATG-T
* *
26376958 TATTGTGATATATGCTTAAATGTTATGTGATTATATGT
1 TATTGTGATATATACTTGAATGTTATGTGATTATATGT
26376996 GTGA-TGTGATATATA
1 -T-ATTGTGATATATA
26377011 TTTAAACGTG
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
38 1 0.01
39 79 0.98
40 1 0.01
ACGTcount: A:0.31, C:0.02, G:0.19, T:0.48
Consensus pattern (38 bp):
TATTGTGATATATACTTGAATGTTATGTGATTATATGT
Found at i:26377016 original size:39 final size:38
Alignment explanation
Indices: 26376880--26377036 Score: 172
Period size: 39 Copynumber: 4.0 Consensus size: 38
26376870 TGTTTTTGAG
* *
26376880 TATTGTGATATATGCTTGAATGTTATGTGATTATATGAT
1 TATTGTGATATATACTTAAATGTTATGTGATTATATG-T
* * *
26376919 TATTGTGATATATACTTGAATGTTATATGATTATAAGTT
1 TATTGTGATATATACTTAAATGTTATGTGATTATATG-T
*
26376958 TATTGTGATATATGCTTAAATGTTATGTGATTATATGT
1 TATTGTGATATATACTTAAATGTTATGTGATTATATGT
* * *
26376996 GTGA-TGTGATATATATTTAAACGTGAATGTGATTATCATGT
1 -T-ATTGTGATATATACTTAAATGT-TATGTGATTAT-ATGT
26377037 AAATGAACTA
Statistics
Matches: 102, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.01
39 86 0.84
40 11 0.11
41 4 0.04
ACGTcount: A:0.31, C:0.03, G:0.19, T:0.47
Consensus pattern (38 bp):
TATTGTGATATATACTTAAATGTTATGTGATTATATGT
Found at i:26382595 original size:15 final size:15
Alignment explanation
Indices: 26382575--26382605 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
26382565 GTTATGTAAG
26382575 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
26382590 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
26382605 T
1 T
26382606 ATGTTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:26386874 original size:15 final size:15
Alignment explanation
Indices: 26386854--26386884 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
26386844 GTTATGTAAG
*
26386854 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAAAGT
26386869 TGAAAGGTCAAAAGT
1 TGAAAGGTCAAAAGT
26386884 T
1 T
26386885 ATGTTGTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAAAGT
Found at i:26396660 original size:19 final size:18
Alignment explanation
Indices: 26396638--26396677 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
26396628 TGAATAAAAC
*
26396638 TTATCTACTTAAATAAGAT
1 TTATCTACCTAAATAA-AT
26396657 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
26396675 TTA
1 TTA
26396678 AAATATATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.42, C:0.12, G:0.03, T:0.42
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:26401294 original size:41 final size:44
Alignment explanation
Indices: 26401225--26401313 Score: 139
Period size: 41 Copynumber: 2.1 Consensus size: 44
26401215 GTTCTAATCC
*
26401225 TAAATGGTAAAATAATTTCCTTATTCTAATAAATTACTAAAACA
1 TAAATGGTAAAATAATTTCCTTATTCTAATAAACTACTAAAACA
*
26401269 TAAA-GGT-AAATAATTT-CTTATTCTAATAAACTACTAAAAGA
1 TAAATGGTAAAATAATTTCCTTATTCTAATAAACTACTAAAACA
26401310 TAAA
1 TAAA
26401314 ATAAAACATT
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
41 27 0.63
42 9 0.21
43 3 0.07
44 4 0.09
ACGTcount: A:0.49, C:0.10, G:0.06, T:0.35
Consensus pattern (44 bp):
TAAATGGTAAAATAATTTCCTTATTCTAATAAACTACTAAAACA
Found at i:26401381 original size:18 final size:19
Alignment explanation
Indices: 26401335--26401382 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
26401325 CTAGAATATG
26401335 AATAAAATTTATCTACCTA
1 AATAAAATTTATCTACCTA
26401354 AATAAAATTTATCTACCTA
1 AATAAAATTTATCTACCTA
26401373 AAT-AAATTTA
1 AATAAAATTTA
26401383 AAATATATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 7 0.24
19 22 0.76
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (19 bp):
AATAAAATTTATCTACCTA
Found at i:26409446 original size:12 final size:13
Alignment explanation
Indices: 26409429--26409465 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
26409419 GAACCGGACA
26409429 CGAACCGAA-CTC
1 CGAACCGAAGCTC
26409441 CGAACC-AAGCTC
1 CGAACCGAAGCTC
*
26409453 CGAACCGTAGCTC
1 CGAACCGAAGCTC
26409466 TGATGCCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
11 2 0.09
12 15 0.68
13 5 0.23
ACGTcount: A:0.30, C:0.41, G:0.19, T:0.11
Consensus pattern (13 bp):
CGAACCGAAGCTC
Found at i:26410578 original size:25 final size:24
Alignment explanation
Indices: 26410533--26410579 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
26410523 CGGCTCGGTC
* * *
26410533 TATTTTTTAATAAACATTAAAATT
1 TATTTTTAAATAAAAAATAAAATT
26410557 TATTTTTAAAATAAAAAATAAAA
1 TATTTTT-AAATAAAAAATAAAA
26410580 AAGTATTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 7 0.37
25 12 0.63
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
TATTTTTAAATAAAAAATAAAATT
Found at i:26414344 original size:14 final size:16
Alignment explanation
Indices: 26414316--26414350 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
26414306 TGTGCCTCAT
26414316 TAAAACCTTATTAGGA
1 TAAAACCTTATTAGGA
26414332 -AAAACCTTA-TAGGA
1 TAAAACCTTATTAGGA
26414346 TAAAA
1 TAAAA
26414351 GCCTAATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.26
Consensus pattern (16 bp):
TAAAACCTTATTAGGA
Found at i:26417774 original size:20 final size:20
Alignment explanation
Indices: 26417749--26417789 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
26417739 ACTAATACGT
26417749 ATGTCTGTCTATACTGTTTA
1 ATGTCTGTCTATACTGTTTA
26417769 ATGTCTGTCTATACTGTTTA
1 ATGTCTGTCTATACTGTTTA
26417789 A
1 A
26417790 GTATGTATCT
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:0.22, C:0.15, G:0.15, T:0.49
Consensus pattern (20 bp):
ATGTCTGTCTATACTGTTTA
Found at i:26422355 original size:12 final size:12
Alignment explanation
Indices: 26422340--26422377 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
26422330 ATTGTTAGAA
26422340 TAATTATAAGTT
1 TAATTATAAGTT
*
26422352 TAA-TATGATGTT
1 TAATTAT-AAGTT
26422364 TAATTATAAGTT
1 TAATTATAAGTT
26422376 TA
1 TA
26422378 TACGTTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 3 0.14
12 16 0.73
13 3 0.14
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (12 bp):
TAATTATAAGTT
Found at i:26424131 original size:39 final size:38
Alignment explanation
Indices: 26424087--26424186 Score: 98
Period size: 37 Copynumber: 2.6 Consensus size: 38
26424077 TCAATGAGCA
* *
26424087 TTACTCGATTGAGCTTTTCA-TCAGTATAAGCGTAG-ATT
1 TTACTCGATTGA--TCTTCACTCAGTATAACCGTAGAATT
*
26424125 TCTACTCGTTTGATCTTCACTCAGTATAACCGTAGAATT
1 T-TACTCGATTGATCTTCACTCAGTATAACCGTAGAATT
* * *
26424164 TT-CTCGATTAATCATCATTCAGT
1 TTACTCGATTGATCTTCACTCAGT
26424187 TTAATGGTAA
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
37 22 0.42
38 16 0.31
39 14 0.27
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (38 bp):
TTACTCGATTGATCTTCACTCAGTATAACCGTAGAATT
Found at i:26424239 original size:37 final size:37
Alignment explanation
Indices: 26424139--26424276 Score: 107
Period size: 37 Copynumber: 3.7 Consensus size: 37
26424129 CTCGTTTGAT
* * * * *
26424139 CTTCACTCAGTATAACCG-TAGAATTTTCTCGATTAAT
1 CTTCATTCAGTATAA-CGATAAAATTTGCTCAATTAAG
* * * * * * *
26424176 CATCATTCAGTTTAATGGTAAGATTTGCTTAGTTAAG
1 CTTCATTCAGTATAACGATAAAATTTGCTCAATTAAG
* * *
26424213 CTTTATTCAGTATAACGATATAATTTGCTCAATTGAG
1 CTTCATTCAGTATAACGATAAAATTTGCTCAATTAAG
* *
26424250 CTTCATTTAGTATAACGGTAAAATTTG
1 CTTCATTCAGTATAACGATAAAATTTG
26424277 GCTCGATTGA
Statistics
Matches: 75, Mismatches: 25, Indels: 2
0.74 0.25 0.02
Matches are distributed among these distances:
36 1 0.01
37 74 0.99
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.40
Consensus pattern (37 bp):
CTTCATTCAGTATAACGATAAAATTTGCTCAATTAAG
Found at i:26431217 original size:25 final size:25
Alignment explanation
Indices: 26431189--26431256 Score: 109
Period size: 25 Copynumber: 2.7 Consensus size: 25
26431179 AGTTATGAAC
26431189 TGGGAAGCTCATACGAGCTGTAAAT
1 TGGGAAGCTCATACGAGCTGTAAAT
*
26431214 TGGGAAGATCATACGAGCTGTAAAT
1 TGGGAAGCTCATACGAGCTGTAAAT
* *
26431239 CGGAAAGCTCATACGAGC
1 TGGGAAGCTCATACGAGC
26431257 CGTGGTATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.21
Consensus pattern (25 bp):
TGGGAAGCTCATACGAGCTGTAAAT
Found at i:26432824 original size:50 final size:50
Alignment explanation
Indices: 26432745--26432983 Score: 234
Period size: 49 Copynumber: 4.8 Consensus size: 50
26432735 ATTTGGGTAA
* *
26432745 AGAGGT-CCATGTAAGACCATGTTTCGGACATGGCATTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
*
26432794 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
* * * *
26432844 AGAGGTCCC-CGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
* ** * * * * ** **
26432893 GGAACTCTCATGTAAGACCATATCTAGGATATGATATTGGCAGTACAG--G
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCA-AGATG
* ** * *
26432942 AAACATCCCATATAAGACCATGTCTGGGACATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
26432984 TGCTATTATC
Statistics
Matches: 154, Mismatches: 33, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
49 79 0.51
50 74 0.48
51 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
Found at i:26432877 original size:49 final size:49
Alignment explanation
Indices: 26432745--26432888 Score: 225
Period size: 50 Copynumber: 2.9 Consensus size: 49
26432735 ATTTGGGTAA
* * * *
26432745 AGAGGTCCATGTAAGACCATGTTTCGGACATGGCATTGGCACCAAGATG
1 AGAGGTCCCTGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
26432794 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCC-TGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
26432844 AGAGGTCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGA
1 AGAGGTCCCTGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
26432889 TATGGGAACT
Statistics
Matches: 88, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
49 42 0.48
50 46 0.52
ACGTcount: A:0.26, C:0.23, G:0.31, T:0.19
Consensus pattern (49 bp):
AGAGGTCCCTGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:26432932 original size:99 final size:99
Alignment explanation
Indices: 26432745--26432934 Score: 236
Period size: 99 Copynumber: 1.9 Consensus size: 99
26432735 ATTTGGGTAA
* * * **
26432745 AGAGGTCCATGTAAGACCATGTTTCGGACATGGCATTGGCACCAAGATGAGAGGTCCCATGTAAG
1 AGAGGTCCACGTAAGACCATGTCTCGGACATGGCATGGGCACCAAGATGAGAACTCCCATGTAAG
* * *
26432810 ACCATGTCTGGGACATGGCATTGGCACCGAGATG
66 ACCATATCTAGGACATGACATTGGCACCGAGATG
* * * * * *
26432844 AGAGGTCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGGGAACTCTCATGTAAG
1 AGAGGTCCACGTAAGACCATGTCTCGGACATGGCATGGGCACCAAGATGAGAACTCCCATGTAAG
* *
26432909 ACCATATCTAGGATATGATATTGGCA
66 ACCATATCTAGGACATGACATTGGCA
26432935 GTACAGGAAA
Statistics
Matches: 75, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
99 75 1.00
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (99 bp):
AGAGGTCCACGTAAGACCATGTCTCGGACATGGCATGGGCACCAAGATGAGAACTCCCATGTAAG
ACCATATCTAGGACATGACATTGGCACCGAGATG
Found at i:26433952 original size:31 final size:31
Alignment explanation
Indices: 26433914--26434006 Score: 186
Period size: 31 Copynumber: 3.0 Consensus size: 31
26433904 AGGCAAATTA
26433914 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
26433945 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
26433976 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
26434007 AAAATTATCT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (31 bp):
CAAGAGTAATTGAATCCTAATAAAACTCTTT
Found at i:26444111 original size:40 final size:40
Alignment explanation
Indices: 26444059--26444138 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
26444049 TTTTGAAAAC
* *
26444059 AAAGTCTTAGAACTTAAAAACAAGGTTTTGTCAAAAACTT
1 AAAGTCTCAGAACTTAAAAACAAGGTTTTATCAAAAACTT
* * *
26444099 AAAGTCTCAGAACTTGAAAGCAAGGTTTTATCGAAAACTT
1 AAAGTCTCAGAACTTAAAAACAAGGTTTTATCAAAAACTT
26444139 TCTTTTGAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.29
Consensus pattern (40 bp):
AAAGTCTCAGAACTTAAAAACAAGGTTTTATCAAAAACTT
Found at i:26446218 original size:22 final size:23
Alignment explanation
Indices: 26446183--26446228 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
26446173 TTAGTTGGAA
*
26446183 TGTTTAAGGGTTTTAAGGTCTAG
1 TGTTTAAGGATTTTAAGGTCTAG
*
26446206 TGTTTAA-GATTTTAAGGTTTAG
1 TGTTTAAGGATTTTAAGGTCTAG
26446228 T
1 T
26446229 ATTTTGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.24, C:0.02, G:0.26, T:0.48
Consensus pattern (23 bp):
TGTTTAAGGATTTTAAGGTCTAG
Found at i:26447068 original size:36 final size:36
Alignment explanation
Indices: 26447028--26447126 Score: 114
Period size: 36 Copynumber: 2.7 Consensus size: 36
26447018 TTAAGTTTAA
*
26447028 TGTTTAGTTTGAAGGATTTAGGATTTTAAGGTCTAG
1 TGTTTAGTTTGAAGGATTTAGGATTTTAAGGTCCAG
*
26447064 TGTTTAAGATTT-TAGGATTTAGGA-TTTAAGGTCCAG
1 TGTTT-AG-TTTGAAGGATTTAGGATTTTAAGGTCCAG
*
26447100 TGTTTATTGTTTGAAGG-TCTAGGATTT
1 TGTTTA--GTTTGAAGGATTTAGGATTT
26447127 CAATTGTTAG
Statistics
Matches: 53, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
35 1 0.02
36 30 0.57
37 19 0.36
38 3 0.06
ACGTcount: A:0.24, C:0.04, G:0.26, T:0.45
Consensus pattern (36 bp):
TGTTTAGTTTGAAGGATTTAGGATTTTAAGGTCCAG
Found at i:26447091 original size:22 final size:22
Alignment explanation
Indices: 26447040--26447093 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
26447030 TTTAGTTTGA
*
26447040 AGGATTTAGGATTTTAAGGTCT
1 AGGATTTAAGATTTTAAGGTCT
*
26447062 AGTG-TTTAAGATTTT-AGGATTT
1 AG-GATTTAAGATTTTAAGG-TCT
26447084 AGGATTTAAG
1 AGGATTTAAG
26447094 GTCCAGTGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
21 4 0.15
22 22 0.81
23 1 0.04
ACGTcount: A:0.30, C:0.02, G:0.26, T:0.43
Consensus pattern (22 bp):
AGGATTTAAGATTTTAAGGTCT
Found at i:26450004 original size:19 final size:19
Alignment explanation
Indices: 26449980--26450050 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 19
26449970 TGACCTACTA
26449980 AATATTTAAGTAATTACAT
1 AATATTTAAGTAATTACAT
26449999 AATATTT-A-TACATTTTGACCTACT
1 AATATTTAAGTA-A--TT-A-C-A-T
26450023 AAATATTTAAGTAATTACAT
1 -AATATTTAAGTAATTACAT
26450043 AATATTTA
1 AATATTTA
26450051 TTATAAAATA
Statistics
Matches: 42, Mismatches: 0, Indels: 20
0.68 0.00 0.32
Matches are distributed among these distances:
17 2 0.05
18 2 0.05
19 15 0.36
20 3 0.07
21 2 0.05
22 2 0.05
23 2 0.05
24 3 0.07
25 7 0.17
26 2 0.05
27 2 0.05
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (19 bp):
AATATTTAAGTAATTACAT
Found at i:26450016 original size:44 final size:44
Alignment explanation
Indices: 26449952--26450051 Score: 182
Period size: 44 Copynumber: 2.2 Consensus size: 44
26449942 TTGATGAGAG
*
26449952 ATAATTTTATATACATTTTGACCTACTAAATATTTAAGTAATTAC
1 ATAATATT-TATACATTTTGACCTACTAAATATTTAAGTAATTAC
26449997 ATAATATTTATACATTTTGACCTACTAAATATTTAAGTAATTAC
1 ATAATATTTATACATTTTGACCTACTAAATATTTAAGTAATTAC
26450041 ATAATATTTAT
1 ATAATATTTAT
26450052 TATAAAATAT
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
44 47 0.87
45 7 0.13
ACGTcount: A:0.41, C:0.10, G:0.04, T:0.45
Consensus pattern (44 bp):
ATAATATTTATACATTTTGACCTACTAAATATTTAAGTAATTAC
Found at i:26450027 original size:25 final size:25
Alignment explanation
Indices: 26449961--26450031 Score: 68
Period size: 25 Copynumber: 3.1 Consensus size: 25
26449951 GATAATTTTA
26449961 TATACATTTTGACCTACTAAATATT
1 TATACATTTTGACCTACTAAATATT
26449986 TAAGTA-A--TT-A-C-A-T-AATATT
1 T-A-TACATTTTGACCTACTAAATATT
26450005 TATACATTTTGACCTACTAAATATT
1 TATACATTTTGACCTACTAAATATT
26450030 TA
1 TA
26450032 AGTAATTACA
Statistics
Matches: 36, Mismatches: 0, Indels: 20
0.64 0.00 0.36
Matches are distributed among these distances:
17 2 0.06
18 2 0.06
19 7 0.19
20 3 0.08
21 2 0.06
22 2 0.06
23 2 0.06
24 3 0.08
25 9 0.25
26 2 0.06
27 2 0.06
ACGTcount: A:0.39, C:0.13, G:0.04, T:0.44
Consensus pattern (25 bp):
TATACATTTTGACCTACTAAATATT
Found at i:26450776 original size:57 final size:57
Alignment explanation
Indices: 26450679--26450790 Score: 170
Period size: 57 Copynumber: 2.0 Consensus size: 57
26450669 CGTTTTATTT
* * *
26450679 AAATTGTTCCCACAGAATCTCAGCCAAGGCTATCACAACCTACATTCAAAAGAATAG
1 AAATTGTTCCCAAAGAACCTCAGCCAAGGCCATCACAACCTACATTCAAAAGAATAG
** *
26450736 AAATTGTTCCCAAAGAACCTCAGTGAAGGCCATCATAACCTACATTCAAAAGAAT
1 AAATTGTTCCCAAAGAACCTCAGCCAAGGCCATCACAACCTACATTCAAAAGAAT
26450791 TGAAGTGTGT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.41, C:0.25, G:0.12, T:0.21
Consensus pattern (57 bp):
AAATTGTTCCCAAAGAACCTCAGCCAAGGCCATCACAACCTACATTCAAAAGAATAG
Found at i:26460091 original size:26 final size:25
Alignment explanation
Indices: 26460017--26460092 Score: 82
Period size: 26 Copynumber: 2.9 Consensus size: 25
26460007 TCTCATCCCT
* *
26460017 ATTTTACCCCTAGCAAAATTTTGATG
1 ATTTTA-CCCTAGTAAAATTTTGACG
26460043 ATTTTACCCTAGTAAAATTTTTGACG
1 ATTTTACCCTAGTAAAA-TTTTGACG
*
26460069 ATTTTGCCCCT-GTTAAAATTTTGA
1 ATTTT-ACCCTAG-TAAAATTTTGA
26460093 GAAAATATGT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
25 10 0.23
26 25 0.57
27 9 0.20
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (25 bp):
ATTTTACCCTAGTAAAATTTTGACG
Found at i:26462261 original size:18 final size:18
Alignment explanation
Indices: 26462238--26462273 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
26462228 AAAATTTATT
*
26462238 TTGATCAAGTAAATTAAA
1 TTGATCAAATAAATTAAA
*
26462256 TTGATCAAATTAATTAAA
1 TTGATCAAATAAATTAAA
26462274 ATTAATATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.36
Consensus pattern (18 bp):
TTGATCAAATAAATTAAA
Found at i:26467631 original size:13 final size:13
Alignment explanation
Indices: 26467613--26467642 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
26467603 AAACTAGATT
*
26467613 TTAACTAAGTAAA
1 TTAACTAAGAAAA
26467626 TTAACTAAGAAAA
1 TTAACTAAGAAAA
26467639 TTAA
1 TTAA
26467643 AAAGGTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (13 bp):
TTAACTAAGAAAA
Found at i:26495974 original size:24 final size:24
Alignment explanation
Indices: 26495942--26495997 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
26495932 TCCCAAGGGC
*
26495942 TACAGTAGATTGAACCTTGAGGAT
1 TACAGTAGATTGAACCTTGAAGAT
26495966 TACAGTAGATTGAACCTTGAAGAT
1 TACAGTAGATTGAACCTTGAAGAT
26495990 TACAGTAG
1 TACAGTAG
26495998 GGGCAATCCG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (24 bp):
TACAGTAGATTGAACCTTGAAGAT
Found at i:26496360 original size:24 final size:24
Alignment explanation
Indices: 26496326--26496381 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
26496316 TCCCAAGGGC
* *
26496326 TACAGTAGATTGAACCTTGAGGAT
1 TACAGTGGATTGAACCTTGAAGAT
26496350 TACAGTGGATTGAACCTTGAAGAT
1 TACAGTGGATTGAACCTTGAAGAT
26496374 TACAGTGG
1 TACAGTGG
26496382 GGGCAATCCG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (24 bp):
TACAGTGGATTGAACCTTGAAGAT
Found at i:26496715 original size:45 final size:45
Alignment explanation
Indices: 26496651--26496854 Score: 202
Period size: 45 Copynumber: 4.6 Consensus size: 45
26496641 AAGTCAATCC
**
26496651 TATCTCCCTGAAGTTGCAGTGGAGTGGATTTAAAACCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTTAAAACCACAGATCT
* * *** *
26496696 TATCTCTCTGAAGTTGCAGTAGAGCAGA--TCGCATCA-AG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTTAAAACCACAGATCT
* *** *** *
26496737 TATCTCCCTGAAGTTACAGTGGAGCAGACAGAAAAAGTCA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTTAAAACCACAGATCT
*
26496781 TATCTCCCTGAAGTTGCAGTGGAGTAGATTTAAAACCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTTAAAACCACAGATCT
* *
26496826 TATCTCTCTGAAGTTGCAGTAGAGCAGAT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGAT
26496855 CGCATCAAGT
Statistics
Matches: 123, Mismatches: 31, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
41 28 0.23
42 2 0.02
43 5 0.04
44 35 0.28
45 53 0.43
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (45 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTTAAAACCACAGATCT
Found at i:26496718 original size:384 final size:383
Alignment explanation
Indices: 26495865--26496657 Score: 1301
Period size: 384 Copynumber: 2.1 Consensus size: 383
26495855 CGGTAGGAGA
* * ** *
26495865 AGATTGAGAAAGAGTCAGATCTTATACTCCTAAATTACAGTAGGAAGAAGATAATTCAAATTTTA
1 AGATTGAGAAAGAGCCAGATCCTATACTCCTAAATTACAGTAGGAAGAAGATAAACCAAATCTTA
*
26495930 TGTCCCAAGGGCTACAGTAGATTGAACCTTGAGGATTACAGTAGATTGAACCTTGAAGATTACAG
66 TCTCCCAA-GGCTACAGTAGATTGAACCTTGAGGATTACAGTAGATTGAACCTTGAAGATTACAG
* *
26495995 TAGGGGCAATCCGATTAAGTAAGATATGGGTGTTACCAGACAAATAAAGATAACGTTTTGACGTG
130 TAGGGGCAATCCGATTAAGTAAGATATAGGTGTTACCAGACAAATAAAGATAACATTTTGACGTG
* *
26496060 TTGGTAATGAGGCCTTAATGAACAACGGGCAATAACAATTCAAACATTAAGATATCATTTTCATG
195 TTGGTAATGAGGCCTTAATGAACAACGGGCAATAACAACTCAAACATTAAGATATCATTTTCATC
26496125 ACATTTTTGCATTCATGCATGCACATTTGGTTAGGAGATGTTGATTCATTTCGATCATAACATCC
260 ACATTTTTGCATTCATGCATGCACATTTGGTTAGGAGATGTTGATTCATTTCGATCATAACATCC
*
26496190 TAGTCACTAGACATAAATAGGCCATGTAAAAATATTACAAGTCATGTTCCCCAGAGAAC
325 TAATCACTAGACATAAATAGGCCATGTAAAAATATTACAAGTCATGTTCCCCAGAGAAC
* ** *
26496249 AGATTGAGAAAGAGCCAGATCTTATACTCCTAAATTACAGTAGGAAGAAGATAATTCAAATTTTA
1 AGATTGAGAAAGAGCCAGATCCTATACTCCTAAATTACAGTAGGAAGAAGATAAACCAAATCTTA
* *
26496314 TGTCCCAAGGGCTACAGTAGATTGAACCTTGAGGATTACAGTGGATTGAACCTTGAAGATTACAG
66 TCTCCCAA-GGCTACAGTAGATTGAACCTTGAGGATTACAGTAGATTGAACCTTGAAGATTACAG
* *
26496379 TGGGGGCAATCCGATTATGTAAGATATAGGTGTTACCAGGA-AAATAAAGATAACATTTTGACGT
130 TAGGGGCAATCCGATTAAGTAAGATATAGGTGTTACCA-GACAAATAAAGATAACATTTTGACGT
26496443 GTTGGTAATGAGGCCTTAATGAACAACGGGCAATAACAACTCAAACATTAAGATATCATTTTCAT
194 GTTGGTAATGAGGCCTTAATGAACAACGGGCAATAACAACTCAAACATTAAGATATCATTTTCAT
* *
26496508 CACA-TTTTGCATTCATGCATGCACATTTGGTTAGGAGATGTTGTTTCATTTCGATCATATCATC
259 CACATTTTTGCATTCATGCATGCACATTTGGTTAGGAGATGTTGATTCATTTCGATCATAACATC
* *
26496572 CTAATCACTAGACATAAATAGGCCATGTAAAAATATTACAGGTCATGTTCCCTAGAGAAC
324 CTAATCACTAGACATAAATAGGCCATGTAAAAATATTACAAGTCATGTTCCCCAGAGAAC
*
26496632 AGATTGA-AAA-AGTCA-ATCCTAT-CTCC
1 AGATTGAGAAAGAGCCAGATCCTATACTCC
26496658 CTGAAGTTGC
Statistics
Matches: 393, Mismatches: 15, Indels: 7
0.95 0.04 0.02
Matches are distributed among these distances:
379 4 0.01
380 6 0.02
381 4 0.01
382 3 0.01
383 122 0.31
384 252 0.64
385 2 0.01
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (383 bp):
AGATTGAGAAAGAGCCAGATCCTATACTCCTAAATTACAGTAGGAAGAAGATAAACCAAATCTTA
TCTCCCAAGGCTACAGTAGATTGAACCTTGAGGATTACAGTAGATTGAACCTTGAAGATTACAGT
AGGGGCAATCCGATTAAGTAAGATATAGGTGTTACCAGACAAATAAAGATAACATTTTGACGTGT
TGGTAATGAGGCCTTAATGAACAACGGGCAATAACAACTCAAACATTAAGATATCATTTTCATCA
CATTTTTGCATTCATGCATGCACATTTGGTTAGGAGATGTTGATTCATTTCGATCATAACATCCT
AATCACTAGACATAAATAGGCCATGTAAAAATATTACAAGTCATGTTCCCCAGAGAAC
Found at i:26496748 original size:41 final size:41
Alignment explanation
Indices: 26496693--26496886 Score: 176
Period size: 41 Copynumber: 4.6 Consensus size: 41
26496683 AAACCACAGA
* *
26496693 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCAAG
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCGAATCAAG
* *
26496734 TCTTATCTCCCTGAAGTTACAGTGGAGCAGA-CAGAAAAAGTCAA-
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATC-G---AA-TCAAG
* * * ** *
26496778 TCCTATCTCCCTGAAGTTGCAGTGGAGTAGATTTAAAACCACAG
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGA--TCGAATCA-AG
* *
26496822 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCAAG
1 -TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCGAATCAAG
*
26496864 TCTTATCTCCCTAAAGTTGCAGT
1 TCTTATCTCCCTGAAGTTGCAGT
26496887 GGAGTGGATT
Statistics
Matches: 122, Mismatches: 20, Indels: 22
0.74 0.12 0.13
Matches are distributed among these distances:
40 1 0.01
41 50 0.41
42 4 0.03
43 7 0.06
44 29 0.24
45 31 0.25
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.28
Consensus pattern (41 bp):
TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCGAATCAAG
Found at i:26496870 original size:130 final size:130
Alignment explanation
Indices: 26496637--26496890 Score: 481
Period size: 130 Copynumber: 2.0 Consensus size: 130
26496627 AGAACAGATT
*
26496637 GAAAAAGTCAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTTAAAACCACAGATCTTATCTC
1 GAAAAAGTCAATCCTATCTCCCTGAAGTTGCAGTGGAGTAGATTTAAAACCACAGATCTTATCTC
*
26496702 TCTGAAGTTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACA
66 TCTGAAGTTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAAGTTACAGTGGAGCAGACA
26496767 GAAAAAGTCAATCCTATCTCCCTGAAGTTGCAGTGGAGTAGATTTAAAACCACAGATCTTATCTC
1 GAAAAAGTCAATCCTATCTCCCTGAAGTTGCAGTGGAGTAGATTTAAAACCACAGATCTTATCTC
*
26496832 TCTGAAGTTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAAGTTGCAGTGGAG
66 TCTGAAGTTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAAGTTACAGTGGAG
26496891 TGGATTAAAC
Statistics
Matches: 121, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
130 121 1.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (130 bp):
GAAAAAGTCAATCCTATCTCCCTGAAGTTGCAGTGGAGTAGATTTAAAACCACAGATCTTATCTC
TCTGAAGTTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAAGTTACAGTGGAGCAGACA
Found at i:26496928 original size:85 final size:86
Alignment explanation
Indices: 26496781--26496946 Score: 237
Period size: 85 Copynumber: 1.9 Consensus size: 86
26496771 AAGTCAATCC
* * * *
26496781 TATCTCCCTGAAGTTGCAGTGGAGTAGATTTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGT
1 TATCTCCCTAAAGTTGCAGTGGAGTAGATTTAAAACCACAAACCTTATCTCTCAGAAGTTGCAGT
26496846 AGAGCAGATCGCATCAAGTCT
66 AGAGCAGATCGCATCAAGTCT
* * *
26496867 TATCTCCCTAAAGTTGCAGTGGAGTGGA-TT-AAACTGATAAACCTTATCTCTCAGAAGTTGCAG
1 TATCTCCCTAAAGTTGCAGTGGAGTAGATTTAAAAC-CACAAACCTTATCTCTCAGAAGTTGCAG
*
26496930 TAGAGCAGGTCGCATCA
65 TAGAGCAGATCGCATCA
26496947 GAATTTTCTC
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
84 4 0.06
85 41 0.58
86 26 0.37
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (86 bp):
TATCTCCCTAAAGTTGCAGTGGAGTAGATTTAAAACCACAAACCTTATCTCTCAGAAGTTGCAGT
AGAGCAGATCGCATCAAGTCT
Found at i:26502914 original size:17 final size:17
Alignment explanation
Indices: 26502894--26502955 Score: 70
Period size: 17 Copynumber: 3.6 Consensus size: 17
26502884 TTTTTTAGTA
*
26502894 ATAGGGTTGCTTTGGCG
1 ATAGGGTTGCTCTGGCG
* * *
26502911 ATAGGGTTGCTCCGACA
1 ATAGGGTTGCTCTGGCG
*
26502928 ATAGGTTTGCTCTGGCG
1 ATAGGGTTGCTCTGGCG
*
26502945 ATAGGGCTGCT
1 ATAGGGTTGCT
26502956 TCAACGAGAA
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 35 1.00
ACGTcount: A:0.16, C:0.18, G:0.35, T:0.31
Consensus pattern (17 bp):
ATAGGGTTGCTCTGGCG
Found at i:26505162 original size:27 final size:26
Alignment explanation
Indices: 26505122--26505172 Score: 93
Period size: 27 Copynumber: 1.9 Consensus size: 26
26505112 AAAATAGTGG
26505122 TTTTCGTTACCGTGTAATTGAGTTCT
1 TTTTCGTTACCGTGTAATTGAGTTCT
26505148 TTTTCAGTTACCGTGTAATTGAGTT
1 TTTTC-GTTACCGTGTAATTGAGTT
26505173 GGGCTTCTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.18, C:0.14, G:0.20, T:0.49
Consensus pattern (26 bp):
TTTTCGTTACCGTGTAATTGAGTTCT
Found at i:26506333 original size:10 final size:10
Alignment explanation
Indices: 26506318--26506353 Score: 63
Period size: 10 Copynumber: 3.5 Consensus size: 10
26506308 CGATTACCCT
26506318 TTTAAATTTC
1 TTTAAATTTC
26506328 TTTAAATTTC
1 TTTAAATTTC
26506338 TTTTAAATTTC
1 -TTTAAATTTC
26506349 TTTAA
1 TTTAA
26506354 GACAATGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 15 0.60
11 10 0.40
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.61
Consensus pattern (10 bp):
TTTAAATTTC
Found at i:26506342 original size:11 final size:11
Alignment explanation
Indices: 26506316--26506351 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
26506306 ATCGATTACC
26506316 CTTTTAAATTT
1 CTTTTAAATTT
26506327 C-TTTAAATTT
1 CTTTTAAATTT
26506337 CTTTTAAATTT
1 CTTTTAAATTT
26506348 CTTT
1 CTTT
26506352 AAGACAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 10 0.42
11 14 0.58
ACGTcount: A:0.25, C:0.11, G:0.00, T:0.64
Consensus pattern (11 bp):
CTTTTAAATTT
Found at i:26511887 original size:21 final size:22
Alignment explanation
Indices: 26511841--26511898 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
26511831 ATCAGCACAC
*
26511841 TCAGATGCATCCACA-ACAAAG
1 TCAGATGCATCCACATACAAAA
*
26511862 CCAGATGCATCCACATA-AAAA
1 TCAGATGCATCCACATACAAAA
* *
26511883 TCAGACGCAACCACAT
1 TCAGATGCATCCACAT
26511899 TACTCTTTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 30 0.97
22 1 0.03
ACGTcount: A:0.43, C:0.31, G:0.12, T:0.14
Consensus pattern (22 bp):
TCAGATGCATCCACATACAAAA
Found at i:26514942 original size:15 final size:15
Alignment explanation
Indices: 26514922--26514960 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
26514912 AGGAAGAAAA
26514922 TACTGAGAAAGAAGC
1 TACTGAGAAAGAAGC
* *
26514937 TGCTGAGAAAGAATC
1 TACTGAGAAAGAAGC
26514952 TACTGAGAA
1 TACTGAGAA
26514961 CATTGTCAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.44, C:0.13, G:0.26, T:0.18
Consensus pattern (15 bp):
TACTGAGAAAGAAGC
Found at i:26515369 original size:17 final size:17
Alignment explanation
Indices: 26515347--26515379 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
26515337 GTTAGTGCAC
*
26515347 ATTGTCGTTGCATTTTT
1 ATTGTCATTGCATTTTT
26515364 ATTGTCATTGCATTTT
1 ATTGTCATTGCATTTT
26515380 AATGCTAGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.12, G:0.15, T:0.58
Consensus pattern (17 bp):
ATTGTCATTGCATTTTT
Found at i:26518682 original size:79 final size:82
Alignment explanation
Indices: 26518571--26518755 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 82
26518561 GCTACTCGTT
* * *
26518571 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
26518634 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
26518651 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
26518714 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
*
26518731 TAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
26518756 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.60
80 33 0.37
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:26518755 original size:40 final size:40
Alignment explanation
Indices: 26518552--26518755 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
26518542 CGGAATTTAA
** *
26518552 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
26518592 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
26518632 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
26518671 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * * *
26518711 CCGGATATGGTCACTTAGCATAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
26518751 CCGGA
1 CCGGA
26518756 CATCATTCAA
Statistics
Matches: 138, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.67
41 11 0.08
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:26526620 original size:79 final size:82
Alignment explanation
Indices: 26526509--26526693 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 82
26526499 GCTACTCGTT
* * *
26526509 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
26526572 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* ** *
26526589 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCTG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
26526652 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
26526669 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
26526694 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 53 0.59
80 34 0.38
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:26526626 original size:39 final size:40
Alignment explanation
Indices: 26526509--26526693 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
26526499 GCTACTCGTT
*
26526509 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
26526549 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
26526589 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
26526628 CAAATGCCTTC-GGATCTTAGTCTGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
26526669 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
26526694 CATCATTCAA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.27
40 75 0.61
41 13 0.11
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:26540257 original size:10 final size:10
Alignment explanation
Indices: 26540242--26540280 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
26540232 AGCACATATA
*
26540242 AATCACATTT
1 AATCACATTC
26540252 AATCACATTC
1 AATCACATTC
26540262 AATCACATTC
1 AATCACATTC
*
26540272 ATTCACATT
1 AATCACATT
26540281 TTATGATAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.38, C:0.26, G:0.00, T:0.36
Consensus pattern (10 bp):
AATCACATTC
Found at i:26551269 original size:3 final size:3
Alignment explanation
Indices: 26551261--26551298 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
26551251 TCAATGATTA
26551261 ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC AC
1 ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC AC
26551299 TACAACAACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.66, G:0.00, T:0.00
Consensus pattern (3 bp):
ACC
Found at i:26551317 original size:3 final size:3
Alignment explanation
Indices: 26551311--26551339 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
26551301 CAACAACAAC
26551311 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
26551340 AACTCAAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:26558466 original size:40 final size:40
Alignment explanation
Indices: 26558384--26558466 Score: 114
Period size: 40 Copynumber: 2.1 Consensus size: 40
26558374 TAAGTCTTAC
* **
26558384 AGAAAAGAAGAAAAACCATCTAAACATTCCCAGGTCCTAT
1 AGAAAAGAAGAAAAACCATCCAAACATTCCCAAATCCTAT
*
26558424 AGAAGAGAAGAAAAACCATCCAAACATTCCCAAATACC-AT
1 AGAAAAGAAGAAAAACCATCCAAACATTCCCAAAT-CCTAT
26558464 AGA
1 AGA
26558467 TGAGGCCCCA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
40 36 0.95
41 2 0.05
ACGTcount: A:0.51, C:0.23, G:0.12, T:0.14
Consensus pattern (40 bp):
AGAAAAGAAGAAAAACCATCCAAACATTCCCAAATCCTAT
Found at i:26561100 original size:18 final size:19
Alignment explanation
Indices: 26561059--26561100 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
26561049 ACTTGAGTAC
*
26561059 AGAAATAAAAAGAAAATAA
1 AGAAATAAAAAGAAAAGAA
*
26561078 A-AAATAAAAA-AAGAGAA
1 AGAAATAAAAAGAAAAGAA
26561095 AGAAAT
1 AGAAAT
26561101 GTATCCCATA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 6 0.30
18 13 0.65
19 1 0.05
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.10
Consensus pattern (19 bp):
AGAAATAAAAAGAAAAGAA
Found at i:26563612 original size:25 final size:27
Alignment explanation
Indices: 26563557--26563612 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 27
26563547 TAAATATTAG
* *
26563557 ATTAAATTTAATATTAATATAATCACT
1 ATTAAAATTAATATTAATAAAATCACT
26563584 -TTAAAATTAA-ATTAATAAAAT-ACT
1 ATTAAAATTAATATTAATAAAATCACT
26563608 ATTAA
1 ATTAA
26563613 GATAAGTACT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 3 0.12
25 14 0.54
26 9 0.35
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (27 bp):
ATTAAAATTAATATTAATAAAATCACT
Found at i:26563640 original size:68 final size:69
Alignment explanation
Indices: 26563510--26563641 Score: 212
Period size: 68 Copynumber: 1.9 Consensus size: 69
26563500 TTAATTTTAG
* * * *
26563510 TCACTTTAATATTAAATTAATATAATACTTATTAAGATAAATATTAGATTAAATTTAATATTAAT
1 TCACTTTAAAATTAAATTAATAAAATACTTATTAAGATAAATACTAAATTAAATTTAATATTAAT
26563575 ATAA
66 ATAA
*
26563579 TCACTTTAAAATTAAATTAATAAAATAC-TATTAAGATAAGTACTAAATTAAATTTAATATTAA
1 TCACTTTAAAATTAAATTAATAAAATACTTATTAAGATAAATACTAAATTAAATTTAATATTAA
26563642 ATCTATTAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
68 32 0.55
69 26 0.45
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (69 bp):
TCACTTTAAAATTAAATTAATAAAATACTTATTAAGATAAATACTAAATTAAATTTAATATTAAT
ATAA
Found at i:26565670 original size:28 final size:28
Alignment explanation
Indices: 26565590--26565670 Score: 135
Period size: 28 Copynumber: 2.9 Consensus size: 28
26565580 GGGTTGTGGG
* * *
26565590 CATTGGCAGTTGGAGCGCAATTTGCGAG
1 CATTGGCAATTGGAGCGCAATTTGTGAC
26565618 CATTGGCAATTGGAGCGCAATTTGTGAC
1 CATTGGCAATTGGAGCGCAATTTGTGAC
26565646 CATTGGCAATTGGAGCGCAATTTGT
1 CATTGGCAATTGGAGCGCAATTTGT
26565671 AAGCAATATT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 50 1.00
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.28
Consensus pattern (28 bp):
CATTGGCAATTGGAGCGCAATTTGTGAC
Found at i:26570363 original size:76 final size:73
Alignment explanation
Indices: 26570208--26570397 Score: 285
Period size: 76 Copynumber: 2.6 Consensus size: 73
26570198 AAAAAATTTG
*
26570208 TTCTATTGTATTTTACATCAATAATA-TACTTATTTACAATCTAAGACAAAATAAAATATTGTTT
1 TTCTATTGTATTTTACATCAATAATATTACTTATTTACAATCTAAGACAAAATAAAATAATGTTT
*
26570272 GTATTTTA
66 ATATTTTA
*
26570280 TTCTATTGTATTTTATATCAATAATATGTACTTATTTACAATCTACAGA-AAAATGAAAAATAAT
1 TTCTATTGTATTTTACATCAATAATAT-TACTTATTTACAATCTA-AGACAAAAT--AAAATAAT
26570344 GTTTATATTTTA
62 GTTTATATTTTA
*
26570356 TTCTATTGTATTTTACATCAATAATATATCCTTATTTACAAT
1 TTCTATTGTATTTTACATCAATAATAT-TACTTATTTACAAT
26570398 TCCCTAAAAA
Statistics
Matches: 107, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
72 25 0.23
74 22 0.21
75 3 0.03
76 57 0.53
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.46
Consensus pattern (73 bp):
TTCTATTGTATTTTACATCAATAATATTACTTATTTACAATCTAAGACAAAATAAAATAATGTTT
ATATTTTA
Found at i:26583947 original size:18 final size:19
Alignment explanation
Indices: 26583912--26583949 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
26583902 ACAAAAAATT
*
26583912 TAAAAATTTAAAATATTTA
1 TAAAAATTCAAAATATTTA
*
26583931 TAAAAATTCCAAA-ATTTA
1 TAAAAATTCAAAATATTTA
26583949 T
1 T
26583950 TTATTTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (19 bp):
TAAAAATTCAAAATATTTA
Found at i:26584800 original size:40 final size:40
Alignment explanation
Indices: 26584755--26584831 Score: 95
Period size: 40 Copynumber: 1.9 Consensus size: 40
26584745 ATGTCAGGCG
*
26584755 ACGTGGCA-GAAAATTGCGTCCC-TGAGGGCGCGCTTTGCTT
1 ACGTGG-AGGAAAATTGC-TCCCTTAAGGGCGCGCTTTGCTT
* *
26584795 ACGTGGAGGGAAATTGCTCCCTTAAGGGCGCGTTTTG
1 ACGTGGAGGAAAATTGCTCCCTTAAGGGCGCGCTTTG
26584832 TTGCCACGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
39 5 0.16
40 27 0.84
ACGTcount: A:0.18, C:0.22, G:0.34, T:0.26
Consensus pattern (40 bp):
ACGTGGAGGAAAATTGCTCCCTTAAGGGCGCGCTTTGCTT
Found at i:26586874 original size:18 final size:18
Alignment explanation
Indices: 26586851--26586893 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
26586841 TGCCAGGTGC
* *
26586851 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
26586869 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
26586887 GTTTCCT
1 GTATCCT
26586894 TCTTCTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:26587359 original size:49 final size:49
Alignment explanation
Indices: 26587303--26587521 Score: 375
Period size: 49 Copynumber: 4.5 Consensus size: 49
26587293 GTTTATATTA
*
26587303 ATGTAATAAAATACAAAATAGTTTATTTTGAATAATTTGATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATAATTTGATATTATTTC
*
26587352 ATGTAATAAAATACAAAATAGTTTATTTTGAATAATTTGATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATAATTTGATATTATTTC
*
26587401 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTC
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATAATTTGATATTATTTC
* * *
26587450 ATTTAATAAAATATAAAATAGTTTATTTTGAATATTTTGATATTATTTC
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATAATTTGATATTATTTC
*
26587499 ATTTAATAAAATACAAAATAGTT
1 ATGTAATAAAATACAAAATAGTT
26587522 AATATTCTTA
Statistics
Matches: 165, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 165 1.00
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (49 bp):
ATGTAATAAAATACAAAATAGTTTATTTTGAATAATTTGATATTATTTC
Found at i:26587378 original size:29 final size:29
Alignment explanation
Indices: 26587345--26587428 Score: 78
Period size: 29 Copynumber: 3.2 Consensus size: 29
26587335 TAATTTGATA
26587345 TTATTTGATGTAATAAAATACAAAATAGT
1 TTATTTGATGTAATAAAATACAAAATAGT
***
26587374 TTATTT--TG-AAT--AAT--TTGATA--
1 TTATTTGATGTAATAAAATACAAAATAGT
26587394 TTATTTGATGTAATAAAATACAAAATAGT
1 TTATTTGATGTAATAAAATACAAAATAGT
26587423 TTATTT
1 TTATTT
26587429 TGAATATTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 18
0.62 0.09 0.28
Matches are distributed among these distances:
20 6 0.15
22 5 0.12
23 3 0.08
24 3 0.08
25 3 0.08
26 3 0.08
27 5 0.12
29 12 0.30
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (29 bp):
TTATTTGATGTAATAAAATACAAAATAGT
Found at i:26589657 original size:29 final size:29
Alignment explanation
Indices: 26589615--26589670 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
26589605 TTTAACCACG
26589615 TGATAGTTAACGCCGTTATTGATGCTACT
1 TGATAGTTAACGCCGTTATTGATGCTACT
26589644 TGATAGTTAACGCCGTTATTGATGCTA
1 TGATAGTTAACGCCGTTATTGATGCTA
26589671 TGTTGTTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (29 bp):
TGATAGTTAACGCCGTTATTGATGCTACT
Found at i:26589952 original size:43 final size:43
Alignment explanation
Indices: 26589900--26590060 Score: 189
Period size: 43 Copynumber: 3.7 Consensus size: 43
26589890 GTGAAAGCGG
*
26589900 CGCTAAAGATCAGGGTCTTTAGCGGCGTTTTTACTAGAAGTGC
1 CGCTAAAGATCAGGGTCTTTAGCGGCGTTTTTACGAGAAGTGC
* * *
26589943 CACTAAAGATCAGGGTCTTTAACGGCGTTTTTCCGAG-AGTCGC
1 CGCTAAAGATCAGGGTCTTTAGCGGCGTTTTTACGAGAAGT-GC
* * * * * * *
26589986 TGTTGAAGATCAGGGTCTTTAGCAGCGTTTTTGCGACAAGCGC
1 CGCTAAAGATCAGGGTCTTTAGCGGCGTTTTTACGAGAAGTGC
* *
26590029 CGCTAAAGATTAGGGTCTTTAGCGGCGCTTTT
1 CGCTAAAGATCAGGGTCTTTAGCGGCGTTTTT
26590061 CCCACAAACG
Statistics
Matches: 97, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
42 3 0.03
43 92 0.95
44 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (43 bp):
CGCTAAAGATCAGGGTCTTTAGCGGCGTTTTTACGAGAAGTGC
Found at i:26589995 original size:86 final size:86
Alignment explanation
Indices: 26589905--26590062 Score: 235
Period size: 86 Copynumber: 1.8 Consensus size: 86
26589895 AGCGGCGCTA
* * * *
26589905 AAGATCAGGGTCTTTAGCGGCGTTTTTACTAGAAGTGCCACTAAAGATCAGGGTCTTTAACGGCG
1 AAGATCAGGGTCTTTAGCAGCGTTTTTACGACAAGCGCCACTAAAGATCAGGGTCTTTAACGGCG
*
26589970 TTTTTCCGAGAGTCGCTGTTG
66 CTTTTCCGAGAGTCGCTGTTG
* * * *
26589991 AAGATCAGGGTCTTTAGCAGCGTTTTTGCGACAAGCGCCGCTAAAGATTAGGGTCTTTAGCGGCG
1 AAGATCAGGGTCTTTAGCAGCGTTTTTACGACAAGCGCCACTAAAGATCAGGGTCTTTAACGGCG
26590056 CTTTTCC
66 CTTTTCC
26590063 CACAAACGCC
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
86 63 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (86 bp):
AAGATCAGGGTCTTTAGCAGCGTTTTTACGACAAGCGCCACTAAAGATCAGGGTCTTTAACGGCG
CTTTTCCGAGAGTCGCTGTTG
Done.