Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 191 of 203
Found at i:60884654 original size:13 final size:14
Alignment explanation
Indices: 60884630--60884660 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
60884620 TTTGAGAGTT
60884630 TTCTTGAAAAAAAA
1 TTCTTGAAAAAAAA
60884644 TTCTT-AAAAAAAA
1 TTCTTGAAAAAAAA
60884657 TTCT
1 TTCT
60884661 AAGTTTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.52, C:0.10, G:0.03, T:0.35
Consensus pattern (14 bp):
TTCTTGAAAAAAAA
Found at i:60887570 original size:20 final size:20
Alignment explanation
Indices: 60887537--60887589 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
60887527 CAGACATAAA
* *
60887537 TTAAAAAGTTTAAAAAAATT
1 TTAAAAAATATAAAAAAATT
* **
60887557 TTAAAATATATAAATTAATT
1 TTAAAAAATATAAAAAAATT
60887577 TTAAAAAATATAA
1 TTAAAAAATATAA
60887590 TTTTGGGGGG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (20 bp):
TTAAAAAATATAAAAAAATT
Found at i:60888588 original size:31 final size:29
Alignment explanation
Indices: 60888512--60888593 Score: 92
Period size: 31 Copynumber: 2.7 Consensus size: 29
60888502 AAAATAAGAT
* * *
60888512 AAAATCAAAATTTCTTATATAAAATTATAC
1 AAAATAAAAATTT-ATATATAAAATTACAC
60888542 AAAATAAAAATTTATATATAAAATTACAC
1 AAAATAAAAATTTATATATAAAATTACAC
* *
60888571 ATTAAATTATAATTTATATATAA
1 A--AAATAAAAATTTATATATAA
60888594 TTTTGAAATT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
29 15 0.33
30 12 0.27
31 18 0.40
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (29 bp):
AAAATAAAAATTTATATATAAAATTACAC
Found at i:60890855 original size:18 final size:18
Alignment explanation
Indices: 60890832--60890874 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
60890822 TGCCAGGTGG
* *
60890832 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
60890850 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
60890868 GTTTCCT
1 GTATCCT
60890875 TTTTCTAGTC
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:60891347 original size:49 final size:49
Alignment explanation
Indices: 60891293--60891462 Score: 295
Period size: 49 Copynumber: 3.5 Consensus size: 49
60891283 ATTTATATTA
60891293 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
* *
60891342 ATGTAATAAAATACAAAATATTTTATTTTAAATATTTTGATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
*
60891391 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTC
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
* *
60891440 ATTTAATAAAATACCAAATAGTT
1 ATGTAATAAAATACAAAATAGTT
60891463 AATATTCTTA
Statistics
Matches: 114, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 114 1.00
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.46
Consensus pattern (49 bp):
ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
Found at i:60893755 original size:14 final size:14
Alignment explanation
Indices: 60893736--60893764 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
60893726 TCAACATTAT
60893736 GCATGTGGGCTGGA
1 GCATGTGGGCTGGA
60893750 GCATGTGGGCTGGA
1 GCATGTGGGCTGGA
60893764 G
1 G
60893765 GTGAGTATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.52, T:0.21
Consensus pattern (14 bp):
GCATGTGGGCTGGA
Found at i:60894882 original size:125 final size:125
Alignment explanation
Indices: 60894660--60895071 Score: 623
Period size: 125 Copynumber: 3.3 Consensus size: 125
60894650 CCCAAACATG
* * * * *
60894660 CTACTGTAGCAAAAACACGTCCACGTGGGAGCGATTTCA-ATATTTCTTCTCATAAAGTATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGA-AATTCTTCTAATAAAGCATCCTG
* * ** *
60894724 CTTAAAGCATTTTACACACTATTTGCTTAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
65 CTTGAAGCGTTTTTTATACTATTTGCTTAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
* *
60894785 CTACTGTAGCAAAAGCGCGTCTA-GATGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACG-TGGGAGCGATTTCAGAAATTCTTCTAATAAAGCATCCTG
* *
60894849 CTTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAAGAC
65 CTTGAAGCGTTTTTTATACTATTTGCTTAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
* *
60894910 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTATAATAAAGCATCATGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTAATAAAGCATCCTGC
60894975 TTGAAGCG-TTTTTATACTATTTGCTTAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
66 TTGAAGCGTTTTTTATACTATTTGCTTAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
* *
60895034 CTACTGTACCAAAAGCGCGTCCACGTAGGAGCGATTTC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTC
60895072 CTTAATAAAT
Statistics
Matches: 263, Mismatches: 21, Indels: 7
0.90 0.07 0.02
Matches are distributed among these distances:
124 86 0.33
125 175 0.67
126 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTAATAAAGCATCCTGC
TTGAAGCGTTTTTTATACTATTTGCTTAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
Found at i:60898999 original size:31 final size:32
Alignment explanation
Indices: 60898964--60899035 Score: 96
Period size: 31 Copynumber: 2.3 Consensus size: 32
60898954 TTTGGGTTAG
60898964 GACTAAAATT-TCATAATTCAAAAAGTA-AAGA
1 GACTAAAATTGTC-TAATTCAAAAAGTATAAGA
*
60898995 GACTAAAATTGTCTAATTCGAAAAGTATAAGA
1 GACTAAAATTGTCTAATTCAAAAAGTATAAGA
*
60899027 -ACCAAAATT
1 GACTAAAATT
60899036 AACGGTCGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
31 31 0.84
32 6 0.16
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.26
Consensus pattern (32 bp):
GACTAAAATTGTCTAATTCAAAAAGTATAAGA
Found at i:60902354 original size:35 final size:35
Alignment explanation
Indices: 60902282--60902362 Score: 92
Period size: 35 Copynumber: 2.3 Consensus size: 35
60902272 GTTATCGACT
** *
60902282 GGTCCTTCAGGGCGACACTGTGTAAATGGTATATA
1 GGTCCTTCAGGGCGACACCATGTAAATGATATATA
* * * *
60902317 GGTCCTTCAGGGTGGCACCATGTGAATGATATTTA
1 GGTCCTTCAGGGCGACACCATGTAAATGATATATA
60902352 GGTCCTT-AGGG
1 GGTCCTTCAGGG
60902363 GCAACACCTC
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
34 4 0.10
35 35 0.90
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (35 bp):
GGTCCTTCAGGGCGACACCATGTAAATGATATATA
Found at i:60903984 original size:29 final size:29
Alignment explanation
Indices: 60903942--60904000 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
60903932 AAAATACAAG
60903942 TAGAAATTTATTTACATATTGAAACACTA
1 TAGAAATTTATTTACATATTGAAACACTA
60903971 TAGAAATTTATTTACATATTGAAACACTA
1 TAGAAATTTATTTACATATTGAAACACTA
60904000 T
1 T
60904001 GAACTTATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.39
Consensus pattern (29 bp):
TAGAAATTTATTTACATATTGAAACACTA
Found at i:60911857 original size:33 final size:33
Alignment explanation
Indices: 60911812--60911874 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
60911802 TATGTAGAAG
*
60911812 AAAGGGTGCAATGGAAGATAGAAGCCAACCTCT
1 AAAGGGTACAATGGAAGATAGAAGCCAACCTCT
60911845 AAAGGGTACAATGGAAGATAGAAGCCAACC
1 AAAGGGTACAATGGAAGATAGAAGCCAACC
60911875 GCCAAACAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.43, C:0.17, G:0.27, T:0.13
Consensus pattern (33 bp):
AAAGGGTACAATGGAAGATAGAAGCCAACCTCT
Found at i:60914320 original size:28 final size:28
Alignment explanation
Indices: 60914280--60914336 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
60914270 TACTTCTGTT
60914280 TAGTGACTGAGCTCTCCCCAATTATGTA
1 TAGTGACTGAGCTCTCCCCAATTATGTA
60914308 TAGTGACTGAGCTCTCCCCAATTATGTA
1 TAGTGACTGAGCTCTCCCCAATTATGTA
60914336 T
1 T
60914337 CACTACAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.33
Consensus pattern (28 bp):
TAGTGACTGAGCTCTCCCCAATTATGTA
Found at i:60914971 original size:44 final size:43
Alignment explanation
Indices: 60914904--60914989 Score: 145
Period size: 44 Copynumber: 2.0 Consensus size: 43
60914894 ATCTGCTCCG
*
60914904 GTGCTCAAGGAAAAACATCTCCTCAATCGGGTTGTTCATTTCC
1 GTGCTCAAGGAAAAACATCTCCTCAATCGGGTTGCTCATTTCC
*
60914947 GTGCTTAAGGAAAAAACATCTCCTCAATCGGGTTGCTCATTTC
1 GTGCTCAAGG-AAAAACATCTCCTCAATCGGGTTGCTCATTTC
60914990 TGATTAGACT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 9 0.22
44 31 0.77
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (43 bp):
GTGCTCAAGGAAAAACATCTCCTCAATCGGGTTGCTCATTTCC
Found at i:60917422 original size:23 final size:23
Alignment explanation
Indices: 60917396--60917457 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
60917386 TACACCGAAA
* *
60917396 TGTCATTAACACTTGCACCGTAG
1 TGTCATTATCACTTGCACCATAG
* *
60917419 TGTCGTTTTCACTTGCACCATAG
1 TGTCATTATCACTTGCACCATAG
* *
60917442 TGCCACTATCACTTGC
1 TGTCATTATCACTTGC
60917458 GCACATAGAA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.21, C:0.29, G:0.16, T:0.34
Consensus pattern (23 bp):
TGTCATTATCACTTGCACCATAG
Found at i:60925579 original size:21 final size:20
Alignment explanation
Indices: 60925555--60925608 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
60925545 CAGCCATGTT
*
60925555 TCTGAGCCACACGGTCTAGGC
1 TCTG-GCCACACGGCCTAGGC
*
60925576 TCT-GTCACACGGCCTAGGC
1 TCTGGCCACACGGCCTAGGC
*
60925595 TCT-GTCACACGGCC
1 TCTGGCCACACGGCC
60925609 ATATGAACTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 28 0.90
21 3 0.10
ACGTcount: A:0.17, C:0.37, G:0.26, T:0.20
Consensus pattern (20 bp):
TCTGGCCACACGGCCTAGGC
Found at i:60925584 original size:19 final size:19
Alignment explanation
Indices: 60925562--60925608 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
60925552 GTTTCTGAGC
*
60925562 CACACGGTCTAGGCTCTGT
1 CACACGGCCTAGGCTCTGT
60925581 CACACGGCCTAGGCTCTGT
1 CACACGGCCTAGGCTCTGT
60925600 CACACGGCC
1 CACACGGCC
60925609 ATATGAACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.17, C:0.38, G:0.26, T:0.19
Consensus pattern (19 bp):
CACACGGCCTAGGCTCTGT
Found at i:60930556 original size:14 final size:14
Alignment explanation
Indices: 60930537--60930566 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
60930527 TCACATCCCA
*
60930537 AAAATCGAGTTAGT
1 AAAATCAAGTTAGT
60930551 AAAATCAAGTTAGT
1 AAAATCAAGTTAGT
60930565 AA
1 AA
60930567 TTGGGGGTTA
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:0.50, C:0.07, G:0.17, T:0.27
Consensus pattern (14 bp):
AAAATCAAGTTAGT
Found at i:60932038 original size:2 final size:2
Alignment explanation
Indices: 60932026--60932075 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
60932016 AACTAGAAAA
*
60932026 TG TG TG CG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
60932068 TG TG TG TG
1 TG TG TG TG
60932076 ACATGGTTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.00, C:0.02, G:0.50, T:0.48
Consensus pattern (2 bp):
TG
Found at i:60933642 original size:22 final size:22
Alignment explanation
Indices: 60933612--60933654 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
60933602 ACACCAAAAC
* *
60933612 AGGCTTTTAGCGGTGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
60933634 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
60933655 AGCGCCACTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.09, C:0.19, G:0.28, T:0.44
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:60933787 original size:43 final size:42
Alignment explanation
Indices: 60933726--60934017 Score: 352
Period size: 43 Copynumber: 6.8 Consensus size: 42
60933716 GCGTCGCTAA
*
60933726 CTTTAGCGGCGCTTTTCTCGCAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTC-CACAAACGCCGCTAAAGACCAAGAC
* * *
60933769 CTTTAGCGGCGCTTTTCTCGCAAATGCCGCTAAAGACCACGAC
1 CTTTAGCGGCGCTTTTC-CACAAACGCCGCTAAAGACCAAGAC
* *
60933812 CTTTAGCGGCACTTTTCCCACAATCGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTT-CCACAAACGCCGCTAAAGACCAAGAC
* *
60933855 CTTTAGCGGCGCTTTTCCTGA-AAATGCCTCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCC--ACAAACGCCGCTAAAGACCAAGAC
* *
60933898 CTTTAGCGGCGCTTTTCCAAAAAACACCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCC-ACAAACGCCGCTAAAGACCAAGAC
* * * * *
60933941 CTTTAGCAGCGCTTTTCCAAAAAACGCCGCAAAATACCAGGAC
1 CTTTAGCGGCGCTTTTCC-ACAAACGCCGCTAAAGACCAAGAC
* *
60933984 CTTTAGCGGCACTTTTCCCACAAACACCGCTAAA
1 CTTTAGCGGCGCTTTT-CCACAAACGCCGCTAAA
60934018 AACATGACTT
Statistics
Matches: 219, Mismatches: 25, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
42 3 0.01
43 212 0.97
44 4 0.02
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (42 bp):
CTTTAGCGGCGCTTTTCCACAAACGCCGCTAAAGACCAAGAC
Found at i:60933828 original size:86 final size:86
Alignment explanation
Indices: 60933726--60934017 Score: 397
Period size: 86 Copynumber: 3.4 Consensus size: 86
60933716 GCGTCGCTAA
* * * * *
60933726 CTTTAGCGGCGCTTTTCTCGCAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCTC-GC
1 CTTTAGCGGCACTTTTCCCACAAACACCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTC-CAGA
*
60933790 AAATGCCGCTAAAGACCACGAC
65 AAATGCCGCTAAAGACCAAGAC
* * *
60933812 CTTTAGCGGCACTTTTCCCACAATCGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCTGAA
1 CTTTAGCGGCACTTTTCCCACAAACACCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCAGAA
*
60933877 AATGCCTCTAAAGACCAAGAC
66 AATGCCGCTAAAGACCAAGAC
* * * * *
60933898 CTTTAGCGGCGCTTTTCCAAAAAACACCGCTAAAGACCAAGACCTTTAGCAGCGCTTTTCCAAAA
1 CTTTAGCGGCACTTTTCCCACAAACACCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCAGAA
* * * *
60933963 AACGCCGCAAAATACCAGGAC
66 AATGCCGCTAAAGACCAAGAC
60933984 CTTTAGCGGCACTTTTCCCACAAACACCGCTAAA
1 CTTTAGCGGCACTTTTCCCACAAACACCGCTAAA
60934018 AACATGACTT
Statistics
Matches: 182, Mismatches: 23, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
85 1 0.01
86 181 0.99
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (86 bp):
CTTTAGCGGCACTTTTCCCACAAACACCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCAGAA
AATGCCGCTAAAGACCAAGAC
Found at i:60934214 original size:18 final size:18
Alignment explanation
Indices: 60934191--60934250 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
60934181 ATAAAACAAG
60934191 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
*** * *
60934209 TTACATAAGAAAATT-G-T
1 TTACAT-TCTATATTAGAA
60934226 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
60934244 TTACATT
1 TTACATT
60934251 AGAATACATA
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
16 4 0.14
17 7 0.24
18 14 0.48
19 4 0.14
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (18 bp):
TTACATTCTATATTAGAA
Found at i:60938800 original size:40 final size:40
Alignment explanation
Indices: 60938742--60938840 Score: 130
Period size: 40 Copynumber: 2.5 Consensus size: 40
60938732 TTGCGTCGTG
* *
60938742 TTTCAAAAAGCGCCGCTAATG-CTTGATCTATATCGGCGTT
1 TTTCAAAAAGCGCCGCTAATGAC-TCATCTATAACGGCGTT
*
60938782 TTTCAAAAAGCGCTGCTAATGACTCATCTATAACGGCGTT
1 TTTCAAAAAGCGCCGCTAATGACTCATCTATAACGGCGTT
*
60938822 TTT-ATAAAAGTGCCGCTAA
1 TTTCA-AAAAGCGCCGCTAA
60938841 GGCCATCAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
39 1 0.02
40 50 0.96
41 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (40 bp):
TTTCAAAAAGCGCCGCTAATGACTCATCTATAACGGCGTT
Found at i:60938911 original size:40 final size:40
Alignment explanation
Indices: 60938867--60939037 Score: 177
Period size: 40 Copynumber: 4.3 Consensus size: 40
60938857 CGGTTTTTTT
* * * * *
60938867 GCGGCATTTTTCAAAAGGCGTCGGTAATGCTTGACCTATA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTTGATCTATA
* * * * *
60938907 GCGGCGCTTTCCAAAAAACGCCGCTAATGCTAGTTCTATA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTTGATCTATA
* *
60938947 GCGGCCTTTTTTAAAAAGCGCCGCTAATGCTTGATCTATA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTTGATCTATA
60938987 GCGGCGTTTTT-AAAGAAGCGCCGCTAATG--TGATATCTATA
1 GCGGCGTTTTTCAAA-AAGCGCCGCTAATGCTTG--ATCTATA
*
60939027 GTGGCGTTTTT
1 GCGGCGTTTTT
60939038 TATCCAAACG
Statistics
Matches: 109, Mismatches: 19, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
38 2 0.02
39 3 0.03
40 104 0.95
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (40 bp):
GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTTGATCTATA
Found at i:60938970 original size:133 final size:133
Alignment explanation
Indices: 60938727--60938973 Score: 311
Period size: 133 Copynumber: 1.9 Consensus size: 133
60938717 TTGTGCTAAT
* * * * * * *
60938727 TTTTTTTGCGTCGTGTTTCAAAAAGCGCCGCTAATGCTTGATCTATATCGGCGTTTTTCAAAAAG
1 TTTTTTTGCGGCATGTTTCAAAAAGCGCCGCTAATGCTTGACCTATAGCGGCGCTTTCCAAAAAA
* *
60938792 CGCTGCTAATGACTCATCTATAACGGCGTTTTTATAAAAGTGCCGCTAAGGCCATCAAAGCTCGA
66 CGCCGCTAATGACTCATCTATAACGGCGTTTTTATAAAAGCGCCGCTAAGGCCATCAAAGCTCGA
60938857 CGG
131 CGG
* * * *
60938860 TTTTTTTGCGGCATTTTTCAAAAGGCGTCGGTAATGCTTGACCTATAGCGGCGCTTTCCAAAAAA
1 TTTTTTTGCGGCATGTTTCAAAAAGCGCCGCTAATGCTTGACCTATAGCGGCGCTTTCCAAAAAA
* *
60938925 CGCCGCTAATG-CT-AGTTCTATAGCGGCCTTTTT-TAAAAAGCGCCGCTAA
66 CGCCGCTAATGACTCA--TCTATAACGGCGTTTTTAT-AAAAGCGCCGCTAA
60938974 TGCTTGATCT
Statistics
Matches: 96, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
131 1 0.01
132 3 0.03
133 92 0.96
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (133 bp):
TTTTTTTGCGGCATGTTTCAAAAAGCGCCGCTAATGCTTGACCTATAGCGGCGCTTTCCAAAAAA
CGCCGCTAATGACTCATCTATAACGGCGTTTTTATAAAAGCGCCGCTAAGGCCATCAAAGCTCGA
CGG
Found at i:60939039 original size:80 final size:80
Alignment explanation
Indices: 60938867--60939015 Score: 201
Period size: 80 Copynumber: 1.9 Consensus size: 80
60938857 CGGTTTTTTT
* * * * *
60938867 GCGGCATTTTTCAAAAGGCGTCGGTAATGCTTGACCTATAGCGGCGCTTTCCAAAAAACGCCGCT
1 GCGGCCTTTTTTAAAAAGCGCCGCTAATGCTTGACCTATAGCGGCGCTTTCCAAAAAACGCCGCT
60938932 AATGCTAGTTCTATA
66 AATGCTAGTTCTATA
* ** *
60938947 GCGGCCTTTTTTAAAAAGCGCCGCTAATGCTTGATCTATAGCGGCG-TTTTTAAAGAAGCGCCGC
1 GCGGCCTTTTTTAAAAAGCGCCGCTAATGCTTGACCTATAGCGGCGCTTTCCAAA-AAACGCCGC
60939011 TAATG
65 TAATG
60939016 TGATATCTAT
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
79 6 0.10
80 53 0.90
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (80 bp):
GCGGCCTTTTTTAAAAAGCGCCGCTAATGCTTGACCTATAGCGGCGCTTTCCAAAAAACGCCGCT
AATGCTAGTTCTATA
Found at i:60939388 original size:41 final size:41
Alignment explanation
Indices: 60939314--60939405 Score: 132
Period size: 41 Copynumber: 2.2 Consensus size: 41
60939304 ACCAGCTCTT
*
60939314 AGCCTGCTAGACTTATAGTCCGAAATATATCACCGGCATTA
1 AGCCTGCTAGACGTATAGTCCGAAATATATCACCGGCATTA
* * *
60939355 AGCCTGCTAGACGTA-AGGTCTGAATTATTTCACCGGCATTA
1 AGCCTGCTAGACGTATA-GTCCGAAATATATCACCGGCATTA
60939396 AGCCTGCTAG
1 AGCCTGCTAG
60939406 GCACATAGCC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 1 0.02
41 45 0.98
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (41 bp):
AGCCTGCTAGACGTATAGTCCGAAATATATCACCGGCATTA
Found at i:60940049 original size:21 final size:21
Alignment explanation
Indices: 60940023--60940064 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
60940013 TCATAAAATC
60940023 AAATTCAGCTTATAGAACATA
1 AAATTCAGCTTATAGAACATA
60940044 AAATTCAGCTTATAGAACATA
1 AAATTCAGCTTATAGAACATA
60940065 TATATATTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.29
Consensus pattern (21 bp):
AAATTCAGCTTATAGAACATA
Found at i:60947040 original size:41 final size:41
Alignment explanation
Indices: 60946968--60947057 Score: 108
Period size: 41 Copynumber: 2.2 Consensus size: 41
60946958 CAGCTCTTAG
* *
60946968 CCTGCTGGACCTAAAGTCCGAAATATATCACCGGCATTAAA
1 CCTGCTAGACATAAAGTCCGAAATATATCACCGGCATTAAA
* * * * *
60947009 CCTGCTAGACATAAGGTCTGAATTATTTCACCGGCATTAAG
1 CCTGCTAGACATAAAGTCCGAAATATATCACCGGCATTAAA
*
60947050 CCTACTAG
1 CCTGCTAG
60947058 GCACATAGCC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (41 bp):
CCTGCTAGACATAAAGTCCGAAATATATCACCGGCATTAAA
Found at i:60947693 original size:21 final size:21
Alignment explanation
Indices: 60947667--60947708 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
60947657 TCATAAAATC
60947667 AAATTCAGCTTATAGAACATA
1 AAATTCAGCTTATAGAACATA
60947688 AAATTCAGCTTATAGAACATA
1 AAATTCAGCTTATAGAACATA
60947709 TATATATTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.29
Consensus pattern (21 bp):
AAATTCAGCTTATAGAACATA
Found at i:60956223 original size:22 final size:22
Alignment explanation
Indices: 60956198--60956240 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
60956188 ATATAAAAAG
60956198 AATATCTACAAAATATTCCTAA
1 AATATCTACAAAATATTCCTAA
* *
60956220 AATATTTACAGAATATTCCTA
1 AATATCTACAAAATATTCCTA
60956241 CACTCCCCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (22 bp):
AATATCTACAAAATATTCCTAA
Found at i:60959958 original size:22 final size:22
Alignment explanation
Indices: 60959933--60959975 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
60959923 TAATAAAAAG
60959933 AATATCTACAAAATATTCCTAA
1 AATATCTACAAAATATTCCTAA
* *
60959955 AATATTTACAGAATATTCCTA
1 AATATCTACAAAATATTCCTA
60959976 CACCAAGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (22 bp):
AATATCTACAAAATATTCCTAA
Found at i:60961756 original size:20 final size:20
Alignment explanation
Indices: 60961731--60961770 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
60961721 CTAGCTTGTG
60961731 GAATGCCAATGATTGGGCCA
1 GAATGCCAATGATTGGGCCA
*
60961751 GAATGCCGATGATTGGGCCA
1 GAATGCCAATGATTGGGCCA
60961771 CAAGGGGTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.20, G:0.33, T:0.20
Consensus pattern (20 bp):
GAATGCCAATGATTGGGCCA
Found at i:60963530 original size:18 final size:18
Alignment explanation
Indices: 60963507--60963547 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
60963497 AAATTATTTC
* *
60963507 TAAAAAGCACTTTTGGGA
1 TAAAAAACACTTTTGAGA
*
60963525 TAAAAAATACTTTTGAGA
1 TAAAAAACACTTTTGAGA
60963543 TAAAA
1 TAAAA
60963548 GTATTGTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.49, C:0.07, G:0.15, T:0.29
Consensus pattern (18 bp):
TAAAAAACACTTTTGAGA
Found at i:60964673 original size:30 final size:32
Alignment explanation
Indices: 60964639--60964698 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
60964629 AATATTTATT
* *
60964639 TTATAT-ATTTTAGTTATTAA-ATATAATACA
1 TTATATGATTTTAATAATTAATATATAATACA
60964669 TTATATGATTTTAATAATTAATATATAATA
1 TTATATGATTTTAATAATTAATATATAATA
60964699 ATATTTTCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 6 0.23
31 12 0.46
32 8 0.31
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (32 bp):
TTATATGATTTTAATAATTAATATATAATACA
Found at i:60964680 original size:40 final size:40
Alignment explanation
Indices: 60964603--60964681 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
60964593 ATGAAAAATA
*
60964603 ATATTTTAGTTATTAAATATAAAAATAATATTTATTTTAT
1 ATATTTTAGTTATTAAATATAAAAATAATATTGATTTTAT
* *
60964643 ATATTTTAGTTATTAAATATAATACATTATA-TGATTTTA
1 ATATTTTAGTTATTAAATATAA-AAATAATATTGATTTTA
60964682 ATAATTAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
40 29 0.83
41 6 0.17
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (40 bp):
ATATTTTAGTTATTAAATATAAAAATAATATTGATTTTAT
Found at i:60976037 original size:26 final size:26
Alignment explanation
Indices: 60976008--60976068 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
60975998 ACGAATTTTC
**
60976008 TCAAAATTTTATTAGGGGTAAAATCG
1 TCAAAATTTTACCAGGGGTAAAATCG
* **
60976034 TCAAAAATTTACCAGGGGTAAAATTT
1 TCAAAATTTTACCAGGGGTAAAATCG
60976060 TCAAAATTT
1 TCAAAATTT
60976069 AACTGGGATA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.34
Consensus pattern (26 bp):
TCAAAATTTTACCAGGGGTAAAATCG
Found at i:60976808 original size:13 final size:13
Alignment explanation
Indices: 60976790--60976814 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60976780 TAAGATGAAA
60976790 TTGCTTGTGTTTG
1 TTGCTTGTGTTTG
60976803 TTGCTTGTGTTT
1 TTGCTTGTGTTT
60976815 TAGATCCTAG
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:0.00, C:0.08, G:0.28, T:0.64
Consensus pattern (13 bp):
TTGCTTGTGTTTG
Found at i:60978409 original size:25 final size:27
Alignment explanation
Indices: 60978349--60978409 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 27
60978339 CCAGGTAAGG
*
60978349 CTTCTTCTCCTTCATCCGTTCTTCATTC
1 CTTC-TCTTCTTCATCCGTTCTTCATTC
*
60978377 CTT-T-TTCTTCTTCCGTTCTTCA-T-
1 CTTCTCTTCTTCATCCGTTCTTCATTC
60978400 CTTCTCTTCT
1 CTTCTCTTCT
60978410 CAGCATATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
23 3 0.10
24 2 0.07
25 20 0.69
26 1 0.03
28 3 0.10
ACGTcount: A:0.05, C:0.36, G:0.03, T:0.56
Consensus pattern (27 bp):
CTTCTCTTCTTCATCCGTTCTTCATTC
Found at i:60978583 original size:15 final size:12
Alignment explanation
Indices: 60978548--60978579 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
60978538 CGTTCTCACT
*
60978548 AAAATTGGTAAA
1 AAAATCGGTAAA
60978560 AAAATCGGTAAA
1 AAAATCGGTAAA
60978572 AAAATCGG
1 AAAATCGG
60978580 CGGTTCCAAG
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:0.56, C:0.06, G:0.19, T:0.19
Consensus pattern (12 bp):
AAAATCGGTAAA
Found at i:60978925 original size:12 final size:13
Alignment explanation
Indices: 60978902--60978927 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
60978892 TCAATGAACC
60978902 CTTAATTTTTTTG
1 CTTAATTTTTTTG
60978915 CTTAATTTTTTTG
1 CTTAATTTTTTTG
60978928 GTACTCAATC
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:0.08, G:0.08, T:0.69
Consensus pattern (13 bp):
CTTAATTTTTTTG
Found at i:60982801 original size:5 final size:5
Alignment explanation
Indices: 60982791--60982824 Score: 50
Period size: 5 Copynumber: 6.4 Consensus size: 5
60982781 TTCTACTTCT
60982791 CTTTC CTTTC CTTTC CTTTC TCTTTC CTTCTC CT
1 CTTTC CTTTC CTTTC CTTTC -CTTTC CTT-TC CT
60982825 GACGAATCGG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 18 0.67
6 9 0.33
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (5 bp):
CTTTC
Found at i:60989115 original size:16 final size:16
Alignment explanation
Indices: 60989091--60989121 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
60989081 AAAAGGGATA
60989091 AAAAAAGTAATAGAAT
1 AAAAAAGTAATAGAAT
*
60989107 AAAATAGTAATAGAA
1 AAAAAAGTAATAGAA
60989122 CAACAATTGT
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:0.68, C:0.00, G:0.13, T:0.19
Consensus pattern (16 bp):
AAAAAAGTAATAGAAT
Found at i:60991143 original size:154 final size:154
Alignment explanation
Indices: 60990929--60991233 Score: 495
Period size: 154 Copynumber: 2.0 Consensus size: 154
60990919 TGAGTTGTGA
60990929 GAGAAAAAATTGTTGTTTTCCTTGTTGTGTAAAATGAGGAGAATGGTATGCTATTTATAGGATTT
1 GAGAAAAAATTGTTGTTTTCCTTGTTGTGTAAAATGAGGAGAATGGTATGCTATTTATAGGATTT
* *
60990994 TCTTAAGGGGAAAAATGGTAAATACACAATAATAGAAAATATATTTTCGTATATTCTACAACAAT
66 TCTTAAGGGGAAAAATGGTAAATACACAATAACAGAAAATATA-TTACGTATATTCTACAACAAT
*
60991059 T-AAAAATTTATTTTCTGAAATGAG
130 TAAAAAATATATTTTCTGAAATGAG
* *
60991083 GAGAAAATATTGTTGTTTTCCTTGTTGTGTAAAATGAGGAGAATGGTATGTTATTTATAGGATTT
1 GAGAAAAAATTGTTGTTTTCCTTGTTGTGTAAAATGAGGAGAATGGTATGCTATTTATAGGATTT
* * * * * *
60991148 TCTTAAGGGGCAAAATGGTAAATACACAGTAACATAAAATATATTACGTATTTTCTACAATAGTT
66 TCTTAAGGGGAAAAATGGTAAATACACAATAACAGAAAATATATTACGTATATTCTACAACAATT
60991213 AAAAAATATATTTTCTGAAAT
131 AAAAAATATATTTTCTGAAAT
60991234 AGATTTTCCA
Statistics
Matches: 139, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
153 18 0.13
154 121 0.87
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.37
Consensus pattern (154 bp):
GAGAAAAAATTGTTGTTTTCCTTGTTGTGTAAAATGAGGAGAATGGTATGCTATTTATAGGATTT
TCTTAAGGGGAAAAATGGTAAATACACAATAACAGAAAATATATTACGTATATTCTACAACAATT
AAAAAATATATTTTCTGAAATGAG
Found at i:60994269 original size:165 final size:164
Alignment explanation
Indices: 60993994--60994497 Score: 725
Period size: 165 Copynumber: 3.1 Consensus size: 164
60993984 TCCCGTTTTT
* *
60993994 AATGATTTTTATGTTTTTGAAGTCGTTGTAGCTTAATCTAGCTAGCCCAGGGACTATTTTGTAGA
1 AATGATTTTTATGTTTTTGAAGTCGTTGTAGCTTAATCTAGCTAGCCCAGAGACTATTTTGCA-A
* * *
60994059 AA-TATTAAAGTTTTAGGGCTTTCCCATGAGAACGTTTGCATGATTCTTGAAATTTAATGAAAGA
65 AACTATTAAAGTTTTAGGGTTTTTCCATGAGAATGTTTGCATGATTCTTGAAATTTAATGAAAGA
60994123 TTATGAGTCCTTGGTGTTAAATAAACAAGTTTTGTA
130 TTATGAGTCCTT-GTGTTAAATAAACAAGTTTTGTA
60994159 AATGATTTTTATGTTTTTGAAGTCGTTGTAGCTTAATCTAGCTAGCCCAGAGACTATTTTGCAAA
1 AATGATTTTTATGTTTTTGAAGTCGTTGTAGCTTAATCTAGCTAGCCCAGAGACTATTTTGCAAA
* *
60994224 ACTATTAAATTTTTAGGGTTTTTCCATGAGAATGTTTGGATGATTCTTGAAATTTAATGAAAGAT
66 ACTATTAAAGTTTTAGGGTTTTTCCATGAGAATGTTTGCATGATTCTTGAAATTTAATGAAAGAT
60994289 TATGAGTCC-T-TGTTAAATAAACAAGATTTT-TA
131 TATGAGTCCTTGTGTTAAATAAACAAG-TTTTGTA
* *
60994321 AATGATTTTTATGTTTTTGAAGTCGTTGTAGCTTAATCTAGCTAGCCTA-AGGACTAATTTGC-A
1 AATGATTTTTATGTTTTTGAAGTCGTTGTAGCTTAATCTAGCTAGCCCAGA-GACTATTTTGCAA
* * *
60994384 AACT-TGGTGAAGTTTTAGGGTTTTTCCATGAGCATGTTTTGCATGATTCTTTAAATTTAATGAA
65 AACTAT--TAAAGTTTTAGGGTTTTTCCATGAGAATG-TTTGCATGATTCTTGAAATTTAATGAA
* * * *
60994448 ATATTATGAGTTCTTGTTGTAAAATAAACAAATTTTGTA
127 AGATTATGAGTCCTTG-TGTTAAATAAACAAGTTTTGTA
*
60994487 AAGGGATTTTT
1 AA-TGATTTTT
60994498 TATGAAATTA
Statistics
Matches: 309, Mismatches: 19, Indels: 20
0.89 0.05 0.06
Matches are distributed among these distances:
160 1 0.00
161 6 0.02
162 101 0.33
163 40 0.13
164 5 0.02
165 132 0.43
166 17 0.06
167 7 0.02
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (164 bp):
AATGATTTTTATGTTTTTGAAGTCGTTGTAGCTTAATCTAGCTAGCCCAGAGACTATTTTGCAAA
ACTATTAAAGTTTTAGGGTTTTTCCATGAGAATGTTTGCATGATTCTTGAAATTTAATGAAAGAT
TATGAGTCCTTGTGTTAAATAAACAAGTTTTGTA
Found at i:61002185 original size:27 final size:27
Alignment explanation
Indices: 61002142--61002197 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
61002132 ACTTAAAAAC
61002142 ATCCAAAAGTACTGATATAGTCGATGG
1 ATCCAAAAGTACTGATATAGTCGATGG
*
61002169 ATCCAAAAGTA-TCGATATAGTTGATGG
1 ATCCAAAAGTACT-GATATAGTCGATGG
61002196 AT
1 AT
61002198 AGTGTGATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (27 bp):
ATCCAAAAGTACTGATATAGTCGATGG
Found at i:61005768 original size:26 final size:26
Alignment explanation
Indices: 61005738--61005789 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
61005728 CTATCTGGAA
61005738 ACATAAGATATTACTTTGCATTCCTG
1 ACATAAGATATTACTTTGCATTCCTG
*
61005764 ACATAAGCTATTACTTTGCATTCCTG
1 ACATAAGATATTACTTTGCATTCCTG
61005790 CATCAAAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (26 bp):
ACATAAGATATTACTTTGCATTCCTG
Found at i:61009852 original size:17 final size:17
Alignment explanation
Indices: 61009830--61009871 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
61009820 TATAACTTTG
61009830 ACAAGCTTCCAACCCGA
1 ACAAGCTTCCAACCCGA
61009847 ACAAGCTTCCAACCCGA
1 ACAAGCTTCCAACCCGA
*
61009864 ACGAGCTT
1 ACAAGCTT
61009872 TCGATTCACT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.33, C:0.38, G:0.14, T:0.14
Consensus pattern (17 bp):
ACAAGCTTCCAACCCGA
Found at i:61011786 original size:22 final size:23
Alignment explanation
Indices: 61011752--61011794 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
61011742 TAGCTAAGTT
61011752 TTTGGTATAGAGA-TTTAGAGGC
1 TTTGGTATAGAGATTTTAGAGGC
* *
61011774 TTTGGTTTTGAGATTTTAGAG
1 TTTGGTATAGAGATTTTAGAG
61011795 TGATTTAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.23, C:0.02, G:0.30, T:0.44
Consensus pattern (23 bp):
TTTGGTATAGAGATTTTAGAGGC
Found at i:61012048 original size:23 final size:23
Alignment explanation
Indices: 61012018--61012063 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
61012008 AAATCATCTA
61012018 ATCTAATTCCTAGAAGTAAGTGT
1 ATCTAATTCCTAGAAGTAAGTGT
61012041 ATCTAATTCCTAGAAGTAAGTGT
1 ATCTAATTCCTAGAAGTAAGTGT
61012064 TGTTACTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (23 bp):
ATCTAATTCCTAGAAGTAAGTGT
Found at i:61021737 original size:19 final size:18
Alignment explanation
Indices: 61021684--61021725 Score: 63
Period size: 15 Copynumber: 2.5 Consensus size: 18
61021674 TAAAGTAGCT
61021684 TTTAAAAATAAAAA--AA
1 TTTAAAAATAAAAATTAA
61021700 -TTAAAAATAAAAATTAA
1 TTTAAAAATAAAAATTAA
61021717 TTTAAAAAT
1 TTTAAAAAT
61021726 TAATAGTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 13 0.57
17 2 0.09
18 8 0.35
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TTTAAAAATAAAAATTAA
Found at i:61040198 original size:27 final size:28
Alignment explanation
Indices: 61040114--61040211 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
61040104 CATGAGATTG
* * * *
61040114 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
61040143 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
61040171 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
61040198 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
61040212 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:61040222 original size:27 final size:27
Alignment explanation
Indices: 61040142--61040224 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
61040132 TAAATTGTAC
* *
61040142 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
61040170 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
61040197 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
61040224 A
1 A
61040225 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:61040225 original size:29 final size:27
Alignment explanation
Indices: 61040114--61040225 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
61040104 CATGAGATTG
** * *
61040114 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
61040143 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
61040171 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
61040198 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
61040226 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:61043748 original size:21 final size:20
Alignment explanation
Indices: 61043722--61043766 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
61043712 AAGGGTGAGC
61043722 ATATATACATTAAAAGCTCAT
1 ATATATACATTAAAAGC-CAT
** *
61043743 ATATATAGTTTAAATGCCAT
1 ATATATACATTAAAAGCCAT
61043763 ATAT
1 ATAT
61043767 TCTATATTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.38
Consensus pattern (20 bp):
ATATATACATTAAAAGCCAT
Found at i:61047347 original size:19 final size:19
Alignment explanation
Indices: 61047302--61047341 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
61047292 AGTTCATGTT
* *
61047302 TTCATTTCACATTTTCATA
1 TTCAATTCACATTTTCAAA
61047321 TTCAATTCACATTTTCAAA
1 TTCAATTCACATTTTCAAA
61047340 TT
1 TT
61047342 ATATTCCACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.30, C:0.20, G:0.00, T:0.50
Consensus pattern (19 bp):
TTCAATTCACATTTTCAAA
Found at i:61047595 original size:45 final size:45
Alignment explanation
Indices: 61047529--61047635 Score: 169
Period size: 45 Copynumber: 2.4 Consensus size: 45
61047519 GTAATGGTGG
**
61047529 CAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTTGAAT
1 CAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAAT
* * *
61047574 CTGTAACAGTAACGGTAACAGTATTCGACACACAAAGTGCCGAAT
1 CAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAAT
61047619 CAGTAACAGTAACAGTA
1 CAGTAACAGTAACAGTA
61047636 GTCGACACAT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 55 1.00
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.21
Consensus pattern (45 bp):
CAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAAT
Found at i:61047895 original size:40 final size:41
Alignment explanation
Indices: 61047835--61047920 Score: 104
Period size: 40 Copynumber: 2.1 Consensus size: 41
61047825 AATTCATTAC
* * * *
61047835 TTCAATAATTTCACAGTTCAATGCAGT-A-CACATAACAATA
1 TTCAGTAACTTCACAATTCAATGCAGTAATCA-AAAACAATA
*
61047875 TTCAGTAACTTCACAATTCAATTCAGTAATCAAAAACAATA
1 TTCAGTAACTTCACAATTCAATGCAGTAATCAAAAACAATA
61047916 TTCAG
1 TTCAG
61047921 AATTCCATAA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
40 23 0.59
41 14 0.36
42 2 0.05
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (41 bp):
TTCAGTAACTTCACAATTCAATGCAGTAATCAAAAACAATA
Found at i:61058920 original size:184 final size:184
Alignment explanation
Indices: 61058599--61058961 Score: 577
Period size: 184 Copynumber: 2.0 Consensus size: 184
61058589 TTAGCCACAA
* * * *
61058599 TCTCTAAGGAAACTATTGAAAAAATTCTGTTGTTGCCGTTGGCTGGTGGCGCACAAGGTTCTACA
1 TCTCCAAGGAAACTATTGAAAAAATTCTGCTGTTGCCGTTGACTGGTGGCACACAAGGTTCTACA
* *
61058664 GGTCCCGATTGCTTCCAATTGTTGACGATGGTAATCGACAGGGCTTGCTGGGACTCGATTGTGCC
66 GGTCCCGATTGCTTCCAATTGTTGACGATGGTAATCGACAGAGCTTGCTAGGACTCGATTGTGCC
* *
61058729 CGAAAGAGGCCGCTG-TATGTGATCAATAGGGATCAATGGTATGTGATGGCTGCC
131 CGAAAGAGGCAGCTGATATATGATCAATAGGG-TCAATGGTATGTGATGGCTGCC
*
61058783 TCTCCAAGGAAACTATTGAAAAAATTCTGCTGTTGTCGTTGACTGGTGGCACACAAGGTTCTACA
1 TCTCCAAGGAAACTATTGAAAAAATTCTGCTGTTGCCGTTGACTGGTGGCACACAAGGTTCTACA
*
61058848 GGTCCCGATTGCTTCCAATTGTTGACGATGGTAGTCGACAGAGCTTGCTAGGACTCGATTGAT-C
66 GGTCCCGATTGCTTCCAATTGTTGACGATGGTAATCGACAGAGCTTGCTAGGACTCGATTG-TGC
* **
61058912 CTGAAAGAGGCAGCTGATATATGATCAATAGGGTTGATGGTATGTGATGG
130 CCGAAAGAGGCAGCTGATATATGATCAATAGGGTCAATGGTATGTGATGG
61058962 TTGTCGCAAG
Statistics
Matches: 164, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
184 148 0.90
185 16 0.10
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (184 bp):
TCTCCAAGGAAACTATTGAAAAAATTCTGCTGTTGCCGTTGACTGGTGGCACACAAGGTTCTACA
GGTCCCGATTGCTTCCAATTGTTGACGATGGTAATCGACAGAGCTTGCTAGGACTCGATTGTGCC
CGAAAGAGGCAGCTGATATATGATCAATAGGGTCAATGGTATGTGATGGCTGCC
Found at i:61077473 original size:29 final size:29
Alignment explanation
Indices: 61077440--61077621 Score: 159
Period size: 29 Copynumber: 6.2 Consensus size: 29
61077430 AGGTTGCCAT
61077440 AAAGGCTTCCTTTTAACAGAGATCACCAC
1 AAAGGCTTCCTTTTAACAGAGATCACCAC
* * * *
61077469 AAAGGCTTTCTTATAACATAGATCACCAT
1 AAAGGCTTCCTTTTAACAGAGATCACCAC
** * * *
61077498 AAACACTTTCTTATAACAGATATCACCAC
1 AAAGGCTTCCTTTTAACAGAGATCACCAC
* * **
61077527 AAAGGCTTCCATATTAACATAGATTGCCAC
1 AAAGGCTTCC-TTTTAACAGAGATCACCAC
* * * **
61077557 AAAGGCTTCCATTGAACATAGATGGCCAC
1 AAAGGCTTCCTTTTAACAGAGATCACCAC
* *
61077586 AAAGGTTTCCATTTAACAGAGAT-AGCCAC
1 AAAGGCTTCCTTTTAACAGAGATCA-CCAC
61077615 AAAGGCT
1 AAAGGCT
61077622 CACTTATACA
Statistics
Matches: 124, Mismatches: 27, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
29 101 0.81
30 23 0.19
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.25
Consensus pattern (29 bp):
AAAGGCTTCCTTTTAACAGAGATCACCAC
Found at i:61085154 original size:21 final size:21
Alignment explanation
Indices: 61085130--61085170 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
61085120 GTAAATAGAA
* *
61085130 ATTATATTAAAGTATGAAAGG
1 ATTATATAAAAGTATAAAAGG
61085151 ATTATATAAAAGTATAAAAG
1 ATTATATAAAAGTATAAAAG
61085171 AACAAAAGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.15, T:0.32
Consensus pattern (21 bp):
ATTATATAAAAGTATAAAAGG
Found at i:61085327 original size:38 final size:38
Alignment explanation
Indices: 61085284--61085361 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
61085274 ATAAGTATAG
61085284 ATACTATTTATAATAATAAATAATTATCATTAAAATTT
1 ATACTATTTATAATAATAAATAATTATCATTAAAATTT
61085322 ATACTATTTATAATAATAAATAATTATCATTAAAATTT
1 ATACTATTTATAATAATAAATAATTATCATTAAAATTT
61085360 AT
1 AT
61085362 CTTTCACTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (38 bp):
ATACTATTTATAATAATAAATAATTATCATTAAAATTT
Found at i:61086039 original size:20 final size:20
Alignment explanation
Indices: 61086014--61086070 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
61086004 ACAAAAAAAG
*
61086014 GAAATTATTTAAAATGATAA
1 GAAATTATTTAAAATAATAA
*
61086034 GAAATT-GTTAAAATTAATAA
1 GAAATTATTTAAAA-TAATAA
*
61086054 -AAATTATTAAAAATAAT
1 GAAATTATTTAAAATAAT
61086071 GTTGAAAATG
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (20 bp):
GAAATTATTTAAAATAATAA
Found at i:61086046 original size:19 final size:19
Alignment explanation
Indices: 61086015--61086070 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
61086005 CAAAAAAAGG
*
61086015 AAATTATTTAAAA-TGATAA
1 AAATTA-TTAAAATTAATAA
*
61086034 GAAATTGTTAAAATTAATAA
1 -AAATTATTAAAATTAATAA
*
61086054 AAATTATTAAAAATAAT
1 AAATTATTAAAATTAAT
61086071 GTTGAAAATG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
19 21 0.68
20 10 0.32
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (19 bp):
AAATTATTAAAATTAATAA
Found at i:61086200 original size:14 final size:14
Alignment explanation
Indices: 61086175--61086214 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
61086165 TATTAAATAA
*
61086175 TTATAGAAAATTAT
1 TTATAAAAAATTAT
*
61086189 TTTTAAAAAATTAT
1 TTATAAAAAATTAT
*
61086203 TTATAGAAAATT
1 TTATAAAAAATT
61086215 TATATGAGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (14 bp):
TTATAAAAAATTAT
Found at i:61086542 original size:2 final size:2
Alignment explanation
Indices: 61086535--61086567 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
61086525 CAACGGAAAA
61086535 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
61086568 AACAACGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:61091091 original size:29 final size:31
Alignment explanation
Indices: 61091034--61091098 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 31
61091024 TCACATTTGG
* *
61091034 TACTTGTATTTTAATAAAATATTTCATGTGA
1 TACTTGTATATTAATAAAATATTTAATGTGA
*
61091065 TACTTGTATATT-A-AAAATGTTTAATGTGA
1 TACTTGTATATTAATAAAATATTTAATGTGA
61091094 TACTT
1 TACTT
61091099 AAATTATCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 19 0.61
30 1 0.03
31 11 0.35
ACGTcount: A:0.35, C:0.06, G:0.11, T:0.48
Consensus pattern (31 bp):
TACTTGTATATTAATAAAATATTTAATGTGA
Found at i:61105786 original size:20 final size:21
Alignment explanation
Indices: 61105749--61105790 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
61105739 CACGAGTACT
*
61105749 GATACTTTTTAAACAAGTATC
1 GATAATTTTTAAACAAGTATC
61105770 GATAATTTTTAAA-AAGTATC
1 GATAATTTTTAAACAAGTATC
61105790 G
1 G
61105791 CTAAAATTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (21 bp):
GATAATTTTTAAACAAGTATC
Found at i:61106373 original size:15 final size:15
Alignment explanation
Indices: 61106355--61106399 Score: 72
Period size: 15 Copynumber: 3.0 Consensus size: 15
61106345 CTCCTTTTTG
61106355 GACATGATCTTTAAT
1 GACATGATCTTTAAT
61106370 GACATGATCTTTAAT
1 GACATGATCTTTAAT
* *
61106385 GAAATGATGTTTAAT
1 GACATGATCTTTAAT
61106400 CTCAATATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.40
Consensus pattern (15 bp):
GACATGATCTTTAAT
Found at i:61107594 original size:21 final size:21
Alignment explanation
Indices: 61107570--61107612 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
61107560 AAGGCCATGG
* **
61107570 GGCTATTCCACATGCCCGTGT
1 GGCTACTCCACACACCCGTGT
61107591 GGCTACTCCACACACCCGTGT
1 GGCTACTCCACACACCCGTGT
61107612 G
1 G
61107613 CTCACCCATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.37, G:0.23, T:0.23
Consensus pattern (21 bp):
GGCTACTCCACACACCCGTGT
Found at i:61115257 original size:40 final size:41
Alignment explanation
Indices: 61115212--61115289 Score: 113
Period size: 42 Copynumber: 1.9 Consensus size: 41
61115202 GCTCACCTAT
61115212 GTGTCT-ACCCATGTAACTCACAGACTTGGCTCACACTCTC
1 GTGTCTCACCCATGTAACTCACAGACTTGGCTCACACTCTC
* * *
61115252 GTGTCTCCACCCGTGTAACTCACTGACTTGGGTCACAC
1 GTGTCT-CACCCATGTAACTCACAGACTTGGCTCACAC
61115290 GACCGTTTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 6 0.18
42 27 0.82
ACGTcount: A:0.21, C:0.35, G:0.18, T:0.27
Consensus pattern (41 bp):
GTGTCTCACCCATGTAACTCACAGACTTGGCTCACACTCTC
Found at i:61124832 original size:39 final size:39
Alignment explanation
Indices: 61124789--61124990 Score: 237
Period size: 39 Copynumber: 5.2 Consensus size: 39
61124779 GGCATACCGA
* * **
61124789 ACAACAGGGGCACATGAGTGCAAAT-AAGGGTACTGAAGT
1 ACAACAGGGGCACATAAGTGC-AATCAGGGGTACCAAAGT
* *
61124828 ACAACAGGGGCACCTAAGTGCAGTCAGGGGTACCAAAGT
1 ACAACAGGGGCACATAAGTGCAATCAGGGGTACCAAAGT
* * * *
61124867 ACAACAAGGGAACATAAGT-CTGATCAGGGGTACCGAAGT
1 ACAACAGGGGCACATAAGTGC-AATCAGGGGTACCAAAGT
* *
61124906 ACAACAGGGGCACGTAAGTGCGATCAGGGGTACCAAAGT
1 ACAACAGGGGCACATAAGTGCAATCAGGGGTACCAAAGT
* *
61124945 ACAACAGGGGCACATAAGTGCAGTCAGGGGTACCGAAGT
1 ACAACAGGGGCACATAAGTGCAATCAGGGGTACCAAAGT
*
61124984 ATAACAG
1 ACAACAG
61124991 TTATCTACTA
Statistics
Matches: 139, Mismatches: 21, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
38 3 0.02
39 135 0.97
40 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.31, T:0.14
Consensus pattern (39 bp):
ACAACAGGGGCACATAAGTGCAATCAGGGGTACCAAAGT
Found at i:61124857 original size:20 final size:20
Alignment explanation
Indices: 61124832--61124984 Score: 73
Period size: 20 Copynumber: 7.8 Consensus size: 20
61124822 TGAAGTACAA
*
61124832 CAGGGGCACCTAAGTGCAGT
1 CAGGGGCACCTAAGTACAGT
* * *
61124852 CAGGGGTACCAAAGTACA-A
1 CAGGGGCACCTAAGTACAGT
* * * *
61124871 CAAGGGAACATAAGT-CTGAT
1 CAGGGGCACCTAAGTACAG-T
* * *
61124891 CAGGGGTACCGAAGTACA-A
1 CAGGGGCACCTAAGTACAGT
* *
61124910 CAGGGGCACGTAAGTGC-GAT
1 CAGGGGCACCTAAGTACAG-T
* * *
61124930 CAGGGGTACCAAAGTACA-A
1 CAGGGGCACCTAAGTACAGT
* *
61124949 CAGGGGCACATAAGTGCAGT
1 CAGGGGCACCTAAGTACAGT
* *
61124969 CAGGGGTACCGAAGTA
1 CAGGGGCACCTAAGTA
61124985 TAACAGTTAT
Statistics
Matches: 91, Mismatches: 35, Indels: 14
0.65 0.25 0.10
Matches are distributed among these distances:
18 1 0.01
19 38 0.42
20 51 0.56
21 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.32, T:0.14
Consensus pattern (20 bp):
CAGGGGCACCTAAGTACAGT
Found at i:61124899 original size:78 final size:78
Alignment explanation
Indices: 61124816--61124990 Score: 264
Period size: 78 Copynumber: 2.2 Consensus size: 78
61124806 GTGCAAATAA
*
61124816 GGGTACTGAAGTACAACAGGGGCACCTAAGTGC-AGTCAGGGGTACCAAAGTACAACAAGGGAAC
1 GGGTACCGAAGTACAACAGGGGCACCTAAGTGCGA-TCAGGGGTACCAAAGTACAACAAGGGAAC
*
61124880 ATAAGT-CTGATCAG
65 ATAAGTGCAG-TCAG
* * *
61124894 GGGTACCGAAGTACAACAGGGGCACGTAAGTGCGATCAGGGGTACCAAAGTACAACAGGGGCACA
1 GGGTACCGAAGTACAACAGGGGCACCTAAGTGCGATCAGGGGTACCAAAGTACAACAAGGGAACA
61124959 TAAGTGCAGTCAG
66 TAAGTGCAGTCAG
*
61124972 GGGTACCGAAGTATAACAG
1 GGGTACCGAAGTACAACAG
61124991 TTATCTACTA
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
78 86 0.97
79 3 0.03
ACGTcount: A:0.35, C:0.19, G:0.31, T:0.14
Consensus pattern (78 bp):
GGGTACCGAAGTACAACAGGGGCACCTAAGTGCGATCAGGGGTACCAAAGTACAACAAGGGAACA
TAAGTGCAGTCAG
Found at i:61125491 original size:148 final size:144
Alignment explanation
Indices: 61125253--61125668 Score: 490
Period size: 148 Copynumber: 2.9 Consensus size: 144
61125243 TTTTTTTAAG
* * *
61125253 TTTTAAAATAAAAATATGTTTTTAGTCATATTAAAGGAAAATTTTAAATTTTTAAAACAAAGTTT
1 TTTTAAAAAAAAAATATATTTTTAGTCATTTTAAAGGAAAATTTTAAATTTTTAAAACAAAGTTT
*
61125318 TAATCTTTTTCAACAATTTCGAAATAAAGTTTTGATTTTTAAGAAAAATAGTGATTTTAAAAAAA
66 TGATCTTTTTCAACAATTTCGAAATAAAGTTTTGATTTTTAAGAAAAATAGTGATTTTAAAAAAA
61125383 ATAAGAAAGTTTAGAT
131 A-AA-AAAGTTTAGAT
* * * * *
61125399 TTTTCAAAAAAAAAATCTTTTTTTAGTCATTTTAAAGGAAAAGTTTAAATTTTTTACAACAATGT
1 TTTT-AAAAAAAAAATATATTTTTAGTCATTTTAAAGGAAAATTTTAAA-TTTTTAAAACAAAGT
* * * * ****
61125464 TTTGATCTTTTTCAACCATTTCGAAATAAAGCTTTAACTTTTAAGAAAAATAGTGATTTGTTTTT
64 TTTGATCTTTTTCAACAATTTCGAAATAAAGTTTTGATTTTTAAGAAAAATAGTGATTT-TAAAA
*
61125529 TAAAAAAAAGTTTAGAT
128 AAAAAAAAAGTTTAGAT
* * ** * * *
61125546 TTTTAAAAATAAAATAAAAATTTATTCATTTTAAAGAAAAATTTTAAATTTTTAAAATAAAGTTT
1 TTTTAAAAAAAAAATATATTTTTAGTCATTTTAAAGGAAAATTTTAAATTTTTAAAACAAAGTTT
* * * ** * * *
61125611 GGACCTGTTTCAATTATTTCGAAATAAAGTTTTGTTTTTTAAGAAAAGTTGTGATTTT
66 TGATCTTTTTCAACAATTTCGAAATAAAGTTTTGATTTTTAAGAAAAATAGTGATTTT
61125669 TTTAAAGAAA
Statistics
Matches: 227, Mismatches: 40, Indels: 8
0.83 0.15 0.03
Matches are distributed among these distances:
144 1 0.00
145 60 0.26
146 39 0.17
147 54 0.24
148 69 0.30
149 4 0.02
ACGTcount: A:0.42, C:0.06, G:0.10, T:0.43
Consensus pattern (144 bp):
TTTTAAAAAAAAAATATATTTTTAGTCATTTTAAAGGAAAATTTTAAATTTTTAAAACAAAGTTT
TGATCTTTTTCAACAATTTCGAAATAAAGTTTTGATTTTTAAGAAAAATAGTGATTTTAAAAAAA
AAAAAAGTTTAGAT
Found at i:61125580 original size:22 final size:22
Alignment explanation
Indices: 61125555--61125606 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 22
61125545 TTTTTAAAAA
**
61125555 TAAAATAAAAATTTATTCA-TTT
1 TAAAATAAAAATTT-TAAATTTT
*
61125577 T-AAAGAAAAATTTTAAATTTT
1 TAAAATAAAAATTTTAAATTTT
61125598 TAAAATAAA
1 TAAAATAAA
61125607 GTTTGGACCT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
20 2 0.08
21 15 0.62
22 7 0.29
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (22 bp):
TAAAATAAAAATTTTAAATTTT
Found at i:61126520 original size:27 final size:27
Alignment explanation
Indices: 61126487--61126548 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
61126477 TAAGTAGGTA
61126487 TTACATTTTAATGAAACCATAAGGGTT
1 TTACATTTTAATGAAACCATAAGGGTT
* *
61126514 TTCCATTTTAATGAAACCATAAGGTTT
1 TTACATTTTAATGAAACCATAAGGGTT
61126541 TTACATTT
1 TTACATTT
61126549 GGATTTAGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (27 bp):
TTACATTTTAATGAAACCATAAGGGTT
Found at i:61126818 original size:14 final size:14
Alignment explanation
Indices: 61126799--61126827 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
61126789 TTAAGAAAAA
61126799 TAATATATATTATT
1 TAATATATATTATT
61126813 TAATATATATTATT
1 TAATATATATTATT
61126827 T
1 T
61126828 TAAGATTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TAATATATATTATT
Found at i:61132186 original size:27 final size:27
Alignment explanation
Indices: 61132120--61132186 Score: 62
Period size: 27 Copynumber: 2.5 Consensus size: 27
61132110 GTTCAATCCA
61132120 AATTTCCTGAAGTCCATAGGTATCGAT
1 AATTTCCTGAAGTCCATAGGTATCGAT
** ******
61132147 TCTAAAAAAAAGTCCATAGGTATCGAT
1 AATTTCCTGAAGTCCATAGGTATCGAT
61132174 AATTTCCTGAAGT
1 AATTTCCTGAAGT
61132187 GGTATCGATA
Statistics
Matches: 24, Mismatches: 16, Indels: 0
0.60 0.40 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.31
Consensus pattern (27 bp):
AATTTCCTGAAGTCCATAGGTATCGAT
Found at i:61139490 original size:12 final size:12
Alignment explanation
Indices: 61139473--61139500 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
61139463 GAGCTACCAA
61139473 AAAATGTTCATC
1 AAAATGTTCATC
61139485 AAAATGTTCATC
1 AAAATGTTCATC
61139497 AAAA
1 AAAA
61139501 CTGATAGGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (12 bp):
AAAATGTTCATC
Found at i:61140535 original size:19 final size:21
Alignment explanation
Indices: 61140511--61140557 Score: 71
Period size: 19 Copynumber: 2.3 Consensus size: 21
61140501 TAAAATATAC
61140511 TAGTTTAAG-TTTTTA-GTTT
1 TAGTTTAAGTTTTTTATGTTT
61140530 TAGTTTAAGTTTTTTATGTTT
1 TAGTTTAAGTTTTTTATGTTT
61140551 TAAGTTT
1 T-AGTTT
61140558 TTTATGTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 9 0.36
20 6 0.24
21 5 0.20
22 5 0.20
ACGTcount: A:0.21, C:0.00, G:0.15, T:0.64
Consensus pattern (21 bp):
TAGTTTAAGTTTTTTATGTTT
Found at i:61140567 original size:15 final size:15
Alignment explanation
Indices: 61140527--61140568 Score: 68
Period size: 16 Copynumber: 2.8 Consensus size: 15
61140517 AAGTTTTTAG
61140527 TTTTA-GTTTAAGTT
1 TTTTATGTTTAAGTT
61140541 TTTTATGTTTTAAGTT
1 TTTTATG-TTTAAGTT
61140557 TTTTATGTTTAA
1 TTTTATGTTTAA
61140569 AATATATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.19
15 6 0.23
16 15 0.58
ACGTcount: A:0.21, C:0.00, G:0.12, T:0.67
Consensus pattern (15 bp):
TTTTATGTTTAAGTT
Found at i:61143393 original size:32 final size:32
Alignment explanation
Indices: 61143348--61143419 Score: 121
Period size: 32 Copynumber: 2.3 Consensus size: 32
61143338 ACCTCTTCTC
61143348 ATGCACT--GATGGAAAACCTATAAAAAGTAA
1 ATGCACTAAGATGGAAAACCTATAAAAAGTAA
61143378 ATGCACTAAGATGGAAAACCTATAAAAAGTAA
1 ATGCACTAAGATGGAAAACCTATAAAAAGTAA
*
61143410 ATACACTAAG
1 ATGCACTAAG
61143420 TTAAATAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
30 7 0.18
32 32 0.82
ACGTcount: A:0.51, C:0.14, G:0.15, T:0.19
Consensus pattern (32 bp):
ATGCACTAAGATGGAAAACCTATAAAAAGTAA
Found at i:61147045 original size:14 final size:14
Alignment explanation
Indices: 61147026--61147054 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
61147016 CATGATACAT
61147026 ATATTGGGTTTTTG
1 ATATTGGGTTTTTG
61147040 ATATTGGGTTTTTG
1 ATATTGGGTTTTTG
61147054 A
1 A
61147055 GTGTTTCTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.28, T:0.55
Consensus pattern (14 bp):
ATATTGGGTTTTTG
Found at i:61148128 original size:38 final size:38
Alignment explanation
Indices: 61148033--61148150 Score: 130
Period size: 38 Copynumber: 3.0 Consensus size: 38
61148023 TAAAAATAAC
61148033 AATATCCAACCT-TTAAATTTTAATGGTCATAACAGTATTGTT
1 AATATCCAA-CTATTAAATTTTAATGGTCAT-A-AG-ATT-TT
* ** * *
61148075 AATTTTTAACAATTAAATTTTAATGGTCGTAAGATTTT
1 AATATCCAACTATTAAATTTTAATGGTCATAAGATTTT
*
61148113 AATATCCAACTATTAAATTTTAATGTTCATAAGATTTT
1 AATATCCAACTATTAAATTTTAATGGTCATAAGATTTT
61148151 GAACTAATTT
Statistics
Matches: 64, Mismatches: 11, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
38 34 0.53
39 3 0.05
40 2 0.03
41 2 0.03
42 23 0.36
ACGTcount: A:0.37, C:0.10, G:0.08, T:0.44
Consensus pattern (38 bp):
AATATCCAACTATTAAATTTTAATGGTCATAAGATTTT
Found at i:61148845 original size:27 final size:29
Alignment explanation
Indices: 61148787--61148850 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 29
61148777 ATTTTTTAAA
* *
61148787 ATTTTAAAAATTCAAAAAAAATAGAAATT
1 ATTTTTAAAATTCAAAAAAAATAGAAAAT
**
61148816 ATTTTTAAAATT-AAAAATTATA-AAAAT
1 ATTTTTAAAATTCAAAAAAAATAGAAAAT
61148843 ATTTTTAA
1 ATTTTTAA
61148851 TACTTTTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 12 0.39
28 8 0.26
29 11 0.35
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (29 bp):
ATTTTTAAAATTCAAAAAAAATAGAAAAT
Found at i:61156059 original size:21 final size:20
Alignment explanation
Indices: 61156035--61156099 Score: 64
Period size: 20 Copynumber: 3.2 Consensus size: 20
61156025 ATTTACAGGT
61156035 TTTTATAAAATTTTTAATATA
1 TTTTAT-AAATTTTTAATATA
61156056 TTTTATAAATTTTATAA-ATA
1 TTTTATAAATTTT-TAATATA
* *
61156076 ATTTATTAGATTTTT-ATAT-
1 TTTTA-TAAATTTTTAATATA
61156095 TTTTA
1 TTTTA
61156100 CAATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
19 5 0.13
20 17 0.45
21 16 0.42
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (20 bp):
TTTTATAAATTTTTAATATA
Found at i:61156220 original size:20 final size:20
Alignment explanation
Indices: 61156188--61156243 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
61156178 ATATTTAATT
61156188 TTTTTTAT-A-TTTTTATGA
1 TTTTTTATAAGTTTTTATGA
* *
61156206 TTTTTTATAAGTTTTAAAGA
1 TTTTTTATAAGTTTTTATGA
* *
61156226 ATTTTTATACGTTTTTAT
1 TTTTTTATAAGTTTTTAT
61156244 AAAATTTTAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
18 8 0.27
19 1 0.03
20 21 0.70
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.64
Consensus pattern (20 bp):
TTTTTTATAAGTTTTTATGA
Found at i:61156312 original size:29 final size:27
Alignment explanation
Indices: 61156280--61156418 Score: 104
Period size: 28 Copynumber: 5.0 Consensus size: 27
61156270 TTATTAATTT
61156280 TATAATTTTTATAATTTATTAGATTTTTA
1 TATAATTTTTATAATTT-TTA-ATTTTTA
* * *
61156309 TATATTTTTTCTAATATTTTTAAGTTTT-
1 TATAATTTTTAT-A-ATTTTTAATTTTTA
* *
61156337 TATCATTTTTAATAATTTTTATAATTTTA
1 TATAATTTTT-ATAATTTTTA-ATTTTTA
* *
61156366 TATCAATTTTAAT-ATTTTTAATATTTA
1 TAT-AATTTTTATAATTTTTAATTTTTA
* * *
61156393 -ATACTTTTTATACTTTTTTATTTTTA
1 TATAATTTTTATAATTTTTAATTTTTA
61156419 ATTTTTTAAT
Statistics
Matches: 87, Mismatches: 16, Indels: 17
0.73 0.13 0.14
Matches are distributed among these distances:
25 7 0.08
26 13 0.15
27 12 0.14
28 21 0.24
29 21 0.24
30 9 0.10
31 4 0.05
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (27 bp):
TATAATTTTTATAATTTTTAATTTTTA
Found at i:61156364 original size:8 final size:9
Alignment explanation
Indices: 61156043--61156437 Score: 124
Period size: 9 Copynumber: 42.2 Consensus size: 9
61156033 GTTTTTATAA
61156043 AATTTTTA-
1 AATTTTTAT
61156051 ATATATTTTAT
1 A-AT-TTTTAT
*
61156062 AAATTTTAT
1 AATTTTTAT
*
61156071 AAATAATTTATT
1 -AAT-TTTTA-T
61156083 AGATTTTTAT
1 A-ATTTTTAT
*
61156093 -ATTTTTAC
1 AATTTTTAT
*
61156101 AATATTTAT
1 AATTTTTAT
61156110 AAGTTTTTAT
1 AA-TTTTTAT
* *
61156120 GATCTGGTTAAT
1 AAT-T--TTTAT
61156132 AATTTTTAT
1 AATTTTTAT
*
61156141 AAGTTTATAT
1 AA-TTTTTAT
* *
61156151 CAAATTTAAT
1 -AATTTTTAT
*
61156161 -A-TTTAAT
1 AATTTTTAT
**
61156168 AACATTTAT
1 AATTTTTAT
*
61156177 AATATTTA-
1 AATTTTTAT
* *
61156185 ATTTTTTTT
1 AATTTTTAT
61156194 ATATTTTTAT
1 A-ATTTTTAT
*
61156204 GATTTTTTAT
1 -AATTTTTAT
* *
61156214 AAGTTTTAAAG
1 AA-TTTT-TAT
61156225 AATTTTTAT
1 AATTTTTAT
*
61156234 ACGTTTTTAT
1 A-ATTTTTAT
*
61156244 AAAATTTTA-
1 -AATTTTTAT
61156253 AATATTTTA-
1 AAT-TTTTAT
61156262 AATATGCTTTATT
1 AAT-T--TTTA-T
61156275 AA-TTTTAT
1 AATTTTTAT
61156283 AATTTTTAT
1 AATTTTTAT
61156292 AATTTATTA-
1 AATTT-TTAT
*
61156301 GATTTTTAT
1 AATTTTTAT
*
61156310 ATATTTTTTCT
1 A-A-TTTTTAT
61156321 AATATTTT-T
1 AAT-TTTTAT
61156330 AAGTTTTTAT
1 AA-TTTTTAT
*
61156340 CATTTTTAAT
1 AATTTTT-AT
61156350 AATTTTTAT
1 AATTTTTAT
61156359 AATTTTATAT
1 AATTTT-TAT
*
61156369 CAATTTTAAT
1 -AATTTTTAT
61156379 -A-TTTT-T
1 AATTTTTAT
*
61156385 AATATTTAAT
1 AAT-TTTTAT
*
61156395 ACTTTTTAT
1 AATTTTTAT
*
61156404 ACTTTTT-T
1 AATTTTTAT
61156412 -A-TTTT-T
1 AATTTTTAT
61156418 AATTTTT-T
1 AATTTTTAT
61156426 AATATTTTAT
1 AAT-TTTTAT
61156436 AA
1 AA
61156438 GAAAATATTA
Statistics
Matches: 295, Mismatches: 45, Indels: 92
0.68 0.10 0.21
Matches are distributed among these distances:
6 6 0.02
7 11 0.04
8 33 0.11
9 107 0.36
10 91 0.31
11 36 0.12
12 9 0.03
13 2 0.01
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (9 bp):
AATTTTTAT
Found at i:61156434 original size:16 final size:17
Alignment explanation
Indices: 61156273--61156433 Score: 84
Period size: 17 Copynumber: 9.1 Consensus size: 17
61156263 ATATGCTTTA
*
61156273 TTAATTTTATAAT-TTT
1 TTAATTTTTTAATATTT
*
61156289 TATAATTTATTAGAT-TTT
1 T-TAATTTTTTA-ATATTT
61156307 TATATATTTTTTCTAATATTT
1 T-TA-A-TTTTT-TAATATTT
*
61156328 TTAAGTTTTT-ATCATTT
1 TTAATTTTTTAAT-ATTT
*
61156345 TTAATAATTTTT-ATAATT
1 TTAAT--TTTTTAATATTT
*
61156363 TTATATCAATTTTAATATTT
1 TTA-AT--TTTTTAATATTT
*
61156383 TTAA-TATTTAATACTTT
1 TTAATTTTTTAATA-TTT
*
61156400 TTATACTTTTT--TATTT
1 TTA-ATTTTTTAATATTT
61156416 TTAATTTTTTAATATTT
1 TTAATTTTTTAATATTT
61156433 T
1 T
61156434 ATAAGAAAAT
Statistics
Matches: 116, Mismatches: 13, Indels: 31
0.73 0.08 0.19
Matches are distributed among these distances:
15 6 0.05
16 16 0.14
17 31 0.27
18 20 0.17
19 21 0.18
20 16 0.14
21 6 0.05
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.65
Consensus pattern (17 bp):
TTAATTTTTTAATATTT
Found at i:61159639 original size:27 final size:27
Alignment explanation
Indices: 61159609--61159661 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
61159599 GCCAAATCCA
*
61159609 CTGGCAAACACC-AGCTTGCCAGACCTG
1 CTGGCAAACACCTA-CTCGCCAGACCTG
*
61159636 CTGGCATACACCTACTCGCCAGACCT
1 CTGGCAAACACCTACTCGCCAGACCT
61159662 AATGTGATAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.25, C:0.40, G:0.19, T:0.17
Consensus pattern (27 bp):
CTGGCAAACACCTACTCGCCAGACCTG
Found at i:61162630 original size:260 final size:259
Alignment explanation
Indices: 61162113--61162637 Score: 628
Period size: 260 Copynumber: 2.0 Consensus size: 259
61162103 TGGTTTTAAG
* * * *
61162113 CTAATTAATCACAATAACACATGAAAATAACAACTTAAATACATTAGATTAACAATACTAAATGC
1 CTAATTAATCACAAAAACACATGAAAATAACAACATAAATACATCACATTAACAATACTAAATGC
* ** * * *
61162178 ATTACAATTATTTATCATAGTGTTGTCATTAATTGTGAGTTAGTGTTGAGTTGACTTATGACACC
66 ACTACAATTATTTATCATAGCATTGTCATCAATTGCGAGTTAGTGTTAAGTTGACTTATGACACC
* * * * * *
61162243 AACTCAATTAACAACATTATTAATAAACTAGAAATCTTATCACACGCGTAGCGTGTGGAAACCAT
131 AACTCAATTAACAACATTACTAATAAAC-AGAAATCTCATCACACGCATAACGTGTGAAAACCAC
* *
61162308 AGATATAAAACACAAATATGTATTTAAAAATAACATACAATAAACAATGGAACTATGATTTGAAA
195 AGATATAAAACACAAATATGTATTTAAAAATAACATACAATAAACAATGAAACTAAGATTTGAAA
* *
61162373 CTAATTAATCACAAAAACACAATG-AATTAACAACATAAATACATCACATTAGCAATACTAAATG
1 CTAATTAATCACAAAAACAC-ATGAAAATAACAACATAAATACATCACATTAACAATACTAAATG
* *
61162437 CACTACAATTATTTATCATTGCATTGTCATCAATTGCGAGTTAGT-TTCAAGTTGACTTGTGACA
65 CACTACAATTATTTATCATAGCATTGTCATCAATTGCGAGTTAGTGTT-AAGTTGACTTATGACA
* * *
61162501 CCAACTCGATTAACAACATTACTAATATA-A-AAAT-TCCATTACACGCATATACGTGTGAAAAC
129 CCAACTCAATTAACAACATTACTAATAAACAGAAATCT-CATCACACGCATA-ACGTGTGAAAAC
** * ** * * * * * *
61162563 CACATCTTTAGGACACAAGTGTGTGTTTAAAAAATAGCATATAATAAATAATGAAACGTAAGATT
192 CACAGATATAAAACACAAATATGTATTT-AAAAATAACATACAATAAACAATGAAAC-TAAGATT
61162628 TGAAA
255 TGAAA
61162633 CTAAT
1 CTAAT
61162638 AATAATAACA
Statistics
Matches: 223, Mismatches: 36, Indels: 12
0.82 0.13 0.04
Matches are distributed among these distances:
256 1 0.00
257 14 0.06
258 30 0.13
259 26 0.12
260 149 0.67
261 3 0.01
ACGTcount: A:0.43, C:0.16, G:0.11, T:0.30
Consensus pattern (259 bp):
CTAATTAATCACAAAAACACATGAAAATAACAACATAAATACATCACATTAACAATACTAAATGC
ACTACAATTATTTATCATAGCATTGTCATCAATTGCGAGTTAGTGTTAAGTTGACTTATGACACC
AACTCAATTAACAACATTACTAATAAACAGAAATCTCATCACACGCATAACGTGTGAAAACCACA
GATATAAAACACAAATATGTATTTAAAAATAACATACAATAAACAATGAAACTAAGATTTGAAA
Found at i:61163428 original size:59 final size:60
Alignment explanation
Indices: 61163357--61163540 Score: 149
Period size: 68 Copynumber: 2.9 Consensus size: 60
61163347 ATTACTTTAA
* * * *
61163357 TATTAAACTAATATAATATTTATCT-TGATAAATATTAGATTAAATTTAATATTAAATCT
1 TATTAAAATAATAAAATATTTATCTAAGATAAATATTAAATTAAATTTAATATTAAATCT
* * *
61163416 TATTAAAATAATAAAATGTTTATCTACAAGATAAATATTAAATTTAGTTTAATATTAAGATAATC
1 TATTAAAATAATAAAATATTTATCT--AAGATAAATATTAAATTAAATTTAATATT---A-AAT-
61163481 ACATT
59 -C--T
* * *
61163486 AATATTAAATTAATAAAATA-CTAT-TAAGATAAGTATTAAATTAAATTTAATATTA
1 --TATTAAAATAATAAAATATTTATCTAAGATAAATATTAAATTAAATTTAATATTA
61163541 TTTTTGGAAT
Statistics
Matches: 99, Mismatches: 13, Indels: 20
0.75 0.10 0.15
Matches are distributed among these distances:
59 22 0.22
62 24 0.24
65 2 0.02
66 3 0.03
68 27 0.27
70 2 0.02
71 3 0.03
72 16 0.16
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.42
Consensus pattern (60 bp):
TATTAAAATAATAAAATATTTATCTAAGATAAATATTAAATTAAATTTAATATTAAATCT
Found at i:61165156 original size:15 final size:15
Alignment explanation
Indices: 61165132--61165163 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
61165122 TATGCATGCA
*
61165132 AAATATAAAAGACAT
1 AAATACAAAAGACAT
61165147 AAATACAAAAGACAT
1 AAATACAAAAGACAT
61165162 AA
1 AA
61165164 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:61168549 original size:42 final size:43
Alignment explanation
Indices: 61168447--61168551 Score: 115
Period size: 43 Copynumber: 2.5 Consensus size: 43
61168437 TGTTATTTCG
*** * *** *
61168447 TGTAAGACCACGTCTGGGATGTTGGCATCGATTTGTGTTTACG
1 TGTAAGACCACGTCTGGGACAATGACATCGATTTGTAAATACA
61168490 TGTAAGACC-CTGTCTGGGACAATGACATCGATTTGTAAAT-CA
1 TGTAAGACCAC-GTCTGGGACAATGACATCGATTTGTAAATACA
61168532 TGTAAGACCACGTCTGGGAC
1 TGTAAGACCACGTCTGGGAC
61168552 GTTGGCGTTG
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
42 20 0.38
43 32 0.62
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.30
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACAATGACATCGATTTGTAAATACA
Found at i:61173113 original size:42 final size:43
Alignment explanation
Indices: 61173011--61173115 Score: 115
Period size: 43 Copynumber: 2.5 Consensus size: 43
61173001 TGTTATTTCG
*** * *** *
61173011 TGTAAGACCACGTCTGGGATGTTGGCATCGATTTGTGTTTACG
1 TGTAAGACCACGTCTGGGACAATGACATCGATTTGTAAATACA
61173054 TGTAAGACC-CTGTCTGGGACAATGACATCGATTTGTAAAT-CA
1 TGTAAGACCAC-GTCTGGGACAATGACATCGATTTGTAAATACA
61173096 TGTAAGACCACGTCTGGGAC
1 TGTAAGACCACGTCTGGGAC
61173116 GTTGGCGTTG
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
42 20 0.38
43 32 0.62
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.30
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACAATGACATCGATTTGTAAATACA
Found at i:61178088 original size:9 final size:9
Alignment explanation
Indices: 61178074--61178110 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
61178064 TATAGTTTGA
61178074 TATTCGAAT
1 TATTCGAAT
61178083 TATTCGAAT
1 TATTCGAAT
*
61178092 TATTCGAGT
1 TATTCGAAT
61178101 TATTCGAAT
1 TATTCGAAT
61178110 T
1 T
61178111 CGAAAACCCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:61180715 original size:101 final size:102
Alignment explanation
Indices: 61180594--61180785 Score: 316
Period size: 101 Copynumber: 1.9 Consensus size: 102
61180584 TGAGTGATGG
*
61180594 TCACGTGTGTAATACTATGTGCAGGCTACTACGTGTACCGGAATGAT-A-GGTCGCATGTGTAGT
1 TCACGTGTGTAATACTATGTGCAGGCTACTACGTGTACCGG-ATGATAATGGTCACATGTGTAGT
*
61180657 ACTATGTGCAGGCTACTATGTGTACCGGATAGTTTCGA
65 ACTATGTGCAGGCTACTATGTGAACCGGATAGTTTCGA
* * *
61180695 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTAATGGTCACATGTGTAGTA
1 TCACGTGTGTAATACTATGTGCAGGCTACTACGTGTACCGGATGATAATGGTCACATGTGTAGTA
61180760 CTATGTGCAGGCTACTATGTGAACCG
66 CTATGTGCAGGCTACTATGTGAACCG
61180786 AACATCATTG
Statistics
Matches: 84, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
100 4 0.05
101 40 0.48
102 40 0.48
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (102 bp):
TCACGTGTGTAATACTATGTGCAGGCTACTACGTGTACCGGATGATAATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATGTGAACCGGATAGTTTCGA
Found at i:61180724 original size:51 final size:51
Alignment explanation
Indices: 61180590--61180785 Score: 245
Period size: 51 Copynumber: 3.9 Consensus size: 51
61180580 AAAGTGAGTG
* * *
61180590 ATGGTCACGTGTGTAATACTATGTGCAGGCTACTACGTGTACCGGA-A-TG
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
* *
61180639 ATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGT-
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
* * * * *
61180690 TTCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTA
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
* *
61180742 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGAACCG
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
61180786 AACATCATTG
Statistics
Matches: 125, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
49 2 0.02
50 40 0.32
51 81 0.65
52 2 0.02
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (51 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
Found at i:61180780 original size:26 final size:26
Alignment explanation
Indices: 61180700--61180780 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
61180690 TTCGATCACG
61180700 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* * *
61180726 CGTGTA-T-CGGATG-GTAATGG-TCAC-A
1 TGTGTAGTAC-TATGTG-CA-GGCT-ACTA
61180751 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
61180777 TGTG
1 TGTG
61180781 AACCGAACAT
Statistics
Matches: 40, Mismatches: 6, Indels: 18
0.62 0.09 0.28
Matches are distributed among these distances:
24 2 0.05
25 16 0.40
26 20 0.50
27 2 0.05
ACGTcount: A:0.22, C:0.15, G:0.30, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:61184420 original size:10 final size:10
Alignment explanation
Indices: 61184399--61184536 Score: 75
Period size: 10 Copynumber: 14.7 Consensus size: 10
61184389 CATTTTTATA
*
61184399 ATAAAAAGTT
1 ATAAAAATTT
*
61184409 ATTAAAATTT
1 ATAAAAATTT
61184419 ATAAAAA--T
1 ATAAAAATTT
61184427 ACTAAAAATTT
1 A-TAAAAATTT
* *
61184438 ATATAAA-CT
1 ATAAAAATTT
*
61184447 -TAGAAA-TT
1 ATAAAAATTT
*
61184455 A-CAAAATTT
1 ATAAAAATTT
61184464 ATAAAAATTT
1 ATAAAAATTT
*
61184474 A-AAAGAA-TC
1 ATAAA-AATTT
61184483 ATAAAAATTT
1 ATAAAAATTT
*
61184493 ATAAATA-TT
1 ATAAAAATTT
* *
61184502 AT-AAACTTA
1 ATAAAAATTT
61184511 ATAAAAATTT
1 ATAAAAATTT
61184521 -TAATAAA-TT
1 ATAA-AAATTT
61184530 ATAAAAA
1 ATAAAAA
61184537 AAGCAATAAA
Statistics
Matches: 97, Mismatches: 18, Indels: 27
0.68 0.13 0.19
Matches are distributed among these distances:
8 13 0.13
9 32 0.33
10 50 0.52
11 2 0.02
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (10 bp):
ATAAAAATTT
Found at i:61184439 original size:29 final size:29
Alignment explanation
Indices: 61184400--61184536 Score: 78
Period size: 29 Copynumber: 4.9 Consensus size: 29
61184390 ATTTTTATAA
*
61184400 TAAAAAGTTATTAAAATTTATAAAAATAC
1 TAAAAATTTATTAAAATTTATAAAAATAC
* * *
61184429 TAAAAATTTA-TATAAACTTA-GAAATTAC
1 TAAAAATTTATTA-AAATTTATAAAAATAC
*
61184457 --AAAATTTATAAAAATTTA-AAAGAAT-C
1 TAAAAATTTATTAAAATTTATAAA-AATAC
** *
61184483 ATAAAAATTTA-T-AAATATTATAAACTTAA
1 -TAAAAATTTATTAAAAT-TTATAAAAATAC
*
61184512 TAAAAA-TT-TTAATAAATTATAAAAA
1 TAAAAATTTATTAA-AATTTATAAAAA
61184537 AAGCAATAAA
Statistics
Matches: 81, Mismatches: 15, Indels: 25
0.67 0.12 0.21
Matches are distributed among these distances:
26 17 0.21
27 10 0.12
28 26 0.32
29 28 0.35
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (29 bp):
TAAAAATTTATTAAAATTTATAAAAATAC
Found at i:61184505 original size:19 final size:18
Alignment explanation
Indices: 61184402--61184506 Score: 79
Period size: 19 Copynumber: 5.6 Consensus size: 18
61184392 TTTTATAATA
*
61184402 AAAAGTTATTAAAATTTAT
1 AAAA-TTATAAAAATTTAT
*
61184421 AAAAATACTAAAAATTTAT
1 AAAATTA-TAAAAATTTAT
* * *
61184440 ATAAACT-TAGAAA-TTAC
1 A-AAATTATAAAAATTTAT
*
61184457 AAAATTTATAAAAATTTAA
1 AAAA-TTATAAAAATTTAT
*
61184476 AAGAATCATAAAAATTTAT
1 AA-AATTATAAAAATTTAT
61184495 AAATATTATAAA
1 AAA-ATTATAAA
61184507 CTTAATAAAA
Statistics
Matches: 68, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
16 3 0.04
17 5 0.07
18 13 0.19
19 41 0.60
20 6 0.09
ACGTcount: A:0.59, C:0.04, G:0.03, T:0.34
Consensus pattern (18 bp):
AAAATTATAAAAATTTAT
Found at i:61185836 original size:13 final size:13
Alignment explanation
Indices: 61185818--61185873 Score: 82
Period size: 13 Copynumber: 4.5 Consensus size: 13
61185808 TAGATTTTTT
61185818 CTAAATATTATCA
1 CTAAATATTATCA
61185831 CTAAATA--ATC-
1 CTAAATATTATCA
*
61185841 CTAAATATGATCA
1 CTAAATATTATCA
61185854 CTAAATATTATCA
1 CTAAATATTATCA
61185867 CTAAATA
1 CTAAATA
61185874 ATTCAAATTT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
10 7 0.18
11 3 0.08
12 3 0.08
13 26 0.67
ACGTcount: A:0.48, C:0.16, G:0.02, T:0.34
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:61186433 original size:10 final size:10
Alignment explanation
Indices: 61186414--61186445 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
61186404 TATACTTTTA
61186414 TTTA-TATTT
1 TTTATTATTT
61186423 TTTATTATTT
1 TTTATTATTT
61186433 TTTATTATTT
1 TTTATTATTT
61186443 TTT
1 TTT
61186446 TCGAATGTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTATTATTT
Found at i:61191392 original size:26 final size:25
Alignment explanation
Indices: 61191312--61191392 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 25
61191302 GATGGTCACG
61191312 TGTGTAGTACTATGTGCAGGTTACTA
1 TGTGTAGTACTATGTGCAGG-TACTA
* *
61191338 CGTGTA-T-CAGATAGTG-ATGGTCAC-A
1 TGTGTAGTAC-TAT-GTGCA-GGT-ACTA
61191363 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGG-TACTA
61191389 TGTG
1 TGTG
61191393 AACCGGTATC
Statistics
Matches: 42, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
24 1 0.02
25 18 0.43
26 22 0.52
27 1 0.02
ACGTcount: A:0.23, C:0.14, G:0.28, T:0.35
Consensus pattern (25 bp):
TGTGTAGTACTATGTGCAGGTACTA
Found at i:61191466 original size:46 final size:43
Alignment explanation
Indices: 61191394--61191492 Score: 119
Period size: 46 Copynumber: 2.2 Consensus size: 43
61191384 TACTATGTGA
* *
61191394 ACCGGTATCATTAATTATAAGGTGGTTGTTATGTGCTG-ATCCC
1 ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGAAT-CC
*
61191437 ACCGGATATCATTGATTACAAAGGGTGGTTGCTATGTGCTGAATCC
1 ACCGG-TATCATTAATTA-AAA-GGTGGTTGCTATGTGCTGAATCC
61191483 ACCGTGTATC
1 ACCG-GTATC
61191493 TGTTATTATT
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
43 5 0.10
44 11 0.23
45 2 0.04
46 27 0.56
47 3 0.06
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (43 bp):
ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGAATCC
Found at i:61191637 original size:16 final size:16
Alignment explanation
Indices: 61191616--61191647 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
61191606 TGATTGAAAG
*
61191616 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
61191632 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
61191648 GCAACAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:61198594 original size:84 final size:85
Alignment explanation
Indices: 61198515--61198685 Score: 208
Period size: 84 Copynumber: 2.0 Consensus size: 85
61198505 GATCATGGTC
* *
61198515 TTTAGCGGCGCTT-T-TCACACACGCCGCTA-AAAATCATAACCTTTAGCGGCACTTTTACCACA
1 TTTAGCGGCACTTCTATCACAAACGCCGCTATAAAAT-A-AACCTTTAGCGGCACTTTTACCACA
61198577 AACGTCACTAAAAATCATAACT
64 AACGTCACTAAAAATCATAACT
* * *
61198599 TTTAGCGGCACTTCTATTACAAACGCCGCTATAAAATAAACTTTTAGCGGCACTTTT-TCACAAA
1 TTTAGCGGCACTTCTATCACAAACGCCGCTATAAAATAAACCTTTAGCGGCACTTTTACCACAAA
* * * *
61198663 TGCCGCTAAAAA-CATGACT
66 CGTCACTAAAAATCATAACT
61198682 TTTA
1 TTTA
61198686 AAAAAATTAA
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
83 10 0.13
84 27 0.36
85 19 0.25
86 14 0.19
87 5 0.07
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (85 bp):
TTTAGCGGCACTTCTATCACAAACGCCGCTATAAAATAAACCTTTAGCGGCACTTTTACCACAAA
CGTCACTAAAAATCATAACT
Found at i:61198603 original size:43 final size:42
Alignment explanation
Indices: 61198515--61198685 Score: 199
Period size: 43 Copynumber: 4.1 Consensus size: 42
61198505 GATCATGGTC
* * *
61198515 TTTAGCGGCGC-TTTTCACACACGCCGCTAAAAATCATAACC
1 TTTAGCGGCACTTTTTCACAAACGCCGCTAAAAATCATAACT
* * *
61198556 TTTAGCGGCACTTTTACCACAAACGTCACTAAAAATCATAACT
1 TTTAGCGGCACTTTT-TCACAAACGCCGCTAAAAATCATAACT
61198599 TTTAGCGGCACTTCTATT-ACAAACGCCGCTATAAAAT-A-AACT
1 TTTAGCGGCACTT-T-TTCACAAACGCCGCTA-AAAATCATAACT
* *
61198641 TTTAGCGGCACTTTTTCACAAATGCCGCTAAAAA-CATGACT
1 TTTAGCGGCACTTTTTCACAAACGCCGCTAAAAATCATAACT
61198682 TTTA
1 TTTA
61198686 AAAAAATTAA
Statistics
Matches: 111, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
40 7 0.06
41 30 0.27
42 20 0.18
43 47 0.42
44 6 0.05
45 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (42 bp):
TTTAGCGGCACTTTTTCACAAACGCCGCTAAAAATCATAACT
Found at i:61202285 original size:23 final size:23
Alignment explanation
Indices: 61202258--61202338 Score: 76
Period size: 23 Copynumber: 3.3 Consensus size: 23
61202248 TTTCAACTAA
61202258 TATTTAAATATTTAAATATATTT
1 TATTTAAATATTTAAATATATTT
* *
61202281 TATTTAAACTTATTT-ATTA-ATTC
1 TATTTAAA--TATTTAAATATATTT
61202304 TATTTAAACTAATATTTAAATATATTT
1 TATTT--A--AATATTTAAATATATTT
61202331 TATTTAAA
1 TATTTAAA
61202339 CTTATTTATT
Statistics
Matches: 46, Mismatches: 4, Indels: 16
0.70 0.06 0.24
Matches are distributed among these distances:
23 18 0.39
24 3 0.07
25 12 0.26
26 3 0.07
27 10 0.22
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (23 bp):
TATTTAAATATTTAAATATATTT
Found at i:61202285 original size:35 final size:34
Alignment explanation
Indices: 61202209--61202287 Score: 83
Period size: 35 Copynumber: 2.3 Consensus size: 34
61202199 AATAAAAATC
* *
61202209 ATTTTATTTAA-AAATATTTAAATATAATTATTA
1 ATTTTATTTAACTAATATTTAAATATAAATATTA
*
61202242 ATTCTATTTCAACTAATATTTAAATATTTAAATA-T-
1 ATTTTATTT-AACTAATATTTAAATA--TAAATATTA
61202277 ATTTTATTTAA
1 ATTTTATTTAA
61202288 ACTTATTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
33 8 0.21
34 4 0.11
35 20 0.53
36 1 0.03
37 5 0.13
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (34 bp):
ATTTTATTTAACTAATATTTAAATATAAATATTA
Found at i:61202299 original size:58 final size:56
Alignment explanation
Indices: 61202223--61202370 Score: 193
Period size: 50 Copynumber: 2.7 Consensus size: 56
61202213 TATTTAAAAA
*
61202223 TATTTAAA-TATAATTATTAATTCTATTTCAACTAATATTTAAATATTTAAATATATTT
1 TATTTAAACT-TATTTATTAATTCTATTT-AACTAATATTT-AATATTTAAATATATTT
*
61202281 TATTTAAACTTATTTATTAATTCTA-TT---TAA-A-CTAATATTTAAATATATTT
1 TATTTAAACTTATTTATTAATTCTATTTAACTAATATTTAATATTTAAATATATTT
61202331 TATTTAAACTTATTTATTAATTCTATTTAAACTAATATTT
1 TATTTAAACTTATTTATTAATTCTATTT-AACTAATATTT
61202371 TTTAAATTTT
Statistics
Matches: 79, Mismatches: 3, Indels: 17
0.80 0.03 0.17
Matches are distributed among these distances:
50 42 0.53
51 3 0.04
52 1 0.01
53 3 0.04
55 3 0.04
56 1 0.01
57 3 0.04
58 22 0.28
59 1 0.01
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (56 bp):
TATTTAAACTTATTTATTAATTCTATTTAACTAATATTTAATATTTAAATATATTT
Found at i:61202326 original size:50 final size:50
Alignment explanation
Indices: 61202264--61202370 Score: 214
Period size: 50 Copynumber: 2.1 Consensus size: 50
61202254 CTAATATTTA
61202264 AATATTTAAATATATTTTATTTAAACTTATTTATTAATTCTATTTAAACT
1 AATATTTAAATATATTTTATTTAAACTTATTTATTAATTCTATTTAAACT
61202314 AATATTTAAATATATTTTATTTAAACTTATTTATTAATTCTATTTAAACT
1 AATATTTAAATATATTTTATTTAAACTTATTTATTAATTCTATTTAAACT
61202364 AATATTT
1 AATATTT
61202371 TTTAAATTTT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 57 1.00
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (50 bp):
AATATTTAAATATATTTTATTTAAACTTATTTATTAATTCTATTTAAACT
Found at i:61202359 original size:23 final size:23
Alignment explanation
Indices: 61202281--61202363 Score: 112
Period size: 23 Copynumber: 3.4 Consensus size: 23
61202271 AAATATATTT
61202281 TATTTAAACTTATTTATTAATTC
1 TATTTAAACTTATTTATTAATTC
* *
61202304 TATTTAAACTAATATTTAAATATATTT
1 TATTTAAACT--TATTT-ATTA-ATTC
61202331 TATTTAAACTTATTTATTAATTC
1 TATTTAAACTTATTTATTAATTC
61202354 TATTTAAACT
1 TATTTAAACT
61202364 AATATTTTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
23 23 0.44
24 3 0.06
25 10 0.19
26 3 0.06
27 13 0.25
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (23 bp):
TATTTAAACTTATTTATTAATTC
Found at i:61202686 original size:20 final size:19
Alignment explanation
Indices: 61202645--61202688 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
61202635 AATTTTAATT
*
61202645 AATATAAATAAACAAATTA
1 AATATAAATAAACAAATAA
* *
61202664 AATAGTAAATAGACAGATAA
1 AATA-TAAATAAACAAATAA
61202684 AATAT
1 AATAT
61202689 TTTTTCGGCG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.64, C:0.05, G:0.07, T:0.25
Consensus pattern (19 bp):
AATATAAATAAACAAATAA
Found at i:61202762 original size:41 final size:41
Alignment explanation
Indices: 61202694--61202968 Score: 340
Period size: 41 Copynumber: 6.7 Consensus size: 41
61202684 AATATTTTTT
* *
61202694 CGGCGCTTTTTCAAAAACGCTGCTAAAGCACC-GAGAATTAG
1 CGGCGCTTTTTCAAAAACGCCGCTAAAG-ACCAGAGCATTAG
* * ** *
61202735 CGGCGCTTTTTCGAAAATGCCATTAAAGACCAGAGCATTAA
1 CGGCGCTTTTTCAAAAACGCCGCTAAAGACCAGAGCATTAG
** *
61202776 CGGCGC-TTTTCTAAAATTGCTGCTAAAGACCAGAGCATTAG
1 CGGCGCTTTTTC-AAAAACGCCGCTAAAGACCAGAGCATTAG
* *
61202817 CGGCGCTTTTTCAAAAACGCCGCTAAAGTCCCGAGCATTAG
1 CGGCGCTTTTTCAAAAACGCCGCTAAAGACCAGAGCATTAG
*
61202858 CGGCGCTTTTTCAAAAATGCCGCTAAAGACCAGAGCATTAG
1 CGGCGCTTTTTCAAAAACGCCGCTAAAGACCAGAGCATTAG
* *
61202899 CGGCGCTTTTTCAAAAACGCCGCTATAGCCCCA-AGCATTAG
1 CGGCGCTTTTTCAAAAACGCCGCTAAAG-ACCAGAGCATTAG
* *
61202940 CGGTGCTTTTTCAAAAAACGTCGCTAAAG
1 CGGCGCTTTTTC-AAAAACGCCGCTAAAG
61202969 CCCCGAAAGG
Statistics
Matches: 202, Mismatches: 27, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
40 8 0.04
41 172 0.85
42 22 0.11
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (41 bp):
CGGCGCTTTTTCAAAAACGCCGCTAAAGACCAGAGCATTAG
Found at i:61202936 original size:123 final size:122
Alignment explanation
Indices: 61202694--61202971 Score: 380
Period size: 123 Copynumber: 2.3 Consensus size: 122
61202684 AATATTTTTT
* * *
61202694 CGGCGCTTTTTCAAAAACGCTGCTAAAGCACCGAGAATTAGCGGCGCTTTTTCGAAAATGCCATT
1 CGGCGCTTTTTCAAAAACGCCGCTAAAGC-CCGAGAATTAGCGGCGCTTTTTCAAAAATGCCACT
** *
61202759 AAAGACCAGAGCATTAACGGCGCTTTTCTAAAATTGCTGCTAAAGACCAGAGCATTAG
65 AAAGACCAGAGCATTAACGGCGCTTTTCTAAAAACGCCGCTAAAGACCAGAGCATTAG
* *
61202817 CGGCGCTTTTTCAAAAACGCCGCTAAAGTCCCGAGCATTAGCGGCGCTTTTTCAAAAATGCCGCT
1 CGGCGCTTTTTCAAAAACGCCGCTAAAG-CCCGAGAATTAGCGGCGCTTTTTCAAAAATGCCACT
* * *
61202882 AAAGACCAGAGCATTAGCGGCGCTTTT-TCAAAAACGCCGCTATAGCCCCA-AGCATTAG
65 AAAGACCAGAGCATTAACGGCGCTTTTCT-AAAAACGCCGCTAAAG-ACCAGAGCATTAG
* *
61202940 CGGTGCTTTTTCAAAAAACGTCGCTAAAGCCC
1 CGGCGCTTTTTC-AAAAACGCCGCTAAAGCCC
61202972 CGAAAGGTCA
Statistics
Matches: 138, Mismatches: 13, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
122 1 0.01
123 118 0.86
124 19 0.14
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (122 bp):
CGGCGCTTTTTCAAAAACGCCGCTAAAGCCCGAGAATTAGCGGCGCTTTTTCAAAAATGCCACTA
AAGACCAGAGCATTAACGGCGCTTTTCTAAAAACGCCGCTAAAGACCAGAGCATTAG
Found at i:61204491 original size:30 final size:30
Alignment explanation
Indices: 61204455--61204515 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
61204445 AGGTTGAAAC
61204455 TATTATTTGAGATTGCTGTATGTTTTTTTG
1 TATTATTTGAGATTGCTGTATGTTTTTTTG
61204485 TATTATTTGAGATTGCTGTATGTTTTTTTG
1 TATTATTTGAGATTGCTGTATGTTTTTTTG
61204515 T
1 T
61204516 TTGCAATTAT
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:0.03, G:0.20, T:0.61
Consensus pattern (30 bp):
TATTATTTGAGATTGCTGTATGTTTTTTTG
Done.